Expression: According to AceView, this gene is
well expressed , 0.7 times the average gene in this release. The
sequence of this gene is defined by
86 GenBank accessions from 77 cDNA clones, some from melanoma cell line (seen 8 times), testis (6), kidney (3), pooled human melanocyte, fetal heart, andpregnant uterus (3), renal cell adenocarcinoma (2), small intestine (2), uterus (2) and 12 other tissues. We annotate
structural defects or features in 3 cDNA clones.
Alternative mRNA variants and regulation: The gene contains
26 distinct gt-ag introns . Transcription produces
11 alternatively spliced mRNAs . There are 6 probable
alternative promotors , 5 non overlapping alternative last exons and 5 validated
alternative polyadenylation sites (see the
diagram ). The mRNAs appear to differ by truncation of the 5' end, truncation of the 3' end, presence or absence of 3
cassette exons , overlapping exons with different boundaries.
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 cAug10, dAug10, gAug10).
Function: There are
5 articles specifically referring to this gene in PubMed. Functionally, the gene has been proposed to participate in a
process (protein amino acid phosphorylation). Proteins are expected to have molecular
functions (protein binding, ATP binding, cyclin-dependent protein kinase activity, metal ion binding, nucleotide binding, transferase activity) and to
localize in mitochondrion. A putative
protein interactor has been described (CDK2).
Protein coding potential: 8 spliced mRNAs putatively encode
good proteins , altogether
7 different isoforms (5 complete, 2 partial ), some containing
domains Protein kinase domain, Protein tyrosine kinase [Pfam], a N-myristoylation domain, a vacuolar domain
[Psort2] . The remaining 3 mRNA variants (3 spliced) appear not to encode good proteins. Finally proteins from this gene may be modulated by
phosphorylation , as detailed at PhosphoSite.
Please quote:
AceView: a comprehensive cDNA-supported gene and transcripts annotation, Genome Biology 2006, 7(Suppl 1):S12
Gene CDK15
5'
3'
encoded on plus strand of chromosome 2 from 202,655,178 to 202,760,275
584
602
724
905
1061
1074
1080
741
911
805
854
36
848
a
584
602
724
905
1061
1074
1080
741
911
805
854
9
b
64
602
724
905
1061
1074
1080
741
911
805
854
1045
848
c
[NM]
35
64
602
724
905
1061
1074
1080
741
911
805
854
1045
848
d
584
602
724
905
2
1080
741
911
7
e
4
602
724
905
1061
1074
1080
f
79
1045
848
i
4
3
64
111
724
905
1061
1074
1080
741
911
805
5
g
35
64
111
k
10
1061
1074
1080
h
805
854
1045
848
j
5kb
0
173 bp exon
173 bp exon
706 bp [gt-ag] intron
6 GenBank accessions
578 RNA-seq supporting reads
12 UHR pooled cells
9 Brain
21 Blood
503 Neuroblastoma
33 Other
(also 141 Primates bodymap)
150 bp exon
214 bp [gt-ag] intron
21 GenBank accessions
581 RNA-seq supporting reads
20 UHR pooled cells
4 Brain
35 Blood
485 Neuroblastoma
37 Other
(also 178 Primates bodymap)
