Note that this locus is complex: it appears to produce several proteins with no sequence overlap.
Expression: According to AceView, this gene is
well expressed , 1.2 times the average gene in this release. The
sequence of this gene is defined by
133 GenBank accessions from 129 cDNA clones, some from hippocampus (seen 20 times), brain (10), thymus (8), amygdala (5), colon (5), stomach (5), spleen (4) and 37 other tissues. We annotate
structural defects or features in 9 cDNA clones.
Alternative mRNA variants and regulation: The gene contains
33 distinct introns (32 gt-ag, 1 other). Transcription produces
16 different mRNAs , 12 alternatively spliced variants and 4 unspliced forms. There are 8 probable
alternative promotors and 3 non overlapping alternative last exons (see the
diagram ). The mRNAs appear to differ by truncation of the 5' end, truncation of the 3' end, presence or absence of 4
cassette exons , overlapping exons with different boundaries.
2 variants were isolated
in vivo , despite the fact that they are predicted targets of
nonsense mediated mRNA decay (NMD).
Efficacy of translation may be reduced by the presence of a shorter translated product (
uORF ) initiating at an AUG upstream of the main open reading frame (in variant bAug10, eAug10, fAug10, gAug10).
Function: There are
2 articles specifically referring to this gene in PubMed. Proteins are expected to
localize in various compartments (extracellular space, membrane, nucleus, plasma membrane, integral to membrane). No phenotype has yet been reported to our knowledge: this gene's in vivo function is yet unknown.
Protein coding potential: 10 spliced and 2 unspliced mRNAs putatively encode
good proteins , altogether
13 different isoforms (9 complete, 4 COOH complete ), some containing some transmembrane domains, a second peroximal domain
[Psort2] ; 1 of the 9 complete proteins appears to be
secreted . The remaining 4 mRNA variants (2 spliced, 2 unspliced; 3 partial) appear not to encode good proteins.
Please quote:
AceView: a comprehensive cDNA-supported gene and transcripts annotation, Genome Biology 2006, 7(Suppl 1):S12
Gene SIDT1
5'
3'
encoded on plus strand of chromosome 3 from 113,251,144 to 113,348,424
5558
7514
6909
6104
4213
3472
8995
8102
5290
6446
5929
6332
6025
3382
4079
9190
6842
6736
2339
2188
6347
6804
6961
6189
6046
a
5558
7514
6909
6104
4213
3472
8995
8102
5290
6446
5929
6332
6025
3382
4079
9190
6842
6736
3085
6347
6804
6961
6189
6046
b
[NM]
5558
7514
6909
6104
4213
139
8995
8102
5290
6446
5929
6332
6025
3382
4079
9190
6842
6736
3085
6347
6804
6961
6189
6046
c
5558
7514
6909
6104
4213
3472
8995
8102
5290
6446
5929
6332
6025
2296
9190
6842
6736
2339
2188
6347
6804
6961
6189
6046
d
n-u
43
6332
6025
2296
9190
6842
6736
2339
105
6347
6804
6961
6189
6046
e
6332
6025
1
4079
9190
6842
6736
3085
6347
6804
6961
6189
6046
f
2296
9190
6842
6736
3085
6347
6804
6961
6189
6046
g
h-u
i-u
56
29
7514
j
p-u
5929
o
6347
l
6046
k
8995
8102
5290
6446
m
5kb
0
261 bp exon
33176 bp [gt-ag] intron
22 GenBank accessions
5536 RNA-seq supporting reads
342 UHR pooled cells
1194 Brain
2797 Blood
1100 Neuroblastoma
103 Other
(also 984 Primates bodymap)
122 bp exon
998 bp [gt-ag] intron
20 GenBank accessions
7494 RNA-seq supporting reads
356 UHR pooled cells
1493 Brain
4167 Blood
1323 Neuroblastoma
155 Other
(also 2603 Primates bodymap)
171 bp exon
9211 bp [gt-ag] intron
17 GenBank accessions
6892 RNA-seq supporting reads
314 UHR pooled cells
1527 Brain
3613 Blood
1295 Neuroblastoma
143 Other
(also 1889 Primates bodymap)
46 bp exon
3640 bp [gt-ag] intron
17 GenBank accessions
6087 RNA-seq supporting reads
272 UHR pooled cells
1497 Brain
3018 Blood
1145 Neuroblastoma
155 Other
(also 1719 Primates bodymap)
102 bp exon
651 bp [gt-ag] intron
15 GenBank accessions
4198 RNA-seq supporting reads
181 UHR pooled cells
1138 Brain
1625 Blood
1114 Neuroblastoma
140 Other
(also 2186 Primates bodymap)
84 bp exon
1964 bp [gt-ag] intron
12 GenBank accessions
3460 RNA-seq supporting reads
120 UHR pooled cells
666 Brain
1813 Blood
735 Neuroblastoma
126 Other
(also 1107 Primates bodymap)
88 bp exon
1201 bp [gt-ag] intron
19 GenBank accessions
8976 RNA-seq supporting reads
362 UHR pooled cells
1454 Brain
5770 Blood
1247 Neuroblastoma
143 Other
(also 2137 Primates bodymap)
72 bp exon
407 bp [gt-ag] intron
23 GenBank accessions
8079 RNA-seq supporting reads
431 UHR pooled cells
1891 Brain
4080 Blood
