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Samd11 sterile alpha motif domain containing 11 [ Mus musculus (house mouse) ]

Gene ID: 231004, updated on 2-Nov-2024

Summary

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Official Symbol
Samd11provided by MGI
Official Full Name
sterile alpha motif domain containing 11provided by MGI
Primary source
MGI:MGI:2446220
See related
Ensembl:ENSMUSG00000096351 AllianceGenome:MGI:2446220
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
mr-s
Summary
Enables DNA-binding transcription repressor activity, RNA polymerase II-specific; identical protein binding activity; and protein domain specific binding activity. Involved in retinal rod cell development. Acts upstream of or within negative regulation of transcription by RNA polymerase II. Located in nucleus. Part of PRC1 complex. Is expressed in photoreceptor layer; pineal gland; retina; retina layer; and retina outer nuclear layer. Orthologous to human SAMD11 (sterile alpha motif domain containing 11). [provided by Alliance of Genome Resources, Nov 2024]
Annotation information
Annotation category: suggests misassembly
Expression
Broad expression in liver E14.5 (RPKM 18.9), liver E14 (RPKM 17.6) and 22 other tissues See more
Orthologs
human all
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Genomic context

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See Samd11 in Genome Data Viewer
Location:
4; 4 E2
Exon count:
15
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (156331423..156342409, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (156246966..156256011, complement)

Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_12292 Neighboring gene microRNA 7658 Neighboring gene kelch-like 17 Neighboring gene NOC2 like nucleolar associated transcriptional repressor Neighboring gene predicted gene, 52691 Neighboring gene predicted gene, 47252 Neighboring gene predicted gene, 54274 Neighboring gene dehydrogenase/reductase X linked Neighboring gene predicted gene, 53226

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 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. Functional analysis of Samd11, a retinal photoreceptor PRC1 component, in establishing rod photoreceptor identity. Kubo S, et al. Sci Rep, 2021 Feb 18. PMID 33603070, Free PMC Article
  2. Cloning and characterization of mr-s, a novel SAM domain protein, predominantly expressed in retinal photoreceptor cells. Inoue T, et al. BMC Dev Biol, 2006 Mar 16. PMID 16539743, Free PMC Article
  3. The antiobesity factor WDTC1 suppresses adipogenesis via the CRL4WDTC1 E3 ligase. Groh BS, et al. EMBO Rep, 2016 May. PMID 27113764, Free PMC Article
  4. Libraries enriched for alternatively spliced exons reveal splicing patterns in melanocytes and melanomas. Watahiki A, et al. Nat Methods, 2004 Dec. PMID 15782199
  5. Genetic determinants of micronucleus formation in vivo. Adams DJ, et al. Nature, 2024 Mar. PMID 38355793, Free PMC Article

See all (14) 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)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • MGC38976

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables DNA-binding transcription repressor activity, RNA polymerase II-specific IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables PH domain binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables SAM domain binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables chromatin binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables histone binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables identical protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
involved_in negative regulation of DNA-templated transcription IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in retinal rod cell development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
part_of PRC1 complex IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 

General protein information

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Preferred Names
sterile alpha motif domain-containing protein 11
Names
SAM domain-containing protein 11
major retinal SAM domain-containing protein

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_001110516.2 → NP_001103986.1  sterile alpha motif domain-containing protein 11 isoform 1

    See identical proteins and their annotated locations for NP_001103986.1

    Status: VALIDATED

    Source sequence(s)
    AEKQ02149702, AK149268
    Consensus CDS
    CCDS57323.1
    UniProtKB/TrEMBL
    J3QN61
    Related
    ENSMUSP00000136611.2, ENSMUST00000179919.3
    Conserved Domains (1) summary
    cd09579
    Location:411 → 478
    SAM_Samd7,11; SAM domain of Samd7,11 subfamily of Polycomb group

  2. NM_001355709.1 → NP_001342638.1  sterile alpha motif domain-containing protein 11 isoform 2

    Status: VALIDATED

    Source sequence(s)
    AEKQ02149702, AK149268, CX768146
    Consensus CDS
    CCDS89876.1
    UniProtKB/Swiss-Prot
    Q1RNF8, Q3TU11
    Related
    ENSMUSP00000151442.2, ENSMUST00000218788.2
    Conserved Domains (1) summary
    cd09579
    Location:401 → 468
    SAM_Samd7,11; SAM domain of Samd7,11 subfamily of Polycomb group

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_000070.7 Reference GRCm39 C57BL/6J

    Range
    156331423..156342409 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006538840.5 → XP_006538903.1  sterile alpha motif domain-containing protein 11 isoform X3

    See identical proteins and their annotated locations for XP_006538903.1

    UniProtKB/Swiss-Prot
    Q1RNF8, Q3TU11
    Related
    ENSMUSP00000151756.2, ENSMUST00000217934.2
    Conserved Domains (1) summary
    cd09579
    Location:401 → 468
    SAM_Samd7,11; SAM domain of Samd7,11 subfamily of Polycomb group

  2. XM_036164089.1 → XP_036019982.1  sterile alpha motif domain-containing protein 11 isoform X2

    UniProtKB/TrEMBL
    J3QN61
    Conserved Domains (1) summary
    cd09579
    Location:411 → 478
    SAM_Samd7,11; SAM domain of Samd7,11 subfamily of Polycomb group

