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ONTOLOGY REPORT - ANNOTATIONS


Term:spinal cord patterning
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Accession:GO:0021511 term browser browse the term
Definition:The regionalization process that regulates the coordinated growth and establishes the non-random spatial arrangement of the spinal cord.


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spinal cord patterning term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Reln reelin IEP
ISS
IEA
ISO
GO_REF:0000024
GO_REF:0000107
MGI:MGI:1856398 (MGI:MGI:3625412|PMID:16580148)
UniProt
Ensembl
RGD
PMID:16580148, PMID:14648677 GO_REF:0000024, GO_REF:0000107, MGI:MGI:3625412, RGD:2317803 NCBI chr 4:9,347,533...9,774,257
Ensembl chr 4:9,347,528...9,773,670
JBrowse link
BMP signaling pathway involved in spinal cord dorsal/ventral patterning term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Chrd chordin ISO
IEA
(PMID:11472837)
GO_REF:0000107
RGD
Ensembl
PMID:11472837 GO_REF:0000107 NCBI chr11:83,858,503...83,867,543
Ensembl chr11:83,858,503...83,867,203
JBrowse link
negative regulation of smoothened signaling pathway involved in ventral spinal cord patterning term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ift122 intraflagellar transport 122 ISO (MGI:MGI:4888042|PMID:21209331) RGD PMID:21209331 MGI:MGI:4888042 NCBI chr 4:147,756,574...147,826,983
Ensembl chr 4:147,756,553...147,826,997
JBrowse link
G Rfx4 regulatory factor X4 ISO
IBA
MGI:MGI:3799278 (MGI:MGI:5430880|PMID:19887680)
PMID:21873635
RGD PMID:19887680, PMID:21873635 MGI:MGI:5430880, RGD:13792537 NCBI chr 7:25,831,358...25,909,976
Ensembl chr 7:25,808,419...25,907,849
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
regulation of transcription from RNA polymerase II promoter involved in ventral spinal cord interneuron specification term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Evx1 even-skipped homeobox 1 ISO MGI:MGI:2182858 (MGI:MGI:2136555|PMID:11239430) RGD PMID:11239430 MGI:MGI:2136555 NCBI chr 4:82,370,829...82,374,313
Ensembl chr 4:82,370,997...82,375,374
JBrowse link
G Nkx6-1 NK6 homeobox 1 ISO MGI:MGI:2386119 (MGI:MGI:2150481|PMID:11567614) RGD PMID:11567614 MGI:MGI:2150481 NCBI chr14:9,555,264...9,562,197
Ensembl chr14:9,555,264...9,562,189
JBrowse link
G Nkx6-2 NK6 homeobox 2 ISO MGI:MGI:2651850 (MGI:MGI:2150481|PMID:11567614) RGD PMID:11567614 MGI:MGI:2150481 NCBI chr 1:211,922,389...211,923,929
Ensembl chr 1:211,922,389...211,923,929
JBrowse link
G Pax6 paired box 6 ISO
IEA
MGI:MGI:1856155 (MGI:MGI:894150|PMID:9230312)
GO_REF:0000107
RGD
Ensembl
PMID:9230312 GO_REF:0000107, MGI:MGI:894150 NCBI chr 3:95,700,241...95,728,682
Ensembl chr 3:95,707,386...95,728,624
JBrowse link
smoothened signaling pathway involved in spinal cord motor neuron cell fate specification 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:95729 (MGI:MGI:3051712|PMID:15215207) RGD PMID:15215207 MGI:MGI:3051712 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:95728 (MGI:MGI:3051712|PMID:15215207) RGD PMID:15215207 MGI:MGI:3051712 NCBI chr17:52,294,942...52,569,036
Ensembl chr17:52,294,942...52,569,036
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