1515 Neuroblastoma
162 Other
(also 2089 Primates bodymap)
94 bp exon
7734 bp [gt-ag] intron
19 GenBank accessions
5271 RNA-seq supporting reads
311 UHR pooled cells
1304 Brain
2442 Blood
1084 Neuroblastoma
130 Other
(also 1006 Primates bodymap)
44 bp exon
8539 bp [gt-ag] intron
20 GenBank accessions
6426 RNA-seq supporting reads
387 UHR pooled cells
1636 Brain
2933 Blood
1312 Neuroblastoma
158 Other
(also 1419 Primates bodymap)
72 bp exon
1345 bp [gt-ag] intron
17 GenBank accessions
5912 RNA-seq supporting reads
335 UHR pooled cells
1177 Brain
3233 Blood
1103 Neuroblastoma
64 Other
(also 1104 Primates bodymap)
146 bp exon
809 bp [gt-ag] intron
20 GenBank accessions
6312 RNA-seq supporting reads
310 UHR pooled cells
1604 Brain
3083 Blood
1166 Neuroblastoma
149 Other
(also 1184 Primates bodymap)
74 bp exon
876 bp [gt-ag] intron
18 GenBank accessions
6007 RNA-seq supporting reads
310 UHR pooled cells
1434 Brain
3028 Blood
1089 Neuroblastoma
146 Other
(also 1125 Primates bodymap)
67 bp exon
2064 bp [gt-ag] intron
10 GenBank accessions
3372 RNA-seq supporting reads
263 UHR pooled cells
920 Brain
1210 Blood
847 Neuroblastoma
132 Other
(also 528 Primates bodymap)
74 bp exon
979 bp [gt-ag] intron
11 GenBank accessions
4068 RNA-seq supporting reads
328 UHR pooled cells
1188 Brain
1307 Blood
1070 Neuroblastoma
175 Other
(also 624 Primates bodymap)
124 bp exon
201 bp [gt-ag] intron
20 GenBank accessions
9170 RNA-seq supporting reads
659 UHR pooled cells
2590 Brain
3811 Blood
1854 Neuroblastoma
256 Other
(also 933 Primates bodymap)
118 bp exon
2471 bp [gt-ag] intron
18 GenBank accessions
6824 RNA-seq supporting reads
508 UHR pooled cells
2116 Brain
2259 Blood
1692 Neuroblastoma
249 Other
(also 1065 Primates bodymap)
137 bp exon
941 bp [gt-ag] intron
19 GenBank accessions
6717 RNA-seq supporting reads
503 UHR pooled cells
2057 Brain
2176 Blood
1795 Neuroblastoma
186 Other
(also 1233 Primates bodymap)
109 bp exon
2868 bp [gt-ag] intron
5 GenBank accessions
2334 RNA-seq supporting reads
1 UHR pooled cells
1503 Brain
10 Blood
657 Neuroblastoma
163 Other
(also 402 Primates bodymap)
15 bp exon
1022 bp [gt-ag] intron
4 GenBank accessions
2184 RNA-seq supporting reads
1 UHR pooled cells
1410 Brain
6 Blood
598 Neuroblastoma
169 Other
(also 379 Primates bodymap)
77 bp exon
3503 bp [gt-ag] intron
17 GenBank accessions
6330 RNA-seq supporting reads
447 UHR pooled cells
1954 Brain
2079 Blood
1588 Neuroblastoma
262 Other
(also 769 Primates bodymap)
47 bp exon
3700 bp [gt-ag] intron
15 GenBank accessions
6789 RNA-seq supporting reads
454 UHR pooled cells
2178 Brain
2110 Blood
1783 Neuroblastoma
264 Other
(also 1021 Primates bodymap)
106 bp exon
90 bp [gt-ag] intron
16 GenBank accessions
6945 RNA-seq supporting reads
507 UHR pooled cells
2441 Brain
1738 Blood
2008 Neuroblastoma
251 Other
(also 639 Primates bodymap)
111 bp exon
2368 bp [gt-ag] intron
14 GenBank accessions
6175 RNA-seq supporting reads
441 UHR pooled cells
2388 Brain
1256 Blood
1835 Neuroblastoma
255 Other
(also 561 Primates bodymap)
114 bp exon
1430 bp [gt-ag] intron
20 GenBank accessions
6026 RNA-seq supporting reads
402 UHR pooled cells
2161 Brain
1047 Blood
2098 Neuroblastoma
318 Other
(also 424 Primates bodymap)
97 bp exon
2 accessions, some from pooled
cerebellum, bladder, kidney
pcrrescued clones (seen once)
97 bp exon
947 bp exon
947 bp exon
21 bp uORF
947 bp exon
947 bp exon
33176 bp [gt-ag] intron
22 GenBank accessions
5536 RNA-seq supporting reads
342 UHR pooled cells
1194 Brain
2797 Blood
1100 Neuroblastoma
103 Other
(also 984 Primates bodymap)
122 bp exon
122 bp exon
998 bp [gt-ag] intron
20 GenBank accessions
7494 RNA-seq supporting reads
356 UHR pooled cells
1493 Brain
4167 Blood
1323 Neuroblastoma
155 Other
(also 2603 Primates bodymap)
171 bp exon
171 bp exon
9211 bp [gt-ag] intron
17 GenBank accessions
6892 RNA-seq supporting reads
314 UHR pooled cells
1527 Brain
3613 Blood
1295 Neuroblastoma
143 Other
(also 1889 Primates bodymap)
46 bp exon
46 bp exon
3640 bp [gt-ag] intron
17 GenBank accessions
6087 RNA-seq supporting reads
272 UHR pooled cells
1497 Brain
3018 Blood
1145 Neuroblastoma
155 Other
(also 1719 Primates bodymap)
102 bp exon
102 bp exon
651 bp [gt-ag] intron
15 GenBank accessions
4198 RNA-seq supporting reads
181 UHR pooled cells
1138 Brain
1625 Blood
1114 Neuroblastoma
140 Other
(also 2186 Primates bodymap)
84 bp exon
84 bp exon
1964 bp [gt-ag] intron
12 GenBank accessions
