Gins2 (GINS complex subunit 2) - Rat Genome Database

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Gene: Gins2 (GINS complex subunit 2) Rattus norvegicus
Analyze
Symbol: Gins2
Name: GINS complex subunit 2
RGD ID: 1311055
Description: Predicted to be involved in DNA metabolic process and positive regulation of DNA metabolic process. Predicted to be located in nucleus. Predicted to be part of CMG complex and GINS complex. Orthologous to human GINS2 (GINS complex subunit 2); INTERACTS WITH 6-propyl-2-thiouracil; acetamide; atrazine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: DNA replication complex GINS protein PSF2; GINS complex subunit 2 (Psf2 homolog); hypothetical protein LOC292058; LOC292058; RGD1311055; similar to HSPC037 protein
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
mRatBN7.21948,626,770 - 48,639,523 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1948,626,770 - 48,639,339 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1955,421,090 - 55,433,627 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01956,101,777 - 56,114,341 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01958,315,053 - 58,327,545 (-)NCBIRnor_WKY
Rnor_6.01954,151,048 - 54,163,701 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1954,151,048 - 54,163,608 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01964,873,928 - 64,886,729 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41950,915,108 - 50,927,668 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11950,923,424 - 50,943,902 (-)NCBI
Celera1947,880,377 - 47,892,745 (-)NCBICelera
Cytogenetic Map19q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
1,1-dichloroethene  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (ISO)
2,3',4,4',5-Pentachlorobiphenyl  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-fluorouracil  (ISO)
6-propyl-2-thiouracil  (EXP)
acetamide  (EXP)
aflatoxin B1  (ISO)
all-trans-retinoic acid  (ISO)
antimycin A  (ISO)
antirheumatic drug  (ISO)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
atrazine  (EXP,ISO)
azathioprine  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
caffeine  (ISO)
calcitriol  (ISO)
cannabidiol  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
cefaloridine  (EXP)
choline  (ISO)
cisplatin  (ISO)
cobalt dichloride  (ISO)
copper atom  (ISO)
copper(0)  (ISO)
copper(II) sulfate  (ISO)
coumarin  (ISO)
coumestrol  (ISO)
cyclosporin A  (ISO)
decabromodiphenyl ether  (EXP)
deguelin  (ISO)
dexamethasone  (ISO)
dibutyl phthalate  (ISO)
dioxygen  (ISO)
doxorubicin  (ISO)
Enterolactone  (ISO)
folic acid  (ISO)
furan  (EXP)
genistein  (ISO)
gentamycin  (EXP)
indometacin  (ISO)
ivermectin  (ISO)
L-methionine  (ISO)
methotrexate  (ISO)
methyl methanesulfonate  (ISO)
methylmercury chloride  (ISO)
miconazole  (ISO)
naphthalene  (ISO)
nickel atom  (ISO)
nickel sulfate  (ISO)
ozone  (ISO)
palbociclib  (ISO)
paracetamol  (ISO)
phenethyl isothiocyanate  (ISO)
phenobarbital  (ISO)
picoxystrobin  (ISO)
pirinixic acid  (ISO)
piroxicam  (ISO)
pregnenolone 16alpha-carbonitrile  (ISO)
propanal  (ISO)
resveratrol  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
sunitinib  (ISO)
tacrolimus hydrate  (ISO)
tert-butyl hydroperoxide  (ISO)
testosterone  (ISO)
tetrachloromethane  (ISO)
thapsigargin  (ISO)
thioacetamide  (EXP)
triclosan  (ISO)
trimellitic anhydride  (ISO)
troglitazone  (ISO)
trovafloxacin  (ISO)
tungsten  (ISO)
tunicamycin  (ISO)
urethane  (ISO)
valproic acid  (ISO)
zoledronic acid  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
CMG complex  (ISO)
GINS complex  (IBA,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
Gins2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21948,626,770 - 48,639,523 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1948,626,770 - 48,639,339 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1955,421,090 - 55,433,627 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01956,101,777 - 56,114,341 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01958,315,053 - 58,327,545 (-)NCBIRnor_WKY
Rnor_6.01954,151,048 - 54,163,701 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1954,151,048 - 54,163,608 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01964,873,928 - 64,886,729 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41950,915,108 - 50,927,668 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11950,923,424 - 50,943,902 (-)NCBI