  3. XM_036164093.1 → XP_036019986.1  sterile alpha motif domain-containing protein 11 isoform X8

    Conserved Domains (1) summary
    cd09579
    Location:325 → 392
    SAM_Samd7,11; SAM domain of Samd7,11 subfamily of Polycomb group

  4. XM_030253516.2 → XP_030109376.1  sterile alpha motif domain-containing protein 11 isoform X9

    Conserved Domains (1) summary
    cd09579
    Location:249 → 316
    SAM_Samd7,11; SAM domain of Samd7,11 subfamily of Polycomb group

  5. XM_006538842.4 → XP_006538905.1  sterile alpha motif domain-containing protein 11 isoform X3

    See identical proteins and their annotated locations for XP_006538905.1

    UniProtKB/Swiss-Prot
    Q1RNF8, Q3TU11
    Conserved Domains (1) summary
    cd09579
    Location:401 → 468
    SAM_Samd7,11; SAM domain of Samd7,11 subfamily of Polycomb group

  6. XM_006538839.4 → XP_006538902.1  sterile alpha motif domain-containing protein 11 isoform X2

    See identical proteins and their annotated locations for XP_006538902.1

    UniProtKB/TrEMBL
    J3QN61
    Conserved Domains (1) summary
    cd09579
    Location:411 → 478
    SAM_Samd7,11; SAM domain of Samd7,11 subfamily of Polycomb group

  7. XM_036164090.1 → XP_036019983.1  sterile alpha motif domain-containing protein 11 isoform X4

    Conserved Domains (1) summary
    cd09579
    Location:383 → 450
    SAM_Samd7,11; SAM domain of Samd7,11 subfamily of Polycomb group

  8. XM_006538838.5 → XP_006538901.1  sterile alpha motif domain-containing protein 11 isoform X2

    See identical proteins and their annotated locations for XP_006538901.1

    UniProtKB/TrEMBL
    J3QN61
    Conserved Domains (1) summary
    cd09579
    Location:411 → 478
    SAM_Samd7,11; SAM domain of Samd7,11 subfamily of Polycomb group

  9. XM_030253515.2 → XP_030109375.1  sterile alpha motif domain-containing protein 11 isoform X5

    Conserved Domains (1) summary
    cd09579
    Location:373 → 440
    SAM_Samd7,11; SAM domain of Samd7,11 subfamily of Polycomb group

  10. XM_036164091.1 → XP_036019984.1  sterile alpha motif domain-containing protein 11 isoform X6

    Conserved Domains (1) summary
    cl15755
    Location:401 → 423
    SAM_superfamily; SAM (Sterile alpha motif )

  11. XM_006538843.5 → XP_006538906.1  sterile alpha motif domain-containing protein 11 isoform X4

    See identical proteins and their annotated locations for XP_006538906.1

    Conserved Domains (1) summary
    cd09579
    Location:383 → 450
    SAM_Samd7,11; SAM domain of Samd7,11 subfamily of Polycomb group

  12. XM_017320187.3 → XP_017175676.2  sterile alpha motif domain-containing protein 11 isoform X1

    Conserved Domains (1) summary
    cl15755
    Location:457 → 479
    SAM_superfamily; SAM (Sterile alpha motif )

  13. XM_036164094.1 → XP_036019987.1  sterile alpha motif domain-containing protein 11 isoform X9

    Conserved Domains (1) summary
    cd09579
    Location:249 → 316
    SAM_Samd7,11; SAM domain of Samd7,11 subfamily of Polycomb group

  14. XM_006538846.4 → XP_006538909.1  sterile alpha motif domain-containing protein 11 isoform X11

    Conserved Domains (1) summary
    cd09579
    Location:417 → 484
    SAM_Samd7,11; SAM domain of Samd7,11 subfamily of Polycomb group

  15. XM_036164092.1 → XP_036019985.1  sterile alpha motif domain-containing protein 11 isoform X7

    Conserved Domains (1) summary
    cd09579
    Location:339 → 406
    SAM_Samd7,11; SAM domain of Samd7,11 subfamily of Polycomb group

  16. XM_006538844.5 → XP_006538907.1  sterile alpha motif domain-containing protein 11 isoform X7

    See identical proteins and their annotated locations for XP_006538907.1

    Conserved Domains (1) summary
    cd09579
    Location:339 → 406
    SAM_Samd7,11; SAM domain of Samd7,11 subfamily of Polycomb group

  17. XM_011250250.4 → XP_011248552.1  sterile alpha motif domain-containing protein 11 isoform X7

    See identical proteins and their annotated locations for XP_011248552.1

    Conserved Domains (1) summary
    cd09579
    Location:339 → 406
    SAM_Samd7,11; SAM domain of Samd7,11 subfamily of Polycomb group

  18. XM_011250251.3 → XP_011248553.1  sterile alpha motif domain-containing protein 11 isoform X10

    Conserved Domains (1) summary
    cd09579
    Location:201 → 268
    SAM_Samd7,11; SAM domain of Samd7,11 subfamily of Polycomb group

RNA

  1. XR_004941889.1 RNA Sequence

  2. XR_004941887.1 RNA Sequence

  3. XR_004941888.1 RNA Sequence

  4. XR_004941886.1 RNA Sequence

    Related
    ENSMUST00000218230.2

  5. XR_004941885.1 RNA Sequence

  6. XR_004941884.1 RNA Sequence

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_173736.2: Suppressed sequence

    Description
    NM_173736.2: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q1RNF8.1 GenPept UniProtKB/Swiss-Prot:Q1RNF8

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