3460 RNA-seq supporting reads
120 UHR pooled cells
666 Brain
1813 Blood
735 Neuroblastoma
126 Other
(also 1107 Primates bodymap)
88 bp exon
88 bp exon
1201 bp [gt-ag] intron
19 GenBank accessions
8976 RNA-seq supporting reads
362 UHR pooled cells
1454 Brain
5770 Blood
1247 Neuroblastoma
143 Other
(also 2137 Primates bodymap)
72 bp exon
72 bp exon
407 bp [gt-ag] intron
23 GenBank accessions
8079 RNA-seq supporting reads
431 UHR pooled cells
1891 Brain
4080 Blood
1515 Neuroblastoma
162 Other
(also 2089 Primates bodymap)
94 bp exon
94 bp exon
7734 bp [gt-ag] intron
19 GenBank accessions
5271 RNA-seq supporting reads
311 UHR pooled cells
1304 Brain
2442 Blood
1084 Neuroblastoma
130 Other
(also 1006 Primates bodymap)
44 bp exon
44 bp exon
8539 bp [gt-ag] intron
20 GenBank accessions
6426 RNA-seq supporting reads
387 UHR pooled cells
1636 Brain
2933 Blood
1312 Neuroblastoma
158 Other
(also 1419 Primates bodymap)
72 bp exon
72 bp exon
1345 bp [gt-ag] intron
17 GenBank accessions
5912 RNA-seq supporting reads
335 UHR pooled cells
1177 Brain
3233 Blood
1103 Neuroblastoma
64 Other
(also 1104 Primates bodymap)
146 bp exon
146 bp exon
809 bp [gt-ag] intron
20 GenBank accessions
6312 RNA-seq supporting reads
310 UHR pooled cells
1604 Brain
3083 Blood
1166 Neuroblastoma
149 Other
(also 1184 Primates bodymap)
74 bp exon
74 bp exon
876 bp [gt-ag] intron
18 GenBank accessions
6007 RNA-seq supporting reads
310 UHR pooled cells
1434 Brain
3028 Blood
1089 Neuroblastoma
146 Other
(also 1125 Primates bodymap)
67 bp exon
67 bp exon
2064 bp [gt-ag] intron
10 GenBank accessions
3372 RNA-seq supporting reads
263 UHR pooled cells
920 Brain
1210 Blood
847 Neuroblastoma
132 Other
(also 528 Primates bodymap)
74 bp exon
74 bp exon
979 bp [gt-ag] intron
11 GenBank accessions
4068 RNA-seq supporting reads
328 UHR pooled cells
1188 Brain
1307 Blood
1070 Neuroblastoma
175 Other
(also 624 Primates bodymap)
124 bp exon
124 bp exon
201 bp [gt-ag] intron
20 GenBank accessions
9170 RNA-seq supporting reads
659 UHR pooled cells
2590 Brain
3811 Blood
1854 Neuroblastoma
256 Other
(also 933 Primates bodymap)
118 bp exon
118 bp exon
2471 bp [gt-ag] intron
18 GenBank accessions
6824 RNA-seq supporting reads
508 UHR pooled cells
2116 Brain
2259 Blood
1692 Neuroblastoma
249 Other
(also 1065 Primates bodymap)
137 bp exon
137 bp exon
941 bp [gt-ag] intron
19 GenBank accessions
6717 RNA-seq supporting reads
503 UHR pooled cells
2057 Brain
2176 Blood
1795 Neuroblastoma
186 Other
(also 1233 Primates bodymap)
109 bp exon
109 bp exon
3905 bp [gt-ag] intron
8 GenBank accessions
3077 RNA-seq supporting reads
354 UHR pooled cells
64 Brain
2077 Blood
563 Neuroblastoma
19 Other
(also 305 Primates bodymap)
77 bp exon
77 bp exon
3503 bp [gt-ag] intron
17 GenBank accessions
6330 RNA-seq supporting reads
447 UHR pooled cells
1954 Brain
2079 Blood
1588 Neuroblastoma
262 Other
(also 769 Primates bodymap)
47 bp exon
47 bp exon
3700 bp [gt-ag] intron
15 GenBank accessions
6789 RNA-seq supporting reads
454 UHR pooled cells
2178 Brain
2110 Blood
1783 Neuroblastoma
264 Other
(also 1021 Primates bodymap)
106 bp exon
106 bp exon
90 bp [gt-ag] intron
16 GenBank accessions
6945 RNA-seq supporting reads
507 UHR pooled cells
2441 Brain
1738 Blood
2008 Neuroblastoma
251 Other
(also 639 Primates bodymap)
111 bp exon
111 bp exon
2368 bp [gt-ag] intron
14 GenBank accessions
6175 RNA-seq supporting reads
441 UHR pooled cells
2388 Brain
1256 Blood
1835 Neuroblastoma
255 Other
(also 561 Primates bodymap)
114 bp exon
114 bp exon
1430 bp [gt-ag] intron
20 GenBank accessions
6026 RNA-seq supporting reads
402 UHR pooled cells
2161 Brain
1047 Blood
2098 Neuroblastoma
318 Other
(also 424 Primates bodymap)
1929 bp exon
1929 bp exon
68 accessions, NM_017699.2
some from hippocampus (seen 15 times)
brain (8), thymus (6)
amygdala (3), breast (3)
capped 5' end, 40 accessions
Validated 3' end, 1 accession
1929 bp exon
265 bp exon
265 bp exon
265 bp exon
33176 bp [gt-ag] intron
22 GenBank accessions
5536 RNA-seq supporting reads
342 UHR pooled cells
1194 Brain
2797 Blood
1100 Neuroblastoma
103 Other
(also 984 Primates bodymap)
122 bp exon
122 bp exon
998 bp [gt-ag] intron
20 GenBank accessions
7494 RNA-seq supporting reads
356 UHR pooled cells
1493 Brain
4167 Blood
1323 Neuroblastoma
155 Other
(also 2603 Primates bodymap)
171 bp exon
171 bp exon
9211 bp [gt-ag] intron
17 GenBank accessions
6892 RNA-seq supporting reads