smoothened signaling pathway involved in ventral spinal cord interneuron specification 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:95729 (MGI:MGI:3051712|PMID:15215207) RGD PMID:15215207 MGI:MGI:3051712 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:95728 (MGI:MGI:3051712|PMID:15215207) RGD PMID:15215207 MGI:MGI:3051712 NCBI chr17:52,294,942...52,569,036
Ensembl chr17:52,294,942...52,569,036
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
smoothened signaling pathway involved in ventral spinal cord patterning term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Smo smoothened, frizzled class receptor IEA
ISO
GO_REF:0000107
MGI:MGI:2176255 (MGI:MGI:3841503|PMID:19286674), (MGI:MGI:4888042|PMID:21209331)
Ensembl
RGD
PMID:19286674, PMID:21209331 GO_REF:0000107, MGI:MGI:3841503, MGI:MGI:4888042 NCBI chr 4:57,019,941...57,041,779
Ensembl chr 4:57,019,941...57,042,770
JBrowse link
spinal cord anterior/posterior patterning term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Gdf11 growth differentiation factor 11 ISO MGI:MGI:2449672 (MGI:MGI:3701017|PMID:16790475) RGD PMID:16790475 MGI:MGI:3701017 NCBI chr 7:3,306,863...3,315,856
Ensembl chr 7:3,306,863...3,315,856
JBrowse link
spinal cord dorsal/ventral patterning term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Fuz fuzzy planar cell polarity protein ISO MGI:MGI:4346364 (MGI:MGI:5052192|PMID:21761479) RGD PMID:21761479 MGI:MGI:5052192 NCBI chr 1:100,891,832...100,896,811
Ensembl chr 1:100,891,866...100,896,807
JBrowse link
G Gli2 GLI family zinc finger 2 ISO MGI:MGI:1857509|MGI:MGI:2158472|MGI:MGI:95729|MGI:MGI:99833 (MGI:MGI:2154468|PMID:11748151), (MGI:MGI:3051712|PMID:15215207), (MGI:MGI:3612806|PMID:16364285) RGD PMID:11748151, PMID:15215207, PMID:16364285 MGI:MGI:2154468, MGI:MGI:3051712, MGI:MGI:3612806 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:95728|MGI:MGI:99833 (MGI:MGI:3051712|PMID:15215207), (MGI:MGI:3612806|PMID:16364285) RGD PMID:15215207, PMID:16364285 MGI:MGI:3051712, MGI:MGI:3612806 NCBI chr17:52,294,942...52,569,036
Ensembl chr17:52,294,942...52,569,036
JBrowse link
G Ift88 intraflagellar transport 88 ISO MGI:MGI:1859153 (MGI:MGI:5052192|PMID:21761479) RGD PMID:21761479 MGI:MGI:5052192 NCBI chr15:37,690,417...37,786,855
Ensembl chr15:37,691,345...37,784,924
JBrowse link
G Intu inturned planar cell polarity protein ISO
IEA
MGI:MGI:4441401 (MGI:MGI:5052192|PMID:21761479)
GO_REF:0000107
RGD
Ensembl
PMID:21761479 GO_REF:0000107, MGI:MGI:5052192 NCBI chr 2:127,589,325...127,611,705
Ensembl chr 2:127,459,012...127,525,437
JBrowse link
G Rab23 RAB23, member RAS oncogene family ISO MGI:MGI:2137533|MGI:MGI:2682064|MGI:MGI:95728|MGI:MGI:95729 (MGI:MGI:2679893|PMID:14603322), (MGI:MGI:3577662|PMID:15755804), (MGI:MGI:3612806|PMID:16364285) RGD PMID:14603322, PMID:15755804, PMID:16364285 MGI:MGI:2679893, MGI:MGI:3577662, MGI:MGI:3612806 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 IDA
IEA
ISO
PMID:9230312
GO_REF:0000107
MGI:MGI:1857796 (MGI:MGI:2154468|PMID:11748151)
Ensembl
RGD
PMID:11748151, PMID:9230312 GO_REF:0000107, MGI:MGI:2154468, RGD:8553789 NCBI chr 4:718,538...727,691
Ensembl chr 4:718,538...727,691
JBrowse link