95 bp exon
4530 bp [gt-ag] intron
19 GenBank accessions
705 RNA-seq supporting reads
25 UHR pooled cells
10 Brain
61 Blood
581 Neuroblastoma
28 Other
(also 171 Primates bodymap)
80 bp exon
10246 bp [gt-ag] intron
40 GenBank accessions
865 RNA-seq supporting reads
18 UHR pooled cells
13 Brain
62 Blood
732 Neuroblastoma
40 Other
(also 252 Primates bodymap)
95 bp exon
761 bp [gt-ag] intron
40 GenBank accessions
1021 RNA-seq supporting reads
26 UHR pooled cells
18 Brain
79 Blood
858 Neuroblastoma
40 Other
(also 244 Primates bodymap)
63 bp exon
10120 bp [gt-ag] intron
40 GenBank accessions
1034 RNA-seq supporting reads
19 UHR pooled cells
14 Brain
40 Blood
915 Neuroblastoma
46 Other
(also 213 Primates bodymap)
124 bp exon
1671 bp [gt-ag] intron
43 GenBank accessions
1037 RNA-seq supporting reads
31 UHR pooled cells
7 Brain
52 Blood
900 Neuroblastoma
47 Other
(also 133 Primates bodymap)
121 bp exon
11617 bp [gt-ag] intron
38 GenBank accessions
703 RNA-seq supporting reads
28 UHR pooled cells
6 Brain
29 Blood
603 Neuroblastoma
37 Other
(also 64 Primates bodymap)
94 bp exon
7399 bp [gt-ag] intron
36 GenBank accessions
875 RNA-seq supporting reads
12 UHR pooled cells
6 Brain
28 Blood
791 Neuroblastoma
38 Other
(also 108 Primates bodymap)
64 bp exon
17340 bp [gt-ag] intron
15 GenBank accessions
790 RNA-seq supporting reads
14 UHR pooled cells
6 Brain
17 Blood
713 Neuroblastoma
40 Other
(also 77 Primates bodymap)
49 bp exon
7701 bp [gt-ag] intron
14 GenBank accessions
840 RNA-seq supporting reads
11 UHR pooled cells
13 Brain
20 Blood
756 Neuroblastoma
40 Other
(also 76 Primates bodymap)
140 bp exon
10635 bp [gt-ag] intron
1 GenBank accession
35 RNA-seq supporting reads
34 Neuroblastoma
1 Other
(also 3 Primates bodymap)
125 bp exon
125 bp exon
2373 bp [gt-ag] intron
13 GenBank accessions
835 RNA-seq supporting reads
29 UHR pooled cells
12 Brain
12 Blood
734 Neuroblastoma
48 Other
(also 85 Primates bodymap)
19 accessions, some from melanoma cell line (seen 4 times)
pooled human melanocyte
fetal heart, andpregnant uterus (3)
adipose (once), brain (once)
breast carcinoma (once)
Validated 3' end, 1 accession
2250 bp exon
167 bp exon
167 bp exon
706 bp [gt-ag] intron
6 GenBank accessions
578 RNA-seq supporting reads
12 UHR pooled cells
9 Brain
21 Blood
503 Neuroblastoma
33 Other
(also 141 Primates bodymap)
150 bp exon
214 bp [gt-ag] intron
21 GenBank accessions
581 RNA-seq supporting reads
20 UHR pooled cells
4 Brain
35 Blood
485 Neuroblastoma
37 Other
(also 178 Primates bodymap)
95 bp exon
4530 bp [gt-ag] intron
19 GenBank accessions
705 RNA-seq supporting reads
25 UHR pooled cells
10 Brain
61 Blood
581 Neuroblastoma
28 Other
(also 171 Primates bodymap)
80 bp exon
10246 bp [gt-ag] intron
40 GenBank accessions
865 RNA-seq supporting reads
18 UHR pooled cells
13 Brain
62 Blood
732 Neuroblastoma
40 Other
(also 252 Primates bodymap)
95 bp exon
761 bp [gt-ag] intron
40 GenBank accessions
