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Gene SOX9TABLE OF CONTENTS / OPEN CLOSE ALL PARAGRAPHS
Summary back to top
Compact gene diagram back to top
249 supporting clones for gene SOX9 back to top
cDNA accession
Links to the sequence
Tissue

most 5' clones
in red
Match
mRNA
From bp
to bp
in mRNA
From bp
to bp
in accs.
Clone encodes
complete protein
(with AA variation)
Features Anomalies
detected by
AceView
Accession
match over
(% length)
Base differences
relative to genome
(% identity)
BI561408 testis .a 1 to 661 1 to 672       672/675
(99 %)
29 diff
(95.8 %id)
BG704048 brain, hippocampus .a 2 to 724 1 to 733       733/1031
(71 %)
40 diff
(96.2 %id)
DB494121 hypothalamus .a 4 to 524 1 to 521       521/532
(97 %)
5 diff
(99.1 %id)
BF979308 testis .a 4 to 717 4 to 706       703/706
(99 %)
7 diff
(99.1 %id)
BG720271 testis .a 4 to 525 6 to 533       528/536
(98 %)
12 diff
(97.8 %id)
TI_44350016   .a 4 to 719 135 to 865       731/865
(84 %)
6 diff
(99.4 %id)
NM_000346.3   .a 4 to 3929 1 to 3926 exact RefSeq, AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 3926/3926
(100 %)
0 diff
(100 %id)
DC329944 hippocampus .a 7 to 580 1 to 574   tiling clone,   574/574
(100 %)
0 diff
(100 %id)
BM908083 brain, medulla .a 9 to 764 1 to 760       760/1166
(65 %)
6 diff
(99.5 %id)
DR002789 fetal brain .a 10 to 681 1 to 675       675/675
(100 %)
12 diff
(98.3 %id)
BC056420 Peripheral Nervous System, sympathetictrunk .a 14 to 2519 21 to 2526 exact tiling clone, available from MGC, AAA Possibly primed on the genome, locally A rich (15/16 A in genome downstream of last aligned base) 2506/2506
(100 %)
0 diff
(100 %id)
CN415617 embryonic stem cells, embryoid bodiesderived from H1, H7 and H9 cells .a 14 to 592 1 to 578       578/578
(100 %)
3 diff
(99.5 %id)
BX419332 brain, fetal brain .a 18 to 899 1 to 881       881/881
(100 %)
14 diff
(98.5 %id)
BQ947270 sciatic nerve .a 19 to 690 1 to 674       674/913
(73 %)
33 diff
(96.4 %id)
CD359414 testis .a 21 to 565 10 to 561       552/988
(55 %)
40 diff
(96.0 %id)
BQ938036 leiomyosarcoma, uterus .a 23 to 805 1 to 785       785/933
(84 %)
21 diff
(97.8 %id)
BU164204 large cell carcinoma, lung .a 52 to 528 1 to 476       476/979
(48 %)
13 diff
(98.7 %id)
CN415616 embryonic stem cell, retinoic acid andmitogen-treated hES cell line H7 .a 82 to 408 1 to 327       327/327
(100 %)
0 diff
(100 %id)
BC007951 Eye, normal, pigmented retinal epithelium .a 147 to 2342 1 to 2196 exact available from MGC, AAA   2196/2196
(100 %)
0 diff
(100 %id)
BF688554 eye, normal pigmented retinal epithelium .a 263 to 804 132 to 697       671/1124
(59 %)
59 diff
(94.8 %id)
BT006875   .a 376 to 1903 1 to 1528       1528/1530
(99 %)
1 diff
(100.0 %id)
BG831711 epithelioid carcinoma cell line, Pancreas .a 530 to 1285 1 to 751       751/751
(100 %)
8 diff
(99.0 %id)
BF762283 colon_est .a 641 to 905 1 to 265       265/272
(97 %)
1 diff
(99.7 %id)
BF762319 colon_est .a 641 to 905 1 to 265       265/286
(92 %)
3 diff
(99.0 %id)
BQ653032 hepatocellular carcinoma, cell line, Liver .a 730 to 1405 1 to 679       679/988
(68 %)
9 diff
(99.1 %id)
BX431032 brain, fetal brain .a 760 to 1615 1 to 864       864/886
(97 %)
24 diff
