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Pum2 pumilio RNA-binding family member 2 [ Mus musculus (house mouse) ]

Gene ID: 80913, updated on 8-May-2016
Official Symbol
Pum2provided by MGI
Official Full Name
pumilio RNA-binding family member 2provided by MGI
Primary source
MGI:MGI:1931751
See related
Ensembl:ENSMUSG00000020594 Vega:OTTMUSG00000035455
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Sciurognathi; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Pumm2; 5730503J23Rik
Orthologs
Location:
12; 12 A1.3
Exon count:
26
Annotation release Status Assembly Chr Location
105 current GRCm38.p3 (GCF_000001635.23) 12 NC_000078.6 (8674134..8752583)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 12 NC_000078.5 (8680940..8759389)

Chromosome 12 - NC_000078.6Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 5033421B08 gene Neighboring gene solute carrier family 7 (cationic amino acid transporter, y+ system), member 15 Neighboring gene predicted gene, 40267 Neighboring gene predicted gene 4755 Neighboring gene syndecan 1

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • mRNA processing, organism-specific biosystem (from WikiPathways)
    mRNA processing, organism-specific biosystemAdapted from Reactome, see: [http://www.reactome.org/cgi-bin/eventbrowser_st_id?ST_ID=REACT_1675.1 REACT 1675.1] This process describes the conversion of precursor messenger RNA into mature messenge...
Products Interactant Other Gene Complex Source Pubs Description

Markers

Homology

Clone Names

  • mKIAA0235

Gene Ontology Provided by MGI

Function Evidence Code Pubs
RNA binding IDA
Inferred from Direct Assay
more info
PubMed 
RNA binding ISO
Inferred from Sequence Orthology
more info
 
mRNA 3'-UTR binding ISO
Inferred from Sequence Orthology
more info
 
poly(A) RNA binding ISO
Inferred from Sequence Orthology
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
positive regulation of RIG-I signaling pathway ISO
Inferred from Sequence Orthology
more info
 
positive regulation of gene silencing by miRNA ISO
Inferred from Sequence Orthology
more info
 
posttranscriptional regulation of gene expression IMP
Inferred from Mutant Phenotype
more info
PubMed 
posttranscriptional regulation of gene expression ISO
Inferred from Sequence Orthology
more info
PubMed 
regulation of chromosome segregation ISO
Inferred from Sequence Orthology
more info
 
regulation of mRNA stability ISO
Inferred from Sequence Orthology
more info
 
regulation of translation IEA
Inferred from Electronic Annotation
more info
 
stress granule assembly IDA
Inferred from Direct Assay
more info
PubMed 
stress granule assembly ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
cytoplasm ISO
Inferred from Sequence Orthology
more info
 
cytoplasmic stress granule IDA
Inferred from Direct Assay
more info
PubMed 
cytoplasmic stress granule ISO
Inferred from Sequence Orthology
more info
 
dendrite ISO
Inferred from Sequence Orthology
more info
PubMed 
neuronal cell body ISO
Inferred from Sequence Orthology
more info
PubMed 
nuclear membrane ISO
Inferred from Sequence Orthology
more info
 
perinuclear region of cytoplasm ISO
Inferred from Sequence Orthology
more info
 
Preferred Names
pumilio homolog 2
Names
pumilio 2

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_001160219.1NP_001153691.1  pumilio homolog 2 isoform 1

    See identical proteins and their annotated locations for NP_001153691.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript. Both variants 1 and 2 encode the same isoform (1).
    Source sequence(s)
    AK147617, AY027917, BQ828592, CJ124920
    Consensus CDS
    CCDS25802.1
    UniProtKB/Swiss-Prot
    Q80U58
    Related
    ENSMUSP00000131074, OTTMUSP00000049814, ENSMUST00000163569, OTTMUST00000090729
    Conserved Domains (1) summary
    cd07920
    Location:7211044
    Pumilio; Pumilio-family RNA binding domain
  2. NM_001160220.1NP_001153692.1  pumilio homolog 2 isoform 2

    See identical proteins and their annotated locations for NP_001153692.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate in-frame donor splice site in the 3' coding region compared to variant 1. This results in an isoform (2) lacking 2 aa compared to isoform 1. Variants 3 and 4 encode the same isoform.
    Source sequence(s)
    AK141682, AK147617, BQ828592, CJ124920
    Consensus CDS
    CCDS49025.1
    UniProtKB/TrEMBL
    Q3UR91
    Related
    ENSMUSP00000106751, OTTMUSP00000049813, ENSMUST00000111122, OTTMUST00000090728
    Conserved Domains (1) summary
    cd07920
    Location:7211042
    Pumilio; Pumilio-family RNA binding domain
  3. NM_001160221.1NP_001153693.1  pumilio homolog 2 isoform 2

    See identical proteins and their annotated locations for NP_001153693.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR, and uses an alternate in-frame donor splice site in the 3' coding region compared to variant 1. This results in an isoform (2) lacking 2 aa compared to isoform 1. Variants 3 and 4 encode the same isoform.
    Source sequence(s)
    AK134185, AK141682, AK147617, BQ828592
    Consensus CDS
    CCDS49025.1
    UniProtKB/TrEMBL
    Q3UR91
    Related
    ENSMUSP00000106752, OTTMUSP00000049810, ENSMUST00000111123, OTTMUST00000090725
    Conserved Domains (1) summary
    cd07920
    Location:7211042
    Pumilio; Pumilio-family RNA binding domain
  4. NM_001160222.1NP_001153694.1  pumilio homolog 2 isoform 3

