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ONTOLOGY REPORT - ANNOTATIONS


Term:neural tube patterning
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Accession:GO:0021532 term browser browse the term
Definition:The regionalization process that regulates the coordinated growth that establishes the non-random spatial arrangement of the neural tube.


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neural tube patterning term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Arl13b ADP-ribosylation factor like GTPase 13B ISO (MGI:MGI:5444047|PMID:23014696) RGD PMID:23014696 MGI:MGI:5444047 NCBI chr 7:1,122,567...1,188,209
Ensembl chr 7:1,122,567...1,188,209
JBrowse link
G Dzip1l DAZ interacting zinc finger protein 1-like ISO MGI:MGI:2442827 (MGI:MGI:6149643|PMID:29487109) RGD PMID:29487109 MGI:MGI:6149643 NCBI chr 8:107,875,659...107,916,298
Ensembl chr 8:107,875,991...107,916,294
JBrowse link
G Ift140 intraflagellar transport 140 ISO MGI:MGI:4458412 (MGI:MGI:5635784|PMID:24009529) RGD PMID:24009529 MGI:MGI:5635784 NCBI chr10:14,373,668...14,461,509
Ensembl chr10:14,373,679...14,461,160
JBrowse link
G Ptch1 patched 1 ISO (PMID:8681379) RGD PMID:8681379 NCBI chr17:1,032,242...1,085,885
Ensembl chr17:1,029,048...1,093,873
JBrowse link
G Rpgrip1l Rpgrip1-like ISO MGI:MGI:3716208 (MGI:MGI:3715393|PMID:17553904) RGD PMID:17553904 MGI:MGI:3715393 NCBI chr19:17,115,266...17,208,055
Ensembl chr19:17,115,412...17,208,055
JBrowse link
G Tbc1d32 TBC1 domain family, member 32 ISO MGI:MGI:1919757 (MGI:MGI:6149643|PMID:29487109) RGD PMID:29487109 MGI:MGI:6149643 NCBI chr20:37,463,879...37,701,268
Ensembl chr20:37,465,278...37,700,937
JBrowse link
G Tmem107 transmembrane protein 107 ISO (MGI:MGI:5432629|PMID:22698544) RGD PMID:22698544 MGI:MGI:5432629 NCBI chr10:55,653,694...55,656,270
Ensembl chr10:55,653,946...55,656,270
JBrowse link
G Traf3ip1 TRAF3 interacting protein 1 ISO MGI:MGI:4129326 (MGI:MGI:5298450|PMID:21945076) RGD PMID:21945076 MGI:MGI:5298450 NCBI chr 9:98,621,499...98,658,223
Ensembl chr 9:98,621,506...98,656,901
JBrowse link
dorsal/ventral neural tube patterning term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Bmp4 bone morphogenetic protein 4 ISO
IEA
(MGI:MGI:3046395|PMID:15218525)
GO_REF:0000107
RGD
Ensembl
PMID:15218525 GO_REF:0000107, MGI:MGI:3046395 NCBI chr15:20,776,060...20,791,013
Ensembl chr15:20,776,054...20,822,740
JBrowse link
G Fkbp8 FKBP prolyl isomerase 8 ISO MGI:MGI:107689|MGI:MGI:3042750|MGI:MGI:3775614|MGI:MGI:95728 (MGI:MGI:3774974|PMID:18003640), (MGI:MGI:3806189|PMID:18590716) RGD PMID:18003640, PMID:18590716 MGI:MGI:3774974, MGI:MGI:3806189 NCBI chr16:20,645,956...20,652,890
Ensembl chr16:20,645,957...20,652,889
JBrowse link
G Foxa1 forkhead box A1 ISO
IEA
MGI:MGI:1347476 (MGI:MGI:5486225|PMID:23383217)
GO_REF:0000107
RGD
Ensembl
