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Fam47e family with sequence similarity 47, member E [ Mus musculus (house mouse) ]

Gene ID: 384198, updated on 11-Apr-2024

Summary

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Official Symbol
Fam47eprovided by MGI
Official Full Name
family with sequence similarity 47, member Eprovided by MGI
Primary source
MGI:MGI:2686227
See related
Ensembl:ENSMUSG00000057068 AllianceGenome:MGI:2686227
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
Gm1381; C730043O17
Summary
Predicted to enable enzyme activator activity. Predicted to be located in chromatin; cytoplasm; and nucleus. Orthologous to several human genes including FAM47E-STBD1 (FAM47E-STBD1 readthrough). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in liver E18 (RPKM 2.3), lung adult (RPKM 1.8) and 8 other tissues See more
Orthologs
human all
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Genomic context

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Location:
5 E2; 5 47.09 cM
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (92702823..92739144)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (92554960..92591285)

Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:92864208-92864361 Neighboring gene nucleoporin 54 Neighboring gene predicted gene, 42114 Neighboring gene scavenger receptor class B, member 2 Neighboring gene microRNA 6415 Neighboring gene STARR-seq mESC enhancer starr_13641 Neighboring gene STARR-seq mESC enhancer starr_13643 Neighboring gene STARR-positive B cell enhancer ABC_E10330 Neighboring gene STARR-seq mESC enhancer starr_13648 Neighboring gene coiled-coil domain containing 158 Neighboring gene VISTA enhancer mm187 Neighboring gene starch binding domain 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. The nuclear localization pattern and interaction partners of GTF2IRD1 demonstrate a role in chromatin regulation. Carmona-Mora P, et al. Hum Genet, 2015 Oct. PMID 26275350
  2. Cracking the egg: molecular dynamics and evolutionary aspects of the transition from the fully grown oocyte to embryo. Evsikov AV, et al. Genes Dev, 2006 Oct 1. PMID 17015433, Free PMC Article
  3. A conditional knockout resource for the genome-wide study of mouse gene function. Skarnes WC, et al. Nature, 2011 Jun 15. PMID 21677750, Free PMC Article
  4. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548
  5. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073

See all (13) citations in PubMed

GeneRIFs: Gene References Into Functions

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (1) 
  • Endonuclease-mediated (2) 

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables enzyme activator activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in transcription initiation-coupled chromatin remodeling IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
part_of chromatin IBA
Inferred from Biological aspect of Ancestor
more info
  
part_of chromatin ISO
Inferred from Sequence Orthology
more info
  
located_in cytoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
protein FAM47E

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_001033478.2 → NP_001028650.2  protein FAM47E isoform 1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes isoform 1.
    Source sequence(s)
    AC123850, AK050399, AK144479, BC147168, DV648863
    Consensus CDS
    CCDS19432.2
    UniProtKB/TrEMBL
    E9Q0Z5
    Related
    ENSMUSP00000118033.3, ENSMUST00000131166.9

  2. NM_001170571.1 → NP_001164042.1  protein FAM47E isoform 2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks two alternate exons, resulting in the loss of an in-frame segment in the central coding region, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
    Source sequence(s)
    AA244788, AC123850, AK050399, AK144479
    Consensus CDS
    CCDS51548.1
    UniProtKB/TrEMBL
    E9PYM1
    Related
    ENSMUSP00000080987.8, ENSMUST00000082382.8

  3. NM_001374714.1 → NP_001361643.1  protein FAM47E isoform 3

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) represents the longest transcript and encodes the longest isoform (3).
    Source sequence(s)
    AC123850
    Consensus CDS
    CCDS89938.1
    UniProtKB/TrEMBL
    D3YWC7
    Related
    ENSMUSP00000115229.3, ENSMUST00000146417.9
    Conserved Domains (1) summary
    pfam14642
    Location:26 → 185
    FAM47; FAM47 family

  4. NM_001379201.1 → NP_001366130.1  protein FAM47E isoform 4

    Status: VALIDATED

    Source sequence(s)
    AC123850
    Conserved Domains (1) summary
    pfam14642
    Location:26 → 185
    FAM47; FAM47 family

  5. NM_001379202.1 → NP_001366131.1  protein FAM47E isoform 5

    Status: VALIDATED

    Source sequence(s)
    AC123850

  6. NM_001379203.1 → NP_001366132.1  protein FAM47E isoform 6

    Status: VALIDATED

    Source sequence(s)
    AC123850

  7. NM_001379204.1 → NP_001366133.1  protein FAM47E isoform 7

    Status: VALIDATED

    Source sequence(s)
    AC123850, BE650192

  8. NM_001379205.1 → NP_001366134.1  protein FAM47E isoform 8

    Status: VALIDATED

    Source sequence(s)
    AC123850

  9. NM_001379206.1 → NP_001366135.1  protein FAM47E isoform 9

    Status: VALIDATED

    Source sequence(s)
    AC123850

  10. NM_001379207.1 → NP_001366136.1  protein FAM47E isoform 10

    Status: VALIDATED

    Source sequence(s)
    AC123850

  11. NM_001379208.1 → NP_001366137.1  protein FAM47E isoform 11

    Status: VALIDATED

    Source sequence(s)
    AC123850
    UniProtKB/TrEMBL
    B2RVF4

  12. NM_001379209.1 → NP_001366138.1  protein FAM47E isoform 12

    Status: VALIDATED

    Source sequence(s)
    AC123850

  13. NM_001400576.1 → NP_001387505.1  protein FAM47E isoform 13

    Status: VALIDATED

    Source sequence(s)
    AC123850

  14. NM_001400577.1 → NP_001387506.1  protein FAM47E isoform 14

    Status: VALIDATED

    Source sequence(s)
    AC123850
    UniProtKB/TrEMBL
    H3BKF1
    Related
    ENSMUSP00000135365.2, ENSMUST00000176621.8

  15. NM_001400578.1 → NP_001387507.1  protein FAM47E isoform 15

    Status: VALIDATED

    Source sequence(s)
    AC123850

RNA

  1. NR_166538.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC123850

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_000071.7 Reference GRCm39 C57BL/6J

    Range
    92702823..92739144
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011249501.4 → XP_011247803.1  protein FAM47E isoform X6

    Conserved Domains (1) summary
    pfam14642
    Location:26 → 185
    FAM47; FAM47 family

  2. XM_011249500.4 → XP_011247802.1  protein FAM47E isoform X5

    Conserved Domains (1) summary
    pfam14642
    Location:26 → 188
    FAM47; FAM47 family

  3. XM_036165256.1 → XP_036021149.1  protein FAM47E isoform X3

    Conserved Domains (1) summary
    pfam14642
    Location:26 → 185
    FAM47; FAM47 family

  4. XM_011249497.4 → XP_011247799.1  protein FAM47E isoform X1

    Conserved Domains (1) summary
    pfam14642
    Location:26 → 185
    FAM47; FAM47 family

  5. XM_011249499.4 → XP_011247801.1  protein FAM47E isoform X4

    Conserved Domains (1) summary
    pfam14642
    Location:26 → 185
    FAM47; FAM47 family

  6. XM_011249498.4 → XP_011247800.1  protein FAM47E isoform X2

    Conserved Domains (1) summary
    pfam14642
    Location:26 → 188
    FAM47; FAM47 family

  7. XM_011249502.2 → XP_011247804.1  protein FAM47E isoform X7

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001170572.1: Suppressed sequence

    Description
    NM_001170572.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
Nucleotide Protein Strain
Heading Accession and Version

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