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Phf21b PHD finger protein 21B [ Mus musculus (house mouse) ]

Gene ID: 271305, updated on 5-Mar-2024

Summary

Official Symbol
Phf21bprovided by MGI
Official Full Name
PHD finger protein 21Bprovided by MGI
Primary source
MGI:MGI:2443812
See related
Ensembl:ENSMUSG00000016624 AllianceGenome:MGI:2443812
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
Also known as
A730032D07Rik
Summary
Predicted to enable metal ion binding activity. Is expressed in several structures, including central nervous system; dorsal root ganglion; lens; and lower urinary tract. Orthologous to human PHF21B (PHD finger protein 21B). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in CNS E11.5 (RPKM 19.3), whole brain E14.5 (RPKM 16.1) and 13 other tissues See more
Orthologs
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Genomic context

See Phf21b in Genome Data Viewer
Location:
15 E2; 15 40.08 cM
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 15 NC_000081.7 (84669577..84740330, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 15 NC_000081.6 (84785376..84856129, complement)

Chromosome 15 - NC_000081.7Genomic Context describing neighboring genes Neighboring gene predicted gene, 41374 Neighboring gene STARR-seq mESC enhancer starr_39372 Neighboring gene predicted gene, 20556 Neighboring gene Rho GTPase activating protein 8 Neighboring gene predicted gene, 52202 Neighboring gene glyceraldehyde-3-phosphate dehydrogenase pseudogene Neighboring gene predicted gene, 46528

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

Variation

Alleles

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

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_001081166.2NP_001074635.2  PHD finger protein 21B isoform 1

    See identical proteins and their annotated locations for NP_001074635.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longer protein.
    Source sequence(s)
    AK046530, AL513352, BM936475
    Consensus CDS
    CCDS37169.2
    UniProtKB/Swiss-Prot
    Q8C966
    UniProtKB/TrEMBL
    B2RXP2
    Related
    ENSMUSP00000125355.2, ENSMUST00000159939.8
    Conserved Domains (1) summary
    cl22851
    Location:309351
    PHD_SF; PHD finger superfamily
  2. NM_001356573.1NP_001343502.1  PHD finger protein 21B isoform 2

    Status: VALIDATED

    Source sequence(s)
    AL513352
    Consensus CDS
    CCDS88821.1
    UniProtKB/TrEMBL
    B2RXP2, F8WGM2
    Related
    ENSMUSP00000016768.6, ENSMUST00000016768.12
    Conserved Domains (4) summary
    COG5118
    Location:132252
    BDP1; Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
    cl22851
    Location:297339
    PHD_SF; PHD finger superfamily
    cl26267
    Location:241343
    ING; Inhibitor of growth proteins N-terminal histone-binding
    cl26464
    Location:50161
    Atrophin-1; Atrophin-1 family

RNA

  1. NR_030731.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate internal exon, compared to variant 1. This variant is represented as non-coding because the use of the supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AK046530, AL513352, BM936475

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_000081.7 Reference GRCm39 C57BL/6J

    Range
    84669577..84740330 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006521034.4XP_006521097.1  PHD finger protein 21B isoform X1

    UniProtKB/TrEMBL
    B2RXP2
    Conserved Domains (4) summary
    PHA03247
    Location:40151
    PHA03247; large tegument protein UL36; Provisional
    COG5034
    Location:231333
    TNG2; Chromatin remodeling protein, contains PhD zinc finger [Chromatin structure and dynamics]
    COG5118
    Location:122242
    BDP1; Transcription initiation factor TFIIIB, Bdp1 subunit [Transcription]
    cl22851
    Location:287329
    PHD_SF; PHD finger superfamily
  2. XM_036159445.1XP_036015338.1  PHD finger protein 21B isoform X2

    Conserved Domains (2) summary
    PHA03247
    Location:15279
    PHA03247; large tegument protein UL36; Provisional
    cl22851
    Location:355397
    PHD_SF; PHD finger superfamily
  3. XM_017316655.3XP_017172144.1  PHD finger protein 21B isoform X3

    Conserved Domains (1) summary
    PHA03247
    Location:15279
    PHA03247; large tegument protein UL36; Provisional

RNA

  1. XR_003951399.1 RNA Sequence