PMID:23383217 GO_REF:0000107, MGI:MGI:5486225 NCBI chr 6:78,516,579...78,549,669
Ensembl chr 6:78,545,804...78,549,669
JBrowse link
G Foxa2 forkhead box A2 ISO MGI:MGI:1347472|MGI:MGI:95841 (MGI:MGI:3806189|PMID:18590716), (MGI:MGI:5486225|PMID:23383217), (MGI:MGI:894511|PMID:9226455) RGD PMID:9226455, PMID:18590716, PMID:23383217 MGI:MGI:3806189, MGI:MGI:5486225, MGI:MGI:894511 NCBI chr 3:142,383,084...142,387,493
Ensembl chr 3:142,383,278...142,387,481
JBrowse link
G Gas1 growth arrest-specific 1 ISO MGI:MGI:3711070|MGI:MGI:98297 (MGI:MGI:3710451|PMID:17504941), (MGI:MGI:3710452|PMID:17504940) RGD PMID:17504940, PMID:17504941 MGI:MGI:3710451, MGI:MGI:3710452 NCBI chr17:4,846,116...4,849,350
Ensembl chr17:4,846,789...4,847,940
JBrowse link
G Gli2 GLI family zinc finger 2 ISO MGI:MGI:1857509 (MGI:MGI:3806189|PMID:18590716), (MGI:MGI:3841503|PMID:19286674), (MGI:MGI:894564|PMID:9247260) RGD PMID:9247260, PMID:18590716, PMID:19286674 MGI:MGI:3806189, MGI:MGI:3841503, MGI:MGI:894564 NCBI chr13:34,829,021...35,049,172
Ensembl chr13:34,829,139...35,048,444
JBrowse link
G Gsc goosecoid homeobox ISO MGI:MGI:1347476 (MGI:MGI:894511|PMID:9226455) RGD PMID:9226455 MGI:MGI:894511 NCBI chr 6:128,147,181...128,149,220
Ensembl chr 6:128,147,181...128,149,220
JBrowse link
G Kif3a kinesin family member 3a ISO MGI:MGI:1341070|MGI:MGI:1861960|MGI:MGI:95728 (MGI:MGI:3806189|PMID:18590716), (MGI:MGI:3841503|PMID:19286674), (MGI:MGI:4888042|PMID:21209331) RGD PMID:18590716, PMID:19286674, PMID:21209331 MGI:MGI:3806189, MGI:MGI:3841503, MGI:MGI:4888042 NCBI chr10:38,918,705...38,953,958
Ensembl chr10:38,918,748...38,952,785
JBrowse link
G Mnx1 motor neuron and pancreas homeobox 1 ISO (MGI:MGI:3806189|PMID:18590716) RGD PMID:18590716 MGI:MGI:3806189 NCBI chr 4:2,376,350...2,381,308
Ensembl chr 4:2,376,958...2,381,271
JBrowse link
G Pax7 paired box 7 ISO (MGI:MGI:3806189|PMID:18590716) RGD PMID:18590716 MGI:MGI:3806189 NCBI chr 5:158,211,001...158,313,510
Ensembl chr 5:158,214,616...158,313,426
JBrowse link
G Psen1 presenilin 1 ISO MGI:MGI:109284 (MGI:MGI:1347695|PMID:10557208) RGD PMID:10557208 MGI:MGI:1347695 NCBI chr 6:107,169,514...107,221,000
Ensembl chr 6:107,169,528...107,216,798
JBrowse link
G Psen2 presenilin 2 ISO MGI:MGI:1202717 (MGI:MGI:1347695|PMID:10557208) RGD PMID:10557208 MGI:MGI:1347695 NCBI chr13:98,513,600...98,539,347
Ensembl chr13:98,513,570...98,530,724
JBrowse link
G Ptch1 patched 1 ISO MGI:MGI:1857447 (MGI:MGI:1095757|PMID:9262482) RGD PMID:9262482 MGI:MGI:1095757 NCBI chr17:1,032,242...1,085,885
Ensembl chr17:1,029,048...1,093,873
JBrowse link
G Rab23 RAB23, member RAS oncogene family ISO (MGI:MGI:69552|PMID:7720556) RGD PMID:7720556 MGI:MGI:69552 NCBI chr 9:38,469,784...38,496,185
Ensembl chr 9:38,470,298...38,495,176
JBrowse link
G Shh sonic hedgehog signaling molecule IEA
ISO
GO_REF:0000107
