Send us a Message



 Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) RatMine GViewer (Genome Viewer) Overgo Probe Designer ACP Haplotyper VCMap
Aging & Age-Related Disease Cancer Cardiovascular Disease COVID-19 Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models PhenoMiner (Quantitative Phenotypes) Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes GERRC (Gene Editing Rat Resource Center) Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Poster Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources

ONTOLOGY REPORT - ANNOTATIONS

Term:spinal cord patterning
go back to main search page
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.


show annotations for term's descendants           Sort by:
 
spinal cord patterning term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Reln reelin acts_upstream_of_or_within
involved_in		 IEP
ISO
IEA
ISS		 MGI:1856398 (MGI:3625412|PMID:16580148)
GO_REF:0000107
GO_REF:0000024		 RGD
Ensembl
UniProt		 PMID:16580148 PMID:14648677 GO_REF:0000024 GO_REF:0000107 MGI:3625412, RGD:2317803 NCBI chr 4:12,736,177...13,162,956
Ensembl chr 4:12,736,130...13,162,211 		JBrowse link
BMP signaling pathway involved in spinal cord dorsal/ventral patterning term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Chrd chordin involved_in IEA
ISO		 GO_REF:0000107
(PMID:11472837)		 Ensembl
RGD		 PMID:11472837 GO_REF:0000107 NCBI chr11:80,171,994...80,181,166
Ensembl chr11:80,171,994...80,180,673 		JBrowse link
negative regulation of smoothened signaling pathway involved in ventral spinal cord patterning term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ift122 intraflagellar transport 122 involved_in ISO (MGI:4888042|PMID:21209331) RGD PMID:21209331 MGI:4888042 NCBI chr 4:148,905,031...148,975,458
Ensembl chr 4:148,905,046...148,975,458 		JBrowse link
G Rfx4 regulatory factor X4 involved_in
acts_upstream_of_or_within		 IBA
ISO		 PMID:21873635
MGI:3799278 (MGI:5430880|PMID:19887680)		 RGD PMID:19887680 PMID:21873635 MGI:5430880, RGD:13792537 NCBI chr 7:18,853,065...19,015,378
Ensembl chr 7:18,853,322...19,014,967 		JBrowse link
G Tulp3 TUB like protein 3 acts_upstream_of_or_within ISO MGI:2388066 (MGI:3841503|PMID:19286674) RGD PMID:19286674 MGI:3841503 NCBI chr 4:161,590,478...161,632,514
Ensembl chr 4:161,590,479...161,632,149 		JBrowse link
smoothened signaling pathway involved in spinal cord motor neuron cell fate specification term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Gli2 GLI family zinc finger 2 acts_upstream_of_or_within ISO MGI:95729 (MGI:3051712|PMID:15215207) RGD PMID:15215207 MGI:3051712 NCBI chr13:29,946,809...30,163,901
Ensembl chr13:29,946,809...30,163,574 		JBrowse link
G Gli3 GLI family zinc finger 3 acts_upstream_of_or_within ISO MGI:95728 (MGI:3051712|PMID:15215207) RGD PMID:15215207 MGI:3051712 NCBI chr17:49,438,567...49,709,712
Ensembl chr17:49,438,567...49,709,712 		JBrowse link
G Sufu SUFU negative regulator of hedgehog signaling acts_upstream_of_or_within ISO MGI:4840420 (MGI:4355593|PMID:19684112) RGD PMID:19684112 MGI:4355593 NCBI chr 1:245,257,725...245,355,576
Ensembl chr 1:245,257,768...245,355,577 		JBrowse link
smoothened signaling pathway involved in ventral spinal cord interneuron specification term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Gli2 GLI family zinc finger 2 acts_upstream_of_or_within ISO MGI:95729 (MGI:3051712|PMID:15215207) RGD PMID:15215207 MGI:3051712 NCBI chr13:29,946,809...30,163,901
