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PCID2 PCI domain containing 2 [ Homo sapiens (human) ]

Gene ID: 55795, updated on 4-Dec-2022

Summary

Official Symbol
PCID2provided by HGNC
Official Full Name
PCI domain containing 2provided by HGNC
Primary source
HGNC:HGNC:25653
See related
Ensembl:ENSG00000126226 MIM:613713; AllianceGenome:HGNC:25653
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
Also known as
F10
Summary
This gene encodes a component of the TREX-2 complex (transcription and export complex 2), which regulates mRNA export from the nucleus. This protein regulates expression of Mad2 mitotic arrest deficient-like 1, a cell division checkpoint protein. This protein also interacts with and stabilizes Brca2 (breast cancer 2) protein. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Mar 2016]
Expression
Ubiquitous expression in testis (RPKM 6.6), ovary (RPKM 4.5) and 25 other tissues See more
Orthologs
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Genomic context

See PCID2 in Genome Data Viewer
Location:
13q34
Exon count:
22
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 13 NC_000013.11 (113165002..113208669, complement)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 13 NC_060937.1 (112429885..112461015, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (113831850..113862983, complement)

Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene WAS/WASL-interacting protein family member 2-like Neighboring gene uncharacterized LOC124903216 Neighboring gene protein Z, vitamin K dependent plasma glycoprotein Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr13:113841395-113842594 Neighboring gene cullin 4A Neighboring gene microRNA 8075 Neighboring gene Sharpr-MPRA regulatory region 2925

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?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ11305, FLJ39706, FLJ99362, MGC16774, DKFZp686C20226

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables double-stranded DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in heterochromatin organization ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in negative regulation of apoptotic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of cysteine-type endopeptidase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of lymphoid progenitor cell differentiation ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in negative regulation of transcription initiation by RNA polymerase II ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in poly(A)+ mRNA export from nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in positive regulation of B cell differentiation IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of DNA-templated transcription IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of mitotic cell cycle spindle assembly checkpoint IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in post-transcriptional tethering of RNA polymerase II gene DNA at nuclear periphery IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in protein transport IEA
Inferred from Electronic Annotation
more info
 
involved_in regulation of mRNA stability IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in spleen development ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in transcription elongation by RNA polymerase II promoter IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Component Evidence Code Pubs
located_in cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 
part_of nuclear pore nuclear basket IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 
part_of transcription export complex 2 IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
part_of transcription export complex 2 IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
PCI domain-containing protein 2
Names
CSN12-like protein

NCBI Reference Sequences (RefSeq)

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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_001127202.4NP_001120674.1  PCI domain-containing protein 2 isoform 1

    See identical proteins and their annotated locations for NP_001120674.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes isoform 1. Variants 1, 2, and 3 encode the same isoform (1).
    Source sequence(s)
    AA779868, AI272719, AK001185, AL137002
    Consensus CDS
    CCDS9532.2
    UniProtKB/Swiss-Prot
    Q5JVF3, Q9NWH3
    Related
    ENSP00000337405.4, ENST00000337344.9
    Conserved Domains (1) summary
    cl02111
    Location:80393
    PCI; PCI domain
  2. NM_001127203.4NP_001120675.1  PCI domain-containing protein 2 isoform 1

    See identical proteins and their annotated locations for NP_001120675.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) lacks a segment in the 3' UTR compared to variant 1. Variants 1, 2, and 3 encode the same isoform (1).
    Source sequence(s)
    AA779868, AI272719, AL137002, BC016614, HY174088
    Consensus CDS
    CCDS9532.2
    UniProtKB/Swiss-Prot
    Q5JVF3, Q9NWH3
    Related
    ENSP00000364626.1, ENST00000375477.5
    Conserved Domains (1) summary
    cl02111
    Location:80393
    PCI; PCI domain
  3. NM_001258213.3NP_001245142.1  PCI domain-containing protein 2 isoform 3

    See identical proteins and their annotated locations for NP_001245142.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at an alternate start codon compared to variant 1. The encoded isoform (3) has a shorter, distinct N-terminus compared to isoform 1. Variants 5 and 6 encode the same isoform (3).
    Source sequence(s)
    AA779868, AI272719, AL136221, AL137002, BC031246, BM932149, DA058550
    Consensus CDS
    CCDS58301.1
    UniProtKB/Swiss-Prot
    Q5JVF3
    Related
    ENSP00000364606.2, ENST00000375457.2
    Conserved Domains (1) summary
    cl02111
    Location:78391
    PCI; PCI domain
  4. NM_001320655.2NP_001307584.1  PCI domain-containing protein 2 isoform 3

    Status: REVIEWED

    Description
    Transcript Variant: This variant (6) differs in the 5' and 3' UTRs, lacks a portion of the 5' coding region, and initiates translation at an alternate start codon compared to variant 1. The encoded isoform (3) has a shorter, distinct N-terminus compared to isoform 1. Variants 5 and 6 encode the same isoform (3).
    Source sequence(s)
    AA779868, AI272719, AK098706, AL136221, AL137002, BC031246, BM932149, DA058550
    Consensus CDS
    CCDS58301.1
    UniProtKB/Swiss-Prot
    Q5JVF3
    Related
    ENSP00000364608.1, ENST00000375459.5
    Conserved Domains (1) summary
    cl02111
    Location:78391
    PCI; PCI domain
  5. NM_001320656.2NP_001307585.1  PCI domain-containing protein 2 isoform 2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7) uses two alternate splice sites, but maintains the reading frame, and lacks a segment in the 3' UTR, compared to variant 1. The encoded isoform (2) is longer than isoform 1.
    Source sequence(s)
    AA779868, AI272719, AK002167, AL137002, BC016614, BC031246
    Consensus CDS
    CCDS58302.1
    UniProtKB/Swiss-Prot
    Q5JVF3
    UniProtKB/TrEMBL
    A0A024RE04
    Related
    ENSP00000246505.5, ENST00000246505.9
    Conserved Domains (1) summary
    cl02111
    Location:190447
    PCI; PCI domain
  6. NM_001320657.2NP_001307586.1  PCI domain-containing protein 2 isoform 4

    Status: REVIEWED

    Description
    Transcript Variant: This variant (8) uses an alternate splice site in the 3' coding region, which results in a frameshift, compared to variant 1. The encoded isoform (4) has a longer, distinct C-terminus than isoform 1.
    Source sequence(s)
    AA779868, AI272719, AK001185, AK002167, AL137002, AL546858, BI763234
    UniProtKB/Swiss-Prot
    Q5JVF3
    Conserved Domains (1) summary
    cl02111
    Location:80368
    PCI; PCI domain
  7. NM_001320659.2NP_001307588.1  PCI domain-containing protein 2 isoform 5

    Status: REVIEWED

    Description
    Transcript Variant: This variant (9) uses an alternate splice site and lacks a segment in the 3' coding region, which results in a frameshift, compared to variant 1. The encoded isoform (5) has a longer, distinct C-terminus compared to isoform 1.
    Source sequence(s)
    AL136221, AL137002
    Conserved Domains (1) summary
    cl02111
    Location:80368
    PCI; PCI domain
  8. NM_001320660.2NP_001307589.1  PCI domain-containing protein 2 isoform 6

    Status: REVIEWED

    Description
    Transcript Variant: This variant (10) differs in the 5' UTR, lacks a portion of the 5' coding region, and uses an alternate splice site in the 3' coding region, compared to variant 1. It initiates translation at an alternate start codon. The encoded isoform (6) has distinct N- and C-termini and is longer than isoform 1.
    Source sequence(s)
    AA779868, AI272719, AK001185, AL136221, AL137002, BC031246, BI763234, BM932149, DA058550
    UniProtKB/Swiss-Prot
    Q5JVF3
    Conserved Domains (1) summary
    cl02111
    Location:78366
    PCI; PCI domain
  9. NM_001353091.2NP_001340020.1  PCI domain-containing protein 2 isoform 7

    Status: REVIEWED

    Source sequence(s)
    AL136221, AL137002
    Conserved Domains (1) summary
    cl02111
    Location:38351
    PCI; PCI domain
  10. NM_001353092.2NP_001340021.1  PCI domain-containing protein 2 isoform 3

    Status: REVIEWED

    Source sequence(s)
    AL136221, AL137002
    Consensus CDS
    CCDS58301.1
    Conserved Domains (1) summary
    cl02111
    Location:78391
    PCI; PCI domain
  11. NM_001353093.2NP_001340022.1  PCI domain-containing protein 2 isoform 7

    Status: REVIEWED

    Source sequence(s)
    AL136221, AL137002
    Conserved Domains (1) summary
    cl02111
    Location:38351
    PCI; PCI domain
  12. NM_001353094.2NP_001340023.1  PCI domain-containing protein 2 isoform 7

    Status: REVIEWED

    Source sequence(s)
    AL136221, AL137002
    Conserved Domains (1) summary
    cl02111
    Location:38351
    PCI; PCI domain
  13. NM_001353095.2NP_001340024.1  PCI domain-containing protein 2 isoform 8

    Status: REVIEWED

    Source sequence(s)
    AL136221, AL137002
    Conserved Domains (1) summary
    cl02111
    Location:2226
    PCI; PCI domain
  14. NM_018386.5NP_060856.2  PCI domain-containing protein 2 isoform 1

    See identical proteins and their annotated locations for NP_060856.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks a segment in the 3' UTR compared to variant 1. Variants 1, 2, and 3 encode the same isoform (1).
    Source sequence(s)
    AA779868, AI272719, AK023313, AL137002, HY174088
    Consensus CDS
    CCDS9532.2
    UniProtKB/Swiss-Prot
    Q5JVF3, Q9NWH3
    Related
    ENSP00000364628.2, ENST00000375479.6
    Conserved Domains (1) summary
    cl02111
    Location:80393
    PCI; PCI domain

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000013.11 Reference GRCh38.p14 Primary Assembly

    Range
    113165002..113208669 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047430477.1XP_047286433.1  PCI domain-containing protein 2 isoform X1

  2. XM_047430478.1XP_047286434.1  PCI domain-containing protein 2 isoform X2

  3. XM_047430479.1XP_047286435.1  PCI domain-containing protein 2 isoform X3

  4. XM_047430480.1XP_047286436.1  PCI domain-containing protein 2 isoform X4

  5. XM_005268325.5XP_005268382.1  PCI domain-containing protein 2 isoform X5

    Conserved Domains (1) summary
    cl02111
    Location:80228
    PCI; PCI domain
  6. XM_047430481.1XP_047286437.1  PCI domain-containing protein 2 isoform X6

RNA

  1. XR_001749631.2 RNA Sequence

  2. XR_007063692.1 RNA Sequence

  3. XR_007063691.1 RNA Sequence

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060937.1 Alternate T2T-CHM13v2.0

    Range
    112429885..112461015 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001258212.1: Suppressed sequence

    Description
    NM_001258212.1: This RefSeq was removed because currently there is insufficient support for the transcript.