Gdf2 (growth differentiation factor 2) - Rat Genome Database

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Gene: Gdf2 (growth differentiation factor 2) Rattus norvegicus
Analyze
Symbol: Gdf2
Name: growth differentiation factor 2
RGD ID: 1586196
Description: Predicted to enable cytokine activity; growth factor activity; and protein serine/threonine kinase activator activity. Predicted to be involved in several processes, including positive regulation of transmembrane receptor protein serine/threonine kinase signaling pathway; regulation of endothelial cell proliferation; and transforming growth factor beta receptor superfamily signaling pathway. Predicted to act upstream of or within osteoblast differentiation; positive regulation of gene expression; and positive regulation of transcription by RNA polymerase II. Predicted to be active in extracellular space. Human ortholog(s) of this gene implicated in hereditary hemorrhagic telangiectasia. Orthologous to human GDF2 (growth differentiation factor 2); INTERACTS WITH 17beta-estradiol; acetamide; acrylamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: growth/differentiation factor 2; LOC290921; similar to Growth/differentiation factor 2 precursor (GDF-2) (Bone morphogenetic protein 9) (BMP-9)
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8169,261,679 - 9,267,678 (+)NCBIGRCr8
mRatBN7.2169,255,430 - 9,261,429 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl169,255,430 - 9,261,429 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx169,274,892 - 9,280,894 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01610,419,603 - 10,425,605 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0169,269,971 - 9,275,973 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01610,267,510 - 10,293,545 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1610,267,482 - 10,273,239 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0168,588,086 - 8,614,187 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera165,949,174 - 5,955,173 (-)NCBICelera
Cytogenetic Map16p16NCBI
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:15161906   PMID:17068149   PMID:18986983   PMID:18997172   PMID:19056867   PMID:19366699   PMID:19903896   PMID:19956691   PMID:20406889   PMID:22783020   PMID:23972370   PMID:28447742  
PMID:29073723   PMID:29257291   PMID:31680322   PMID:33582251   PMID:36700591  


Genomics

Comparative Map Data
Gdf2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8169,261,679 - 9,267,678 (+)NCBIGRCr8
mRatBN7.2169,255,430 - 9,261,429 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl169,255,430 - 9,261,429 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx169,274,892 - 9,280,894 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01610,419,603 - 10,425,605 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0169,269,971 - 9,275,973 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01610,267,510 - 10,293,545 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1610,267,482 - 10,273,239 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0168,588,086 - 8,614,187 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera165,949,174 - 5,955,173 (-)NCBICelera
Cytogenetic Map16p16NCBI
GDF2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381047,322,454 - 47,327,588 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1047,322,454 - 47,327,588 (+)EnsemblGRCh38hg38GRCh38
GRCh371048,411,774 - 48,416,908 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361048,033,098 - 48,036,859 (-)NCBINCBI36Build 36hg18NCBI36
Build 341048,033,097 - 48,036,859NCBI
Celera1044,836,998 - 44,840,759 (-)NCBICelera
Cytogenetic Map10q11.22NCBI
HuRef1043,165,547 - 43,169,308 (-)NCBIHuRef
CHM1_11048,578,140 - 48,581,901 (-)NCBICHM1_1
T2T-CHM13v2.01048,213,864 - 48,218,998 (+)NCBIT2T-CHM13v2.0
Gdf2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391433,662,996 - 33,669,155 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1433,662,996 - 33,669,155 (+)EnsemblGRCm39 Ensembl
GRCm381433,941,039 - 33,947,198 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1433,941,039 - 33,947,198 (+)EnsemblGRCm38mm10GRCm38
MGSCv371434,754,225 - 34,760,384 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361432,770,131 - 32,776,290 (+)NCBIMGSCv36mm8
Celera1430,207,057 - 30,213,220 (+)NCBICelera
Cytogenetic Map14BNCBI
cM Map1420.8NCBI
Gdf2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555562,205,071 - 2,209,055 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555562,204,841 - 2,210,335 (+)NCBIChiLan1.0ChiLan1.0
GDF2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2859,983,769 - 59,988,902 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11059,989,086 - 59,994,219 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01046,520,808 - 46,526,414 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
GDF2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1434,996,767 - 35,001,094 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl434,997,579 - 35,001,203 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha434,961,160 - 34,965,493 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0435,357,262 - 35,361,597 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl435,357,079 - 35,361,635 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1435,188,996 - 35,193,329 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0435,370,258 - 35,374,589 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0435,877,822 - 35,882,155 (-)NCBIUU_Cfam_GSD_1.0
Gdf2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440721381,297,922 - 81,312,358 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365547,316,435 - 7,322,060 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365547,307,461 - 7,322,048 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GDF2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1488,507,399 - 88,513,375 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11488,506,083 - 88,513,416 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21496,133,114 - 96,142,280 (-)NCBISscrofa10.2Sscrofa10.2susScr3
GDF2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1944,087,502 - 44,092,975 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl944,089,358 - 44,092,484 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660483,859,301 - 3,864,480 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Gdf2
27 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:140
Count of miRNA genes:108
Interacting mature miRNAs:127
Transcripts:ENSRNOT00000075381
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1357403Slep4Serum leptin concentration QTL 43.91blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)1619639137Rat
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
2301406Kidm39Kidney mass QTL 390.002kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)16285170915884239Rat
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
737825Alc13Alcohol consumption QTL 134.5consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)16422760916039848Rat
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
61372Bp40Blood pressure QTL 402.2blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)16422773017696785Rat

Markers in Region
BE095712  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2169,267,985 - 9,268,205 (+)MAPPERmRatBN7.2
Rnor_6.01610,278,223 - 10,278,442NCBIRnor6.0
Rnor_5.0168,598,865 - 8,599,084UniSTSRnor5.0
RGSC_v3.4169,578,997 - 9,579,216UniSTSRGSC3.4
Celera165,942,530 - 5,942,749UniSTS
RH 3.4 Map1692.0UniSTS
Cytogenetic Map16p16UniSTS
BE102984  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2169,282,536 - 9,282,686 (+)MAPPERmRatBN7.2
Rnor_6.01610,293,108 - 10,293,257NCBIRnor6.0
Rnor_5.0168,613,750 - 8,613,899UniSTSRnor5.0
RGSC_v3.4169,597,489 - 9,597,638UniSTSRGSC3.4
Celera165,928,076 - 5,928,225UniSTS
RH 3.4 Map1692.0UniSTS
BE105815  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2169,277,581 - 9,277,737 (+)MAPPERmRatBN7.2
Rnor_6.01610,287,812 - 10,287,967NCBIRnor6.0
Rnor_5.0168,608,454 - 8,608,609UniSTSRnor5.0
Celera165,933,004 - 5,933,159UniSTS
RH 3.4 Map1692.7UniSTS
RH139342  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2169,276,434 - 9,276,658 (+)MAPPERmRatBN7.2
Rnor_6.01610,286,672 - 10,286,895NCBIRnor6.0
Rnor_5.0168,607,314 - 8,607,537UniSTSRnor5.0
RGSC_v3.4169,587,446 - 9,587,669UniSTSRGSC3.4
Celera165,934,083 - 5,934,306UniSTS
RH 3.4 Map18365.4UniSTS
Cytogenetic Map16p16UniSTS


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

circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system reproductive system respiratory system appendage
High
Medium 41 41 41
Low 2 2 9 10
Below cutoff 21 8 2 2 16 1 2

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000085255   ⟹   ENSRNOP00000072495
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl169,255,430 - 9,261,429 (+)Ensembl
Rnor_6.0 Ensembl1610,267,482 - 10,273,239 (+)Ensembl
RefSeq Acc Id: NM_001106096   ⟹   NP_001099566
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8169,261,679 - 9,267,678 (+)NCBI
mRatBN7.2169,255,430 - 9,261,429 (+)NCBI
Rnor_6.01610,267,510 - 10,293,545 (+)NCBI
Rnor_5.0168,588,086 - 8,614,187 (+)NCBI
Celera165,949,174 - 5,955,173 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001099566 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL88893 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000072495
  ENSRNOP00000072495.1
Reference Protein Sequences
RefSeq Acc Id: NP_001099566   ⟸   NM_001106096
- Peptide Label: precursor
- UniProtKB: M0RB87 (UniProtKB/TrEMBL),   A6KFT6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000072495   ⟸   ENSRNOT00000085255
Protein Domains
TGF-beta family profile

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0RB87-F1-model_v2 AlphaFold M0RB87 1-430 view protein structure

Transcriptome

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

Promoters
RGD ID:13699952
Promoter ID:EPDNEW_R10476
Type:single initiation site
Name:Gdf2_1
Description:growth differentiation factor 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01610,267,442 - 10,267,502EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1586196 AgrOrtholog
BioCyc Gene G2FUF-12083 BioCyc
Ensembl Genes ENSRNOG00000057751 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000085255 ENTREZGENE
  ENSRNOT00000085255.2 UniProtKB/TrEMBL
Gene3D-CATH 2.10.90.10 UniProtKB/TrEMBL
  2.60.120.970 UniProtKB/TrEMBL
InterPro Cystine-knot_cytokine UniProtKB/TrEMBL
  TGF-b_C UniProtKB/TrEMBL
  TGF-b_N UniProtKB/TrEMBL
  TGF-beta-rel UniProtKB/TrEMBL
  TGFb_CS UniProtKB/TrEMBL
KEGG Report rno:290921 UniProtKB/TrEMBL
NCBI Gene 290921 ENTREZGENE
PANTHER GROWTH/DIFFERENTIATION FACTOR 2 UniProtKB/TrEMBL
  PTHR11848 UniProtKB/TrEMBL
Pfam TGF_beta UniProtKB/TrEMBL
  TGFb_propeptide UniProtKB/TrEMBL
PhenoGen Gdf2 PhenoGen
PRINTS INHIBINA UniProtKB/TrEMBL
PROSITE TGF_BETA_1 UniProtKB/TrEMBL
  TGF_BETA_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000057751 RatGTEx
SMART TGFB UniProtKB/TrEMBL
Superfamily-SCOP SSF57501 UniProtKB/TrEMBL
UniProt A6KFT6 ENTREZGENE, UniProtKB/TrEMBL
  M0RB87 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-03-04 Gdf2  growth differentiation factor 2  LOC290921  similar to Growth/differentiation factor 2 precursor (GDF-2) (Bone morphogenetic protein 9) (BMP-9)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC290921  similar to Growth/differentiation factor 2 precursor (GDF-2) (Bone morphogenetic protein 9) (BMP-9)      Symbol and Name status set to provisional 70820 PROVISIONAL