Ensembl chr13:29,946,809...30,163,574 		JBrowse link
G Gli3 GLI family zinc finger 3 acts_upstream_of_or_within ISO MGI:95728 (MGI:3051712|PMID:15215207) RGD PMID:15215207 MGI:3051712 NCBI chr17:49,438,567...49,709,712
Ensembl chr17:49,438,567...49,709,712 		JBrowse link
G Sufu SUFU negative regulator of hedgehog signaling acts_upstream_of_or_within ISO MGI:4840420 (MGI:4355593|PMID:19684112) RGD PMID:19684112 MGI:4355593 NCBI chr 1:245,257,725...245,355,576
Ensembl chr 1:245,257,768...245,355,577 		JBrowse link
smoothened signaling pathway involved in ventral spinal cord patterning term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Smo smoothened, frizzled class receptor involved_in
acts_upstream_of_or_within		 IEA
ISO		 GO_REF:0000107
MGI:2176255 (MGI:3841503|PMID:19286674)
(MGI:4888042|PMID:21209331)		 Ensembl
RGD		 PMID:19286674 PMID:21209331 GO_REF:0000107 MGI:3841503 MGI:4888042 NCBI chr 4:58,344,101...58,372,828
Ensembl chr 4:58,343,529...58,373,829 		JBrowse link
spinal cord anterior/posterior patterning term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Gdf11 growth differentiation factor 11 acts_upstream_of_or_within ISO MGI:2449672 (MGI:3701017|PMID:16790475) RGD PMID:16790475 MGI:3701017 NCBI chr 7:1,311,732...1,325,211
Ensembl chr 7:1,311,732...1,320,725 		JBrowse link
spinal cord dorsal/ventral patterning term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Fuz fuzzy planar cell polarity protein acts_upstream_of_or_within ISO MGI:4346364 (MGI:5052192|PMID:21761479) RGD PMID:21761479 MGI:5052192 NCBI chr 1:95,379,542...95,384,532
Ensembl chr 1:95,379,587...95,384,530 		JBrowse link
G Gli2 GLI family zinc finger 2 acts_upstream_of_or_within ISO MGI:1857509|MGI:2158472|MGI:95729|MGI:99833 (MGI:2154468|PMID:11748151), (MGI:3051712|PMID:15215207), (MGI:3612806|PMID:16364285) RGD PMID:11748151 PMID:15215207 PMID:16364285 MGI:2154468 MGI:3051712 MGI:3612806 NCBI chr13:29,946,809...30,163,901
Ensembl chr13:29,946,809...30,163,574 		JBrowse link
G Gli3 GLI family zinc finger 3 acts_upstream_of_or_within ISO MGI:95728|MGI:99833 (MGI:3051712|PMID:15215207), (MGI:3612806|PMID:16364285) RGD PMID:15215207 PMID:16364285 MGI:3051712 MGI:3612806 NCBI chr17:49,438,567...49,709,712
Ensembl chr17:49,438,567...49,709,712 		JBrowse link
G Ift88 intraflagellar transport 88 acts_upstream_of_or_within ISO MGI:1859153 (MGI:5052192|PMID:21761479) RGD PMID:21761479 MGI:5052192 NCBI chr15:31,573,325...31,666,068
Ensembl chr15:31,573,376...31,672,147 		JBrowse link
G Intu inturned planar cell polarity protein involved_in
acts_upstream_of_or_within		 IEA
ISO		 GO_REF:0000107
MGI:4441401 (MGI:5052192|PMID:21761479)		 Ensembl
RGD		 PMID:21761479 GO_REF:0000107 MGI:5052192 NCBI chr 2:123,600,972...123,685,331
Ensembl chr 2:123,609,807...123,682,676 		JBrowse link
G Rab23 RAB23, member RAS oncogene family acts_upstream_of_or_within ISO MGI:2137533|MGI:2682064|MGI:95728|MGI:95729 (MGI:2679893|PMID:14603322), (MGI:3577662|PMID:15755804), (MGI:3612806|PMID:16364285) RGD PMID:14603322 PMID:15755804 PMID:16364285 MGI:2679893 MGI:3577662 MGI:3612806 NCBI chr 9:35,943,522...35,967,367
Ensembl chr 9:35,944,085...35,966,927 		JBrowse link
G Shh sonic hedgehog signaling molecule involved_in
acts_upstream_of_or_within		 IEA
IDA
ISO		 GO_REF:0000107
PMID:9230312
MGI:1857796 (MGI:2154468|PMID:11748151)		 Ensembl
RGD		 PMID:11748151 PMID:9230312 GO_REF:0000107 MGI:2154468, RGD:8553789 NCBI chr 4:6,954,017...6,963,170
