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TIPIN TIMELESS interacting protein [ Homo sapiens (human) ]

Gene ID: 54962, updated on 11-Sep-2019

Summary

Official Symbol
TIPINprovided by HGNC
Official Full Name
TIMELESS interacting proteinprovided by HGNC
Primary source
HGNC:HGNC:30750
See related
Ensembl:ENSG00000075131 MIM:610716
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
The protein encoded by this gene is part of the replisome complex, a group of proteins that support DNA replication. It binds TIM, which is involved in circadian rhythm regulation, and aids in protecting cells against DNA damage and stress. Two pseudogenes and two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2014]
Expression
Broad expression in testis (RPKM 3.8), lymph node (RPKM 1.8) and 24 other tissues See more
Orthologs

Genomic context

See TIPIN in Genome Data Viewer
Location:
15q22.31
Exon count:
12
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) 15 NC_000015.10 (66334974..66387273, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (66629008..66679074, complement)

Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene multiple EGF like domains 11 Neighboring gene microRNA 4311 Neighboring gene uncharacterized LOC105370868 Neighboring gene DIS3 like exosome 3'-5' exoribonuclease Neighboring gene small Cajal body-specific RNA 14 Neighboring gene ribosomal protein L9 pseudogene 25 Neighboring gene mitogen-activated protein kinase kinase 1 Neighboring gene ATP synthase membrane subunit f pseudogene 6 Neighboring gene ribosomal protein L35a pseudogene 32

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from BioSystems

  • DNA Double-Strand Break Repair, organism-specific biosystem (from REACTOME)
    DNA Double-Strand Break Repair, organism-specific biosystemNumerous types of DNA damage can occur within a cell due to the endogenous production of oxygen free radicals, normal alkylation reactions, or exposure to exogenous radiations and chemicals. Double-s...
  • DNA Repair, organism-specific biosystem (from REACTOME)
    DNA Repair, organism-specific biosystemDNA repair is a phenomenal multi-enzyme, multi-pathway system required to ensure the integrity of the cellular genome. Living organisms are constantly exposed to harmful metabolic by-products, enviro...
  • HDR through Homologous Recombination (HR) or Single Strand Annealing (SSA), organism-specific biosystem (from REACTOME)
    HDR through Homologous Recombination (HR) or Single Strand Annealing (SSA), organism-specific biosystemHomology directed repair (HDR) of replication-independent DNA double strand breaks (DSBs) via homologous recombination repair (HRR) or single strand annealing (SSA) requires the activation of ATM fol...
  • Homology Directed Repair, organism-specific biosystem (from REACTOME)
    Homology Directed Repair, organism-specific biosystemHomology directed repair (HDR) of DNA double strand breaks (DSBs) requires resection of DNA DSB ends. Resection creates 3'-ssDNA overhangs which then anneal with a homologous DNA sequence. This homol...
  • Processing of DNA double-strand break ends, organism-specific biosystem (from REACTOME)
    Processing of DNA double-strand break ends, organism-specific biosystemHomology directed repair (HDR) through homologous recombination (HRR) or single strand annealing (SSA) requires extensive resection of DNA double strand break (DSB) ends (Thompson and Limoli 2003, Ci...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ20516

Gene Ontology Provided by GOA

Function Evidence Code Pubs
DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
DNA replication TAS
Traceable Author Statement
more info
 
DNA replication checkpoint IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
DNA replication checkpoint IMP
Inferred from Mutant Phenotype
more info
PubMed 
cell cycle phase transition IMP
Inferred from Mutant Phenotype
more info
PubMed 
cell division IEA
Inferred from Electronic Annotation
more info
 
intra-S DNA damage checkpoint IMP
Inferred from Mutant Phenotype
more info
PubMed 
positive regulation of cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of nuclear cell cycle DNA replication TAS
Traceable Author Statement
more info
PubMed 
replication fork arrest IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
replication fork protection IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
response to UV IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cytoplasm IEA
Inferred from Electronic Annotation
more info
 
intracellular membrane-bounded organelle IDA
Inferred from Direct Assay
more info
 
nuclear chromatin IDA
Inferred from Direct Assay
more info
PubMed 
nucleoplasm TAS
Traceable Author Statement
more info
 
nucleus IDA
Inferred from Direct Assay
more info
PubMed 
replication fork protection complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
TIMELESS-interacting protein
Names
CSM3 homolog