MGI:MGI:95655 (MGI:MGI:3710017|PMID:17442700), (MGI:MGI:3710451|PMID:17504941), (MGI:MGI:3806189|PMID:18590716), (MGI:MGI:4888042|PMID:21209331)
Ensembl
RGD
PMID:17442700, PMID:17504941, PMID:18590716, PMID:21209331 GO_REF:0000107, MGI:MGI:3710017, MGI:MGI:3710451, MGI:MGI:3806189, MGI:MGI:4888042 NCBI chr 4:718,538...727,691
Ensembl chr 4:718,538...727,691
JBrowse link
G Smo smoothened, frizzled class receptor ISO
IEA
MGI:MGI:2176255 (MGI:MGI:3806189|PMID:18590716)
GO_REF:0000107
RGD
Ensembl
PMID:18590716 GO_REF:0000107, MGI:MGI:3806189 NCBI chr 4:57,019,941...57,041,779
Ensembl chr 4:57,019,941...57,042,770
JBrowse link
G Tctn1 tectonic family member 1 ISO MGI:MGI:3716885 (MGI:MGI:3610767|PMID:16357211) RGD PMID:16357211 MGI:MGI:3610767 NCBI chr12:39,790,948...39,828,215
Ensembl chr12:39,790,965...39,824,064
JBrowse link
G Tulp3 TUB like protein 3 ISO MGI:MGI:2388066 (MGI:MGI:3841503|PMID:19286674) RGD PMID:19286674 MGI:MGI:3841503 NCBI chr 4:161,636,084...161,677,807
Ensembl chr 4:161,637,892...161,658,519
JBrowse link
G Wnt3a Wnt family member 3A ISO MGI:MGI:1857489 (MGI:MGI:64780|PMID:8299937) RGD PMID:8299937 MGI:MGI:64780 NCBI chr10:45,598,898...45,643,151
Ensembl chr10:45,598,912...45,638,035
JBrowse link
forebrain-midbrain boundary formation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Pax6 paired box 6 ISO
IEA
MGI:MGI:1856155|MGI:MGI:1856158 (MGI:MGI:892757|PMID:9169845)
GO_REF:0000107
RGD
Ensembl
PMID:9169845 GO_REF:0000107, MGI:MGI:892757 NCBI chr 3:95,700,241...95,728,682
Ensembl chr 3:95,707,386...95,728,624
JBrowse link
midbrain-hindbrain boundary development term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G En1 engrailed homeobox 1 ISO
IEA
MGI:MGI:1857163 (MGI:MGI:3525936|PMID:15607945)
GO_REF:0000107
RGD
Ensembl
PMID:15607945 GO_REF:0000107, MGI:MGI:3525936 NCBI chr13:36,532,758...36,537,888
Ensembl chr13:36,532,758...36,537,093
JBrowse link
G Fgf8 fibroblast growth factor 8 ISO MGI:MGI:2150347 (MGI:MGI:3720541|PMID:17601531) RGD PMID:17601531 MGI:MGI:3720541 NCBI chr 1:265,492,949...265,498,965
Ensembl chr 1:265,493,124...265,498,831
JBrowse link
G Gbx2 gastrulation brain homeobox 2 ISO MGI:MGI:1857634 (MGI:MGI:3624192|PMID:16651541) RGD PMID:16651541 MGI:MGI:3624192 NCBI chr 9:97,063,265...97,065,855
Ensembl chr 9:97,063,728...97,065,817
JBrowse link
G Lrp6 LDL receptor related protein 6 ISO
IBA
MGI:MGI:2156191 (MGI:MGI:1891551|PMID:11029008), (MGI:MGI:4413372|PMID:19795512)
PMID:21873635
RGD PMID:11029008, PMID:19795512, PMID:21873635 MGI:MGI:1891551, MGI:MGI:4413372, RGD:13792537 NCBI chr 4:168,194,054...168,323,962
Ensembl chr 4:168,194,927...168,323,751
JBrowse link
G Wnt1 Wnt family member 1 ISO MGI:MGI:1857490 (MGI:MGI:59176|PMID:2205396) RGD PMID:2205396 MGI:MGI:59176 NCBI chr 7:140,464,999...140,469,046
Ensembl chr 7:140,464,999...140,469,046
JBrowse link