Ensembl chr 4:6,954,017...6,963,170 		JBrowse link
G Sufu SUFU negative regulator of hedgehog signaling acts_upstream_of_or_within ISO MGI:3619046 (MGI:3616741|PMID:16459298) RGD PMID:16459298 MGI:3616741 NCBI chr 1:245,257,725...245,355,576
Ensembl chr 1:245,257,768...245,355,577 		JBrowse link
ventral spinal cord interneuron fate commitment term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Ascl1 achaete-scute family bHLH transcription factor 1 involved_in ISS
ISO		 GO_REF:0000024
(MGI:3587461|PMID:16020526)		 UniProt
RGD		 PMID:16020526 GO_REF:0000024 MGI:3587461 NCBI chr 7:21,904,153...21,906,003
Ensembl chr 7:21,903,126...21,905,993 		JBrowse link
G Dll4 delta like canonical Notch ligand 4 involved_in ISO UniProtKB:Q8K3Q3 (PMID:17728344) RGD PMID:17728344 NCBI chr 3:106,317,114...106,327,004
Ensembl chr 3:106,316,986...106,326,931 		JBrowse link
G Foxn4 forkhead box N4 involved_in ISO (MGI:3587461|PMID:16020526), (MGI:3765356|PMID:17728344) RGD PMID:16020526 PMID:17728344 MGI:3587461 MGI:3765356 NCBI chr12:42,336,706...42,359,932
Ensembl chr12:42,340,323...42,359,921 		JBrowse link
ventral spinal cord interneuron fate determination term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Nkx2-2 NK2 homeobox 2 acts_upstream_of_or_within ISO MGI:1932100 (MGI:1334824|PMID:10217145) RGD PMID:10217145 MGI:1334824 NCBI chr 3:134,619,701...134,630,282
Ensembl chr 3:134,620,039...134,622,411 		JBrowse link
ventral spinal cord interneuron specification term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Dbx1 developing brain homeobox 1 acts_upstream_of_or_within ISO MGI:2182329 (MGI:2136554|PMID:11239429) RGD PMID:11239429 MGI:2136554 NCBI chr 1:99,349,608...99,354,038
Ensembl chr 1:99,349,608...99,354,038 		JBrowse link
G Dmrt3 doublesex and mab-3 related transcription factor 3 acts_upstream_of_or_within ISO MGI:4420993 (MGI:5435948|PMID:22932389) RGD PMID:22932389 MGI:5435948 NCBI chr 1:223,244,340...223,264,254
Ensembl chr 1:223,248,747...223,262,530 		JBrowse link
G Lhx3 LIM homeobox 3 acts_upstream_of_or_within ISO (MGI:4356383|PMID:19666821) RGD PMID:19666821 MGI:4356383 NCBI chr 3:9,026,432...9,035,122
Ensembl chr 3:9,027,425...9,034,480 		JBrowse link
G Shh sonic hedgehog signaling molecule acts_upstream_of_or_within IDA PMID:9230312 MGI PMID:9230312 RGD:8553789 NCBI chr 4:6,954,017...6,963,170
Ensembl chr 4:6,954,017...6,963,170 		JBrowse link
G Sox1 SRY-box transcription factor 1 acts_upstream_of_or_within ISO MGI:3653406 (MGI:4834949|PMID:20844123) RGD PMID:20844123 MGI:4834949 NCBI chr16:77,134,795...77,139,628
Ensembl chr16:77,137,584...77,138,762 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 19812
    multicellular organismal process 9088
      pattern specification process 502
        regionalization 390
          spinal cord patterning 23
            spinal cord anterior/posterior patterning + 1
            spinal cord dorsal/ventral patterning + 21
Path 2
Term Annotations click to browse term
  biological_process 19812
    developmental process 6948
      anatomical structure development 6361
        multicellular organism development 5787
          system development 5427
            nervous system development 2751
              central nervous system development 1283
                spinal cord development 143
                  spinal cord patterning 23
                    spinal cord anterior/posterior patterning + 1
                    spinal cord dorsal/ventral patterning + 21
paths to the root