(97.3 %id)
BX431033 brain, fetal brain .a 777 to 1661 20 to 900       881/900
(97 %)
13 diff
(98.6 %id)
BQ421814 epithelioid carcinoma, Pancreas .a 846 to 1475 10 to 643       634/888
(71 %)
28 diff
(96.9 %id)
BG928711 cartilage .a 885 to 1461 79 to 657       579/588
(98 %)
11 diff
(98.2 %id)
BM762705 lymph node, stomach .a 893 to 1569 1 to 677       677/677
(100 %)
0 diff
(100 %id)
BM845551 lymph node, stomach .a 894 to 1149 1 to 256       256/256
(100 %)
0 diff
(100 %id)
BF343387 brain, glioblastoma with EGFR amplification .a 916 to 1302 1 to 387       387/387
(100 %)
0 diff
(100 %id)
BG827143 muscle, rhabdomyosarcoma .a 1021 to 1430 1 to 408       408/429
(95 %)
11 diff
(97.5 %id)
CD358545 testis .a 1228 to 1818 63 to 656       594/1130
(52 %)
19 diff
(98.4 %id)
EL955262 eyeball .a 1608 to 1977 20 to 389       370/389
(95 %)
6 diff
(98.5 %id)
AI348085 adenocarcinoma, colon .a 1642 to 2268 644 to 19   AAA   626/685
(91 %)
14 diff
(98.0 %id)
AW381053 head_neck .a 1648 to 2062 22 to 435       414/435
(95 %)
7 diff
(98.4 %id)
BG926074 cartilage .a 1658 to 2269 77 to 688       612/620
(98 %)
13 diff
(98.0 %id)
BG926075 cartilage .a 1658 to 2297 78 to 717       640/649
(98 %)
7 diff
(99.0 %id)
AA090808   .a 1662 to 1950 1 to 281       281/295
(95 %)
12 diff
(96.0 %id)
BQ188707 eye, fetal eyes, lens, eye anterior segment,optic nerve, retina, Retina Foveal and Macular, RPE andChoroid .a 1667 to 2056 1 to 390   fully sequenced, AAA   390/390
(100 %)
0 diff
(100 %id)
TI_151733048   .a 1667 to 2056 468 to 79   AAA   390/969
(40 %)
0 diff
(100 %id)
BE818697 breast_normal .a 1671 to 2174 11 to 514       504/537
(93 %)
6 diff
(98.9 %id)
N85428   .a 1673 to 1945 1 to 261       261/261
(100 %)
13 diff
(95.1 %id)
CA773373 Pancreas, Purified pancreatic islet .a 1674 to 2249 1 to 576       576/576
(100 %)
0 diff
(100 %id)
AA334252   .a 1676 to 1837 1 to 162       162/162
(100 %)
1 diff
(99.4 %id)
DA750834   .a 1688 to 2224 2 to 539   capped   538/538
(100 %)
1 diff
(99.9 %id)
AV750371 Pituitary .a 1731 to 1941 1 to 211       211/215
(98 %)
2 diff
(99.1 %id)
AI382146 pooled .a 1741 to 2522 783 to 1       783/783
(100 %)
22 diff
(97.2 %id)
BG980036 colon_normal .a 1742 to 2010 273 to 5       269/273
(98 %)
0 diff
(100 %id)
C15879   .a 1756 to 2105 1 to 342       342/342
(100 %)
12 diff
(96.5 %id)
AW379683 head_neck .a 1757 to 1916 1 to 161       161/165
(97 %)
6 diff
(96.4 %id)
DA352930 substantia nigra .a 1764 to 2332 2 to 570   capped   569/569
(100 %)
0 diff
(100 %id)
BG698576 skin .a 1790 to 2535 24 to 762       739/950
(77 %)
24 diff
(97.5 %id)
CA426756 cell lines, Chondrosarcoma .a 1792 to 2519 745 to 17   AAA Possibly primed on the genome, locally A rich (15/16 A in genome downstream of last aligned base) 729/729
(100 %)
1 diff
(99.9 %id)
BQ301483 bocio_tumor .a 1806 to 2124 1 to 322       322/350
(92 %)
24 diff
(93.2 %id)
BG896274 cartilage .a 1811 to 2456 75 to 717       643/649
(99 %)
6 diff
(99.1 %id)
BG896577 cartilage .a 1811 to 2138 75 to 400       326/332
(98 %)
6 diff
(98.2 %id)
AW897800 nervous_normal .a 1814 to 2236 441 to 10       432/454
(95 %)
0 diff
(100 %id)
BF762288 colon_est .a 1842 to 2166 1 to 325       325/326
(99 %)