    See identical proteins and their annotated locations for NP_001153694.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) differs in the 5' UTR, is missing an in-frame coding exon, and uses an alternate in-frame donor splice site in the 3' coding region compared to variant 1. This results in a shorter isoform (3) compared to isoform 1.
    Source sequence(s)
    AK134185, AK147617, AK163964, BQ828592
    Consensus CDS
    CCDS49026.1
    UniProtKB/Swiss-Prot
    Q80U58
    UniProtKB/TrEMBL
    Q3TQ29
    Related
    ENSMUSP00000137020, ENSMUST00000178015
    Conserved Domains (1) summary
    cd07920
    Location:642963
    Pumilio; Pumilio-family RNA binding domain
  5. NM_001310519.1NP_001297448.1  pumilio homolog 2 isoform 4

    See identical proteins and their annotated locations for NP_001297448.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (7) differs in the 5' UTR, uses two alternate in-frame splice sites in the coding region, and is missing an in-frame coding exon compared to variant 1. This results in a shorter isoform (4) compared to isoform 1.
    Source sequence(s)
    AK134185, AK147617, AK163964, BQ828592
    Consensus CDS
    CCDS79105.1
    UniProtKB/TrEMBL
    Q3TQ29
    Conserved Domains (1) summary
    cd07920
    Location:637958
    Pumilio; Pumilio-family RNA binding domain
  6. NM_030723.2NP_109648.2  pumilio homolog 2 isoform 1

    See identical proteins and their annotated locations for NP_109648.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Both variants 1 and 2 encode the same isoform (1).
    Source sequence(s)
    AC134245, AF315590, AK147617, AY027917, BQ828592
    Consensus CDS
    CCDS25802.1
    UniProtKB/Swiss-Prot
    Q80U58
    Related
    ENSMUSP00000128292, ENSMUST00000168361
    Conserved Domains (1) summary
    cd07920
    Location:7211044
    Pumilio; Pumilio-family RNA binding domain

RNA

  1. NR_027670.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) has multiple differences compared to variant 1, but the presence of two additional exons in the 5' coding region causes a frame-shift. This variant is represented as non-coding because the use of the 5'-most translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK122225, AK147617, BQ828592, CJ124920
    Related
    ENSMUST00000165293, OTTMUST00000090727

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 105 details...

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

Reference GRCm38.p3 C57BL/6J

Genomic

  1. NC_000078.6 Reference GRCm38.p3 C57BL/6J

    Range
    8674134..8752583
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006515279.1XP_006515342.1  

    See identical proteins and their annotated locations for XP_006515342.1

    UniProtKB/Swiss-Prot
    Q80U58
    Conserved Domains (1) summary
    cd07920
    Location:7211044
    Pumilio; Pumilio-family RNA binding domain
  2. XM_006515286.2XP_006515349.1  

    Related
    ENSMUSP00000020915, OTTMUSP00000049811, ENSMUST00000020915, OTTMUST00000090726
    Conserved Domains (1) summary
    cd07920
    Location:637958
    Pumilio; Pumilio-family RNA binding domain
  3. XM_006515282.2XP_006515345.1  

    See identical proteins and their annotated locations for XP_006515345.1

    Conserved Domains (1) summary
    cd07920
    Location:665988
    Pumilio; Pumilio-family RNA binding domain
  4. XM_006515283.2XP_006515346.1  

    See identical proteins and their annotated locations for XP_006515346.1

    Conserved Domains (1) summary
    cd07920
    Location:665988
    Pumilio; Pumilio-family RNA binding domain
  5. XM_006515284.2XP_006515347.1  

    Conserved Domains (1) summary
    cd07920
    Location:642965
    Pumilio; Pumilio-family RNA binding domain
  6. XM_006515285.2XP_006515348.1  

    See identical proteins and their annotated locations for XP_006515348.1

    UniProtKB/Swiss-Prot
    Q80U58
    Related
    ENSMUSP00000132122, OTTMUSP00000049815, ENSMUST00000169089, OTTMUST00000090730
    Conserved Domains (1) summary
    cd07920
    Location:642963
    Pumilio; Pumilio-family RNA binding domain
  7. XM_006515280.2XP_006515343.1  

    Conserved Domains (1) summary
    cd07920
    Location:7161039
    Pumilio; Pumilio-family RNA binding domain
  8. XM_006515277.1XP_006515340.1  

    See identical proteins and their annotated locations for XP_006515340.1

    UniProtKB/Swiss-Prot
    Q80U58
    Conserved Domains (1) summary
    cd07920
    Location:7211044
    Pumilio; Pumilio-family RNA binding domain
  9. XM_006515278.2XP_006515341.1  

    See identical proteins and their annotated locations for XP_006515341.1

    UniProtKB/Swiss-Prot
    Q80U58
    Conserved Domains (1) summary
    cd07920
    Location:7211044
    Pumilio; Pumilio-family RNA binding domain
  10. XM_011243925.1XP_011242227.1  

    See identical proteins and their annotated locations for XP_011242227.1

    UniProtKB/Swiss-Prot
    Q80U58
    Conserved Domains (1) summary
    cd07920
    Location:7211044
    Pumilio; Pumilio-family RNA binding domain
  11. XM_011243926.1XP_011242228.1  

    See identical proteins and their annotated locations for XP_011242228.1

    Conserved Domains (1) summary
    cd07920
    Location:665988
    Pumilio; Pumilio-family RNA binding domain
  12. XM_011243927.1XP_011242229.1  

    See identical proteins and their annotated locations for XP_011242229.1

    Conserved Domains (1) summary
    cd07920
    Location:665988
    Pumilio; Pumilio-family RNA binding domain

Alternate Mm_Celera

Genomic

  1. AC_000034.1 Alternate Mm_Celera

    Range
    9059182..9137555
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)