midbrain-hindbrain boundary initiation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ssbp3 single stranded DNA binding protein 3 IEA
ISO
GO_REF:0000107
(MGI:MGI:3578570|PMID:15857913)
Ensembl
RGD
PMID:15857913 GO_REF:0000107, MGI:MGI:3578570 NCBI chr 5:126,511,339...126,649,830
Ensembl chr 5:126,511,350...126,648,661
JBrowse link
midbrain-hindbrain boundary maturation during brain development term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Wnt1 Wnt family member 1 ISO MGI:MGI:1856382 (MGI:MGI:76584|PMID:8555108) RGD PMID:8555108 MGI:MGI:76584 NCBI chr 7:140,464,999...140,469,046
Ensembl chr 7:140,464,999...140,469,046
JBrowse link
midbrain-hindbrain boundary morphogenesis term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Gbx2 gastrulation brain homeobox 2 ISO MGI:MGI:1857634 (MGI:MGI:3624192|PMID:16651541) RGD PMID:16651541 MGI:MGI:3624192 NCBI chr 9:97,063,265...97,065,855
Ensembl chr 9:97,063,728...97,065,817
JBrowse link
G Hes1 hes family bHLH transcription factor 1 ISO
IEA
MGI:MGI:104877 (MGI:MGI:2149154|PMID:11500373)
GO_REF:0000107
RGD
Ensembl
PMID:11500373 GO_REF:0000107, MGI:MGI:2149154 NCBI chr11:74,312,837...74,315,249
Ensembl chr11:74,312,806...74,315,248
JBrowse link
G Hes3 hes family bHLH transcription factor 3 ISO MGI:MGI:104853 (MGI:MGI:2149134|PMID:11522634) RGD PMID:11522634 MGI:MGI:2149134 NCBI chr 5:169,463,196...169,469,795
Ensembl chr 5:169,464,989...169,467,153
JBrowse link
G Kdm2b lysine demethylase 2B ISO (MGI:MGI:4949568|PMID:21220025) RGD PMID:21220025 MGI:MGI:4949568 NCBI chr12:39,021,924...39,161,954
Ensembl chr12:39,078,119...39,161,956
JBrowse link
negative regulation of smoothened signaling pathway involved in dorsal/ventral neural tube patterning term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cdk20 cyclin-dependent kinase 20 ISO
IEA
MGI:MGI:108075|MGI:MGI:99833 (MGI:MGI:5912686|PMID:28817564)
GO_REF:0000107
RGD
Ensembl
PMID:28817564 GO_REF:0000107, MGI:MGI:5912686 NCBI chr17:1,935,900...1,942,867
Ensembl chr17:1,936,163...1,942,865
JBrowse link
G Gpr161 G protein-coupled receptor 161 ISO (MGI:MGI:5468365|PMID:23332756) RGD PMID:23332756 MGI:MGI:5468365 NCBI chr13:83,530,389...83,576,117
Ensembl chr13:83,531,018...83,571,505
JBrowse link
G Prkaca protein kinase cAMP-activated catalytic subunit alpha ISO
IEA
MGI:MGI:97760 (MGI:MGI:5308523|PMID:22007132)
GO_REF:0000107
RGD
Ensembl
PMID:22007132 GO_REF:0000107, MGI:MGI:5308523 NCBI chr19:25,095,089...25,118,869
Ensembl chr19:25,095,089...25,118,860
JBrowse link
G Prkacb protein kinase cAMP-activated catalytic subunit beta ISO MGI:MGI:97592 (MGI:MGI:5308523|PMID:22007132) RGD PMID:22007132 MGI:MGI:5308523 NCBI chr 2:252,602,197...252,691,886
Ensembl chr 2:252,605,307...252,691,886
JBrowse link
G Sufu SUFU negative regulator of hedgehog signaling ISO MGI:MGI:4840420 (MGI:MGI:4355593|PMID:19684112) RGD PMID:19684112 MGI:MGI:4355593 NCBI chr 1:266,143,766...266,241,742
Ensembl chr 1:266,143,818...266,239,016
JBrowse link
G Traf3ip1 TRAF3 interacting protein 1 ISO MGI:MGI:4129326 (MGI:MGI:5298450|PMID:21945076) RGD PMID:21945076 MGI:MGI:5298450 NCBI chr 9:98,621,499...98,658,223
Ensembl chr 9:98,621,506...98,656,901
JBrowse link
G Tulp3 TUB like protein 3 ISO MGI:MGI:2388066 (MGI:MGI:3844764|PMID:19334287) RGD PMID:19334287 MGI:MGI:3844764 NCBI chr 4:161,636,084...161,677,807
Ensembl chr 4:161,637,892...161,658,519
JBrowse link
positive regulation of smoothened signaling pathway involved in dorsal/ventral neural tube patterning term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Gorab golgin, RAB6-interacting ISO (MGI:MGI:5766823|PMID:26967474) RGD PMID:26967474 MGI:MGI:5766823 NCBI chr13:81,682,207...81,698,827
Ensembl chr13:81,682,018...81,698,833
JBrowse link
regulation of smoothened signaling pathway involved in dorsal/ventral neural tube patterning term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Cdk20 cyclin-dependent kinase 20 ISO MGI:MGI:95728|MGI:MGI:95729 (MGI:MGI:5912686|PMID:28817564) RGD PMID:28817564 MGI:MGI:5912686 NCBI chr17:1,935,900...1,942,867
Ensembl chr17:1,936,163...1,942,865
JBrowse link
G Gli2 GLI family zinc finger 2 ISO MGI:MGI:2145349 (MGI:MGI:5912686|PMID:28817564) RGD PMID:28817564 MGI:MGI:5912686 NCBI chr13:34,829,021...35,049,172
Ensembl chr13:34,829,139...35,048,444
JBrowse link
G Gli3 GLI family zinc finger 3 ISO
IEA
MGI:MGI:2145349 (MGI:MGI:5912686|PMID:28817564)
GO_REF:0000107
RGD
Ensembl
PMID:28817564 GO_REF:0000107, MGI:MGI:5912686 NCBI chr17:52,294,942...52,569,036
Ensembl chr17:52,294,942...52,569,036
JBrowse link
G Mks1 MKS transition zone complex subunit 1 ISO
IEA
MGI:MGI:4887578 (MGI:MGI:4868517|PMID:21045211)
GO_REF:0000107
RGD
Ensembl
PMID:21045211 GO_REF:0000107, MGI:MGI:4868517 NCBI chr10:75,149,814...75,160,481
Ensembl chr10:75,149,814...75,160,480
JBrowse link
rostrocaudal neural tube patterning term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Atp6ap2 ATPase H+ transporting accessory protein 2 ISO (PMID:20093472) RGD PMID:20093472 NCBI chr  X:11,137,889...11,164,854
Ensembl chr  X:11,136,939...11,164,915
JBrowse link
G Bmi1 BMI1 proto-oncogene, polycomb ring finger ISO MGI:MGI:1857632 (MGI:MGI:82985|PMID:8887324) RGD PMID:8887324 MGI:MGI:82985 NCBI chr17:85,360,439...85,370,283
Ensembl chr17:85,364,483...85,368,208
JBrowse link
G Sox17 SRY-box transcription factor 17 ISO MGI:MGI:2179440 (MGI:MGI:4421275|PMID:19913509) RGD PMID:19913509 MGI:MGI:4421275 NCBI chr 5:14,890,318...14,895,907
Ensembl chr 5:14,890,408...14,895,907
JBrowse link
smoothened signaling pathway involved in dorsal/ventral neural tube patterning term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Gli2 GLI family zinc finger 2 ISO MGI:MGI:2442827|MGI:MGI:95729 (MGI:MGI:3709667|PMID:17395647), (MGI:MGI:4439200|PMID:20159594) RGD PMID:17395647, PMID:20159594 MGI:MGI:3709667, MGI:MGI:4439200 NCBI chr13:34,829,021...35,049,172