2 diff
(99.4 %id)
AV724179 hypothalamus .a 1845 to 2517 101 to 769       669/772
(86 %)
6 diff
(99.3 %id)
CK300183 eye, fetal eyes, lens, eye anterior segment,optic nerve, retina, Retina Foveal and Macular, RPE andChoroid .a 1846 to 2054 228 to 20   fully sequenced, AAA   209/209
(100 %)
0 diff
(100 %id)
BE003539 breast_normal .a 1848 to 2364 6 to 527       522/527
(99 %)
26 diff
(95.1 %id)
AW360802 colon .a 1858 to 2093 1 to 236       236/236
(100 %)
1 diff
(99.6 %id)
AW360836 colon .a 1861 to 2387 1 to 526       526/526
(100 %)
5 diff
(99.1 %id)
BF763632 colon_est .a 1861 to 2246 396 to 13     Submitted on the opposite strand 384/396
(96 %)
0 diff
(100 %id)
BF858923 prostate_tumor .a 1909 to 2175 1 to 258       258/266
(96 %)
16 diff
(94.0 %id)
BG697040 skin .a 1932 to 2697 1 to 765       765/765
(100 %)
7 diff
(99.1 %id)
BQ435412 leiomyosarcoma, uterus .a 1941 to 2772 1 to 835       835/882
(94 %)
18 diff
(98.0 %id)
AA333065 Embryo, 8 weeks .a 1947 to 2246 1 to 303       303/303
(100 %)
4 diff
(98.7 %id)
AA884178 pooled .a 1949 to 2345 395 to 1       395/395
(100 %)
3 diff
(99.3 %id)
AA657762   .a 1955 to 2319 32 to 395       364/395
(92 %)
6 diff
(98.5 %id)
AU279680   .a 1964 to 2524 1 to 563       563/563
(100 %)
2 diff
(99.7 %id)
BG121803 adenocarcinoma, cell line, Liver .a 1975 to 2745 10 to 763       754/928
(81 %)
43 diff
(95.4 %id)
AW888412 nervous_tumor .a 1984 to 2213 232 to 1       232/232
(100 %)
2 diff
(99.2 %id)
AI934455 anaplastic oligodendroglioma, brain .a 1984 to 2519 536 to 1       536/536
(100 %)
2 diff
(99.7 %id)
AW005563 anaplastic oligodendroglioma, brain .a 1997 to 2519 523 to 1       523/523
(100 %)
0 diff
(100 %id)
AA527295 colon .a 2002 to 2520 520 to 1       520/520
(100 %)
3 diff
(99.5 %id)
AI299871 carcinoid, lung .a 2009 to 2451 1 to 443     Submitted on the opposite strand 443/443
(100 %)
1 diff
(99.8 %id)
AA576678 colon, colon tumor RER+ .a 2012 to 2570 1 to 558     Submitted on the opposite strand 558/558
(100 %)
1 diff
(99.9 %id)
BE673868 carcinoid, lung .a 2016 to 2480 1 to 466     Submitted on the opposite strand 466/466
(100 %)
1 diff
(99.8 %id)
BF063542 colon, colon tumor, RER+ .a 2018 to 2477 1 to 460     Submitted on the opposite strand 460/460
(100 %)
1 diff
(99.8 %id)
BM988956 lung, Lung Focal Fibrosis .a 2020 to 2285 1 to 266     Submitted on the opposite strand 266/266
(100 %)
3 diff
(98.9 %id)
BU738860 eye, fetal eyes, lens, eye anterior segment,optic nerve, retina, Retina Foveal and Macular, RPE andChoroid .a 2027 to 2529 1 to 500     Submitted on the opposite strand 500/501
(99 %)
4 diff
(99.3 %id)
BI771171 pooled lung and spleen .a 2031 to 2827 1 to 809       809/850
(95 %)
31 diff
(96.4 %id)
TI_57179290   .a 2031 to 2827 31 to 839       809/880
(91 %)
31 diff
(96.5 %id)
AI870355 anaplastic oligodendroglioma, brain .a 2043 to 2519 478 to 1       478/478
(100 %)
1 diff
(99.8 %id)
BM714160 eye, fetal eyes, lens, eye anterior segment,optic nerve, retina, Retina Foveal and Macular, RPE andChoroid .a 2044 to 2524 485 to 5     Submitted on the opposite strand 481/485
(99 %)
0 diff
(100 %id)
AA913619 pooled .a 2054 to 2519 469 to 1       469/469
(100 %)
12 diff
(97.5 %id)
CA773589.
matches multiple genes
Pancreas, Purified pancreatic islet .a 2062 to 2639 578 to 1     also hits gene EXOC2 578/578
(100 %)
0 diff
(100 %id)
BE833871 ovary .a 2068 to 2367 317 to 17       301/319
(94 %)
0 diff
(100 %id)
BE833897 ovary .a 2068 to 2366 310 to 12       299/312
(95 %)
0 diff
(100 %id)
AI380233 B-cell, chronic lymphotic leukemia .a 2073 to 2518 446 to 1       446/446
(100 %)
1 diff
(99.8 %id)
AI681309 carcinoid, lung .a 2073 to 2520 448 to 1       448/448
(100 %)
3 diff
(99.4 %id)
CK570305 rectum .a 2079 to 2359 281 to 1       281/281
(100 %)
0 diff
(100 %id)
CK570306 rectum .a 2079 to 2359 1 to 281       281/281
(100 %)
0 diff
(100 %id)
CK570361 rectum .a 2079 to 2359 1 to 281       281/281
(100 %)
0 diff
(100 %id)
BP291852 lung .a 2087 to 2674 1 to 587       587/587
(100 %)
6 diff
(99.0 %id)
CK570308 rectum .a 2091 to 2359 1 to 269       269/269
(100 %)
5 diff
(98.2 %id)
BP333608 salivary gland .a 2095 to 2625 1 to 537       537/563
(95 %)
9 diff
(98.5 %id)
AA331097 embryo .a 2096 to 2469 1 to 377       377/377
(100 %)
4 diff
(99.0 %id)
AW087477 pooled .a 2099 to 2515 420 to 5       416/420
(99 %)
0 diff
(100 %id)
BF093386 testis_normal .a 2123 to 2480 381 to 19       363/381
(95 %)
0 diff
(100 %id)
AA912521 pooled .a 2145 to 2522 378 to 1       378/378
(100 %)
0 diff
(100 %id)
W24710 lung .a 2148 to 2322 1 to 175       175/175
(100 %)
0 diff
(100 %id)
AA778589   .a 2149 to 2524 376 to 1       376/376
(100 %)
0 diff
(100 %id)
CB410868 cochlea, ear .a 2161 to 2341 183 to 1       183/183
(100 %)
4 diff
(97.9 %id)
AI453423 poorly differentiated adenocarcinoma withsignet ring cell features, stomach .a 2170 to 2519 350 to 1       350/350
(100 %)
0 diff
(100 %id)
AW994011 breast_normal .a 2188 to 2810 623 to 1     Submitted on the opposite strand 623/650
(95 %)
24 diff
(96.4 %id)
H90100 liver and spleen .a 2192 to 2559 1 to 370       370/371
(99 %)
4 diff
(99.0 %id)
CB410809 cochlea, ear .a 2206 to 2361 156 to 1       156/156
(100 %)
1 diff
(99.4 %id)
AW075227 anaplastic oligodendroglioma, brain .a 2210 to 2519 311 to 1       311/311
(100 %)
1 diff
(99.7 %id)
AA420856   .a 2212 to 2655 38 to 481       444/481
(92 %)
6 diff
(98.8 %id)
AA469143   .a 2212 to 2526 7 to 321       315/321
(98 %)
6 diff
(98.2 %id)
BM698241 eye, fetal eyes .a 2217 to 2680 1 to 464     Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 464/464
(100 %)
0 diff
(100 %id)
BE813569 breast_normal .a 2226 to 2757 528 to 6       523/528
(99 %)
0 diff
(100 %id)
EL953689 eyeball .a 2237 to 2882 8 to 653       646/653
(98 %)
6 diff
(99.1 %id)
BQ639023 eye, retina .a 2246 to 2406 1 to 161       161/161
(100 %)
5 diff
(96.9 %id)
AA420456   .a 2258 to 2731 474 to 1       474/474
(100 %)
1 diff
(99.8 %id)
AW994272 breast_normal .a 2277 to 2809 537 to 3     Submitted on the opposite strand 535/562
(95 %)
0 diff
(100 %id)
DB556227 hypothalamus .a 2288 to 2519 1 to 236     Submitted on the opposite strand 236/236
(100 %)
18 diff
(92.4 %id)
AI985948 uterus, well-differentiated endometrialadenocarcinoma, 7 pooled tumors .a 2305 to 2640 338 to 1       338/338
(100 %)
10 diff
(97.1 %id)
BI862791 breast, mammary adenocarcinoma, cell line .a 2306 to 2842 33 to 567       535/567
(94 %)
6 diff
(99.0 %id)
TI_57193536   .a 2306 to 2842 33 to 567       535/567
(94 %)
6 diff
(99.0 %id)
AA400739 mixed (see below), Pooled human melanocyte, fetal heart, andpregnant uterus .a 2362 to 2655 1 to 294       294/294
(100 %)
0 diff
(100 %id)
BG674257 skin .a 2397 to 3244 1 to 846       846/848
(99 %)
44 diff
(94.9 %id)
AA469215   .a 2410 to 2730 321 to 1       321/321
(100 %)
1 diff
(99.7 %id)
BF344175 brain, glioblastoma with EGFR amplification .a 2471 to 3158 1 to 684       684/686
(99 %)
36 diff
(94.8 %id)
BM967218 Islets of Langerhans, Pancreas .a 2472 to 2535 1 to 63       63/64
(98 %)
2 diff
(96.9 %id)
CA848991 Pancreas, Purified pancreatic islet .a 2491 to 2921 1 to 431   fully sequenced,   431/431
(100 %)
3 diff
(99.4 %id)
CB410762 cochlea, ear .a 2498 to 2887 1 to 390       390/390
(100 %)
1 diff
(99.8 %id)
BE925834 breast_normal .a 2502 to 3052 1 to 551       551/574
(95 %)
17 diff
(97.1 %id)
W95308 heart .a 2504 to 2892 1 to 389   fully sequenced,   389/389
(100 %)
0 diff
(100 %id)
BG779654 adenocarcinoma, Prostate .a 2508 to 3109 1 to 606       606/703
(86 %)
28 diff
(96.1 %id)
BU076661 Pancreas, Purified pancreatic islet .a 2508 to 2932 1 to 425   fully sequenced,   425/425
(100 %)
0 diff
(100 %id)
BE348559 carcinoid, lung .a 2517 to 3063 547 to 1   tiling clone,   547/547
(100 %)
0 diff
(100 %id)
BG697095 skin .a 2521 to 3148 1 to 625       625/759
(82 %)
15 diff
(98.1 %id)
EB386560 eye, optic nerve .a 2528 to 3126 1 to 598       598/598
(100 %)
2 diff
(99.7 %id)
CN415618 embryonic stem cells, embryoid bodiesderived from H1, H7 and H9 cells .a 2529 to 3109 1 to 580       580/580
(100 %)
3 diff
(99.5 %id)
BG925959 cartilage .a 2551 to 3037 80 to 567       488/498
(97 %)
6 diff
(98.8 %id)
CB135061 Liver .a 2563 to 3151 1 to 586       586/586
(100 %)
3 diff
(99.5 %id)
BG679298 skin, squamous cell carcinoma .a 2579 to 3292 1 to 721       721/854
(84 %)
35 diff
(96.0 %id)
BF057010 pooled germ cell tumors .a 2595 to 3055 472 to 12   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 461/461
(100 %)
5 diff
(99.0 %id)
BQ188748 eye, fetal eyes, lens, eye anterior segment,optic nerve, retina, Retina Foveal and Macular, RPE andChoroid .a 2602 to 3201 1 to 599       599/599
(100 %)
1 diff
(99.9 %id)
TI_151733093   .a 2602 to 3209 664 to 58       607/1033
(58 %)
0 diff
(100 %id)
H90010 liver and spleen .a 2607 to 3006 403 to 1       403/404
(99 %)
9 diff
(97.8 %id)
BF061770 pooled germ cell tumors .a 2609 to 3060 453 to 1       453/453
(100 %)
1 diff
(99.8 %id)
AA322324 brain, cerebellum .a 2618 to 2893 1 to 277       277/288
(96 %)
5 diff
(98.3 %id)
AW003292 pooled germ cell tumors .a 2644 to 3060 417 to 1       417/417
(100 %)
17 diff
(96.0 %id)
AA400464 mixed (see below), Pooled human melanocyte, fetal heart, andpregnant uterus .a 2667 to 3055 389 to 1       389/389
(100 %)
0 diff
(100 %id)
BU690043 Human Lung Epithelial cells, lung .a 2693 to 3354 679 to 19   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 661/661
(100 %)
1 diff
(99.9 %id)
BC018276 Brain, glioblastoma with EGFR amplification .a 2703 to 3929 1 to 1226   tiling clone, available from MGC, AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 1226/1226
(100 %)
4 diff
(99.7 %id)
BF341434 brain, glioblastoma with EGFR amplification .a 2703 to 3288 1 to 588   available from MGC,   588/934
(62 %)
52 diff
(94.5 %id)
BU690050 Human Lung Epithelial cells, lung .a 2705 to 3354 667 to 19   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 649/649
(100 %)
1 diff
(99.9 %id)
BG575146 breast, mammary adenocarcinoma, cell line .a 2708 to 3382 1 to 677       677/680
(99 %)
44 diff
(93.6 %id)
CB128643 Liver .a 2749 to 3287 1 to 536       536/536
(100 %)
3 diff
(99.5 %id)
EB385958 eye, optic nerve .a 2759 to 3559 1 to 801       801/801
(100 %)
3 diff
(99.7 %id)
BM692209 eye, human retina .a 2763 to 3038 9 to 284     Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 276/284
(97 %)
6 diff
(97.9 %id)
BM664029 eye, Retina Foveal and Macular .a 2794 to 3069 285 to 10       276/293
(94 %)
0 diff
(100 %id)
AW020030 cochlea, ear .a 2841 to 3332 1 to 490       490/490
(100 %)
6 diff
(98.8 %id)
W07405 lung .a 2843 to 3169 1 to 332       332/332
(100 %)
6 diff
(98.2 %id)
BX118151 lung .a 2844 to 3420 1 to 578       578/578
(100 %)
1 diff
(99.9 %id)
BE868139 adenocarcinoma, colon .a 2853 to 3086 1 to 234       234/360
(65 %)
6 diff
(98.4 %id)
W94793 heart .a 2862 to 3065 203 to 1   fully sequenced,   203/203
(100 %)
1 diff
(99.6 %id)
CA844308 Pancreas, Purified pancreatic islet .a 2891 to 3273 382 to 1   fully sequenced,   382/382
(100 %)
1 diff
(99.8 %id)
AI467955 pooled .a 2893 to 3359 467 to 1       467/467
(100 %)
1 diff
(99.8 %id)