314 UHR pooled cells
1527 Brain
3613 Blood
1295 Neuroblastoma
143 Other
(also 1889 Primates bodymap)
46 bp exon
46 bp exon
3640 bp [gt-ag] intron
17 GenBank accessions
6087 RNA-seq supporting reads
272 UHR pooled cells
1497 Brain
3018 Blood
1145 Neuroblastoma
155 Other
(also 1719 Primates bodymap)
102 bp exon
102 bp exon
651 bp [gt-ag] intron
15 GenBank accessions
4198 RNA-seq supporting reads
181 UHR pooled cells
1138 Brain
1625 Blood
1114 Neuroblastoma
140 Other
(also 2186 Primates bodymap)
84 bp exon
84 bp exon
1945 bp [gt-ag] intron
4 GenBank accessions
135 RNA-seq supporting reads
2 UHR pooled cells
53 Brain
61 Blood
14 Neuroblastoma
5 Other
(also 26 Primates bodymap)
107 bp exon
107 bp exon
107 bp exon
107 bp exon
1201 bp [gt-ag] intron
19 GenBank accessions
8976 RNA-seq supporting reads
362 UHR pooled cells
1454 Brain
5770 Blood
1247 Neuroblastoma
143 Other
(also 2137 Primates bodymap)
72 bp exon
72 bp exon
407 bp [gt-ag] intron
23 GenBank accessions
8079 RNA-seq supporting reads
431 UHR pooled cells
1891 Brain
4080 Blood
1515 Neuroblastoma
162 Other
(also 2089 Primates bodymap)
94 bp exon
94 bp exon
7734 bp [gt-ag] intron
19 GenBank accessions
5271 RNA-seq supporting reads
311 UHR pooled cells
1304 Brain
2442 Blood
1084 Neuroblastoma
130 Other
(also 1006 Primates bodymap)
44 bp exon
44 bp exon
8539 bp [gt-ag] intron
20 GenBank accessions
6426 RNA-seq supporting reads
387 UHR pooled cells
1636 Brain
2933 Blood
1312 Neuroblastoma
158 Other
(also 1419 Primates bodymap)
72 bp exon
72 bp exon
1345 bp [gt-ag] intron
17 GenBank accessions
5912 RNA-seq supporting reads
335 UHR pooled cells
1177 Brain
3233 Blood
1103 Neuroblastoma
64 Other
(also 1104 Primates bodymap)
146 bp exon
146 bp exon
809 bp [gt-ag] intron
20 GenBank accessions
6312 RNA-seq supporting reads
310 UHR pooled cells
1604 Brain
3083 Blood
1166 Neuroblastoma
149 Other
(also 1184 Primates bodymap)
74 bp exon
74 bp exon
876 bp [gt-ag] intron
18 GenBank accessions
6007 RNA-seq supporting reads
310 UHR pooled cells
1434 Brain
3028 Blood
1089 Neuroblastoma
146 Other
(also 1125 Primates bodymap)
67 bp exon
67 bp exon
2064 bp [gt-ag] intron
10 GenBank accessions
3372 RNA-seq supporting reads
263 UHR pooled cells
920 Brain
1210 Blood
847 Neuroblastoma
132 Other
(also 528 Primates bodymap)
74 bp exon
74 bp exon
979 bp [gt-ag] intron
11 GenBank accessions
4068 RNA-seq supporting reads
328 UHR pooled cells
1188 Brain
1307 Blood
1070 Neuroblastoma
175 Other
(also 624 Primates bodymap)
124 bp exon
124 bp exon
201 bp [gt-ag] intron
20 GenBank accessions
9170 RNA-seq supporting reads
659 UHR pooled cells
2590 Brain
3811 Blood
1854 Neuroblastoma
256 Other
(also 933 Primates bodymap)
118 bp exon
118 bp exon
2471 bp [gt-ag] intron
18 GenBank accessions
6824 RNA-seq supporting reads
508 UHR pooled cells
2116 Brain
2259 Blood
1692 Neuroblastoma
249 Other
(also 1065 Primates bodymap)
137 bp exon
137 bp exon
941 bp [gt-ag] intron
19 GenBank accessions
6717 RNA-seq supporting reads
503 UHR pooled cells
2057 Brain
2176 Blood
1795 Neuroblastoma
186 Other
(also 1233 Primates bodymap)
109 bp exon
109 bp exon
3905 bp [gt-ag] intron
8 GenBank accessions
3077 RNA-seq supporting reads
354 UHR pooled cells
64 Brain
2077 Blood
563 Neuroblastoma
19 Other
(also 305 Primates bodymap)
77 bp exon
77 bp exon
3503 bp [gt-ag] intron
17 GenBank accessions
6330 RNA-seq supporting reads
447 UHR pooled cells
1954 Brain
2079 Blood
1588 Neuroblastoma
262 Other
(also 769 Primates bodymap)
47 bp exon
47 bp exon
3700 bp [gt-ag] intron
15 GenBank accessions
6789 RNA-seq supporting reads
454 UHR pooled cells
2178 Brain
2110 Blood
1783 Neuroblastoma
264 Other
(also 1021 Primates bodymap)
106 bp exon
106 bp exon
90 bp [gt-ag] intron
16 GenBank accessions
6945 RNA-seq supporting reads
507 UHR pooled cells
2441 Brain
1738 Blood
2008 Neuroblastoma
251 Other
(also 639 Primates bodymap)
111 bp exon
111 bp exon
2368 bp [gt-ag] intron
14 GenBank accessions
6175 RNA-seq supporting reads
441 UHR pooled cells
2388 Brain
1256 Blood
1835 Neuroblastoma
255 Other
(also 561 Primates bodymap)
114 bp exon
114 bp exon
1430 bp [gt-ag] intron
20 GenBank accessions
6026 RNA-seq supporting reads
402 UHR pooled cells
2161 Brain
1047 Blood
2098 Neuroblastoma
318 Other
(also 424 Primates bodymap)
97 bp exon
97 bp exon
5 accessions, some from pooled
cerebellum, bladder, kidney
pcrrescued clones (seen once)
97 bp exon
261 bp exon
261 bp exon
33176 bp [gt-ag] intron