Celera1947,880,377 - 47,892,745 (-)NCBICelera
Cytogenetic Map19q12NCBI
GINS2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381685,676,198 - 85,688,954 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1685,676,198 - 85,690,073 (-)EnsemblGRCh38hg38GRCh38
GRCh371685,709,804 - 85,722,560 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361684,268,781 - 84,280,081 (-)NCBINCBI36Build 36hg18NCBI36
Celera1670,014,391 - 70,025,701 (-)NCBICelera
Cytogenetic Map16q24.1NCBI
HuRef1671,453,444 - 71,464,751 (-)NCBIHuRef
CHM1_11687,122,632 - 87,133,940 (-)NCBICHM1_1
T2T-CHM13v2.01691,741,711 - 91,754,467 (-)NCBIT2T-CHM13v2.0
Gins2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398121,308,005 - 121,315,814 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8121,305,372 - 121,316,043 (-)EnsemblGRCm39 Ensembl
GRCm388120,581,266 - 120,589,075 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8120,578,633 - 120,589,304 (-)EnsemblGRCm38mm10GRCm38
MGSCv378123,105,166 - 123,112,975 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368123,105,166 - 123,112,975 (-)NCBIMGSCv36mm8
Celera8124,796,891 - 124,804,700 (-)NCBICelera
Cytogenetic Map8E1NCBI
Gins2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955541809,079 - 816,807 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955541809,079 - 816,807 (-)NCBIChiLan1.0ChiLan1.0
GINS2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11685,681,716 - 85,691,625 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1685,681,716 - 85,691,626 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01666,344,706 - 66,356,079 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
GINS2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1566,982,033 - 66,997,115 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl566,982,137 - 67,000,338 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha566,997,756 - 67,012,257 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0567,210,094 - 67,224,295 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl567,210,118 - 67,224,961 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1567,231,886 - 67,245,913 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0567,065,416 - 67,096,781 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0567,480,810 - 67,511,339 (+)NCBIUU_Cfam_GSD_1.0
Gins2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934927,017,226 - 27,022,812 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366412,757,150 - 2,776,681 (+)EnsemblSpeTri2.0
SpeTri2.0NW_0049366412,757,150 - 2,775,904 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
GINS2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl63,218,702 - 3,243,899 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.163,218,655 - 3,252,740 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.263,528,016 - 3,552,398 (+)NCBISscrofa10.2Sscrofa10.2susScr3
GINS2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1571,088,766 - 71,099,845 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl571,089,564 - 71,099,688 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660474,641,567 - 4,651,970 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Gins2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247462,109,667 - 2,116,925 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247462,109,655 - 2,116,957 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Gins2
81 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:372
Count of miRNA genes:213
Interacting mature miRNAs:253
Transcripts:ENSRNOT00000023709
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
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191545586057337602Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191563020157337602Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)191715443357337602Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192048357557337602Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)192932249057337602Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum insulin level (CMO:0000358)193383821455283146Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)193383821455283146Rat
5135224Leukc1Leukocyte quantity QTL 1eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)194434021455283277Rat

Markers in Region
AU047639  
Rat AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map19q12UniSTS
AA963875  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21948,629,193 - 48,629,345 (+)MAPPERmRatBN7.2
Rnor_6.01954,153,472 - 54,153,623NCBIRnor6.0
Rnor_5.01964,876,352 - 64,876,503UniSTSRnor5.0
RGSC_v3.41950,917,532 - 50,917,683UniSTSRGSC3.4
Celera1947,882,801 - 47,882,952UniSTS
RH 3.4 Map19647.5UniSTS
Cytogenetic Map19q12UniSTS
BE108343  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21948,627,603 - 48,627,794 (+)MAPPERmRatBN7.2
Rnor_6.01954,151,882 - 54,152,072NCBIRnor6.0
Rnor_5.01964,874,762 - 64,874,952UniSTSRnor5.0
RGSC_v3.41950,915,942 - 50,916,132UniSTSRGSC3.4
Celera1947,881,211 - 47,881,401UniSTS
RH 3.4 Map19648.3UniSTS
Cytogenetic Map19q12UniSTS


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 4 21 6 19 6 15 15 28 11
Low 39 36 35 35 8 11 59 20 13 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000023709   ⟹   ENSRNOP00000023709
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1948,626,770 - 48,639,339 (-)Ensembl
Rnor_6.0 Ensembl1954,151,048 - 54,163,608 (-)Ensembl
RefSeq Acc Id: NM_001106190   ⟹   NP_001099660
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21948,626,770 - 48,639,339 (-)NCBI
Rnor_6.01954,151,048 - 54,163,608 (-)NCBI
Rnor_5.01964,873,928 - 64,886,729 (-)NCBI
RGSC_v3.41950,915,108 - 50,927,668 (-)RGD
Celera1947,880,377 - 47,892,745 (-)RGD
Sequence:
RefSeq Acc Id: XM_006255735   ⟹   XP_006255797
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21948,627,566 - 48,639,523 (-)NCBI
Rnor_6.01954,154,018 - 54,163,701 (-)NCBI
Rnor_5.01964,873,928 - 64,886,729 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039097644   ⟹   XP_038953572
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21948,629,691 - 48,639,523 (-)NCBI
RefSeq Acc Id: XM_039097645   ⟹   XP_038953573
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21948,629,691 - 48,639,523 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001099660 (Get FASTA)   NCBI Sequence Viewer  
  XP_006255797 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953572 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953573 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL92701 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_001099660   ⟸   NM_001106190
- UniProtKB: D3ZSY6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006255797   ⟸   XM_006255735
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000023709   ⟸   ENSRNOT00000023709
RefSeq Acc Id: XP_038953573   ⟸   XM_039097645
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038953572   ⟸   XM_039097644
- Peptide Label: isoform X2
Protein Domains
Sld5

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZSY6-F1-model_v2 AlphaFold D3ZSY6 1-185 view protein structure

Transcriptome

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

Promoters
RGD ID:13701193
Promoter ID:EPDNEW_R11717
Type:multiple initiation site
Name:Gins2_1
Description:GINS complex subunit 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_6.01954,163,329 - 54,163,389EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311055 AgrOrtholog
BioCyc Gene G2FUF-5479 BioCyc
Ensembl Genes ENSRNOG00000017575 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000023709 ENTREZGENE
  ENSRNOP00000023709.3 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000023709 ENTREZGENE
  ENSRNOT00000023709.5 UniProtKB/TrEMBL
InterPro GINS_bundle-like_dom UniProtKB/TrEMBL
  GINS_complex UniProtKB/TrEMBL
  GINS_Psf2 UniProtKB/TrEMBL
KEGG Report rno:292058 UniProtKB/TrEMBL
NCBI Gene 292058 ENTREZGENE
PANTHER GINS_Psf2 UniProtKB/TrEMBL
Pfam Sld5 UniProtKB/TrEMBL
PhenoGen Gins2 PhenoGen
PIRSF GINS_Psf2_subgr UniProtKB/TrEMBL
Superfamily-SCOP SSF158573 UniProtKB/TrEMBL
UniProt D3ZSY6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-03-29 Gins2  GINS complex subunit 2  Gins2  GINS complex subunit 2 (Psf2 homolog)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-04-23 Gins2  GINS complex subunit 2 (Psf2 homolog)  RGD1311055  similar to HSPC037 protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1311055  similar to HSPC037 protein   RGD1311055_predicted  similar to HSPC037 protein (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-20 RGD1311055_predicted  similar to HSPC037 protein (predicted)  LOC292058_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC292058_predicted  similar to HSPC037 protein (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL