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    Cpsf4l cleavage and polyadenylation specific factor 4-like [ Mus musculus (house mouse) ]

    Gene ID: 52670, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Cpsf4lprovided by MGI
    Official Full Name
    cleavage and polyadenylation specific factor 4-likeprovided by MGI
    Primary source
    MGI:MGI:1277182
    See related
    Ensembl:ENSMUSG00000018727 AllianceGenome:MGI:1277182
    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
    D11Ertd636e; 0610010C04Rik; 1500000C01Rik
    Summary
    Predicted to be part of mRNA cleavage and polyadenylation specificity factor complex. Is expressed in central nervous system and retina. Orthologous to human CPSF4L (cleavage and polyadenylation specific factor 4 like). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in testis adult (RPKM 18.1), ovary adult (RPKM 3.8) and 5 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Cpsf4l in Genome Data Viewer
    Location:
    11 E2; 11 79.17 cM
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (113588997..113601125, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (113698171..113710167, complement)

    Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene solute carrier family 39 (metal ion transporter), member 11 Neighboring gene STARR-positive B cell enhancer ABC_E4012 Neighboring gene somatostatin receptor 2 Neighboring gene CapStarr-seq enhancer MGSCv37_chr11:113545452-113545561 Neighboring gene STARR-positive B cell enhancer ABC_E4013 Neighboring gene STARR-seq mESC enhancer starr_31100 Neighboring gene component of oligomeric golgi complex 1 Neighboring gene STARR-seq mESC enhancer starr_31103 Neighboring gene VCP nuclear cofactor family member 1 Neighboring gene mitochondrial nucleoid associated protein 1 Neighboring gene STARR-positive B cell enhancer ABC_E8469 Neighboring gene CDC42 effector protein 4 Neighboring gene predicted gene 11736

    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. 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
    2. EUCOMM--the European conditional mouse mutagenesis program. Friedel RH, et al. Brief Funct Genomic Proteomic, 2007 Sep. PMID 17967808
    3. Large-scale cDNA analysis reveals phased gene expression patterns during preimplantation mouse development. Ko MS, et al. Development, 2000 Apr. PMID 10725249
    4. BGEM: an in situ hybridization database of gene expression in the embryonic and adult mouse nervous system. Magdaleno S, et al. PLoS Biol, 2006 Apr. PMID 16602821, Free PMC Article
    5. Genome-wide expression profiling of mid-gestation placenta and embryo using a 15,000 mouse developmental cDNA microarray. Tanaka TS, et al. Proc Natl Acad Sci U S A, 2000 Aug 1. PMID 10922068, Free PMC Article

    See all (17) 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)
    • Endonuclease-mediated (2) 

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Component Evidence Code Pubs
    part_of mRNA cleavage and polyadenylation specificity factor complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    putative cleavage and polyadenylation specificity factor subunit 4-like 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_001164532.1 → NP_001158004.1  putative cleavage and polyadenylation specificity factor subunit 4-like protein isoform 3

      See identical proteins and their annotated locations for NP_001158004.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate in-frame splice site in the 5' coding region, compared to variant 1, resulting in an isoform (3) that is longer than isoform 1.
      Source sequence(s)
      AK161074, DV648079, DV657463, DV659633
      Consensus CDS
      CCDS48977.1
      UniProtKB/TrEMBL
      E9Q2N0
      Related
      ENSMUSP00000097819.5, ENSMUST00000100248.6
      Conserved Domains (1) summary
      COG5084
      Location:82 → 230
      YTH1; Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]

    2. NM_001362806.1 → NP_001349735.1  putative cleavage and polyadenylation specificity factor subunit 4-like protein isoform 4

      Status: VALIDATED

      Source sequence(s)
      AL603706, DV655803, DV657463
      Conserved Domains (1) summary
      COG5084
      Location:36 → 177
      YTH1; Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]

    3. NM_026682.2 → NP_080958.2  putative cleavage and polyadenylation specificity factor subunit 4-like protein isoform 1

      See identical proteins and their annotated locations for NP_080958.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes isoform 1.
      Source sequence(s)
      AK161074, DV657463, DV659633
      Consensus CDS
      CCDS25603.2
      UniProtKB/TrEMBL
      G3UWW6
      Related
      ENSMUSP00000133451.2, ENSMUST00000173655.8
      Conserved Domains (1) summary
      COG5084
      Location:36 → 178
      YTH1; Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]

    4. NM_029794.2 → NP_084070.1  putative cleavage and polyadenylation specificity factor subunit 4-like protein isoform 2

      See identical proteins and their annotated locations for NP_084070.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region, uses a downstream translational start codon, and lacks an alternate exon that causes a frameshift in the 3' coding region, compared to variant 1. The encoded isoform (2) is shorter at the N-terminus and includes a distinct C-terminus, compared to isoform 1.
      Source sequence(s)
      AK005072, DV657463
      Consensus CDS
      CCDS25602.1
      UniProtKB/TrEMBL
      Q9DBA5
      Related
      ENSMUSP00000018871.2, ENSMUST00000018871.8
      Conserved Domains (1) summary
      COG5084
      Location:3 → 110
      YTH1; Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]

    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_000077.7 Reference GRCm39 C57BL/6J

      Range
      113588997..113601125 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030246127.2 → XP_030101987.1  putative cleavage and polyadenylation specificity factor subunit 4-like protein isoform X15

      Conserved Domains (1) summary
      COG5084
      Location:3 → 125
      YTH1; Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]

    2. XM_036156832.1 → XP_036012725.1  putative cleavage and polyadenylation specificity factor subunit 4-like protein isoform X14

      UniProtKB/TrEMBL
      A2A6P9, Q91YP9
      Related
      ENSMUSP00000102228.2, ENSMUST00000106617.8
      Conserved Domains (1) summary
      COG5084
      Location:3 → 126
      YTH1; Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]

    3. XM_006533705.5 → XP_006533768.1  putative cleavage and polyadenylation specificity factor subunit 4-like protein isoform X9

      Conserved Domains (1) summary
      COG5084
      Location:36 → 161
      YTH1; Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]

    4. XM_006533707.5 → XP_006533770.1  putative cleavage and polyadenylation specificity factor subunit 4-like protein isoform X11

      See identical proteins and their annotated locations for XP_006533770.1

      Conserved Domains (1) summary
      COG5084
      Location:36 → 177
      YTH1; Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]

    5. XM_006533704.5 → XP_006533767.1  putative cleavage and polyadenylation specificity factor subunit 4-like protein isoform X8

      Conserved Domains (1) summary
      COG5084
      Location:36 → 162
      YTH1; Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]

    6. XM_006533706.5 → XP_006533769.1  putative cleavage and polyadenylation specificity factor subunit 4-like protein isoform X10

      See identical proteins and their annotated locations for XP_006533769.1

      UniProtKB/TrEMBL
      G3UWW6
      Conserved Domains (1) summary
      COG5084
      Location:36 → 178
      YTH1; Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]

    7. XM_030246125.2 → XP_030101985.1  putative cleavage and polyadenylation specificity factor subunit 4-like protein isoform X7

      Conserved Domains (1) summary
      COG5084
      Location:86 → 164
      YTH1; Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]

    8. XM_030246124.2 → XP_030101984.1  putative cleavage and polyadenylation specificity factor subunit 4-like protein isoform X2

      Conserved Domains (1) summary
      COG5084
      Location:82 → 214
      YTH1; Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]

    9. XM_006533701.5 → XP_006533764.1  putative cleavage and polyadenylation specificity factor subunit 4-like protein isoform X4

      See identical proteins and their annotated locations for XP_006533764.1

      UniProtKB/TrEMBL
      E9Q2N0
      Conserved Domains (1) summary
      COG5084
      Location:82 → 230
      YTH1; Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]

    10. XM_017314656.3 → XP_017170145.1  putative cleavage and polyadenylation specificity factor subunit 4-like protein isoform X5

      Conserved Domains (1) summary
      COG5084
      Location:84 → 215
      YTH1; Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]

    11. XM_030246123.2 → XP_030101983.1  putative cleavage and polyadenylation specificity factor subunit 4-like protein isoform X1

      Conserved Domains (1) summary
      COG5084
      Location:84 → 215
      YTH1; Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]

    12. XM_017314657.3 → XP_017170146.1  putative cleavage and polyadenylation specificity factor subunit 4-like protein isoform X6

      Conserved Domains (1) summary
      COG5084
      Location:82 → 231
      YTH1; Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]

    13. XM_017314655.3 → XP_017170144.1  putative cleavage and polyadenylation specificity factor subunit 4-like protein isoform X3

      Conserved Domains (1) summary
      COG5084
      Location:82 → 231
      YTH1; Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]

    14. XM_036156830.1 → XP_036012723.1  putative cleavage and polyadenylation specificity factor subunit 4-like protein isoform X13

      Conserved Domains (1) summary
      COG5084
      Location:3 → 109
      YTH1; Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]

    15. XM_036156829.1 → XP_036012722.1  putative cleavage and polyadenylation specificity factor subunit 4-like protein isoform X12

      UniProtKB/TrEMBL
      Q9DBA5
      Conserved Domains (1) summary
      COG5084
      Location:3 → 110
      YTH1; Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]

    16. XM_006533709.5 → XP_006533772.1  putative cleavage and polyadenylation specificity factor subunit 4-like protein isoform X12

      See identical proteins and their annotated locations for XP_006533772.1

      UniProtKB/TrEMBL
      Q9DBA5
      Conserved Domains (1) summary
      COG5084
      Location:3 → 110
      YTH1; Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]

    17. XM_006533710.5 → XP_006533773.1  putative cleavage and polyadenylation specificity factor subunit 4-like protein isoform X12

      See identical proteins and their annotated locations for XP_006533773.1

      UniProtKB/TrEMBL
      Q9DBA5
      Conserved Domains (1) summary
      COG5084
      Location:3 → 110
      YTH1; Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]

    18. XM_036156831.1 → XP_036012724.1  putative cleavage and polyadenylation specificity factor subunit 4-like protein isoform X13

      Conserved Domains (1) summary
      COG5084
      Location:3 → 109
      YTH1; Cleavage and polyadenylation specificity factor (CPSF) Clipper subunit and related makorin family Zn-finger proteins [General function prediction only]
    Nucleotide Protein Strain
    Heading Accession and Version

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