Ensembl chr13:34,829,139...35,048,444
JBrowse link
G Gli3 GLI family zinc finger 3 ISO MGI:MGI:2442827|MGI:MGI:95728 (MGI:MGI:3709667|PMID:17395647), (MGI:MGI:4439200|PMID:20159594) RGD PMID:17395647, PMID:20159594 MGI:MGI:3709667, MGI:MGI:4439200 NCBI chr17:52,294,942...52,569,036
Ensembl chr17:52,294,942...52,569,036
JBrowse link
G Ift122 intraflagellar transport 122 ISO MGI:MGI:2443231 (MGI:MGI:5428054|PMID:22689656) RGD PMID:22689656 MGI:MGI:5428054 NCBI chr 4:147,756,574...147,826,983
Ensembl chr 4:147,756,553...147,826,997
JBrowse link
G Ptch1 patched 1 ISO MGI:MGI:1857447 (MGI:MGI:4355593|PMID:19684112) RGD PMID:19684112 MGI:MGI:4355593 NCBI chr17:1,032,242...1,085,885
Ensembl chr17:1,029,048...1,093,873
JBrowse link
G Tbc1d32 TBC1 domain family, member 32 ISO MGI:MGI:95728|MGI:MGI:95729 (MGI:MGI:4439200|PMID:20159594) RGD PMID:20159594 MGI:MGI:4439200 NCBI chr20:37,463,879...37,701,268
Ensembl chr20:37,465,278...37,700,937
JBrowse link
G Tulp3 TUB like protein 3 ISO MGI:MGI:3664273 (MGI:MGI:3841513|PMID:19223390) RGD PMID:19223390 MGI:MGI:3841513 NCBI chr 4:161,636,084...161,677,807
Ensembl chr 4:161,637,892...161,658,519
JBrowse link
G Wdr19 WD repeat domain 19 ISO MGI:MGI:1932386|MGI:MGI:5315748 (MGI:MGI:5428054|PMID:22689656) RGD PMID:22689656 MGI:MGI:5428054 NCBI chr14:44,705,012...44,767,120
Ensembl chr14:44,705,012...44,767,120
JBrowse link
zona limitans intrathalamica formation term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Shh sonic hedgehog signaling molecule IDA RGD PMID:25281935 RGD:12832757 NCBI chr 4:718,538...727,691
Ensembl chr 4:718,538...727,691
JBrowse link

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 20014
    multicellular organismal process 9055
      pattern specification process 496
        regionalization 392
          neural tube patterning 49
            dorsal/ventral neural tube patterning + 31
            rostrocaudal neural tube patterning + 14
Path 2
Term Annotations click to browse term
  biological_process 20014
    developmental process 6812
      anatomical structure development 6256
        multicellular organism development 5735
          embryo development 1303
            embryo development ending in birth or egg hatching 859
              chordate embryonic development 843
                neural tube development 196
                  neural tube patterning 49
                    dorsal/ventral neural tube patterning + 31
                    rostrocaudal neural tube patterning + 14
paths to the root

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RGD is funded by grant HL64541 from the National Heart, Lung, and Blood Institute on behalf of the NIH.