U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

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

    Gene ID: 231004, updated on 27-Nov-2024

    Summary

    Go to the top of the page Help
    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
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    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

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    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

    Go to the top of the page Help

    Alleles

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

    Interactions

    Go to the top of the page Help
    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Go to the top of the page Help

    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

    Go to the top of the page Help
    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)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Chemical Information
    Molecular Biology Databases
    Research Materials
    Tools