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Samd4 sterile alpha motif domain containing 4 [ Mus musculus (house mouse) ]

Gene ID: 74480, updated on 8-Nov-2022

Summary

Official Symbol
Samd4provided by MGI
Official Full Name
sterile alpha motif domain containing 4provided by MGI
Primary source
MGI:MGI:1921730
See related
Ensembl:ENSMUSG00000021838 AllianceGenome:MGI:1921730
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
sunk; Smaug; Samd4a; Smaug1; 1700024G08Rik; 1700111L17Rik; 4933436G17Rik
Summary
Predicted to enable mRNA binding activity and translation repressor activity. Predicted to be involved in nuclear-transcribed mRNA poly(A) tail shortening. Predicted to act upstream of or within positive regulation of translation. Located in synapse. Is expressed in cerebral cortex and telencephalon. Orthologous to human SAMD4A (sterile alpha motif domain containing 4A). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in testis adult (RPKM 72.9), bladder adult (RPKM 9.4) and 6 other tissues See more
Orthologs
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Genomic context

See Samd4 in Genome Data Viewer
Location:
14; 14 C1
Exon count:
16
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 14 NC_000080.7 (47120414..47343274)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 14 NC_000080.6 (46882965..47105817)

Chromosome 14 - NC_000080.7Genomic Context describing neighboring genes Neighboring gene cell growth regulator with ring finger domain 1 Neighboring gene predicted gene, 34934 Neighboring gene predicted gene, 52120 Neighboring gene microRNA 378c Neighboring gene predicted gene, 52121 Neighboring gene predicted gene 10371 Neighboring gene predicted gene, 52169 Neighboring gene GTP cyclohydrolase 1 Neighboring gene poly(A) binding protein, cytoplasmic 2 pseudogene

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)
  • Spontaneous (1) 
  • Chemically induced (ENU) (1)  1 citation
  • Endonuclease-mediated (1) 

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables RNA binding IEA
Inferred from Electronic Annotation
more info
 
enables mRNA binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables translation repressor activity ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in negative regulation of translation IEA
Inferred from Electronic Annotation
more info
 
involved_in nuclear-transcribed mRNA poly(A) tail shortening IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within positive regulation of translation ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of mRNA stability IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within regulation of translation IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
is_active_in P-body IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in cell junction ISO
Inferred from Sequence Orthology
more info
 
located_in cell projection IEA
Inferred from Electronic Annotation
more info
 
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
 
located_in cytosol ISO
Inferred from Sequence Orthology
more info
 
located_in fibrillar center ISO
Inferred from Sequence Orthology
more info
 
located_in neuron projection IEA
Inferred from Electronic Annotation
more info
 
located_in synapse IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
protein Smaug homolog 1
Names
smaug 1
sterile alpha motif domain-containing protein 4A

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_001037221.2NP_001032298.1  protein Smaug homolog 1 isoform 1

    See identical proteins and their annotated locations for NP_001032298.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
    Source sequence(s)
    AC131586, AC159006, AK134243
    Consensus CDS
    CCDS26982.1
    UniProtKB/Swiss-Prot
    Q8CBY1, Q9D3T3
    Related
    ENSMUSP00000022386.9, ENSMUST00000022386.15
    Conserved Domains (1) summary
    cd09557
    Location:320382
    SAM_Smaug; SAM domain of Smaug subfamily
  2. NM_001163433.1NP_001156905.1  protein Smaug homolog 1 isoform 3

    See identical proteins and their annotated locations for NP_001156905.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) contains a distinct 5' UTR and lacks an in-frame portion of the 5' coding region, compared to variant 1. The resulting isoform (3) has a shorter N-terminus compared to isoform 1.
    Source sequence(s)
    AC159006, AK006299, AK161277
    Consensus CDS
    CCDS49468.1
    UniProtKB/Swiss-Prot
    Q8CBY1
    UniProtKB/TrEMBL
    A0A2D0VMX2
    Related
    ENSMUSP00000122833.2, ENSMUST00000125113.9
    Conserved Domains (1) summary
    cd09557
    Location:219281
    SAM_Smaug; SAM domain of Smaug subfamily
  3. NM_001310544.1NP_001297473.1  protein Smaug homolog 1 isoform 4

    See identical proteins and their annotated locations for NP_001297473.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) differs in the 5' UTR, lacks a portion of the 5' coding region and initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (4) has a shorter N-terminus than isoform 1.
    Source sequence(s)
    AC159006, AK017081, AK133470, AK135279, AV240840, BM939644
    Consensus CDS
    CCDS79301.1
    UniProtKB/Swiss-Prot
    Q8CBY1
    Related
    ENSMUSP00000115569.2, ENSMUST00000125688.2
  4. NM_028966.3NP_083242.1  protein Smaug homolog 1 isoform 2

    See identical proteins and their annotated locations for NP_083242.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an in-frame exon in the coding region, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
    Source sequence(s)
    AC131586, AC159006, AK133470, BC145827
    Consensus CDS
    CCDS26983.1
    UniProtKB/Swiss-Prot
    Q8CBY1
    Related
    ENSMUSP00000098237.4, ENSMUST00000100672.11
    Conserved Domains (1) summary
    cd09557
    Location:238294
    SAM_Smaug; SAM domain of Smaug subfamily

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000080.7 Reference GRCm39 C57BL/6J

    Range
    47120414..47343274
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036158884.1XP_036014777.1  protein Smaug homolog 1 isoform X2

    UniProtKB/Swiss-Prot
    Q9D3T3
    Conserved Domains (1) summary
    cd09557
    Location:320382
    SAM_Smaug; SAM domain of Smaug subfamily
  2. XM_030248082.2XP_030103942.1  protein Smaug homolog 1 isoform X4

    Related
    ENSMUSP00000114621.2, ENSMUST00000137543.9
    Conserved Domains (1) summary
    cd09557
    Location:238294
    SAM_Smaug; SAM domain of Smaug subfamily
  3. XM_036158883.1XP_036014776.1  protein Smaug homolog 1 isoform X1

    Conserved Domains (1) summary
    cd09557
    Location:370432
    SAM_Smaug; SAM domain of Smaug subfamily
  4. XM_006519627.4XP_006519690.1  protein Smaug homolog 1 isoform X1

    Conserved Domains (1) summary
    cd09557
    Location:370432
    SAM_Smaug; SAM domain of Smaug subfamily
  5. XM_006519628.3XP_006519691.1  protein Smaug homolog 1 isoform X3

    Conserved Domains (1) summary
    cd09557
    Location:269331
    SAM_Smaug; SAM domain of Smaug subfamily
  6. XM_006519631.5XP_006519694.1  protein Smaug homolog 1 isoform X5

    See identical proteins and their annotated locations for XP_006519694.1

    UniProtKB/Swiss-Prot
    Q8CBY1