Gins3 (GINS complex subunit 3) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Gins3 (GINS complex subunit 3) Rattus norvegicus
Analyze
Symbol: Gins3
Name: GINS complex subunit 3
RGD ID: 1308153
Description: Predicted to be involved in DNA-templated DNA replication and positive regulation of DNA metabolic process. Predicted to be located in nucleoplasm. Predicted to be part of CMG complex and GINS complex. Orthologous to human GINS3 (GINS complex subunit 3); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil; acetamide.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: DNA replication complex GINS protein PSF3; GINS complex subunit 3 (Psf3 homolog); LOC307639; RGD1308153; similar to RIKEN cDNA 2700085M18
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
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
mRatBN7.2199,420,085 - 9,428,621 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl199,420,086 - 9,428,687 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx199,388,571 - 9,397,105 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01910,155,401 - 10,163,935 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0199,441,718 - 9,450,252 (-)NCBIRnor_WKY
Rnor_6.0199,835,113 - 9,843,649 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl199,835,057 - 9,843,673 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0199,820,191 - 9,828,727 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4199,876,690 - 9,885,226 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1199,883,128 - 9,890,016 (-)NCBI
Celera199,315,072 - 9,323,608 (-)NCBICelera
Cytogenetic Map19p13NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
CMG complex  (ISO)
GINS complex  (IBA,ISO)
nucleoplasm  (ISO)
nucleus  (ISO)

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Gins3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2199,420,085 - 9,428,621 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl199,420,086 - 9,428,687 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx199,388,571 - 9,397,105 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01910,155,401 - 10,163,935 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0199,441,718 - 9,450,252 (-)NCBIRnor_WKY
Rnor_6.0199,835,113 - 9,843,649 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl199,835,057 - 9,843,673 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0199,820,191 - 9,828,727 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4199,876,690 - 9,885,226 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1199,883,128 - 9,890,016 (-)NCBI
Celera199,315,072 - 9,323,608 (-)NCBICelera
Cytogenetic Map19p13NCBI
GINS3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381658,392,471 - 58,406,147 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1658,295,080 - 58,406,147 (+)EnsemblGRCh38hg38GRCh38
GRCh371658,426,375 - 58,440,051 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361656,983,924 - 56,997,549 (+)NCBINCBI36Build 36hg18NCBI36
Celera1642,926,079 - 42,939,099 (+)NCBICelera
Cytogenetic Map16q21NCBI
HuRef1644,295,208 - 44,308,210 (+)NCBIHuRef
CHM1_11659,833,197 - 59,847,353 (+)NCBICHM1_1
T2T-CHM13v2.01664,187,716 - 64,201,439 (+)NCBIT2T-CHM13v2.0
Gins3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39896,360,187 - 96,371,687 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl896,360,081 - 96,371,688 (+)EnsemblGRCm39 Ensembl
GRCm38895,633,559 - 95,645,059 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl895,633,453 - 95,645,060 (+)EnsemblGRCm38mm10GRCm38
MGSCv37898,157,459 - 98,168,959 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36898,522,688 - 98,534,188 (+)NCBIMGSCv36mm8
Celera899,944,776 - 99,956,285 (+)NCBICelera
Cytogenetic Map8D1NCBI
Gins3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543315,842,991 - 15,863,677 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495543315,843,025 - 15,864,942 (+)NCBIChiLan1.0ChiLan1.0
GINS3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11657,790,392 - 57,801,904 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1657,790,392 - 57,801,904 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01638,653,876 - 38,672,154 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
GINS3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1258,233,425 - 58,244,429 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl258,234,321 - 58,245,219 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha254,863,478 - 54,874,485 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0258,771,765 - 58,783,038 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl258,771,765 - 58,782,959 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1255,601,435 - 55,612,721 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0256,609,125 - 56,620,396 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0257,503,855 - 57,514,873 (-)NCBIUU_Cfam_GSD_1.0
Gins3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934949,372,998 - 49,379,806 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647510,209,071 - 10,218,051 (+)EnsemblSpeTri2.0
SpeTri2.0NW_00493647510,209,127 - 10,216,701 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GINS3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl620,162,636 - 20,170,258 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1620,162,264 - 20,170,385 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2618,222,183 - 18,230,228 (+)NCBISscrofa10.2Sscrofa10.2susScr3
GINS3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1544,331,392 - 44,342,754 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl544,331,802 - 44,342,812 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604731,828,877 - 31,839,914 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Gins3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474627,836,267 - 27,853,357 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474627,824,318 - 27,853,034 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Gins3
25 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:155
Count of miRNA genes:124
Interacting mature miRNAs:137
Transcripts:ENSRNOT00000015795
Prediction methods:Miranda, Rnahybrid
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
7411590Foco7Food consumption QTL 76.80.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)19124688055Rat
10054132Srcrt9Stress Responsive Cort QTL 92.870.0017blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19127355345Rat
631678Cm9Cardiac mass QTL 94.270.0001aorta mass (VT:0002845)aorta weight (CMO:0000076)19128982497Rat
631681Cm12Cardiac mass QTL 123.330.00053heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)19128982497Rat
1549847Bss8Bone structure and strength QTL 84lumbar vertebra strength trait (VT:0010574)vertebra ultimate force (CMO:0001678)19131963836Rat
9590298Uminl5Urine mineral level QTL 53.590.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)19136824771Rat
8552935Pigfal10Plasma insulin-like growth factor 1 level QTL 105.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)19136824771Rat
9590250Scort11Serum corticosterone level QTL 1123.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19136824771Rat
9590090Insglur8Insulin/glucose ratio QTL 810.810.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)19136824771Rat
9589102Slep13Serum leptin concentration QTL 134.630.001blood leptin amount (VT:0005667)plasma leptin level (CMO:0000781)1956937445569374Rat
8694186Bw152Body weight QTL 1523.340.001body mass (VT:0001259)body weight gain (CMO:0000420)1956937445569374Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19218792746708701Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
61447Tcas1Tongue tumor susceptibility QTL 16.08tongue integrity trait (VT:0010553)squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)19231612147316121Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)19320477748204777Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19745724942983518Rat

