U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Palb2 partner and localizer of BRCA2 [ Mus musculus (house mouse) ]

Gene ID: 233826, updated on 12-May-2024

Summary

Official Symbol
Palb2provided by MGI
Official Full Name
partner and localizer of BRCA2provided by MGI
Primary source
MGI:MGI:3040695
See related
Ensembl:ENSMUSG00000044702 AllianceGenome:MGI:3040695
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Summary
Predicted to enable DNA binding activity. Acts upstream of or within several processes, including animal organ development; chordate embryonic development; and post-anal tail morphogenesis. Predicted to be located in nucleus. Predicted to be part of protein-containing complex. Predicted to be active in nucleoplasm. Is expressed in several structures, including adrenal gland; alimentary system; brain; genitourinary system; and immune system. Human ortholog(s) of this gene implicated in Fanconi anemia complementation group N; breast cancer; and pancreatic cancer. Orthologous to human PALB2 (partner and localizer of BRCA2). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in CNS E11.5 (RPKM 3.4), liver E14 (RPKM 3.4) and 26 other tissues See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

See Palb2 in Genome Data Viewer
Location:
7 F2; 7 65.42 cM
Exon count:
14
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 7 NC_000073.7 (121706485..121732203, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 7 NC_000073.6 (122107262..122132980, complement)

Chromosome 7 - NC_000073.7Genomic Context describing neighboring genes Neighboring gene glutamyl-tRNA synthetase 2, mitochondrial Neighboring gene ubiquitin family domain containing 1 Neighboring gene NADH:ubiquinone oxidoreductase subunit AB1 Neighboring gene STARR-positive B cell enhancer ABC_E3748 Neighboring gene 60S ribosomal protein L27-like Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:129276354-129276600 Neighboring gene dynactin 5 Neighboring gene predicted gene 15489 Neighboring gene STARR-positive B cell enhancer ABC_E8206 Neighboring gene CapStarr-seq enhancer MGSCv37_chr7:129303635-129303822 Neighboring gene polo like kinase 1

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • 4732427B05

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA binding IBA
Inferred from Biological aspect of Ancestor
more info
 
enables DNA binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
acts_upstream_of_or_within DNA damage response IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within DNA recombination IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within DNA repair IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within animal organ morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of apoptotic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in double-strand break repair via homologous recombination IBA
Inferred from Biological aspect of Ancestor
more info
 
involved_in double-strand break repair via homologous recombination ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within embryonic organ development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within in utero embryonic development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within inner cell mass cell proliferation IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within mesoderm development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within multicellular organism growth IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within negative regulation of apoptotic process IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within post-anal tail morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within somitogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
part_of DNA repair complex ISO
Inferred from Sequence Orthology
more info
 
located_in nuclear speck ISO
Inferred from Sequence Orthology
more info
 
is_active_in nucleoplasm IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
 
part_of protein-containing complex ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
partner and localizer of BRCA2

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_001081238.2NP_001074707.1  partner and localizer of BRCA2 isoform 1

    See identical proteins and their annotated locations for NP_001074707.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AC124379, BB061170, BC066139, BC066140, BQ560264
    Consensus CDS
    CCDS40117.1
    UniProtKB/Swiss-Prot
    Q3U0P1, Q6NZG9, Q7TMQ4, Q8CEA9
    Related
    ENSMUSP00000095675.4, ENSMUST00000098068.10
    Conserved Domains (1) summary
    pfam16756
    Location:7551102
    PALB2_WD40; Partner and localizer of BRCA2 WD40 domain
  2. NM_001289842.1NP_001276771.1  partner and localizer of BRCA2 isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) contains an alternate 3' terminal exon, compared to variant 1. It encodes isoform 2, which is shorter and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AC124379, BB757034, BC066139, BC066140, BQ560264
    Consensus CDS
    CCDS80797.1
    UniProtKB/TrEMBL
    D3YVU6
    Related
    ENSMUSP00000102076.2, ENSMUST00000106468.7
    Conserved Domains (1) summary
    pfam16756
    Location:755984
    PALB2_WD40; Partner and localizer of BRCA2 WD40 domain
  3. NM_001289843.1NP_001276772.1  partner and localizer of BRCA2 isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) differs in the 5' UTR and 5' coding region, initiates translation at a downstream start codon and contains an alternate 3' terminal exon, compared to variant 1. It encodes isoform 3, which is shorter and has a distinct C-terminus, compared to isoform 1.
    Source sequence(s)
    AC124379, BB757034, BC066139, BC066140, BQ560264
    UniProtKB/Swiss-Prot
    Q3U0P1
    Conserved Domains (1) summary
    pfam16756
    Location:471700
    PALB2_WD40; Partner and localizer of BRCA2 WD40 domain
  4. NM_001289844.1NP_001276773.1  partner and localizer of BRCA2 isoform 4

    See identical proteins and their annotated locations for NP_001276773.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) uses an alternate in-frame splice site in the 5' coding region, compared to variant 1. It encodes isoform 4, which lacks an internal segment and is shorter, compared to isoform 1.
    Source sequence(s)
    BB061170, BC066139, BC066140, BQ560264
    Consensus CDS
    CCDS72035.1
    UniProtKB/Swiss-Prot
    Q3U0P1
    Related
    ENSMUSP00000102077.2, ENSMUST00000106469.8
    Conserved Domains (1) summary
    pfam16756
    Location:392739
    PALB2_WD40; Partner and localizer of BRCA2 WD40 domain
  5. NM_001289845.1NP_001276774.1  partner and localizer of BRCA2 isoform 5

    See identical proteins and their annotated locations for NP_001276774.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) lacks three consecutive exons in the coding region, compared to variant 1. It encodes isoform 5, which lacks an internal in-frame segment and is shorter, compared to isoform 1.
    Source sequence(s)
    BB061170, BC066139, BC066140, BQ560264
    Consensus CDS
    CCDS80796.1
    UniProtKB/TrEMBL
    Q80VS5
    Related
    ENSMUSP00000063514.7, ENSMUST00000063587.13
    Conserved Domains (1) summary
    pfam16756
    Location:36382
    PALB2_WD40; Partner and localizer of BRCA2 WD40 domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000073.7 Reference GRCm39 C57BL/6J

    Range
    121706485..121732203 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011241755.4XP_011240057.1  partner and localizer of BRCA2 isoform X1

    Conserved Domains (1) summary
    pfam16756
    Location:471818
    PALB2_WD40; Partner and localizer of BRCA2 WD40 domain

RNA

  1. XR_869708.1 RNA Sequence

  2. XR_003946463.1 RNA Sequence

  3. XR_003946462.1 RNA Sequence

  4. XR_003946461.1 RNA Sequence

  5. XR_003946464.1 RNA Sequence

  6. XR_004934089.1 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_172744.1: Suppressed sequence

    Description
    NM_172744.1: This RefSeq was suppressed temporarily based on the calculation that the annotated protein was shorter than a protein or proteins from a putative ortholog.