1021 RNA-seq supporting reads
26 UHR pooled cells
18 Brain
79 Blood
858 Neuroblastoma
40 Other
(also 244 Primates bodymap)
63 bp exon
10120 bp [gt-ag] intron
40 GenBank accessions
1034 RNA-seq supporting reads
19 UHR pooled cells
14 Brain
40 Blood
915 Neuroblastoma
46 Other
(also 213 Primates bodymap)
124 bp exon
1671 bp [gt-ag] intron
43 GenBank accessions
1037 RNA-seq supporting reads
31 UHR pooled cells
7 Brain
52 Blood
900 Neuroblastoma
47 Other
(also 133 Primates bodymap)
121 bp exon
11617 bp [gt-ag] intron
38 GenBank accessions
703 RNA-seq supporting reads
28 UHR pooled cells
6 Brain
29 Blood
603 Neuroblastoma
37 Other
(also 64 Primates bodymap)
94 bp exon
7399 bp [gt-ag] intron
36 GenBank accessions
875 RNA-seq supporting reads
12 UHR pooled cells
6 Brain
28 Blood
791 Neuroblastoma
38 Other
(also 108 Primates bodymap)
64 bp exon
17340 bp [gt-ag] intron
15 GenBank accessions
790 RNA-seq supporting reads
14 UHR pooled cells
6 Brain
17 Blood
713 Neuroblastoma
40 Other
(also 77 Primates bodymap)
49 bp exon
7701 bp [gt-ag] intron
14 GenBank accessions
840 RNA-seq supporting reads
11 UHR pooled cells
13 Brain
20 Blood
756 Neuroblastoma
40 Other
(also 76 Primates bodymap)
140 bp exon
8292 bp [gt-ag] intron
1 GenBank accession
8 RNA-seq supporting reads
8 Neuroblastoma
991 bp exon
1 accession from brain
adult, 6 pooled whole brains
Validated 3' end, 1 accession
991 bp exon
173 bp exon
173 bp exon
21 bp uORF
173 bp exon
946 bp [gt-ag] intron
13 GenBank accessions
51 RNA-seq supporting reads
30 Blood
21 Neuroblastoma
(also 49 Primates bodymap)
150 bp exon
150 bp exon
150 bp exon
214 bp [gt-ag] intron
21 GenBank accessions
581 RNA-seq supporting reads
20 UHR pooled cells
4 Brain
35 Blood
485 Neuroblastoma
37 Other
(also 178 Primates bodymap)
95 bp exon
95 bp exon
4530 bp [gt-ag] intron
19 GenBank accessions
705 RNA-seq supporting reads
25 UHR pooled cells
10 Brain
61 Blood
581 Neuroblastoma
28 Other
(also 171 Primates bodymap)
80 bp exon
80 bp exon
10246 bp [gt-ag] intron
40 GenBank accessions
865 RNA-seq supporting reads
18 UHR pooled cells
13 Brain
62 Blood
732 Neuroblastoma
40 Other
(also 252 Primates bodymap)
95 bp exon
95 bp exon
761 bp [gt-ag] intron
40 GenBank accessions
1021 RNA-seq supporting reads
26 UHR pooled cells
18 Brain
79 Blood
858 Neuroblastoma
40 Other
(also 244 Primates bodymap)
63 bp exon
63 bp exon
10120 bp [gt-ag] intron
40 GenBank accessions
1034 RNA-seq supporting reads
19 UHR pooled cells
14 Brain
40 Blood
915 Neuroblastoma
46 Other
(also 213 Primates bodymap)
124 bp exon
124 bp exon
1671 bp [gt-ag] intron
43 GenBank accessions
1037 RNA-seq supporting reads
31 UHR pooled cells
7 Brain
52 Blood
900 Neuroblastoma
47 Other
(also 133 Primates bodymap)
121 bp exon
121 bp exon
11617 bp [gt-ag] intron
38 GenBank accessions
703 RNA-seq supporting reads
28 UHR pooled cells
6 Brain
29 Blood
603 Neuroblastoma
37 Other
(also 64 Primates bodymap)
94 bp exon
