Gdf1 (growth differentiation factor 1) - Rat Genome Database

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Gene: Gdf1 (growth differentiation factor 1) Rattus norvegicus
Analyze
Symbol: Gdf1
Name: growth differentiation factor 1
RGD ID: 1304678
Description: Predicted to enable cytokine activity. Predicted to be involved in BMP signaling pathway; SMAD protein signal transduction; and positive regulation of pathway-restricted SMAD protein phosphorylation. Predicted to act upstream of or within several processes, including endoderm development; in utero embryonic development; and mesoderm development. Predicted to be located in membrane. Predicted to be active in extracellular space. Human ortholog(s) of this gene implicated in multiple types of congenital heart defects 6 and visceral heterotaxy. Orthologous to human GDF1 (growth differentiation factor 1); INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A.
Type: protein-coding
RefSeq Status: REVIEWED
Previously known as: embryonic growth/differentiation factor 1; LOC306351
RGD Orthologs
Human
Mouse
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21619,097,309 - 19,112,519 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1619,097,314 - 19,112,519 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1619,137,150 - 19,152,310 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01620,269,455 - 20,284,820 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01619,190,111 - 19,205,271 (-)NCBIRnor_WKY
Rnor_6.01620,845,580 - 20,860,789 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1620,845,576 - 20,860,767 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01620,698,122 - 20,712,564 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41619,580,807 - 19,596,415 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11619,580,804 - 19,583,914 (-)NCBI
Celera1619,287,577 - 19,302,834 (-)NCBICelera
Cytogenetic Map16p14NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
3. GOA pipeline RGD automated data pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:17364820   PMID:17936261  