22 GenBank accessions
5536 RNA-seq supporting reads
342 UHR pooled cells
1194 Brain
2797 Blood
1100 Neuroblastoma
103 Other
(also 984 Primates bodymap)
122 bp exon
122 bp exon
998 bp [gt-ag] intron
20 GenBank accessions
7494 RNA-seq supporting reads
356 UHR pooled cells
1493 Brain
4167 Blood
1323 Neuroblastoma
155 Other
(also 2603 Primates bodymap)
171 bp exon
171 bp exon
9211 bp [gt-ag] intron
17 GenBank accessions
6892 RNA-seq supporting reads
314 UHR pooled cells
1527 Brain
3613 Blood
1295 Neuroblastoma
143 Other
(also 1889 Primates bodymap)
46 bp exon
46 bp exon
3640 bp [gt-ag] intron
17 GenBank accessions
6087 RNA-seq supporting reads
272 UHR pooled cells
1497 Brain
3018 Blood
1145 Neuroblastoma
155 Other
(also 1719 Primates bodymap)
102 bp exon
102 bp exon
651 bp [gt-ag] intron
15 GenBank accessions
4198 RNA-seq supporting reads
181 UHR pooled cells
1138 Brain
1625 Blood
1114 Neuroblastoma
140 Other
(also 2186 Primates bodymap)
84 bp exon
84 bp exon
1964 bp [gt-ag] intron
12 GenBank accessions
3460 RNA-seq supporting reads
120 UHR pooled cells
666 Brain
1813 Blood
735 Neuroblastoma
126 Other
(also 1107 Primates bodymap)
88 bp exon
88 bp exon
1201 bp [gt-ag] intron
19 GenBank accessions
8976 RNA-seq supporting reads
362 UHR pooled cells
1454 Brain
5770 Blood
1247 Neuroblastoma
143 Other
(also 2137 Primates bodymap)
72 bp exon
72 bp exon
407 bp [gt-ag] intron
23 GenBank accessions
8079 RNA-seq supporting reads
431 UHR pooled cells
1891 Brain
4080 Blood
1515 Neuroblastoma
162 Other
(also 2089 Primates bodymap)
94 bp exon
94 bp exon
7734 bp [gt-ag] intron
19 GenBank accessions
5271 RNA-seq supporting reads
311 UHR pooled cells
1304 Brain
2442 Blood
1084 Neuroblastoma
130 Other
(also 1006 Primates bodymap)
44 bp exon
44 bp exon
8539 bp [gt-ag] intron
20 GenBank accessions
6426 RNA-seq supporting reads
387 UHR pooled cells
1636 Brain
2933 Blood
1312 Neuroblastoma
158 Other
(also 1419 Primates bodymap)
72 bp exon
72 bp exon
1345 bp [gt-ag] intron
17 GenBank accessions
5912 RNA-seq supporting reads
335 UHR pooled cells
1177 Brain
3233 Blood
1103 Neuroblastoma
64 Other
(also 1104 Primates bodymap)
146 bp exon
146 bp exon
809 bp [gt-ag] intron
20 GenBank accessions
6312 RNA-seq supporting reads
310 UHR pooled cells
1604 Brain
3083 Blood
1166 Neuroblastoma
149 Other
(also 1184 Primates bodymap)
74 bp exon
74 bp exon
876 bp [gt-ag] intron
18 GenBank accessions
6007 RNA-seq supporting reads
310 UHR pooled cells
1434 Brain
3028 Blood
1089 Neuroblastoma
146 Other
(also 1125 Primates bodymap)
67 bp exon
67 bp exon
3117 bp [gt-ag] intron
7 GenBank accessions
2289 RNA-seq supporting reads
121 UHR pooled cells
719 Brain
990 Blood
417 Neuroblastoma
42 Other
(also 194 Primates bodymap)
124 bp exon
124 bp exon
201 bp [gt-ag] intron
20 GenBank accessions
9170 RNA-seq supporting reads
659 UHR pooled cells
2590 Brain
3811 Blood
1854 Neuroblastoma
256 Other
(also 933 Primates bodymap)
118 bp exon
118 bp exon
118 bp exon
118 bp exon
2471 bp [gt-ag] intron
18 GenBank accessions
6824 RNA-seq supporting reads
508 UHR pooled cells
2116 Brain
2259 Blood
1692 Neuroblastoma
249 Other
(also 1065 Primates bodymap)
137 bp exon
137 bp exon
941 bp [gt-ag] intron
19 GenBank accessions
6717 RNA-seq supporting reads
503 UHR pooled cells
2057 Brain
2176 Blood
1795 Neuroblastoma
186 Other
(also 1233 Primates bodymap)
109 bp exon
109 bp exon
2868 bp [gt-ag] intron
5 GenBank accessions
2334 RNA-seq supporting reads
1 UHR pooled cells
1503 Brain
10 Blood
657 Neuroblastoma
163 Other
(also 402 Primates bodymap)
15 bp exon
15 bp exon
1022 bp [gt-ag] intron
4 GenBank accessions
2184 RNA-seq supporting reads
1 UHR pooled cells
1410 Brain
6 Blood
598 Neuroblastoma
169 Other
(also 379 Primates bodymap)
77 bp exon
77 bp exon
3503 bp [gt-ag] intron
17 GenBank accessions
6330 RNA-seq supporting reads
447 UHR pooled cells
1954 Brain
2079 Blood
1588 Neuroblastoma
262 Other
(also 769 Primates bodymap)
47 bp exon
47 bp exon
3700 bp [gt-ag] intron
15 GenBank accessions
6789 RNA-seq supporting reads
454 UHR pooled cells
2178 Brain
2110 Blood
1783 Neuroblastoma
264 Other
(also 1021 Primates bodymap)
106 bp exon
106 bp exon
90 bp [gt-ag] intron
16 GenBank accessions
6945 RNA-seq supporting reads
507 UHR pooled cells
2441 Brain
1738 Blood
2008 Neuroblastoma
251 Other
(also 639 Primates bodymap)
111 bp exon
111 bp exon
2368 bp [gt-ag] intron
14 GenBank accessions
6175 RNA-seq supporting reads
441 UHR pooled cells
2388 Brain
1256 Blood
1835 Neuroblastoma
255 Other
(also 561 Primates bodymap)
114 bp exon
114 bp exon
1430 bp [gt-ag] intron
20 GenBank accessions
6026 RNA-seq supporting reads
402 UHR pooled cells
2161 Brain
1047 Blood
2098 Neuroblastoma
318 Other
(also 424 Primates bodymap)
104 bp exon
104 bp exon
4 accessions, some from pooled
cerebellum, bladder, kidney
pcrrescued clones (seen once)
thymus (once)
104 bp exon
681 bp exon
681 bp exon
2 accessions, some from hypothalamus (seen 2 times)
681 bp exon
27 bp exon
576 bp [gt-ag] intron
2 GenBank accessions
41 RNA-seq supporting reads
29 Brain
7 Blood
5 Neuroblastoma
(also 16 Primates bodymap)
146 bp exon
261 bp uORF
809 bp [gt-ag] intron
20 GenBank accessions
6312 RNA-seq supporting reads
310 UHR pooled cells
1604 Brain
3083 Blood
1166 Neuroblastoma
149 Other
(also 1184 Primates bodymap)
74 bp exon
261 bp uORF
876 bp [gt-ag] intron
18 GenBank accessions
6007 RNA-seq supporting reads
310 UHR pooled cells
1434 Brain
3028 Blood
1089 Neuroblastoma
146 Other
(also 1125 Primates bodymap)
261 bp uORF
67 bp exon
67 bp exon
3117 bp [gt-ag] intron
7 GenBank accessions
2289 RNA-seq supporting reads
121 UHR pooled cells
719 Brain
990 Blood
417 Neuroblastoma
42 Other
(also 194 Primates bodymap)
124 bp exon
124 bp exon
201 bp [gt-ag] intron
20 GenBank accessions
9170 RNA-seq supporting reads
659 UHR pooled cells
2590 Brain
3811 Blood
1854 Neuroblastoma
256 Other
(also 933 Primates bodymap)
118 bp exon
118 bp exon
118 bp exon
2471 bp [gt-ag] intron
18 GenBank accessions
6824 RNA-seq supporting reads
508 UHR pooled cells
2116 Brain
2259 Blood
1692 Neuroblastoma
249 Other
(also 1065 Primates bodymap)
137 bp exon
137 bp exon
941 bp [gt-ag] intron
19 GenBank accessions
6717 RNA-seq supporting reads
503 UHR pooled cells
2057 Brain
2176 Blood
1795 Neuroblastoma
186 Other
(also 1233 Primates bodymap)
109 bp exon
109 bp exon
2868 bp [gt-ag] intron
5 GenBank accessions
2334 RNA-seq supporting reads
1 UHR pooled cells
1503 Brain
10 Blood
657 Neuroblastoma
163 Other
(also 402 Primates bodymap)
15 bp exon
15 bp exon
1019 bp [gt-ag] intron
1 GenBank accession
104 RNA-seq supporting reads
61 Brain
3 Blood
36 Neuroblastoma
4 Other
(also 16 Primates bodymap)
80 bp exon
80 bp exon
3503 bp [gt-ag] intron
17 GenBank accessions
6330 RNA-seq supporting reads
447 UHR pooled cells
1954 Brain
2079 Blood
1588 Neuroblastoma
262 Other
(also 769 Primates bodymap)
47 bp exon
47 bp exon
3700 bp [gt-ag] intron
15 GenBank accessions
6789 RNA-seq supporting reads
454 UHR pooled cells
2178 Brain
2110 Blood
1783 Neuroblastoma
264 Other
(also 1021 Primates bodymap)
106 bp exon
106 bp exon
90 bp [gt-ag] intron
16 GenBank accessions
6945 RNA-seq supporting reads
507 UHR pooled cells
2441 Brain
1738 Blood
2008 Neuroblastoma
251 Other
(also 639 Primates bodymap)
111 bp exon
111 bp exon
2368 bp [gt-ag] intron
14 GenBank accessions
6175 RNA-seq supporting reads
441 UHR pooled cells
2388 Brain
1256 Blood
1835 Neuroblastoma
255 Other
(also 561 Primates bodymap)
114 bp exon
114 bp exon
1430 bp [gt-ag] intron
20 GenBank accessions
6026 RNA-seq supporting reads
402 UHR pooled cells
2161 Brain
1047 Blood
2098 Neuroblastoma
318 Other
(also 424 Primates bodymap)
196 bp exon
196 bp exon
2 accessions, some from substantia nigra (seen 2 times)
196 bp exon
468 bp exon
468 bp exon
24 bp uORF
468 bp exon
809 bp [gt-ag] intron
20 GenBank accessions
6312 RNA-seq supporting reads
310 UHR pooled cells
1604 Brain
3083 Blood
1166 Neuroblastoma
149 Other
(also 1184 Primates bodymap)
74 bp exon
74 bp exon
876 bp [gt-ag] intron
18 GenBank accessions
6007 RNA-seq supporting reads
310 UHR pooled cells
1434 Brain
3028 Blood
1089 Neuroblastoma
146 Other
(also 1125 Primates bodymap)
64 bp exon
64 bp exon
1438 bp [ac-tt] fuzzy intron
1 GenBank accession
703 bp exon
703 bp exon
979 bp [gt-ag] intron
11 GenBank accessions
4068 RNA-seq supporting reads
328 UHR pooled cells
1188 Brain
1307 Blood
1070 Neuroblastoma
175 Other
(also 624 Primates bodymap)
124 bp exon
124 bp exon
201 bp [gt-ag] intron
20 GenBank accessions
9170 RNA-seq supporting reads
659 UHR pooled cells
2590 Brain
3811 Blood
1854 Neuroblastoma
256 Other
(also 933 Primates bodymap)
118 bp exon
118 bp exon
118 bp exon
2471 bp [gt-ag] intron
18 GenBank accessions
6824 RNA-seq supporting reads
508 UHR pooled cells
2116 Brain
2259 Blood
1692 Neuroblastoma
249 Other
(also 1065 Primates bodymap)