94 bp exon
7399 bp [gt-ag] intron
36 GenBank accessions
875 RNA-seq supporting reads
12 UHR pooled cells
6 Brain
28 Blood
791 Neuroblastoma
38 Other
(also 108 Primates bodymap)
64 bp exon
64 bp exon
17340 bp [gt-ag] intron
15 GenBank accessions
790 RNA-seq supporting reads
14 UHR pooled cells
6 Brain
17 Blood
713 Neuroblastoma
40 Other
(also 77 Primates bodymap)
49 bp exon
49 bp exon
7701 bp [gt-ag] intron
14 GenBank accessions
840 RNA-seq supporting reads
11 UHR pooled cells
13 Brain
20 Blood
756 Neuroblastoma
40 Other
(also 76 Primates bodymap)
140 bp exon
140 bp exon
10617 bp [gt-ag] intron
11 GenBank accessions
1034 RNA-seq supporting reads
18 UHR pooled cells
10 Brain
30 Blood
931 Neuroblastoma
45 Other
(also 58 Primates bodymap)
143 bp exon
143 bp exon
143 bp exon
2373 bp [gt-ag] intron
13 GenBank accessions
835 RNA-seq supporting reads
29 UHR pooled cells
12 Brain
12 Blood
734 Neuroblastoma
48 Other
(also 85 Primates bodymap)
5 accessions, NM_139158.1
some from testis (seen once)
Validated 3' end, 2 accessions
243 bp exon
206 bp exon
206 bp exon
93 bp uORF
206 bp exon
15768 bp [gt-ag] intron
5 GenBank accessions
30 RNA-seq supporting reads
26 Blood
4 Neuroblastoma
119 bp exon
119 bp exon
946 bp [gt-ag] intron
13 GenBank accessions
51 RNA-seq supporting reads
30 Blood
21 Neuroblastoma
(also 49 Primates bodymap)
150 bp exon
150 bp exon
150 bp exon
214 bp [gt-ag] intron
21 GenBank accessions
581 RNA-seq supporting reads
20 UHR pooled cells
4 Brain
35 Blood
485 Neuroblastoma
37 Other
(also 178 Primates bodymap)
95 bp exon
95 bp exon
4530 bp [gt-ag] intron
19 GenBank accessions
705 RNA-seq supporting reads
25 UHR pooled cells
10 Brain
61 Blood
581 Neuroblastoma
28 Other
(also 171 Primates bodymap)
80 bp exon
80 bp exon
10246 bp [gt-ag] intron
40 GenBank accessions
865 RNA-seq supporting reads
18 UHR pooled cells
13 Brain
62 Blood
732 Neuroblastoma
40 Other
(also 252 Primates bodymap)
95 bp exon
95 bp exon
761 bp [gt-ag] intron
40 GenBank accessions
1021 RNA-seq supporting reads
26 UHR pooled cells
18 Brain
79 Blood
858 Neuroblastoma
40 Other
(also 244 Primates bodymap)
63 bp exon
63 bp exon
10120 bp [gt-ag] intron
40 GenBank accessions
1034 RNA-seq supporting reads
19 UHR pooled cells
14 Brain
40 Blood
915 Neuroblastoma
46 Other
(also 213 Primates bodymap)
124 bp exon
124 bp exon
1671 bp [gt-ag] intron
43 GenBank accessions
1037 RNA-seq supporting reads
31 UHR pooled cells
7 Brain
52 Blood
900 Neuroblastoma
47 Other
(also 133 Primates bodymap)
121 bp exon
121 bp exon
11617 bp [gt-ag] intron
38 GenBank accessions
703 RNA-seq supporting reads
28 UHR pooled cells
6 Brain
29 Blood
603 Neuroblastoma
37 Other
(also 64 Primates bodymap)
94 bp exon
94 bp exon
7399 bp [gt-ag] intron
36 GenBank accessions
875 RNA-seq supporting reads
12 UHR pooled cells
6 Brain
28 Blood
791 Neuroblastoma
38 Other
(also 108 Primates bodymap)
64 bp exon
64 bp exon
17340 bp [gt-ag] intron
