Human Gene GINS2 (ENST00000253462.8_7) from GENCODE V47lift37
  Description: GINS complex subunit 2 (from RefSeq NM_016095.3)
Gencode Transcript: ENST00000253462.8_7
Gencode Gene: ENSG00000131153.9_11
Transcript (Including UTRs)
   Position: hg19 chr16:85,709,804-85,722,560 Size: 12,757 Total Exon Count: 5 Strand: -
Coding Region
   Position: hg19 chr16:85,711,818-85,722,504 Size: 10,687 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr16:85,709,804-85,722,560)mRNA (may differ from genome)Protein (185 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMGIOMIMPubMedReactomeUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: PSF2_HUMAN
DESCRIPTION: RecName: Full=DNA replication complex GINS protein PSF2; AltName: Full=GINS complex subunit 2;
FUNCTION: The GINS complex plays an essential role in the initiation of DNA replication, and progression of DNA replication forks. GINS complex seems to bind preferentially to single- stranded DNA.
SUBUNIT: Component of the GINS complex which is a heterotetramer of GINS1, GINS2, GINS3 and GINS4. Forms a stable subcomplex with GINS3. GINS complex interacts with DNA primase in vitro.
INTERACTION: O96017:CHEK2; NbExp=2; IntAct=EBI-747491, EBI-1180783;
SUBCELLULAR LOCATION: Nucleus (By similarity).
PTM: Phosphorylated upon DNA damage, probably by ATM or ATR.
MASS SPECTROMETRY: Mass=98373; Mass_error=13; Method=Electrospray; Range=1-185; Note=This is the measured mass for the GINS complex; Source=PubMed:17557111;
SIMILARITY: Belongs to the GINS2/PSF2 family.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene
  • D016604 Aflatoxin B1
  • D001564 Benzo(a)pyrene
  • D010634 Phenobarbital
  • D014212 Tretinoin
  • C006780 bisphenol A
  • C517041 (4-amino-1,4-dihydro-3-(2-pyridyl)-5-thioxo-1,2,4-triazole)copper(II)
  • C028474 1,4-bis(2-(3,5-dichloropyridyloxy))benzene
  • C029497 2,3-bis(3'-hydroxybenzyl)butyrolactone
  • C532162 2-(1H-indazol-4-yl)-6-(4-methanesulfonylpiperazin-1-ylmethyl)-4-morpholin-4-ylthieno(3,2-d)pyrimidine
  • D015123 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide
          more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 18.93 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 63.00 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -24.9056-0.445 Picture PostScript Text
3' UTR -729.602014-0.362 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR021151 - GINS_complex
IPR007257 - GINS_Psf2
IPR016906 - GINS_Psf2_subgr

Pfam Domains:
PF05916 - GINS complex protein

SCOP Domains:
158573 - GINS helical bundle-like
160059 - PriA/YqbF domain

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2E9X - X-ray MuPIT 2EHO - X-ray MuPIT 2Q9Q - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q9Y248
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologGenome BrowserGenome Browser
Gene DetailsGene Details Gene DetailsGene DetailsGene Details
Gene SorterGene Sorter Gene SorterGene SorterGene Sorter
 RGDEnsembl WormBaseSGD
    Protein SequenceProtein Sequence
    AlignmentAlignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0043138 3'-5' DNA helicase activity

Biological Process:
GO:0000727 double-strand break repair via break-induced replication
GO:0006260 DNA replication
GO:0006271 DNA strand elongation involved in DNA replication
GO:0032508 DNA duplex unwinding
GO:1902975 mitotic DNA replication initiation

Cellular Component:
GO:0000811 GINS complex
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0031298 replication fork protection complex


-  Descriptions from all associated GenBank mRNAs
  LF208339 - JP 2014500723-A/15842: Polycomb-Associated Non-Coding RNAs.
LF208340 - JP 2014500723-A/15843: Polycomb-Associated Non-Coding RNAs.
AK223123 - Homo sapiens mRNA for DNA replication complex GINS protein PSF2 variant, clone: KAT08665.
BC010164 - Homo sapiens GINS complex subunit 2 (Psf2 homolog), mRNA (cDNA clone MGC:19836 IMAGE:4098007), complete cds.
AF125098 - Homo sapiens HSPC037 protein mRNA, complete cds.
AF151880 - Homo sapiens CGI-122 protein mRNA, complete cds.
AF201939 - Homo sapiens DC5 (DC5) mRNA, complete cds.
BC003186 - Homo sapiens GINS complex subunit 2 (Psf2 homolog), mRNA (cDNA clone MGC:673 IMAGE:3503268), complete cds.
BC062444 - Homo sapiens GINS complex subunit 2 (Psf2 homolog), mRNA (cDNA clone MGC:72118 IMAGE:6710847), complete cds.
BC022839 - Homo sapiens GINS complex subunit 2 (Psf2 homolog), mRNA (cDNA clone IMAGE:4900757).
AK001275 - Homo sapiens cDNA FLJ10413 fis, clone NT2RP1000063.
AK091519 - Homo sapiens cDNA FLJ34200 fis, clone FCBBF3019663.
CU678432 - Synthetic construct Homo sapiens gateway clone IMAGE:100017991 5' read GINS2 mRNA.
HQ447183 - Synthetic construct Homo sapiens clone IMAGE:100070476; CCSB006891_02 GINS complex subunit 2 (Psf2 homolog) (GINS2) gene, encodes complete protein.
KJ898941 - Synthetic construct Homo sapiens clone ccsbBroadEn_08335 GINS2 gene, encodes complete protein.
KJ906184 - Synthetic construct Homo sapiens clone ccsbBroadEn_15854 GINS2 gene, encodes complete protein.
CR457186 - Homo sapiens full open reading frame cDNA clone RZPDo834H038D for gene Pfs2, DNA replication complex GINS protein PSF2; complete cds, incl. stopcodon.
CU679645 - Synthetic construct Homo sapiens gateway clone IMAGE:100017988 5' read GINS2 mRNA.
LF375006 - JP 2014500723-A/182509: Polycomb-Associated Non-Coding RNAs.
MA443916 - JP 2018138019-A/15842: Polycomb-Associated Non-Coding RNAs.
MA443917 - JP 2018138019-A/15843: Polycomb-Associated Non-Coding RNAs.
MA610583 - JP 2018138019-A/182509: Polycomb-Associated Non-Coding RNAs.
JD079981 - Sequence 61005 from Patent EP1572962.
LF375002 - JP 2014500723-A/182505: Polycomb-Associated Non-Coding RNAs.
JD041186 - Sequence 22210 from Patent EP1572962.
JD169148 - Sequence 150172 from Patent EP1572962.
JD154814 - Sequence 135838 from Patent EP1572962.
JD529093 - Sequence 510117 from Patent EP1572962.
JD193545 - Sequence 174569 from Patent EP1572962.
JD382608 - Sequence 363632 from Patent EP1572962.
JD387070 - Sequence 368094 from Patent EP1572962.
JD041185 - Sequence 22209 from Patent EP1572962.
JD169147 - Sequence 150171 from Patent EP1572962.
JD430264 - Sequence 411288 from Patent EP1572962.
JD430265 - Sequence 411289 from Patent EP1572962.
JD463717 - Sequence 444741 from Patent EP1572962.
JD478462 - Sequence 459486 from Patent EP1572962.
JD543127 - Sequence 524151 from Patent EP1572962.
JD524404 - Sequence 505428 from Patent EP1572962.
JD563386 - Sequence 544410 from Patent EP1572962.
JD155392 - Sequence 136416 from Patent EP1572962.
JD338236 - Sequence 319260 from Patent EP1572962.
JD372840 - Sequence 353864 from Patent EP1572962.
JD147489 - Sequence 128513 from Patent EP1572962.
JD324577 - Sequence 305601 from Patent EP1572962.
LF375003 - JP 2014500723-A/182506: Polycomb-Associated Non-Coding RNAs.
LF375005 - JP 2014500723-A/182508: Polycomb-Associated Non-Coding RNAs.
MA610579 - JP 2018138019-A/182505: Polycomb-Associated Non-Coding RNAs.
MA610580 - JP 2018138019-A/182506: Polycomb-Associated Non-Coding RNAs.
MA610582 - JP 2018138019-A/182508: Polycomb-Associated Non-Coding RNAs.
LF375007 - JP 2014500723-A/182510: Polycomb-Associated Non-Coding RNAs.
JD533370 - Sequence 514394 from Patent EP1572962.
JD077301 - Sequence 58325 from Patent EP1572962.
MA610584 - JP 2018138019-A/182510: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q9Y248 (Reactome details) participates in the following event(s):

R-HSA-176956 Formation of GINS complex
R-HSA-176942 Multiple proteins are localized at replication fork
R-HSA-176974 Unwinding of DNA
R-HSA-69190 DNA strand elongation
R-HSA-69239 Synthesis of DNA
R-HSA-69242 S Phase
R-HSA-69306 DNA Replication
R-HSA-69278 Cell Cycle (Mitotic)
R-HSA-1640170 Cell Cycle

-  Other Names for This Gene
  Alternate Gene Symbols: CGI-122, D3DUM5, DC5, ENST00000253462.1, ENST00000253462.2, ENST00000253462.3, ENST00000253462.4, ENST00000253462.5, ENST00000253462.6, ENST00000253462.7, GINS2 , HSPC037, NM_016095, PSF2, PSF2_HUMAN, Q6IAG9, Q9Y248, uc317flo.1, uc317flo.2
UCSC ID: ENST00000253462.8_7
RefSeq Accession: NM_016095.3
Protein: Q9Y248 (aka PSF2_HUMAN)

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.