Human Gene GINS4 (uc003xnx.3) Description and Page Index
  Description: Homo sapiens GINS complex subunit 4 (Sld5 homolog) (GINS4), mRNA.
RefSeq Summary (NM_032336): The yeast heterotetrameric GINS complex is made up of Sld5, Psf1 (GINS1; MIM 610608), Psf2 (GINS2; MIM 610609), and Psf3 (GINS3; MIM 610610). The formation of the GINS complex is essential for the initiation of DNA replication in yeast and Xenopus egg extracts (Ueno et al., 2005 [PubMed 16287864]). See GINS1 for additional information about the GINS complex.[supplied by OMIM, Mar 2008]. Sequence Note: This RefSeq record was created from transcript and genomic sequence data to make the sequence consistent with the reference genome assembly. The genomic coordinates used for the transcript record were based on transcript alignments. ##Evidence-Data-START## Transcript exon combination :: AK313373.1, AK095334.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMEA1965299, SAMEA1966682 [ECO:0000348] ##Evidence-Data-END## ##RefSeq-Attributes-START## MANE Ensembl match :: ENST00000276533.4/ ENSP00000276533.3 RefSeq Select criteria :: based on conservation, expression, longest protein ##RefSeq-Attributes-END##
Transcript (Including UTRs)
   Position: hg19 chr8:41,386,725-41,402,565 Size: 15,841 Total Exon Count: 8 Strand: +
Coding Region
   Position: hg19 chr8:41,387,722-41,399,606 Size: 11,885 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr8:41,386,725-41,402,565)mRNA (may differ from genome)Protein (223 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedReactomeStanford SOURCETreefam
UniProtKB

-  Comments and Description Text from UniProtKB
  ID: SLD5_HUMAN
DESCRIPTION: RecName: Full=DNA replication complex GINS protein SLD5; AltName: Full=GINS complex subunit 4;
FUNCTION: The GINS complex plays an essential role in the initiation of DNA replication, and progression of DNA replication forks. GINS4 is important for GINS complex assembly. 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 GINS1. GINS complex interacts with DNA primase in vitro.
SUBCELLULAR LOCATION: Cytoplasm (By similarity). Nucleus (By similarity).
INDUCTION: Significantly up-regulated in agressive melanomas.
MASS SPECTROMETRY: Mass=98373; Mass_error=13; Method=Electrospray; Range=1-223; Note=This is the measured mass for the GINS complex; Source=PubMed:17557111;
SIMILARITY: Belongs to the GINS4/SLD5 family.

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           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: 7.10 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 24.35 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 -68.50210-0.326 Picture PostScript Text
3' UTR -1207.142959-0.408 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
IPR008591 - GINS_Sld5

Pfam Domains:
PF05916 - GINS complex protein
PF16922 - DNA replication complex GINS protein SLD5 C-terminus

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 Q9BRT9
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 orthologGenome BrowserGenome BrowserGenome BrowserGenome BrowserGenome Browser
Gene DetailsGene Details Gene DetailsGene DetailsGene Details
Gene SorterGene Sorter Gene SorterGene SorterGene Sorter
 RGDEnsemblFlyBaseWormBaseSGD
 Protein SequenceProtein SequenceProtein SequenceProtein SequenceProtein Sequence
 AlignmentAlignmentAlignmentAlignmentAlignment

-  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:0001833 inner cell mass cell proliferation
GO:0006260 DNA replication
GO:0006261 DNA-dependent DNA replication
GO:0006270 DNA replication initiation
GO:0006271 DNA strand elongation involved in DNA replication
GO:0032508 DNA duplex unwinding

Cellular Component:
GO:0000811 GINS complex
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0031298 replication fork protection complex