BU076377 Pancreas, Purified pancreatic islet .a 2902 to 3273 371 to 1   fully sequenced,   371/371
(100 %)
1 diff
(99.8 %id)
BM667527 eye, fetal eyes .a 2908 to 3359 471 to 19   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 453/453
(100 %)
1 diff
(99.8 %id)
AI380934 B-cell, chronic lymphotic leukemia .a 2921 to 3240 318 to 1       318/318
(100 %)
1 diff
(99.7 %id)
BQ645535 hepatocellular carcinoma, cell line, Liver .a 2959 to 3837 1 to 878       878/879
(99 %)
17 diff
(98.1 %id)
AA385905 thyroid gland .a 2960 to 3233 1 to 272       272/272
(100 %)
4 diff
(98.6 %id)
BE004865 breast_normal .a 3024 to 3421 442 to 38     Submitted on the opposite strand 405/442
(91 %)
0 diff
(100 %id)
BF439017 pooled .a 3026 to 3360 340 to 6       335/340
(98 %)
0 diff
(100 %id)
DA115676 cerebellum .a 3079 to 3639 2 to 562   capped   561/561
(100 %)
1 diff
(99.9 %id)
AI076205 liver and spleen .a 3089 to 3557 1 to 469     Submitted on the opposite strand 469/469
(100 %)
3 diff
(99.4 %id)
AA975310 carcinoid, lung .a 3097 to 3446 1 to 350     Submitted on the opposite strand 350/350
(100 %)
0 diff
(100 %id)
BM703633 eye, human retina .a 3141 to 3581 1 to 441   fully sequenced, Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 441/441
(100 %)
1 diff
(99.8 %id)
BG927241 cartilage .a 3144 to 3726 87 to 670       584/601
(97 %)
6 diff
(99.1 %id)
TI_154101621   .a 3162 to 3929 857 to 97   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 761/764
(99 %)
14 diff
(98.2 %id)
CA311105 Human Lung Epithelial cells, lung .a 3174 to 3821 1 to 648     Submitted on the opposite strand 648/648
(100 %)
4 diff
(99.4 %id)
BE089397 breast .a 3175 to 3367 1 to 193       193/193
(100 %)
9 diff
(95.4 %id)
AI498936 anaplastic oligodendroglioma, brain .a 3191 to 3625 1 to 435     Submitted on the opposite strand 435/435
(100 %)
3 diff
(99.4 %id)
BM698976 eye, fetal eyes .a 3201 to 3554 1 to 354   fully sequenced, Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 354/354
(100 %)
0 diff
(100 %id)
BQ774016 Bone, Human Chondrosarcoma Cell Line .a 3205 to 3929 742 to 19   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 724/726
(99 %)
1 diff
(99.9 %id)
TI_149315578   .a 3211 to 3929 799 to 81   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 719/954
(75 %)
4 diff
(99.6 %id)
TI_149290024   .a 3234 to 3929 780 to 86   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 695/696
(99 %)
6 diff
(99.2 %id)
BG027051 Bone, osteosarcoma, cell line .a 3239 to 3885 1 to 638       638/697
(91 %)
15 diff
(97.9 %id)
BE815044 breast_normal .a 3268 to 3491 265 to 36       230/265
(86 %)
0 diff
(100 %id)
TI_149290036   .a 3289 to 3929 719 to 80   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 640/693
(92 %)
47 diff
(93.3 %id)
BQ182292 Knee, Osteoarthritic Cartilage .a 3300 to 3929 648 to 19   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 630/630
(100 %)
0 diff
(100 %id)
BM973158 lung .a 3300 to 3929 647 to 19   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 629/629
(100 %)
2 diff
(99.7 %id)
BM689903 eye, Retina Foveal and Macular .a 3300 to 3689 3 to 392   fully sequenced, Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 390/392
(99 %)
6 diff
(98.5 %id)
BQ045441 lung, Primary Lung Cystic Fibrosis EpithelialCells .a 3302 to 3929 646 to 19   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 628/628
(100 %)
0 diff
(100 %id)
CA442842 Fibrosarcoma .a 3302 to 3929 645 to 19   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 627/627
(100 %)
2 diff
(99.7 %id)
BG924994 cartilage .a 3314 to 3929 86 to 700   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 615/632
(97 %)
6 diff
(99.1 %id)
AI670844 Kidney .a 3329 to 3929 600 to 1       600/600
(100 %)
5 diff
(99.2 %id)
AI700913 Kidney .a 3331 to 3512 1 to 182     Submitted on the opposite strand 182/182
(100 %)
2 diff
(99.0 %id)
BE927533 colon .a 3336 to 3664 1 to 330       330/338
(97 %)
6 diff
(98.3 %id)
Z33575   .a 3344 to 3688 1 to 345       345/345
(100 %)