15 GenBank accessions
790 RNA-seq supporting reads
14 UHR pooled cells
6 Brain
17 Blood
713 Neuroblastoma
40 Other
(also 77 Primates bodymap)
49 bp exon
49 bp exon
7701 bp [gt-ag] intron
14 GenBank accessions
840 RNA-seq supporting reads
11 UHR pooled cells
13 Brain
20 Blood
756 Neuroblastoma
40 Other
(also 76 Primates bodymap)
140 bp exon
140 bp exon
10617 bp [gt-ag] intron
11 GenBank accessions
1034 RNA-seq supporting reads
18 UHR pooled cells
10 Brain
30 Blood
931 Neuroblastoma
45 Other
(also 58 Primates bodymap)
143 bp exon
143 bp exon
143 bp exon
2373 bp [gt-ag] intron
13 GenBank accessions
835 RNA-seq supporting reads
29 UHR pooled cells
12 Brain
12 Blood
734 Neuroblastoma
48 Other
(also 85 Primates bodymap)
39 accessions, some from melanoma cell line (seen 3 times)
kidney (2), renal cell adenocarcinoma (2)
testis (2), lung (once)
capped 5' end, 2 accessions
Validated 3' end, 1 accession
168 bp exon
208 bp exon
208 bp exon
706 bp [gt-ag] intron
6 GenBank accessions
578 RNA-seq supporting reads
12 UHR pooled cells
9 Brain
21 Blood
503 Neuroblastoma
33 Other
(also 141 Primates bodymap)
150 bp exon
214 bp [gt-ag] intron
21 GenBank accessions
581 RNA-seq supporting reads
20 UHR pooled cells
4 Brain
35 Blood
485 Neuroblastoma
37 Other
(also 178 Primates bodymap)
95 bp exon
4530 bp [gt-ag] intron
19 GenBank accessions
705 RNA-seq supporting reads
25 UHR pooled cells
10 Brain
61 Blood
581 Neuroblastoma
28 Other
(also 171 Primates bodymap)
80 bp exon
10246 bp [gt-ag] intron
40 GenBank accessions
865 RNA-seq supporting reads
18 UHR pooled cells
13 Brain
62 Blood
732 Neuroblastoma
40 Other
(also 252 Primates bodymap)
95 bp exon
10944 bp [gt-ag] intron
1 GenBank accession
1 RNA-seq supporting reads
1 Neuroblastoma
(also 1 Primates bodymap)
124 bp exon
1671 bp [gt-ag] intron
43 GenBank accessions
1037 RNA-seq supporting reads
31 UHR pooled cells
7 Brain
52 Blood
900 Neuroblastoma
47 Other
(also 133 Primates bodymap)
121 bp exon
11617 bp [gt-ag] intron
38 GenBank accessions
703 RNA-seq supporting reads
28 UHR pooled cells
6 Brain
29 Blood
603 Neuroblastoma
37 Other
(also 64 Primates bodymap)
94 bp exon
7399 bp [gt-ag] intron
36 GenBank accessions
875 RNA-seq supporting reads
12 UHR pooled cells
6 Brain
28 Blood
791 Neuroblastoma
38 Other
(also 108 Primates bodymap)
64 bp exon
5803 bp [gt-ag] intron
1 GenBank accession
6 RNA-seq supporting reads
1 UHR pooled cells
4 Neuroblastoma
1 Other
(also 1 Primates bodymap)
796 bp exon
2 accessions
capped 5' end, 1 accession
Validated 3' end, 1 accession
796 bp exon
19 bp exon
388 bp [gt-ag] intron
1 GenBank accession
3 RNA-seq supporting reads
3 Neuroblastoma
150 bp exon
150 bp exon
214 bp [gt-ag] intron
21 GenBank accessions
581 RNA-seq supporting reads
20 UHR pooled cells
4 Brain
35 Blood
485 Neuroblastoma
37 Other
(also 178 Primates bodymap)
95 bp exon
4530 bp [gt-ag] intron
19 GenBank accessions
705 RNA-seq supporting reads
