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) Synteny Browser (VCMap)  (beta) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer) Overgo Probe Designer
Aging & Age-Related Disease Cancer & Neoplastic Disease 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 Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner 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:brain morphogenesis
go back to main search page
Accession:GO:0048854 term browser browse the term
Definition:The process in which the anatomical structures of the brain are generated and organized. The brain is one of the two components of the central nervous system and is the center of thought and emotion. It is responsible for the coordination and control of bodily activities and the interpretation of information from the senses (sight, hearing, smell, etc.).


show annotations for term's descendants           Sort by:
brain morphogenesis term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Afdn afadin, adherens junction formation factor acts_upstream_of_or_within ISO MGI:95387 (MGI:5605648|PMID:25100583) RGD PMID:25100583 MGI:5605648 NCBI chr 1:53,905,344...54,034,216
Ensembl chr 1:53,905,373...54,034,216 		JBrowse link
G Akt3 AKT serine/threonine kinase 3 involved_in
acts_upstream_of_or_within		 IEA
ISO		 GO_REF:0000107
MGI:3574346 (MGI:3531618|PMID:15713641)		 Ensembl
RGD		 PMID:15713641 GO_REF:0000107 MGI:3531618 NCBI chr13:88,943,708...89,225,831
Ensembl chr13:88,946,091...89,225,708 		JBrowse link
G Bbs1 Bardet-Biedl syndrome 1 acts_upstream_of_or_within ISO MGI:3767672 (MGI:3767384|PMID:18032602) RGD PMID:18032602 MGI:3767384 NCBI chr 1:202,184,812...202,204,118
Ensembl chr 1:202,186,125...202,204,086 		JBrowse link
G Bbs2 Bardet-Biedl syndrome 2 acts_upstream_of_or_within ISO MGI:3521669 (MGI:3767384|PMID:18032602) RGD PMID:18032602 MGI:3767384 NCBI chr19:10,909,653...10,944,998
Ensembl chr19:10,909,619...10,944,993 		JBrowse link
G Bbs4 Bardet-Biedl syndrome 4 acts_upstream_of_or_within ISO MGI:3045473 (MGI:3767384|PMID:18032602) RGD PMID:18032602 MGI:3767384 NCBI chr 8:59,731,912...59,765,408
Ensembl chr 8:59,731,912...59,765,607 		JBrowse link
G Cdh2 cadherin 2 involved_in
acts_upstream_of_or_within		 IEA
ISO		 GO_REF:0000107
MGI:95387 (MGI:5605648|PMID:25100583)		 Ensembl
RGD		 PMID:25100583 GO_REF:0000107 MGI:5605648 NCBI chr18:7,776,704...7,990,934
Ensembl chr18:7,776,704...7,990,167 		JBrowse link
G Ctnna2 catenin alpha 2 involved_in ISO (MGI:2181860|PMID:12089526), (MGI:3654578|PMID:16691566) RGD PMID:12089526 PMID:16691566 MGI:2181860 MGI:3654578 NCBI chr 4:109,294,249...110,443,409
Ensembl chr 4:109,293,978...110,443,522 		JBrowse link
G Emx1 empty spiracles homeobox 1 acts_upstream_of_or_within ISO MGI:1314653|MGI:2682313|MGI:88355 (MGI:5468205|PMID:23178126), (MGI:5605648|PMID:25100583) RGD PMID:23178126 PMID:25100583 MGI:5468205 MGI:5605648 NCBI chr 4:117,725,148...117,741,616
Ensembl chr 4:117,725,155...117,741,613 		JBrowse link
G Fancc FA complementation group C acts_upstream_of_or_within
involved_in		 ISO
IEA		 MGI:1890081 (MGI:5698336|PMID:24483844)
GO_REF:0000107		 RGD
Ensembl		 PMID:24483844 GO_REF:0000107 MGI:5698336 NCBI chr17:1,680,660...1,822,610
Ensembl chr17:1,681,324...1,829,376 		JBrowse link
G Fancd2 FA complementation group D2 acts_upstream_of_or_within
involved_in		 ISO
IEA		 MGI:1890081 (MGI:5698336|PMID:24483844)
GO_REF:0000107		 RGD