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001289986.1NP_001276915.1  TIMELESS-interacting protein isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks an alternate exon compared to variant 1. This difference causes translation initiation at a downstream AUG and results in an isoform (2) with a shorter N-terminus compared to isoform 1.
    Source sequence(s)
    AC055855, AK000523, AK299233, BU596053, BU688750
    UniProtKB/Swiss-Prot
    Q9BVW5
    UniProtKB/TrEMBL
    B4DRF3
    Conserved Domains (1) summary
    pfam07962
    Location:247
    Swi3; Replication Fork Protection Component Swi3
  2. NM_017858.3NP_060328.3  TIMELESS-interacting protein isoform 1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
    Source sequence(s)
    AC055855
    Consensus CDS
    CCDS10215.1
    Related
    ENSP00000261881.4, ENST00000261881.9
    Conserved Domains (1) summary
    pfam07962
    Location:66148
    Swi3; Replication Fork Protection Component Swi3

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000015.10 Reference GRCh38.p13 Primary Assembly

    Range
    66334974..66387273 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017022391.2XP_016877880.1  TIMELESS-interacting protein isoform X3

    Conserved Domains (1) summary
    pfam07962
    Location:247
    Swi3; Replication Fork Protection Component Swi3
  2. XM_024449974.1XP_024305742.1  TIMELESS-interacting protein isoform X3

    Conserved Domains (1) summary
    pfam07962
    Location:247
    Swi3; Replication Fork Protection Component Swi3
  3. XM_024449973.1XP_024305741.1  TIMELESS-interacting protein isoform X3

    Conserved Domains (1) summary
    pfam07962
    Location:247
    Swi3; Replication Fork Protection Component Swi3
  4. XM_005254521.3XP_005254578.2  TIMELESS-interacting protein isoform X1

    Conserved Domains (1) summary
    pfam07962
    Location:113195
    Swi3; Replication Fork Protection Component Swi3
  5. XM_024449972.1XP_024305740.1  TIMELESS-interacting protein isoform X2

    Related
    ENSP00000457406.1, ENST00000562124.5
    Conserved Domains (1) summary
    pfam07962
    Location:66148
    Swi3; Replication Fork Protection Component Swi3
  6. XM_024449971.1XP_024305739.1  TIMELESS-interacting protein isoform X2

    Conserved Domains (1) summary
    pfam07962
    Location:66148
    Swi3; Replication Fork Protection Component Swi3
  7. XM_017022390.1XP_016877879.1  TIMELESS-interacting protein isoform X2

    UniProtKB/Swiss-Prot
    Q9BVW5
    Conserved Domains (1) summary
    pfam07962
    Location:66148
    Swi3; Replication Fork Protection Component Swi3
  8. XM_011521743.1XP_011520045.1  TIMELESS-interacting protein isoform X2

    See identical proteins and their annotated locations for XP_011520045.1

    UniProtKB/Swiss-Prot
    Q9BVW5
    Conserved Domains (1) summary
    pfam07962
    Location:66148
    Swi3; Replication Fork Protection Component Swi3
  9. XM_005254522.4XP_005254579.1  TIMELESS-interacting protein isoform X2

    See identical proteins and their annotated locations for XP_005254579.1

    UniProtKB/Swiss-Prot
    Q9BVW5
    Conserved Domains (1) summary
    pfam07962
    Location:66148
    Swi3; Replication Fork Protection Component Swi3
  10. XM_006720594.3XP_006720657.1  TIMELESS-interacting protein isoform X2

    See identical proteins and their annotated locations for XP_006720657.1

    UniProtKB/Swiss-Prot
    Q9BVW5
    Conserved Domains (1) summary
    pfam07962
    Location:66148
    Swi3; Replication Fork Protection Component Swi3
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