137 bp exon
137 bp exon
941 bp [gt-ag] intron
19 GenBank accessions
6717 RNA-seq supporting reads
503 UHR pooled cells
2057 Brain
2176 Blood
1795 Neuroblastoma
186 Other
(also 1233 Primates bodymap)
109 bp exon
109 bp exon
3905 bp [gt-ag] intron
8 GenBank accessions
3077 RNA-seq supporting reads
354 UHR pooled cells
64 Brain
2077 Blood
563 Neuroblastoma
19 Other
(also 305 Primates bodymap)
77 bp exon
77 bp exon
3503 bp [gt-ag] intron
17 GenBank accessions
6330 RNA-seq supporting reads
447 UHR pooled cells
1954 Brain
2079 Blood
1588 Neuroblastoma
262 Other
(also 769 Primates bodymap)
47 bp exon
47 bp exon
3700 bp [gt-ag] intron
15 GenBank accessions
6789 RNA-seq supporting reads
454 UHR pooled cells
2178 Brain
2110 Blood
1783 Neuroblastoma
264 Other
(also 1021 Primates bodymap)
106 bp exon
106 bp exon
90 bp [gt-ag] intron
16 GenBank accessions
6945 RNA-seq supporting reads
507 UHR pooled cells
2441 Brain
1738 Blood
2008 Neuroblastoma
251 Other
(also 639 Primates bodymap)
111 bp exon
111 bp exon
2368 bp [gt-ag] intron
14 GenBank accessions
6175 RNA-seq supporting reads
441 UHR pooled cells
2388 Brain
1256 Blood
1835 Neuroblastoma
255 Other
(also 561 Primates bodymap)
114 bp exon
114 bp exon
1430 bp [gt-ag] intron
20 GenBank accessions
6026 RNA-seq supporting reads
402 UHR pooled cells
2161 Brain
1047 Blood
2098 Neuroblastoma
318 Other
(also 424 Primates bodymap)
97 bp exon
97 bp exon
3 accessions, some from colon (seen once)
colon tumor, RER+ (once)
97 bp exon
63 bp exon
63 bp exon
63 bp uORF
3117 bp [gt-ag] intron
7 GenBank accessions
2289 RNA-seq supporting reads
121 UHR pooled cells
719 Brain
990 Blood
417 Neuroblastoma
42 Other
(also 194 Primates bodymap)
63 bp uORF
124 bp exon
124 bp exon
201 bp [gt-ag] intron
20 GenBank accessions
9170 RNA-seq supporting reads
659 UHR pooled cells
2590 Brain
3811 Blood
1854 Neuroblastoma
256 Other
(also 933 Primates bodymap)
118 bp exon
118 bp exon
118 bp exon
2471 bp [gt-ag] intron
18 GenBank accessions
6824 RNA-seq supporting reads
508 UHR pooled cells
2116 Brain
2259 Blood
1692 Neuroblastoma
249 Other
(also 1065 Primates bodymap)
137 bp exon
137 bp exon
941 bp [gt-ag] intron
19 GenBank accessions
6717 RNA-seq supporting reads
503 UHR pooled cells
2057 Brain
2176 Blood
1795 Neuroblastoma
186 Other
(also 1233 Primates bodymap)
109 bp exon
109 bp exon
3905 bp [gt-ag] intron
8 GenBank accessions
3077 RNA-seq supporting reads
354 UHR pooled cells
64 Brain
2077 Blood
563 Neuroblastoma
19 Other
(also 305 Primates bodymap)
77 bp exon
77 bp exon
3503 bp [gt-ag] intron
17 GenBank accessions
6330 RNA-seq supporting reads
447 UHR pooled cells
1954 Brain
2079 Blood
1588 Neuroblastoma
262 Other
(also 769 Primates bodymap)
47 bp exon
47 bp exon
3700 bp [gt-ag] intron
15 GenBank accessions
6789 RNA-seq supporting reads
454 UHR pooled cells
2178 Brain
2110 Blood
1783 Neuroblastoma
264 Other
(also 1021 Primates bodymap)
106 bp exon
106 bp exon
90 bp [gt-ag] intron
16 GenBank accessions
6945 RNA-seq supporting reads
507 UHR pooled cells
2441 Brain
1738 Blood
2008 Neuroblastoma
251 Other
(also 639 Primates bodymap)
111 bp exon
111 bp exon
2368 bp [gt-ag] intron
14 GenBank accessions
6175 RNA-seq supporting reads
441 UHR pooled cells
2388 Brain
1256 Blood
1835 Neuroblastoma
255 Other
(also 561 Primates bodymap)
114 bp exon
114 bp exon
1430 bp [gt-ag] intron
20 GenBank accessions
6026 RNA-seq supporting reads
402 UHR pooled cells
2161 Brain
1047 Blood
2098 Neuroblastoma
318 Other
(also 424 Primates bodymap)
404 bp exon
404 bp exon
1 accession from thymus
404 bp exon
1198 bp exon
1198 bp exon
57 bp uORF
1198 bp exon
1198 bp exon
1198 bp exon
Sequence gap 911 bp
20 accessions, some from stomach (seen 4 times)
uterus (3), brain (2)
fetal spleen (2), spleen (2)
capped 5' end, 3 accessions
1166 bp exon
639 bp exon
639 bp exon
159 bp uORF
639 bp exon
639 bp exon
3 accessions, some from islets of langerhans (seen once)
lung (once), pancreas (once)
stomach (once)
639 bp exon
224 bp exon
224 bp exon
8701 bp [gt-ag] intron
1 GenBank accession
55 RNA-seq supporting reads
4 UHR pooled cells
11 Brain
24 Blood
16 Neuroblastoma
122 bp exon
24353 bp [gt-ag] intron
1 GenBank accession
28 RNA-seq supporting reads
3 UHR pooled cells
4 Brain
15 Blood
6 Neuroblastoma
(also 3 Primates bodymap)
122 bp exon
122 bp exon
998 bp [gt-ag] intron
20 GenBank accessions
7494 RNA-seq supporting reads
356 UHR pooled cells
1493 Brain