Ensembl		 PMID:24483844 GO_REF:0000107 MGI:5698336 NCBI chr 4:146,679,014...146,743,422
Ensembl chr 4:146,679,179...146,743,412 		JBrowse link
G Fbxw11 F-box and WD repeat domain containing 11 involved_in IBA PMID:21873635 GO_Central PMID:21873635 RGD:13792537 NCBI chr10:17,232,735...17,330,574
Ensembl chr10:17,227,181...17,330,571 		JBrowse link
G Foxo3 forkhead box O3 acts_upstream_of_or_within ISO MGI:2448480|MGI:95480 (MGI:5698336|PMID:24483844) RGD PMID:24483844 MGI:5698336 NCBI chr20:45,669,708...45,764,606
Ensembl chr20:45,672,995...45,764,561 		JBrowse link
G Gba1 glucosylceramidase beta 1 acts_upstream_of_or_within ISO (MGI:3762988|PMID:17954912) RGD PMID:17954912 MGI:3762988 NCBI chr 2:174,609,437...174,615,457
Ensembl chr 2:174,609,403...174,618,263 		JBrowse link
G Mir124-1 microRNA 124-1 acts_upstream_of_or_within ISO MGI:5307015|MGI:5307017 (MGI:5303045|PMID:21857657) RGD PMID:21857657 MGI:5303045 NCBI chr15:38,842,014...38,842,098
Ensembl chr15:38,842,014...38,842,098 		JBrowse link
G Mkks MKKS centrosomal shuttling protein acts_upstream_of_or_within ISO MGI:3526444 (MGI:3767384|PMID:18032602) RGD PMID:18032602 MGI:3767384 NCBI chr 3:124,201,877...124,221,142
Ensembl chr 3:124,201,877...124,220,162 		JBrowse link
G Nfix nuclear factor I X acts_upstream_of_or_within ISO MGI:3802571 (MGI:6459592|PMID:30503862) RGD PMID:30503862 MGI:6459592 NCBI chr19:23,355,388...23,450,360
Ensembl chr19:23,355,498...23,448,265 		JBrowse link
G Pafah1b1 platelet-activating factor acetylhydrolase 1b, regulatory subunit 1 involved_in ISO
IBA		 (PMID:9063735)
PMID:21873635		 RGD PMID:9063735 PMID:21873635 RGD:13792537 NCBI chr10:59,533,042...59,591,808
Ensembl chr10:59,534,117...59,591,808 		JBrowse link
G Pax2 paired box 2 involved_in ISS
ISO		 GO_REF:0000024
(MGI:84247|PMID:8951055)		 UniProt
RGD		 PMID:8951055 GO_REF:0000024 MGI:84247 NCBI chr 1:243,616,509...243,697,454
Ensembl chr 1:243,616,606...243,695,321 		JBrowse link
G Pcnt pericentrin acts_upstream_of_or_within ISO MGI:3799303 (MGI:4438783|PMID:20096683) RGD PMID:20096683 MGI:4438783 NCBI chr20:12,190,597...12,278,723
Ensembl chr20:12,191,648...12,278,710 		JBrowse link
G Psen1 presenilin 1 acts_upstream_of_or_within ISO MGI:109284 (MGI:3760209|PMID:17614943) RGD PMID:17614943 MGI:3760209 NCBI chr 6:103,323,052...103,375,088
Ensembl chr 6:103,323,120...103,371,650 		JBrowse link
G Psen2 presenilin 2 acts_upstream_of_or_within ISO MGI:1202717 (MGI:3760209|PMID:17614943) RGD PMID:17614943 MGI:3760209 NCBI chr13:91,967,506...91,993,240
Ensembl chr13:91,967,983...91,993,174 		JBrowse link
G Pten phosphatase and tensin homolog involved_in ISO (MGI:3832995|PMID:19208814) RGD PMID:19208814 MGI:3832995 NCBI chr 1:230,630,443...230,697,070
Ensembl chr 1:230,630,338...230,696,838 		JBrowse link
G Shank3 SH3 and multiple ankyrin repeat domains 3 involved_in ISS
IEA
ISO		 GO_REF:0000024
GO_REF:0000107
(MGI:4948759|PMID:21423165)		 BHF-UCL
Ensembl
RGD		 PMID:21423165 GO_REF:0000024 GO_REF:0000107 MGI:4948759 NCBI chr 7:120,568,707...120,630,796
Ensembl chr 7:120,570,402...120,630,374 		JBrowse link
G Slc4a10 solute carrier family 4 member 10 acts_upstream_of_or_within
involved_in		 ISO
IEA		 MGI:3774019 (MGI:3772751|PMID:18165320)
GO_REF:0000107		 RGD
Ensembl		 PMID:18165320 GO_REF:0000107 MGI:3772751 NCBI chr 3:46,665,076...46,959,088
Ensembl chr 3:46,665,265...46,957,268 		JBrowse link
G Slc6a4 solute carrier family 6 member 4 involved_in ISO (MGI:3832995|PMID:19208814) RGD PMID:19208814 MGI:3832995 NCBI chr10:61,824,208...61,858,924
Ensembl chr10:61,826,123...61,858,384 		JBrowse link
G Spef2 sperm flagellar 2 acts_upstream_of_or_within ISO MGI:5295267 (MGI:5292446|PMID:21715716) RGD PMID:21715716 MGI:5292446 NCBI chr 2:58,512,489...58,694,718
Ensembl chr 2:58,512,489...58,694,664 		JBrowse link
G Vps51 VPS51 subunit of GARP complex involved_in ISO (PMID:30624672), (PMID:31207318) RGD PMID:30624672 PMID:31207318 NCBI chr 1:203,360,434...203,370,422
Ensembl chr 1:203,360,440...203,370,430 		JBrowse link
G Zfp335 zinc finger protein 335 involved_in
acts_upstream_of_or_within		 IEA
ISO		 GO_REF:0000107
MGI:5470136|MGI:95387 (MGI:5468205|PMID:23178126)		 Ensembl
RGD		 PMID:23178126 GO_REF:0000107 MGI:5468205 NCBI chr 3:153,618,587...153,648,213
Ensembl chr 3:153,627,467...153,647,054 		JBrowse link
adenohypophysis morphogenesis term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Duox2 dual oxidase 2 involved_in
acts_upstream_of_or_within		 IEA
ISO		 GO_REF:0000107
MGI:3712359 (MGI:3712355|PMID:17440044)		 Ensembl
RGD		 PMID:17440044 GO_REF:0000107 MGI:3712355 NCBI chr 3:109,223,809...109,247,023
Ensembl chr 3:109,226,924...109,245,902 		JBrowse link
diencephalon morphogenesis term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Otx1 orthodenticle homeobox 1 acts_upstream_of_or_within
involved_in		 ISO
IEA		 MGI:97451 (MGI:4848254|PMID:20816794)
GO_REF:0000107		 RGD
Ensembl		 PMID:20816794 GO_REF:0000107 MGI:4848254 NCBI chr14:96,082,146...96,089,161
Ensembl chr14:96,082,151...96,089,086 		JBrowse link
G Otx2 orthodenticle homeobox 2 acts_upstream_of_or_within ISO MGI:97450 (MGI:4848254|PMID:20816794) RGD PMID:20816794 MGI:4848254 NCBI chr15:21,942,233...21,953,034
Ensembl chr15:21,943,191...21,953,416 		JBrowse link
G Sox2 SRY-box transcription factor 2 acts_upstream_of_or_within ISO MGI:2181440|MGI:3052123 (MGI:3051708|PMID:15240551) RGD PMID:15240551 MGI:3051708 NCBI chr 2:117,536,929...117,539,340
Ensembl chr 2:117,536,929...117,539,338 		JBrowse link
forebrain morphogenesis term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Fgf8 fibroblast growth factor 8 acts_upstream_of_or_within ISO MGI:1857843 (MGI:3624179|PMID:16613831) RGD PMID:16613831 MGI:3624179 NCBI chr 1:244,584,477...244,590,578
Ensembl chr 1:244,584,652...244,590,359 		JBrowse link
G Gak cyclin G associated kinase acts_upstream_of_or_within ISO MGI:2176173|MGI:5305733 (MGI:5305417|PMID:18434600) RGD PMID:18434600 MGI:5305417 NCBI chr14:1,089,853...1,164,098
Ensembl chr14:1,089,866...1,216,398 		JBrowse link
G Gdf7 growth differentiation factor 7 acts_upstream_of_or_within ISO MGI:2386906 (MGI:1353705|PMID:10693795) RGD PMID:10693795 MGI:1353705 NCBI chr 6:31,171,495...31,182,484
Ensembl chr 6:31,178,119...31,182,447 		JBrowse link
G Gsx2 GS homeobox 2 acts_upstream_of_or_within ISO MGI:2150162 (MGI:1099899|PMID:9398437) RGD PMID:9398437 MGI:1099899 NCBI chr14:33,123,799...33,126,151
Ensembl chr14:33,124,381...33,126,105 		JBrowse link
G Hesx1 HESX homeobox 1 acts_upstream_of_or_within ISO MGI:1931124 (MGI:1206234|PMID:9620767), (MGI:1861369|PMID:10882526) RGD PMID:9620767 PMID:10882526 MGI:1206234 MGI:1861369 NCBI chr16:2,191,852...2,193,957
Ensembl chr16:2,191,852...2,193,957 		JBrowse link
G Hhex hematopoietically expressed homeobox acts_upstream_of_or_within ISO MGI:4999724 (MGI:4950786|PMID:21445260) RGD PMID:21445260 MGI:4950786 NCBI chr 1:235,190,455...235,196,042
Ensembl chr 1:235,190,455...235,196,042 		JBrowse link
G Ift88 intraflagellar transport 88 acts_upstream_of_or_within ISO MGI:3823090 (MGI:3821634|PMID:19036983) RGD PMID:19036983 MGI:3821634 NCBI chr15:31,573,325...31,666,068
Ensembl chr15:31,573,376...31,672,147 		JBrowse link
G Nf1 neurofibromin 1 involved_in
acts_upstream_of_or_within		 ISS
ISO
IEA		 GO_REF:0000024
MGI:2176055|MGI:2176057 (MGI:1932841|PMID:11297510)
GO_REF:0000107		 HGNC-UCL
RGD
Ensembl		 PMID:11297510 GO_REF:0000024 GO_REF:0000107 MGI:1932841 NCBI chr10:64,306,027...64,539,112
Ensembl chr10:64,306,301...64,536,658 		JBrowse link
G Pten phosphatase and tensin homolog involved_in ISO (MGI:3629385|PMID:16675393) RGD PMID:16675393 MGI:3629385 NCBI chr 1:230,630,443...230,697,070
Ensembl chr 1:230,630,338...230,696,838 		JBrowse link
G Smo smoothened, frizzled class receptor involved_in ISS
ISO
IEA		 GO_REF:0000024
(MGI:5142377|PMID:11517919)
GO_REF:0000107		 UniProt
RGD
Ensembl		 PMID:11517919 GO_REF:0000024 GO_REF:0000107 MGI:5142377 NCBI chr 4:58,343,626...58,373,823
Ensembl chr 4:58,343,529...58,373,829 		JBrowse link
G Tuba1a tubulin, alpha 1A involved_in ISO MGI:6506267 (MGI:6359168|PMID:31386652) RGD PMID:31386652 MGI:6359168 NCBI chr 7:130,113,214...130,116,880
Ensembl chr 7:130,081,032...130,196,186 		JBrowse link
G Uchl5 ubiquitin C-terminal hydrolase L5 involved_in ISO (MGI:4849324|PMID:21048919) RGD PMID:21048919 MGI:4849324 NCBI chr13:55,520,722...55,556,503
Ensembl chr13:55,520,729...55,556,502 		JBrowse link
hypophysis morphogenesis term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Prop1 PROP paired-like homeobox 1 acts_upstream_of_or_within ISO MGI:3690463 (MGI:3690195|PMID:16678101) RGD PMID:16678101 MGI:3690195 NCBI chr10:35,271,959...35,274,434
Ensembl chr10:35,271,973...35,274,434 		JBrowse link
G Wnt5a Wnt family member 5A acts_upstream_of_or_within
involved_in		 ISO
IEA		 MGI:1857617 (MGI:3043884|PMID:15037319)
GO_REF:0000107		 RGD
Ensembl		 PMID:15037319 GO_REF:0000107 MGI:3043884 NCBI chr16:3,697,032...3,718,230
Ensembl chr16:3,697,032...3,718,234 		JBrowse link
midbrain morphogenesis term browser
Symbol Object Name Qualifiers Evidence Notes Source PubMed Reference(s) RGD Reference(s) Position
G Sos1 SOS Ras/Rac guanine nucleotide exchange factor 1 acts_upstream_of_or_within ISO MGI:2155441 (MGI:85697|PMID:9030684) RGD PMID:9030684 MGI:85697 NCBI chr 6:14,533,870...14,613,348
Ensembl chr 6:14,533,360...14,611,107 		JBrowse link
Term paths to the root
Path 1
Term Annotations click to browse term
  biological_process 19527
    developmental process 6898
      anatomical structure morphogenesis 2948
        animal organ morphogenesis 1178
          brain morphogenesis 46
            forebrain morphogenesis + 18
            midbrain morphogenesis 1
Path 2
Term Annotations click to browse term
  biological_process 19527
    developmental process 6898
      anatomical structure development 6425
        multicellular organism development 5175
          system development 4453
            nervous system development 2730
              central nervous system development 1191
                brain development 883
                  brain morphogenesis 46
                    forebrain morphogenesis + 18
                    midbrain morphogenesis 1
paths to the root