G Sufu SUFU negative regulator of hedgehog signaling ISO MGI:MGI:3619046 (MGI:MGI:3616741|PMID:16459298) RGD PMID:16459298 MGI:MGI:3616741 NCBI chr 1:266,143,766...266,241,742
Ensembl chr 1:266,143,818...266,239,016
JBrowse link
ventral spinal cord interneuron fate commitment term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ascl1 achaete-scute family bHLH transcription factor 1 ISO
ISS
(MGI:MGI:3587461|PMID:16020526)
GO_REF:0000024
RGD
UniProt
PMID:16020526 GO_REF:0000024, MGI:MGI:3587461 NCBI chr 7:28,038,662...28,040,504
Ensembl chr 7:28,038,662...28,040,510
JBrowse link
G Dll4 delta like canonical Notch ligand 4 ISO UniProtKB:Q8K3Q3 (PMID:17728344) RGD PMID:17728344 NCBI chr 3:111,135,011...111,146,746
Ensembl chr 3:111,135,021...111,145,986
JBrowse link
G Foxn4 forkhead box N4 ISO (MGI:MGI:3587461|PMID:16020526), (MGI:MGI:3765356|PMID:17728344) RGD PMID:16020526, PMID:17728344 MGI:MGI:3587461, MGI:MGI:3765356 NCBI chr12:48,101,012...48,121,281
Ensembl chr12:48,101,673...48,121,270
JBrowse link
ventral spinal cord interneuron fate determination term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Nkx2-2 NK2 homeobox 2 ISO MGI:MGI:1932100 (MGI:MGI:1334824|PMID:10217145) RGD PMID:10217145 MGI:MGI:1334824 NCBI chr 3:141,408,460...141,419,083
Ensembl chr 3:141,408,798...141,411,170
JBrowse link
ventral spinal cord interneuron specification term browser
Symbol Object Name Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Dbx1 developing brain homeobox 1 ISO MGI:MGI:2182329 (MGI:MGI:2136554|PMID:11239429) RGD PMID:11239429 MGI:MGI:2136554 NCBI chr 1:104,969,218...104,973,648
Ensembl chr 1:104,969,218...104,973,648
JBrowse link
G Dmrt3 doublesex and mab-3 related transcription factor 3 ISO MGI:MGI:4420993 (MGI:MGI:5435948|PMID:22932389) RGD PMID:22932389 MGI:MGI:5435948 NCBI chr 1:243,589,607...243,602,926
Ensembl chr 1:243,589,607...243,602,926
JBrowse link
G Lhx3 LIM homeobox 3 ISO (MGI:MGI:4356383|PMID:19666821) RGD PMID:19666821 MGI:MGI:4356383 NCBI chr 3:3,653,861...3,662,509
Ensembl chr 3:3,654,755...3,661,810
JBrowse link
G Shh sonic hedgehog signaling molecule IDA PMID:9230312 MGI PMID:9230312 RGD:8553789 NCBI chr 4:718,538...727,691
Ensembl chr 4:718,538...727,691
JBrowse link
G Sox1 SRY-box transcription factor 1 ISO MGI:MGI:3653406 (MGI:MGI:4834949|PMID:20844123) RGD PMID:20844123 MGI:MGI:4834949

Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 20017
    multicellular organismal process 9055
      pattern specification process 496
        regionalization 392
          spinal cord patterning 27
            spinal cord anterior/posterior patterning + 1
            spinal cord dorsal/ventral patterning + 25
Path 2
Term Annotations click to browse term
  biological_process 20017
    developmental process 6813
      anatomical structure development 6256
        multicellular organism development 5735
          system development 5272
            nervous system development 2716
              central nervous system development 1257
                spinal cord development 144
                  spinal cord patterning 27
                    spinal cord anterior/posterior patterning + 1
                    spinal cord dorsal/ventral patterning + 25
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.