4167 Blood
1323 Neuroblastoma
155 Other
(also 2603 Primates bodymap)
1 accession from hippocampus
capped 5' end, 1 accession
87 bp exon
307 bp exon
307 bp exon
0 accession
307 bp exon
303 bp exon
303 bp exon
1345 bp [gt-ag] intron
17 GenBank accessions
5912 RNA-seq supporting reads
335 UHR pooled cells
1177 Brain
3233 Blood
1103 Neuroblastoma
64 Other
(also 1104 Primates bodymap)
57 bp exon
1 accession from trachea
capped 5' end, 1 accession
57 bp exon
150 bp exon
3503 bp [gt-ag] intron
17 GenBank accessions
6330 RNA-seq supporting reads
447 UHR pooled cells
1954 Brain
2079 Blood
1588 Neuroblastoma
262 Other
(also 769 Primates bodymap)
229 bp exon
1 accession from colon
229 bp exon
301 bp exon
301 bp exon
90 bp uORF
301 bp exon
301 bp exon
1430 bp [gt-ag] intron
20 GenBank accessions
6026 RNA-seq supporting reads
402 UHR pooled cells
2161 Brain
1047 Blood
2098 Neuroblastoma
318 Other
(also 424 Primates bodymap)
763 bp exon
763 bp exon
6 accessions, some from alzheimer cortex (seen once)
bladder (once), bone marrow (once)
from acute myelogenous leukemia (once)
spleen (once)
capped 5' end, 4 accessions
763 bp exon
23 bp exon
1201 bp [gt-ag] intron
19 GenBank accessions
8976 RNA-seq supporting reads
362 UHR pooled cells
1454 Brain
5770 Blood
1247 Neuroblastoma
143 Other
(also 2137 Primates bodymap)
72 bp exon
407 bp [gt-ag] intron
23 GenBank accessions
8079 RNA-seq supporting reads
431 UHR pooled cells
1891 Brain
4080 Blood
1515 Neuroblastoma
162 Other
(also 2089 Primates bodymap)
94 bp exon
7734 bp [gt-ag] intron
19 GenBank accessions
5271 RNA-seq supporting reads
311 UHR pooled cells
1304 Brain
2442 Blood
1084 Neuroblastoma
130 Other
(also 1006 Primates bodymap)
44 bp exon
8539 bp [gt-ag] intron
20 GenBank accessions
6426 RNA-seq supporting reads
387 UHR pooled cells
1636 Brain
2933 Blood
1312 Neuroblastoma
158 Other
(also 1419 Primates bodymap)
776 bp exon
776 bp exon
776 bp exon
Sequence gap 26619 bp
4 accessions, some from hippocampus (seen 4 times)
capped 5' end, 4 accessions
563 bp exon
Alternative mRNAs are shown aligned from 5' to 3' on a virtual genome where introns have been shrunk to a minimal length. Exon size is proportional to length, intron height reflects the number of cDNAs supporting each intron, the small numbers show the support of the introns in deep sequencing (with details in mouse-over) . Introns of the same color are identical, of different colors are different. 'Good proteins' are pink, partial or not-good proteins are yellow, uORFs are green. 5' cap or3' poly A flags show completeness of the transcript.
Read more...
Mouse over the ending of each transcript gives tissues from which the supporting cDNAs were extracted. Details on tissue of origin for each intron and exon is available from the
intron and exons table .
Click on any transcript to open the specific mRNA page, to see the exact cDNA clone support and eventual SNPs and to get details on tissues, sequences, mRNA and protein annotations. Proteins supported by a single continuous cDNA sequence lead to underlining the name/ending of the variant. Names not underlined result from cDNA concatenation in the coding region and should be experimentally checked.
Introns are depicted by broken lines; the height of the top of each intron reflects the relative number of clones supporting this intron.
]^[ A pink broken line denotes an intron with standard boundaries (gt-ag or gc-ag) that is exactly supported (i.e. a cDNA sequence exactly matches the genome over 16 bp, 8 on both sides of the intron).
] ^ ] A blue broken line denotes non-standard introns, exactly supported, but with non-standard at-ac or any other boundaries.
]-[ Pink and
] - ] blue straight lines represent 'fuzzy' introns of the standard and non-standard types respectively, those introns do not follow the 16 bp rule. Black straight lines ]-[denote gaps in the alignments.
Exons: Wide filled pink areas represent putative protein coding regions, narrow empty pink boxes represent the 5'UTR (on the left) and 3' UTR (on the right). Flags identify validated endings: cap site on the 5' side, polyadenylation site on the 3' side. Filled flags correspond to frequent events while empty flags have lesser supporting cDNAs (yet all are validated); at the 3' side, black flags are associated to the main AATAAA signal,
blue flags to any single letter variant of the main . More explanations are given in the
gene help file