1 diff
(99.8 %id)
AA778708   .a 3345 to 3932 588 to 1   tiling clone,   588/588
(100 %)
0 diff
(100 %id)
AA628091 normal prostate, Prostate .a 3380 to 3929 550 to 1       550/550
(100 %)
0 diff
(100 %id)
BU728753 eye, human retina .a 3440 to 3929 508 to 20   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 489/490
(99 %)
0 diff
(100 %id)
BU737407 eye, fetal eyes .a 3524 to 3929 424 to 19   fully sequenced, AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 406/406
(100 %)
3 diff
(99.3 %id)
N80276 lung .a 3529 to 3929 402 to 1       402/402
(100 %)
1 diff
(99.8 %id)
BU730082 eye, human retina .a 3551 to 3929 396 to 19   fully sequenced, AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 378/378
(100 %)
1 diff
(99.8 %id)
N92393 lung .a 3657 to 3929 273 to 1       273/273
(100 %)
0 diff
(100 %id)
BM661973 eye, Retina Foveal and Macular .a 3659 to 3930 288 to 19   fully sequenced, AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 270/270
(100 %)
7 diff
(97.5 %id)
DB093822 testis .b-u 1 to 535 2 to 535 exact tiling clone, capped, AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 534/534
(100 %)
4 diff
(99.3 %id)
AI676052 Prostate .b-u 5 to 536 530 to 1 A8T     530/530
(100 %)
3 diff
(99.5 %id)
AW080366 poorly-differentiated endometrialadenocarcinoma, 2 pooled tumors, uterus .b-u 8 to 535 528 to 1 exact     528/528
(100 %)
0 diff
(100 %id)
AI970798 normal prostate, Prostate .b-u 9 to 535 525 to 1 A8T     525/525
(100 %)
3 diff
(99.5 %id)
AI744134 Prostate .b-u 11 to 540 532 to 4 A8T     529/532
(99 %)
0 diff
(100 %id)
AW374875 colon .b-u 14 to 287 274 to 1 exact     274/274
(100 %)
3 diff
(99.0 %id)
AW130000 uterus, well-differentiated endometrialadenocarcinoma, 7 pooled tumors .b-u 16 to 540 526 to 1 exact     526/526
(100 %)
1 diff
(99.9 %id)
BF805153 colon_ins .b-u 20 to 156 1 to 138 R19*     138/138
(100 %)
5 diff
(96.4 %id)
AW303312 pooled .b-u 20 to 540 522 to 2 exact     521/522
(99 %)
0 diff
(100 %id)
BF805203 colon_ins .b-u 22 to 433 412 to 1 exact   Submitted on the opposite strand 412/412
(100 %)
0 diff
(100 %id)
T24741   .b-u 54 to 206 1 to 153 exact     153/153
(100 %)
0 diff
(100 %id)
AI379929 mixed (see below), Pooled human melanocyte, fetal heart, andpregnant uterus .b-u 62 to 538 476 to 1 P4H Y5I F6S S7L A8H ...     476/476
(100 %)
1 diff
(99.8 %id)
AW005638 anaplastic oligodendroglioma, brain .b-u 62 to 536 477 to 1 exact     477/477
(100 %)
3 diff
(99.4 %id)
BG056521 brain, glioblastoma with probably TP53 mutation andwithout EGFR amplification .b-u 62 to 536 475 to 1 exact     475/475
(100 %)
0 diff
(100 %id)
DB565156 hypothalamus .b-u 77 to 533 1 to 458     Submitted on the opposite strand 458/460
(99 %)
11 diff
(97.7 %id)
CB117833 Liver .b-u 80 to 459 1 to 380       380/380
(100 %)
2 diff
(99.5 %id)
AW183687 pooled .b-u 99 to 538 440 to 1       440/440
(100 %)
0 diff
(100 %id)
AW276611 lung, two pooled squamous cell carcinomas .b-u 107 to 532 440 to 16   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 425/425
(100 %)
4 diff
(99.1 %id)
AW151188 uterus, well-differentiated endometrialadenocarcinoma, 7 pooled tumors .b-u 109 to 535 458 to 32   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 427/427
(100 %)
0 diff
(100 %id)
AA535677 colon .b-u 113 to 535 423 to 1       423/423
(100 %)
0 diff
(100 %id)
AW072243 pooled .b-u 120 to 540 424 to 2       423/424
(99 %)
0 diff
(100 %id)
AI364948 Kidney .b-u 126 to 540 417 to 3   tiling clone,   415/417
(99 %)
0 diff
(100 %id)
BF931023 nervous_tumor .b-u 131 to 435 322 to 18     Submitted on the opposite strand 305/322
(94 %)
0 diff
(100 %id)
BM800066 leiomyosarcoma, uterus .b-u 135 to 535 1 to 398   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 398/398
(100 %)
2 diff
(99.5 %id)
AI538944 poorly-differentiated endometrialadenocarcinoma, 2 pooled tumors, uterus .b-u 148 to 535 416 to 29   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 388/388
(100 %)
0 diff
(100 %id)