25 UHR pooled cells
10 Brain
61 Blood
581 Neuroblastoma
28 Other
(also 171 Primates bodymap)
80 bp exon
10246 bp [gt-ag] intron
40 GenBank accessions
865 RNA-seq supporting reads
18 UHR pooled cells
13 Brain
62 Blood
732 Neuroblastoma
40 Other
(also 252 Primates bodymap)
95 bp exon
761 bp [gt-ag] intron
40 GenBank accessions
1021 RNA-seq supporting reads
26 UHR pooled cells
18 Brain
79 Blood
858 Neuroblastoma
40 Other
(also 244 Primates bodymap)
63 bp exon
10120 bp [gt-ag] intron
40 GenBank accessions
1034 RNA-seq supporting reads
19 UHR pooled cells
14 Brain
40 Blood
915 Neuroblastoma
46 Other
(also 213 Primates bodymap)
124 bp exon
1671 bp [gt-ag] intron
43 GenBank accessions
1037 RNA-seq supporting reads
31 UHR pooled cells
7 Brain
52 Blood
900 Neuroblastoma
47 Other
(also 133 Primates bodymap)
121 bp exon
1 accession from endometrium
adenocarcinoma cell line from uterus
121 bp exon
147 bp exon
25090 bp [gt-ag] intron
2 GenBank accessions
77 RNA-seq supporting reads
4 UHR pooled cells
8 Blood
62 Neuroblastoma
3 Other
(also 7 Primates bodymap)
140 bp exon
140 bp exon
10617 bp [gt-ag] intron
11 GenBank accessions
1034 RNA-seq supporting reads
18 UHR pooled cells
10 Brain
30 Blood
931 Neuroblastoma
45 Other
(also 58 Primates bodymap)
143 bp exon
143 bp exon
2373 bp [gt-ag] intron
13 GenBank accessions
835 RNA-seq supporting reads
29 UHR pooled cells
12 Brain
12 Blood
734 Neuroblastoma
48 Other
(also 85 Primates bodymap)
2 accessions
capped 5' end, 1 accession
2188 bp exon
200 bp exon
200 bp exon
93 bp uORF
200 bp exon
10123 bp [gt-ag] intron
2 GenBank accessions
2 RNA-seq supporting reads
2 Blood
(also 2 Primates bodymap)
118 bp exon
118 bp exon
5527 bp [gt-ag] fuzzy intron
2 GenBank accessions
1 RNA-seq supporting reads
1 Blood
119 bp exon
119 bp exon
946 bp [gt-ag] intron
13 GenBank accessions
51 RNA-seq supporting reads
30 Blood
21 Neuroblastoma
(also 49 Primates bodymap)
150 bp exon
150 bp exon
209 bp [gt-ag] intron
3 GenBank accessions
108 RNA-seq supporting reads
1 Brain
10 Blood
94 Neuroblastoma
3 Other
(also 21 Primates bodymap)
100 bp exon
100 bp exon
4530 bp [gt-ag] intron
19 GenBank accessions
705 RNA-seq supporting reads
25 UHR pooled cells
10 Brain
61 Blood
581 Neuroblastoma
28 Other
(also 171 Primates bodymap)
80 bp exon
80 bp exon
80 bp exon
10246 bp [gt-ag] intron
40 GenBank accessions
865 RNA-seq supporting reads
18 UHR pooled cells
13 Brain
62 Blood
732 Neuroblastoma
40 Other
(also 252 Primates bodymap)
95 bp exon
95 bp exon
761 bp [gt-ag] intron
40 GenBank accessions
1021 RNA-seq supporting reads
26 UHR pooled cells
18 Brain
79 Blood
858 Neuroblastoma
40 Other
(also 244 Primates bodymap)
63 bp exon
63 bp exon
10120 bp [gt-ag] intron
40 GenBank accessions
1034 RNA-seq supporting reads
19 UHR pooled cells
14 Brain
40 Blood
915 Neuroblastoma
46 Other
(also 213 Primates bodymap)
124 bp exon
124 bp exon
1671 bp [gt-ag] intron
43 GenBank accessions
1037 RNA-seq supporting reads
31 UHR pooled cells
7 Brain
52 Blood
900 Neuroblastoma
47 Other
(also 133 Primates bodymap)
121 bp exon
121 bp exon
11617 bp [gt-ag] intron
38 GenBank accessions
703 RNA-seq supporting reads
28 UHR pooled cells
6 Brain
29 Blood
603 Neuroblastoma
37 Other
(also 64 Primates bodymap)
94 bp exon
94 bp exon
7399 bp [gt-ag] intron
36 GenBank accessions
875 RNA-seq supporting reads
12 UHR pooled cells
6 Brain
28 Blood
791 Neuroblastoma
38 Other
(also 108 Primates bodymap)
64 bp exon
64 bp exon
17340 bp [gt-ag] intron
15 GenBank accessions
790 RNA-seq supporting reads
14 UHR pooled cells
6 Brain
17 Blood
713 Neuroblastoma
40 Other
(also 77 Primates bodymap)
49 bp exon
49 bp exon
4197 bp [gt-ag] intron
1 GenBank accession
4 RNA-seq supporting reads
4 Neuroblastoma
60 bp exon
60 bp exon
2 accessions, some from small intestine (seen once)
testis (once)
60 bp exon
188 bp exon
15768 bp [gt-ag] intron
5 GenBank accessions
30 RNA-seq supporting reads
26 Blood
4 Neuroblastoma
119 bp exon
946 bp [gt-ag] intron
13 GenBank accessions
51 RNA-seq supporting reads
30 Blood
21 Neuroblastoma
(also 49 Primates bodymap)
150 bp exon
150 bp exon
209 bp [gt-ag] intron
3 GenBank accessions
108 RNA-seq supporting reads
1 Brain
10 Blood
94 Neuroblastoma
3 Other
(also 21 Primates bodymap)
86 bp exon
1 accession from uterus
capped 5' end, 1 accession
86 bp exon
129 bp exon
1359 bp [gt-ag] intron
2 GenBank accessions
8 RNA-seq supporting reads
8 Neuroblastoma
95 bp exon
95 bp exon
761 bp [gt-ag] intron
40 GenBank accessions
1021 RNA-seq supporting reads
26 UHR pooled cells
18 Brain
79 Blood
858 Neuroblastoma
40 Other
(also 244 Primates bodymap)
63 bp exon
10120 bp [gt-ag] intron
40 GenBank accessions
1034 RNA-seq supporting reads
19 UHR pooled cells
14 Brain
40 Blood
915 Neuroblastoma
46 Other
(also 213 Primates bodymap)
124 bp exon
1671 bp [gt-ag] intron
43 GenBank accessions
1037 RNA-seq supporting reads
31 UHR pooled cells
7 Brain
52 Blood
900 Neuroblastoma
47 Other
(also 133 Primates bodymap)
60 bp exon
2 accessions, some from testis (seen 2 times)
60 bp exon
177 bp exon
17340 bp [gt-ag] intron
15 GenBank accessions
790 RNA-seq supporting reads
14 UHR pooled cells
6 Brain
17 Blood
713 Neuroblastoma
40 Other
(also 77 Primates bodymap)
49 bp exon
7701 bp [gt-ag] intron
14 GenBank accessions
840 RNA-seq supporting reads
11 UHR pooled cells
13 Brain
20 Blood
756 Neuroblastoma
40 Other
(also 76 Primates bodymap)
140 bp exon
140 bp exon
10617 bp [gt-ag] intron
11 GenBank accessions
1034 RNA-seq supporting reads
18 UHR pooled cells
10 Brain
30 Blood
931 Neuroblastoma
45 Other
(also 58 Primates bodymap)
143 bp exon
143 bp exon
2373 bp [gt-ag] intron
13 GenBank accessions
835 RNA-seq supporting reads
29 UHR pooled cells
12 Brain
12 Blood
734 Neuroblastoma
48 Other
(also 85 Primates bodymap)
1 accession
capped 5' end, 1 accession
60 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