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RPAIN RPA interacting protein [ Homo sapiens (human) ]

Gene ID: 84268, updated on 17-Jun-2019

Summary

Official Symbol
RPAINprovided by HGNC
Official Full Name
RPA interacting proteinprovided by HGNC
Primary source
HGNC:HGNC:28641
See related
Ensembl:ENSG00000129197 MIM:617299
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
RIP; HRIP
Expression
Ubiquitous expression in lymph node (RPKM 8.1), testis (RPKM 8.0) and 25 other tissues See more
Orthologs

Genomic context

See RPAIN in Genome Data Viewer
Location:
17p13.2
Exon count:
7
Annotation release Status Assembly Chr Location
109.20190607 current GRCh38.p13 (GCF_000001405.39) 17 NC_000017.11 (5419641..5433020)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (5322961..5336340)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC100130950 Neighboring gene SLP adaptor and CSK interacting membrane protein Neighboring gene rabaptin, RAB GTPase binding effector protein 1 Neighboring gene uncharacterized LOC105371505 Neighboring gene nucleoporin 88 Neighboring gene complement C1q binding protein Neighboring gene DEAH-box helicase 33 Neighboring gene DHX33 divergent transcript

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 FunctionsWhat's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC4189, FLJ25625, FLJ30490, FLJ42429

Gene Ontology Provided by GOA

Function Evidence Code Pubs
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
protein-containing complex binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
DNA recombination IPI
Inferred from Physical Interaction
more info
PubMed 
DNA repair IPI
Inferred from Physical Interaction
more info
PubMed 
DNA-dependent DNA replication IPI
Inferred from Physical Interaction
more info
PubMed 
protein import into nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein import into nucleus IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
PML body IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
PML body IEA
Inferred from Electronic Annotation
more info
 
cytoplasm IEA
Inferred from Electronic Annotation
more info
 
fibrillar center IDA
Inferred from Direct Assay
more info
 
nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nucleus IDA
Inferred from Direct Assay
more info
 

General protein information

Preferred Names
RPA-interacting protein
Names
RAP interaction protein
nuclear transporter

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_001033002.3NP_001028174.2  RPA-interacting protein isoform b

    See identical proteins and their annotated locations for NP_001028174.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 3' coding region and 3' UTR, compared to variant 1. It encodes isoform b, which has a shorter and distinct C-terminus compared to isoform a.
    Source sequence(s)
    AW268632, AY775314, BC013831, BG059980, BI091755
    Consensus CDS
    CCDS32536.1
    UniProtKB/Swiss-Prot
    Q86UA6
    UniProtKB/TrEMBL
    A0A0B4J1T3
    Related
    ENSP00000370606.3, ENST00000381209.7
    Conserved Domains (3) summary
    pfam14766
    Location:846
    RPA_interact_N; Replication protein A interacting N-terminal
    pfam14767
    Location:60124
    RPA_interact_M; Replication protein A interacting middle
    pfam14768
    Location:137217
    RPA_interact_C; Replication protein A interacting C-terminal
  2. NM_001160243.1NP_001153715.1  RPA-interacting protein isoform a

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (a).
    Source sequence(s)
    AK096001, AK295394, AW268632, AY775314, BC013831
    Consensus CDS
    CCDS54075.1
    UniProtKB/Swiss-Prot
    Q86UA6
    UniProtKB/TrEMBL
    A0A0A0MSE7, B3KTT3
    Related
    ENSP00000385814.4, ENST00000405578.8
    Conserved Domains (3) summary
    pfam14766
    Location:846
    RPA_interact_N; Replication protein A interacting N-terminal
    pfam14767
    Location:60124
    RPA_interact_M; Replication protein A interacting middle
    pfam14768
    Location:137211
    RPA_interact_C; Replication protein A interacting C-terminal
  3. NM_001160244.1NP_001153716.1  RPA-interacting protein isoform c

    See identical proteins and their annotated locations for NP_001153716.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 3' coding region and 3' UTR, compared to variant 1. It encodes isoform c, which has a shorter and distinct C-terminus compared to isoform a.
    Source sequence(s)
    AW268632, AY775316, BC013831, BG059980, BI091755
    Consensus CDS
    CCDS54076.1
    UniProtKB/Swiss-Prot
    Q86UA6
    UniProtKB/TrEMBL
    E9PDG9
    Related
    ENSP00000370605.5, ENST00000381208.9
    Conserved Domains (3) summary
    pfam14766
    Location:846
    RPA_interact_N; Replication protein A interacting N-terminal
    pfam14767
    Location:60124
    RPA_interact_M; Replication protein A interacting middle
    pfam14768
    Location:137165
    RPA_interact_C; Replication protein A interacting C-terminal
  4. NM_001160246.1NP_001153718.1  RPA-interacting protein isoform d

    See identical proteins and their annotated locations for NP_001153718.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 3' UTR and has multiple coding region differences compared to variant 1. This results in a shorter isoform (d) with a distinct C-terminus, compared to isoform a.
    Source sequence(s)
    AW268632, AY775321, BG059980, BI091755, CK005117
    Consensus CDS
    CCDS54079.1
    UniProtKB/Swiss-Prot
    Q86UA6
    Related
    ENSP00000439939.2, ENST00000536255.6
    Conserved Domains (2) summary
    pfam14766
    Location:846
    RPA_interact_N; Replication protein A interacting N-terminal
    cl26943
    Location:66106
    FbpA; Fibronectin-binding protein A N-terminus (FbpA)
  5. NM_001160266.1NP_001153738.1  RPA-interacting protein isoform e

    See identical proteins and their annotated locations for NP_001153738.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) differs in the 3' coding region and 3' UTR, compared to variant 1. It encodes isoform e, which has a shorter and distinct C-terminus compared to isoform a.
    Source sequence(s)
    AA745783, AW268632, AY775314, BG059980, N41653
    Consensus CDS
    CCDS54077.1
    UniProtKB/Swiss-Prot
    Q86UA6
    UniProtKB/TrEMBL
    A0A0A0MR35
    Related
    ENSP00000315069.6, ENST00000327154.10
    Conserved Domains (2) summary
    pfam14766
    Location:846
    RPA_interact_N; Replication protein A interacting N-terminal
    pfam14767
    Location:60124
    RPA_interact_M; Replication protein A interacting middle

RNA

  1. NR_027679.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (8) lacks an internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK096001, AK295394, AW268632, AY775323
  2. NR_027682.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (11) has multiple differences compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AW268632, AY775315, BC004451, BG059980, BI091755
    Related
    ENST00000539417.6
  3. NR_027683.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (12) has multiple differences compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK096001, AW268632, AY775323, BG059980, BI091755
    Related
    ENST00000571558.5
  4. NR_027684.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (13) lacks an alternate internal exon and uses an alternate 3' exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AW268632, AY680658, AY775319, BG059980, BI091755
    Related
    ENST00000573577.5
  5. NR_027685.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (14) has multiple differences compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AW268632, AY775320, BC013831, BG059980, BI091755
    Related
    ENST00000575599.5

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_000017.11 Reference GRCh38.p13 Primary Assembly

    Range
    5419641..5433020
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RNA

  1. XR_001752663.2 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001160267.1: Suppressed sequence

    Description
    NM_001160267.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
  2. NM_032308.1: Suppressed sequence

    Description
    NM_032308.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
  3. NR_027678.1: Suppressed sequence

    Description
    NR_027678.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript.
  4. NR_027680.1: Suppressed sequence

    Description
    NR_027680.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript.
  5. NR_027681.1: Suppressed sequence

    Description
    NR_027681.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript.
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