BE645760 Prostate .b-u 148 to 536 388 to 1       388/388
(100 %)
10 diff
(97.5 %id)
AW235096 Kidney .b-u 168 to 506 389 to 56   AAA   334/366
(91 %)
23 diff
(93.8 %id)
AW193094 adenocarcinoma, Pancreas .b-u 174 to 535 387 to 27   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 361/361
(100 %)
5 diff
(98.7 %id)
AI281304 adenocarcinoma, colon .b-u 176 to 540 368 to 5       364/368
(98 %)
0 diff
(100 %id)
AI810275 Prostate .b-u 176 to 535 357 to 1       357/357
(100 %)
4 diff
(98.9 %id)
AI270170 colon, moderately-differentiated adenocarcinoma .b-u 184 to 535 375 to 27   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 349/349
(100 %)
10 diff
(97.2 %id)
AV709786 adrenal gland .b-u 194 to 535 1 to 344   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 344/344
(100 %)
1 diff
(99.8 %id)
AV725548 hypothalamus .b-u 194 to 535 1 to 344   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 344/344
(100 %)
1 diff
(99.8 %id)
AA884334 pooled .b-u 194 to 540 349 to 3       347/349
(99 %)
0 diff
(100 %id)
AI572187 mixed (see below), Pooled human melanocyte, fetal heart, andpregnant uterus .b-u 204 to 535 355 to 24   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 332/332
(100 %)
0 diff
(100 %id)
AI968800 pooled germ cell tumors .b-u 204 to 514 316 to 5       312/316
(98 %)
0 diff
(100 %id)
AI934198 uterus, well-differentiated endometrialadenocarcinoma, 7 pooled tumors .b-u 209 to 536 328 to 1       328/328
(100 %)
2 diff
(99.4 %id)
AI014655   .b-u 211 to 540 332 to 3       330/338
(97 %)
0 diff
(100 %id)
AW629195 pooled .b-u 211 to 535 338 to 15   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 324/324
(100 %)
1 diff
(99.7 %id)
AA983635 adenocarcinoma, colon .b-u 217 to 536 320 to 1       320/320
(100 %)
0 diff
(100 %id)
AA375477 lung .b-u 226 to 480 1 to 255       255/265
(96 %)
1 diff
(99.7 %id)
AW951463   .b-u 233 to 535 1 to 304   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 304/304
(100 %)
1 diff
(99.7 %id)
AA770266   .b-u 234 to 534 300 to 1       300/300
(100 %)
1 diff
(99.7 %id)
H89609 cochlea, ear .b-u 241 to 535 1 to 294   fully sequenced, AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 294/294
(100 %)
2 diff
(99.4 %id)
H88219 cochlea, ear .b-u 245 to 535 1 to 295   fully sequenced,   295/295
(100 %)
8 diff
(97.3 %id)
AA622877 breast .b-u 250 to 535 285 to 1       285/285
(100 %)
4 diff
(98.6 %id)
BQ083253 stomach .b-u 269 to 535 1 to 266   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 266/266
(100 %)
2 diff
(99.3 %id)
AW293597   .b-u 320 to 535 234 to 18   AAA Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 217/217
(100 %)
1 diff
(99.6 %id)
CB321886 Human Lung Epithelial cells, lung .b-u 370 to 535 9 to 173   AAA Submitted on the opposite strand 165/173
(95 %)
6 diff
(96.6 %id)
CB242611 Human Lung Epithelial cells, lung .b-u 370 to 544 9 to 182   AAA Submitted on the opposite strand 174/201
(86 %)
5 diff
(97.6 %id)
H88220 cochlea, ear .b-u 375 to 532 159 to 1   fully sequenced,   159/159
(100 %)
1 diff
(99.4 %id)
H89373 cochlea, ear .b-u 376 to 514 139 to 1   fully sequenced, Possibly primed on the genome, locally A rich (13/14 A in genome downstream of last aligned base) 139/139
(100 %)
1 diff
(99.3 %id)
DB539572 hippocampus .b-u 399 to 540 1 to 142     Submitted on the opposite strand 142/144
(98 %)
4 diff
(97.3 %id)
AK295455 hippocampus Gene SOX9, variant not shown         Suspected internal deletion, this clone was ignored    
AV681764 hepatocellular carcinoma Gene SOX9, variant not shown         Suspected internal deletion, this clone was ignored    
AV660830 corresponding non cancerous liver tissue Gene SOX9, variant not shown         Submitted on the opposite strand, submitted on the opposite strand    
W46414 senescent fibroblast Gene SOX9, variant not shown              
? Gene Summary Gene on genome mRNA:.a, .b-u Alternative mRNAs features, proteins, introns, exons, sequences Expression Tissue Function, regulation, related genes DCI