Markers in Region
BE103022  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2199,420,126 - 9,420,286 (+)MAPPERmRatBN7.2
Rnor_6.0199,835,155 - 9,835,314NCBIRnor6.0
Rnor_5.0199,820,233 - 9,820,392UniSTSRnor5.0
RGSC_v3.4199,876,732 - 9,876,891UniSTSRGSC3.4
Celera199,315,114 - 9,315,273UniSTS
RH 3.4 Map1984.8UniSTS
Cytogenetic Map19p13UniSTS
BI279799  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2199,420,205 - 9,420,364 (+)MAPPERmRatBN7.2
Rnor_6.0199,835,234 - 9,835,392NCBIRnor6.0
Rnor_5.0199,820,312 - 9,820,470UniSTSRnor5.0
RGSC_v3.4199,876,811 - 9,876,969UniSTSRGSC3.4
Celera199,315,193 - 9,315,351UniSTS
RH 3.4 Map1980.6UniSTS
Cytogenetic Map19p13UniSTS


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 12 22 16 9 16 28 16 26
Low 3 31 35 25 10 25 4 5 46 19 15 11 4
Below cutoff 4 6 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000015795   ⟹   ENSRNOP00000015795
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl199,420,086 - 9,428,687 (-)Ensembl
Rnor_6.0 Ensembl199,835,057 - 9,843,673 (-)Ensembl
RefSeq Acc Id: NM_001107408   ⟹   NP_001100878
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2199,420,085 - 9,428,621 (-)NCBI
Rnor_6.0199,835,113 - 9,843,649 (-)NCBI
Rnor_5.0199,820,191 - 9,828,727 (-)NCBI
RGSC_v3.4199,876,690 - 9,885,226 (-)RGD
Celera199,315,072 - 9,323,608 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001100878 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL87279 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001100878   ⟸   NM_001107408
- UniProtKB: D3Z9I4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000015795   ⟸   ENSRNOT00000015795
Protein Domains
Sld5

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3Z9I4-F1-model_v2 AlphaFold D3Z9I4 1-216 view protein structure

Transcriptome

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

Promoters
RGD ID:13700925
Promoter ID:EPDNEW_R11449
Type:multiple initiation site
Name:Gins3_1
Description:GINS complex subunit 3
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_6.0199,843,642 - 9,843,702EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308153 AgrOrtholog
BioCyc Gene G2FUF-6540 BioCyc
Ensembl Genes ENSRNOG00000011863 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000015795 ENTREZGENE
  ENSRNOP00000015795.3 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000015795 ENTREZGENE
  ENSRNOT00000015795.6 UniProtKB/TrEMBL
Gene3D-CATH 1.20.58.2050 UniProtKB/TrEMBL
InterPro GINS_bundle-like_dom UniProtKB/TrEMBL
  GINS_complex UniProtKB/TrEMBL
  GINS_Psf3 UniProtKB/TrEMBL
  GINS_Psf3_sf UniProtKB/TrEMBL
KEGG Report rno:307639 UniProtKB/TrEMBL
NCBI Gene 307639 ENTREZGENE
PANTHER GINS_Psf3 UniProtKB/TrEMBL
Pfam Sld5 UniProtKB/TrEMBL
PhenoGen Gins3 PhenoGen
Superfamily-SCOP SSF158573 UniProtKB/TrEMBL
UniProt D3Z9I4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-29 Gins3  GINS complex subunit 3  Gins3  GINS complex subunit 3 (Psf3 homolog)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-26 Gins3  GINS complex subunit 3 (Psf3 homolog)  RGD1308153_predicted  similar to RIKEN cDNA 2700085M18 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 RGD1308153_predicted  similar to RIKEN cDNA 2700085M18 (predicted)  LOC307639_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC307639_predicted  similar to RIKEN cDNA 2700085M18 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL