Ggnbp1 (gametogenetin binding protein 1) - Rat Genome Database

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Gene: Ggnbp1 (gametogenetin binding protein 1) Rattus norvegicus
Analyze
Symbol: Ggnbp1
Name: gametogenetin binding protein 1
RGD ID: 1359729
Description: Predicted to be involved in mitochondrial fission. Predicted to be located in Golgi apparatus; mitochondrial intermembrane space; and plasma membrane. Orthologous to human GGNBP1 (gametogenetin binding protein 1 (pseudogene)); INTERACTS WITH 2,2',4,4'-Tetrabromodiphenyl ether; 2,3,7,8-tetrachlorodibenzodioxine; 3-chloropropane-1,2-diol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: gametogenetin-binding protein 1; MGC124911
RGD Orthologs
Human
Mouse
Dog
Alliance Genes
More Info more info ...
Is Marker For: Strains:   DA.E3-(RT1-DMa-Ggnbp1)  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8205,111,734 - 5,118,034 (+)NCBIGRCr8
mRatBN7.2205,109,849 - 5,116,185 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl205,099,311 - 5,116,183 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx205,835,571 - 5,841,871 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0205,197,314 - 5,203,615 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0205,675,460 - 5,681,755 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0205,618,973 - 5,625,320 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl205,619,012 - 5,625,320 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0207,684,411 - 7,690,734 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4205,265,353 - 5,271,653 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1205,265,579 - 5,271,875 (+)NCBI
Celera206,690,509 - 6,696,809 (+)NCBICelera
Cytogenetic Map20p12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

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. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. Identification and characterization of a novel testicular germ cell-specific gene Ggnbp1. Zhou Y, etal., Mol Reprod Dev 2005 Mar;70(3):301-7.
Additional References at PubMed
PMID:12477932   PMID:15489334   PMID:15642376   PMID:19208545  


Genomics

Comparative Map Data
Ggnbp1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8205,111,734 - 5,118,034 (+)NCBIGRCr8
mRatBN7.2205,109,849 - 5,116,185 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl205,099,311 - 5,116,183 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx205,835,571 - 5,841,871 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0205,197,314 - 5,203,615 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0205,675,460 - 5,681,755 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0205,618,973 - 5,625,320 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl205,619,012 - 5,625,320 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0207,684,411 - 7,690,734 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4205,265,353 - 5,271,653 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1205,265,579 - 5,271,875 (+)NCBI
Celera206,690,509 - 6,696,809 (+)NCBICelera
Cytogenetic Map20p12NCBI
GGNBP1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38633,583,699 - 33,589,026 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl633,540,046 - 33,589,026 (+)EnsemblGRCh38hg38GRCh38
GRCh38.p14 Ensembl633,583,699 - 33,589,026 (+)EnsemblGRCh38hg38GRCh38
GRCh37633,551,476 - 33,556,803 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36633,659,493 - 33,664,781 (+)NCBINCBI36Build 36hg18NCBI36
Celera635,105,855 - 35,111,182 (+)NCBICelera
Cytogenetic Map6p21.31NCBI
HuRef633,292,939 - 33,298,266 (+)NCBIHuRef
CHM1_1633,553,814 - 33,559,139 (+)NCBICHM1_1
T2T-CHM13v2.0633,404,889 - 33,410,216 (+)NCBIT2T-CHM13v2.0
Ggnbp1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391727,237,009 - 27,255,352 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1727,236,961 - 27,256,598 (+)EnsemblGRCm39 Ensembl
GRCm381727,018,035 - 27,036,378 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1727,017,987 - 27,037,624 (+)EnsemblGRCm38mm10GRCm38
MGSCv371727,166,204 - 27,173,323 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361726,756,848 - 26,763,965 (+)NCBIMGSCv36mm8
Celera1727,565,611 - 27,572,731 (+)NCBICelera
Cytogenetic Map17A3.3NCBI
cM Map1713.6NCBI
GGNBP1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1122,949,364 - 2,970,699 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha122,969,250 - 2,993,686 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0123,285,110 - 3,309,553 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1122,952,214 - 2,976,545 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0123,033,186 - 3,057,592 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0123,131,316 - 3,155,755 (+)NCBIUU_Cfam_GSD_1.0

Variants

.
Variants in Ggnbp1
40 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:76
Count of miRNA genes:67
Interacting mature miRNAs:70
Transcripts:ENSRNOT00000000577
Prediction methods:Microtar, 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
1354642Despr15Despair related QTL 150.0027locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)20124159021Rat
1600382Edcs3Endometrial carcinoma susceptibility QTL33.50.003uterus morphology trait (VT:0001120)percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)20125159026Rat
2317851Alcrsp22Alcohol response QTL 223.20.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
1641893Alcrsp7Alcohol response QTL 7response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)20127339237Rat
8694189Bw153Body weight QTL 1533.130.001body mass (VT:0001259)body weight gain (CMO:0000420)20129191651Rat
9590275Scort15Serum corticosterone level QTL 153.480.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20129191651Rat
7411650Foco23Food consumption QTL 2320.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20129191651Rat
9590109Sffal8Serum free fatty acids level QTL 85.320.01blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)20129191651Rat
9589155Insul32Insulin level QTL 326.380.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)20129191651Rat
6893685Bw111Body weight QTL 1112.70.004body mass (VT:0001259)body weight (CMO:0000012)20132578807Rat
7411668Foco32Food consumption QTL 3280.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)20136600972Rat
9590252Scort12Serum corticosterone level QTL 1220.460.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)20136600972Rat
2305926Iddm37Insulin dependent diabetes mellitus QTL 376blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)20152784246527842Rat
2306850Pia40Pristane induced arthritis QTL 400.0001joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)2015279595304575Rat
1641915Colcr9Colorectal carcinoma resistance QTL 92.970.0024intestine integrity trait (VT:0010554)benign colorectal tumor number (CMO:0001795)20153065546530655Rat
1598816Memor12Memory QTL 122.4exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)20260683647606836Rat
2317057Aia27Adjuvant induced arthritis QTL 272.83joint integrity trait (VT:0010548)right rear ankle joint diameter (CMO:0002150)20289259726381954Rat
1300152Bp195Blood pressure QTL 1953.46arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)2036216499243559Rat
1331772Cdexp2CD45RC expression in CD8 T cells QTL 25.7CD8-positive T cell quantity (VT:0008077)blood CD45RC(high) CD8 T cell count to CD45RC(low) CD8 T cell count ratio (CMO:0001990)20362164910078919Rat
61432Cia1Collagen induced arthritis QTL 1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)20362165614101050Rat
61474Eae1Experimental allergic encephalomyelitis QTL 13nervous system integrity trait (VT:0010566)experimental autoimmune encephalomyelitis severity score (CMO:0001419)2046066076691706Rat
4889857Pur27Proteinuria QTL 2712.20.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)20460660717617956Rat
1558640Prcs2Prostate cancer susceptibility QTL 23.3prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)20460660717617956Rat

Markers in Region
BE102269  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2205,109,413 - 5,109,582 (+)MAPPERmRatBN7.2
Rnor_6.0205,618,551 - 5,618,719NCBIRnor6.0
Rnor_5.0207,683,965 - 7,684,133UniSTSRnor5.0
RGSC_v3.4205,264,884 - 5,265,052UniSTSRGSC3.4
Celera206,690,096 - 6,690,264UniSTS
RH 3.4 Map2054.8UniSTS
Cytogenetic Map20p12UniSTS


Related Rat Strains
The following Strains have been annotated to Ggnbp1
DA.E3-(RT1-DMa-Ggnbp1)    


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 3
Medium 5
Low 1 26 15 4 18 4 4 7 67 22 33 9 4
Below cutoff 1 17 41 36 1 36 4 4 7 13 2 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000000577   ⟹   ENSRNOP00000000577
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl205,109,875 - 5,116,183 (+)Ensembl
Rnor_6.0 Ensembl205,619,012 - 5,625,320 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000119446   ⟹   ENSRNOP00000076712
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl205,099,311 - 5,116,183 (+)Ensembl
RefSeq Acc Id: NM_001009972   ⟹   NP_001009972
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8205,111,734 - 5,118,034 (+)NCBI
mRatBN7.2205,109,883 - 5,116,185 (+)NCBI
Rnor_6.0205,619,020 - 5,625,320 (+)NCBI
Rnor_5.0207,684,411 - 7,690,734 (+)NCBI
RGSC_v3.4205,265,353 - 5,271,653 (+)RGD
Celera206,690,509 - 6,696,809 (+)RGD
Sequence:
Reference Protein Sequences
RefSeq Acc Id: NP_001009972   ⟸   NM_001009972
- UniProtKB: Q5J2D6 (UniProtKB/Swiss-Prot),   A6JJK7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000000577   ⟸   ENSRNOT00000000577
RefSeq Acc Id: ENSRNOP00000076712   ⟸   ENSRNOT00000119446
Protein Domains
Ubiquitin-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5J2D6-F1-model_v2 AlphaFold Q5J2D6 1-373 view protein structure

Transcriptome

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

Promoters
RGD ID:13701427
Promoter ID:EPDNEW_R11949
Type:initiation region
Name:Ggnbp1_1
Description:gametogenetin binding protein 1
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_6.0205,619,014 - 5,619,074EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1359729 AgrOrtholog
BioCyc Gene G2FUF-4497 BioCyc
Ensembl Genes ENSRNOG00000000486 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055008435 UniProtKB/Swiss-Prot
  ENSRNOG00060006029 UniProtKB/Swiss-Prot
  ENSRNOG00065032523 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000000577 ENTREZGENE
  ENSRNOT00000000577.7 UniProtKB/Swiss-Prot
  ENSRNOT00000119446.1 UniProtKB/TrEMBL
  ENSRNOT00055014283 UniProtKB/Swiss-Prot
  ENSRNOT00060009984 UniProtKB/Swiss-Prot
  ENSRNOT00065055938 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7452960 IMAGE-MGC_LOAD
InterPro Ub_USP-typ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:494520 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:124911 IMAGE-MGC_LOAD
NCBI Gene 494520 ENTREZGENE
Pfam Ubiquitin_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Ggnbp1 PhenoGen
RatGTEx ENSRNOG00000000486 RatGTEx
  ENSRNOG00055008435 RatGTEx
  ENSRNOG00060006029 RatGTEx
  ENSRNOG00065032523 RatGTEx
UniProt A0A8I5Y5H8_RAT UniProtKB/TrEMBL
  A6JJK7 ENTREZGENE, UniProtKB/TrEMBL
  GGNB1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-08-01 Ggnbp1  gametogenetin binding protein 1  Ggnbp1  gametogenetin-binding protein 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-07-29 Ggnbp1  gametogenetin-binding protein 1      Symbol and Name status set to provisional 70820 PROVISIONAL