Genomics

Comparative Map Data
Gdf1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21619,097,309 - 19,112,519 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1619,097,314 - 19,112,519 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1619,137,150 - 19,152,310 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01620,269,455 - 20,284,820 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01619,190,111 - 19,205,271 (-)NCBIRnor_WKY
Rnor_6.01620,845,580 - 20,860,789 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1620,845,576 - 20,860,767 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01620,698,122 - 20,712,564 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41619,580,807 - 19,596,415 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11619,580,804 - 19,583,914 (-)NCBI
Celera1619,287,577 - 19,302,834 (-)NCBICelera
Cytogenetic Map16p14NCBI
GDF1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381918,868,545 - 18,896,158 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1918,868,545 - 18,896,158 (-)EnsemblGRCh38hg38GRCh38
GRCh371918,979,354 - 19,006,967 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361918,840,354 - 18,842,116 (-)NCBINCBI36Build 36hg18NCBI36
Build 341918,840,353 - 18,867,953NCBI
Celera1918,884,162 - 18,911,776 (-)NCBICelera
Cytogenetic Map19p13.11NCBI
HuRef1918,543,712 - 18,569,342 (-)NCBIHuRef
CHM1_11918,979,170 - 19,006,647 (-)NCBICHM1_1
T2T-CHM13v2.01919,004,162 - 19,031,781 (-)NCBIT2T-CHM13v2.0
Gdf1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39870,768,425 - 70,784,242 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl870,768,425 - 70,784,242 (+)EnsemblGRCm39 Ensembl
GRCm39 Ensembl870,782,467 - 70,784,237 (+)EnsemblGRCm39 Ensembl
GRCm38870,315,775 - 70,331,592 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl870,315,775 - 70,331,592 (+)EnsemblGRCm38mm10GRCm38
GRCm38.p6 Ensembl870,329,817 - 70,331,587 (+)EnsemblGRCm38mm10GRCm38
MGSCv37872,839,674 - 72,855,487 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36873,252,436 - 73,260,555 (+)NCBIMGSCv36mm8
Celera872,872,244 - 72,888,065 (+)NCBICelera
Cytogenetic Map8B3.3NCBI
GDF1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12044,233,304 - 44,234,072 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2044,147,104 - 44,148,882 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02044,718,632 - 44,720,410 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2044,718,265 - 44,720,366 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12043,955,914 - 43,957,692 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02044,366,109 - 44,367,883 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02044,641,589 - 44,643,367 (+)NCBIUU_Cfam_GSD_1.0
Gdf1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118202,918,263 - 202,920,073 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365962,467,431 - 2,471,476 (+)EnsemblSpeTri2.0
SpeTri2.0NW_0049365962,467,428 - 2,469,213 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GDF1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl258,951,726 - 58,974,672 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1258,972,918 - 58,976,294 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2258,560,688 - 58,564,421 (-)NCBISscrofa10.2Sscrofa10.2susScr3
GDF1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1 Ensembl617,329,143 - 17,330,837 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660741,972,201 - 1,996,293 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Gdf1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249081,935,539 - 1,936,953 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046249081,935,525 - 1,937,012 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Gdf1
51 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1600369Hcas8Hepatocarcinoma susceptibility QTL 8liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)16122477621Rat
631830Alc7Alcohol consumption QTL 72.9consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16126727669Rat
634355Rends4Renal damage susceptibility QTL 40.05kidney blood vessel morphology trait (VT:0000530)organ lesion measurement (CMO:0000677)16126727669Rat
1582235Insul8Insulin level QTL 83.30.0063blood insulin amount (VT:0001560)calculated serum insulin level (CMO:0000359)16126727669Rat
9590151Scort8Serum corticosterone level QTL 88.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)16130836262Rat
2302380Slep6Serum leptin concentration QTL 63.36blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)16132139025Rat
2307172Activ4Activity QTL 43.710.00023locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)16133418960Rat
1354584Despr6Despair related QTL 63.10.0067locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16139533930Rat
2303566Bw90Body weight QTL 902body mass (VT:0001259)body weight (CMO:0000012)16139533930Rat
631561Hcuc2Hepatic copper content QTL 22.8liver copper amount (VT:0003065)liver total copper weight (CMO:0001507)16139533949Rat
6903319Bw114Body weight QTL 1142.70.0037body mass (VT:0001259)body weight (CMO:0000012)16143534949Rat
7411664Foco30Food consumption QTL 30110.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)16144588133Rat
1354625Despr7Despair related QTL 73.160.016locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)16144977551Rat
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
2293343Glom16Glomerulus QTL 167.4kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1683223646053497Rat
2312660Bw95Body weight QTL 950.05inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)1683223659492508Rat
2312663Slep9Serum leptin concentration QTL 90.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1683223659492508Rat
2312666Insul16Insulin level QTL 160.01blood insulin amount (VT:0001560)serum insulin level (CMO:0000358)1683223659492508Rat
2312669Stl23Serum triglyceride level QTL 230.01blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1683223659492508Rat
1300133Rf24Renal function QTL 243.64blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)16338015021361552Rat
2306902Bp339Blood pressure QTL 3390.01arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16338015043025077Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)16422760943025077Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16422760943025077Rat
70183BpQTLcluster13Blood pressure QTL cluster 133.654arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)16422760943025077Rat
737819Hcas4Hepatocarcinoma susceptibility QTL 44.43liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)16422760946975965Rat
61405Niddm6Non-insulin dependent diabetes mellitus QTL 63.660.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)16422760948972724Rat
61338Bp23Blood pressure QTL 234.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)16422760949227609Rat
737826Alc11Alcohol consumption QTL 113.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16422760960252231Rat
631517Scl9Serum cholesterol level QTL 93.3blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)161572643321034895Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
70215Niddm29Non-insulin dependent diabetes mellitus QTL 293.54blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)161900443575226532Rat