-  Descriptions from all associated GenBank mRNAs
  LF384346 - JP 2014500723-A/191849: Polycomb-Associated Non-Coding RNAs.
AK299207 - Homo sapiens cDNA FLJ50176 complete cds, moderately similar to Homo sapiens SLD5 homolog (SLD5), mRNA.
BC027454 - Homo sapiens GINS complex subunit 4 (Sld5 homolog), mRNA (cDNA clone IMAGE:4994426), complete cds.
BC005995 - Homo sapiens GINS complex subunit 4 (Sld5 homolog), mRNA (cDNA clone MGC:14799 IMAGE:4068454), complete cds.
JD508518 - Sequence 489542 from Patent EP1572962.
JD440710 - Sequence 421734 from Patent EP1572962.
AK095334 - Homo sapiens cDNA FLJ38015 fis, clone CTONG2012661, highly similar to Homo sapiens SLD5 homolog (SLD5), mRNA.
AK313373 - Homo sapiens cDNA, FLJ93904.
JD239932 - Sequence 220956 from Patent EP1572962.
DQ596109 - Homo sapiens piRNA piR-34175, complete sequence.
LF371653 - JP 2014500723-A/179156: Polycomb-Associated Non-Coding RNAs.
LF371652 - JP 2014500723-A/179155: Polycomb-Associated Non-Coding RNAs.
LF371651 - JP 2014500723-A/179154: Polycomb-Associated Non-Coding RNAs.
LF371650 - JP 2014500723-A/179153: Polycomb-Associated Non-Coding RNAs.
JD533743 - Sequence 514767 from Patent EP1572962.
JD373413 - Sequence 354437 from Patent EP1572962.
JD500509 - Sequence 481533 from Patent EP1572962.
JD556275 - Sequence 537299 from Patent EP1572962.
JD430443 - Sequence 411467 from Patent EP1572962.
JD557533 - Sequence 538557 from Patent EP1572962.
JD529652 - Sequence 510676 from Patent EP1572962.
JD170156 - Sequence 151180 from Patent EP1572962.
JD170157 - Sequence 151181 from Patent EP1572962.
JD307023 - Sequence 288047 from Patent EP1572962.
JD322905 - Sequence 303929 from Patent EP1572962.
JD401526 - Sequence 382550 from Patent EP1572962.
JD401527 - Sequence 382551 from Patent EP1572962.
JD401528 - Sequence 382552 from Patent EP1572962.
JD215828 - Sequence 196852 from Patent EP1572962.
JD447149 - Sequence 428173 from Patent EP1572962.
JD534877 - Sequence 515901 from Patent EP1572962.
JD366727 - Sequence 347751 from Patent EP1572962.
JD518022 - Sequence 499046 from Patent EP1572962.
LF371649 - JP 2014500723-A/179152: Polycomb-Associated Non-Coding RNAs.
JD174216 - Sequence 155240 from Patent EP1572962.
JD513917 - Sequence 494941 from Patent EP1572962.
JD379661 - Sequence 360685 from Patent EP1572962.
JD311778 - Sequence 292802 from Patent EP1572962.
JD311779 - Sequence 292803 from Patent EP1572962.
MA619923 - JP 2018138019-A/191849: Polycomb-Associated Non-Coding RNAs.
MA607230 - JP 2018138019-A/179156: Polycomb-Associated Non-Coding RNAs.
MA607229 - JP 2018138019-A/179155: Polycomb-Associated Non-Coding RNAs.
MA607228 - JP 2018138019-A/179154: Polycomb-Associated Non-Coding RNAs.
MA607227 - JP 2018138019-A/179153: Polycomb-Associated Non-Coding RNAs.
MA607226 - JP 2018138019-A/179152: Polycomb-Associated Non-Coding RNAs.

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

Protein Q9BRT9 (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: B2R8H5, D3DSY0, NM_032336, NP_115712, Q8N648, Q9BRT9, SLD5, SLD5_HUMAN
UCSC ID: uc003xnx.3
RefSeq Accession: NM_032336
Protein: Q9BRT9 (aka SLD5_HUMAN)
CCDS: CCDS6116.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_032336.2
exon count: 8CDS single in 3' UTR: no RNA size: 3841
ORF size: 672CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1544.00frame shift in genome: no % Coverage: 100.00
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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.