Markers in Region
AI385651  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21619,097,350 - 19,097,450 (+)MAPPERmRatBN7.2
Rnor_6.01620,845,622 - 20,845,721NCBIRnor6.0
Rnor_5.01620,698,164 - 20,698,263UniSTSRnor5.0
RGSC_v3.41619,580,849 - 19,580,948UniSTSRGSC3.4
Celera1619,287,619 - 19,287,718UniSTS
Cytogenetic Map16p14UniSTS
RH139099  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21619,097,348 - 19,097,496 (+)MAPPERmRatBN7.2
Rnor_6.01620,845,620 - 20,845,767NCBIRnor6.0
Rnor_5.01620,698,162 - 20,698,309UniSTSRnor5.0
RGSC_v3.41619,580,847 - 19,580,994UniSTSRGSC3.4
Celera1619,287,617 - 19,287,764UniSTS
RH 3.4 Map16233.4UniSTS
Cytogenetic Map16p14UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 3 11 4
Low 3 11 26 10 19 10 8 8 11 7 11 8
Below cutoff 1 1 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000027275   ⟹   ENSRNOP00000027275
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1620,845,576 - 20,860,767 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000092417   ⟹   ENSRNOP00000075903
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1619,097,314 - 19,112,519 (-)Ensembl
RefSeq Acc Id: NM_001044240   ⟹   NP_001037705
RefSeq Status: REVIEWED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21619,097,309 - 19,112,519 (-)NCBI
Rnor_6.01620,845,580 - 20,860,789 (-)NCBI
Rnor_5.01620,698,122 - 20,712,564 (-)NCBI
RGSC_v3.41619,580,807 - 19,596,415 (-)RGD
Celera1619,287,577 - 19,302,834 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001037705 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein ABF19793 (Get FASTA)   NCBI Sequence Viewer  
  EDL90679 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001037705   ⟸   NM_001044240
- Peptide Label: precursor
- UniProtKB: Q1HI69 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000027275   ⟸   ENSRNOT00000027275
RefSeq Acc Id: ENSRNOP00000075903   ⟸   ENSRNOT00000092417
Protein Domains
TGF_BETA_2   TLC

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q1HI69-F1-model_v2 AlphaFold Q1HI69 1-357 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1304678 AgrOrtholog
BioCyc Gene G2FUF-11772 BioCyc
Ensembl Genes ENSRNOG00000020142 Ensembl
  ENSRNOG00000067124 UniProtKB/TrEMBL
  ENSRNOG00000070518 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000027275.4 UniProtKB/TrEMBL
  ENSRNOP00000075903 ENTREZGENE
  ENSRNOP00000075903.2 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000027275.7 UniProtKB/TrEMBL
  ENSRNOT00000092417 ENTREZGENE
  ENSRNOT00000092417.2 UniProtKB/TrEMBL
Gene3D-CATH 2.10.90.10 UniProtKB/TrEMBL
InterPro Cystine-knot_cytokine UniProtKB/TrEMBL
  TGFb UniProtKB/TrEMBL
  TGFb_CS UniProtKB/TrEMBL
  TGFbeta UniProtKB/TrEMBL
  TLC-dom UniProtKB/TrEMBL
KEGG Report rno:290658 UniProtKB/TrEMBL
  rno:306351 UniProtKB/TrEMBL
NCBI Gene 306351 ENTREZGENE
PANTHER TGFbeta UniProtKB/TrEMBL
Pfam TGF_beta UniProtKB/TrEMBL
  TRAM_LAG1_CLN8 UniProtKB/TrEMBL
PhenoGen Gdf1 PhenoGen
PROSITE TGF_BETA_1 UniProtKB/TrEMBL
  TGF_BETA_2 UniProtKB/TrEMBL
  TLC UniProtKB/TrEMBL
SMART TGFB UniProtKB/TrEMBL
  TLC UniProtKB/TrEMBL
Superfamily-SCOP SSF57501 UniProtKB/TrEMBL
UniProt F7F646_RAT UniProtKB/TrEMBL
  Q1HI69 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Gdf1  growth differentiation factor 1   Gdf1_predicted  growth differentiation factor 1 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Gdf1_predicted  growth differentiation factor 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED