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    Fip1l1 factor interacting with PAPOLA and CPSF1 [ Mus musculus (house mouse) ]

    Gene ID: 66899, updated on 5-Mar-2024

    Summary

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    Official Symbol
    Fip1l1provided by MGI
    Official Full Name
    factor interacting with PAPOLA and CPSF1provided by MGI
    Primary source
    MGI:MGI:1914149
    See related
    Ensembl:ENSMUSG00000029227 AllianceGenome:MGI:1914149
    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
    Rje; 1300019H17Rik
    Summary
    Predicted to contribute to RNA binding activity. Predicted to be involved in mRNA polyadenylation and pre-mRNA cleavage required for polyadenylation. Predicted to act upstream of or within mRNA processing. Located in nucleus. Part of mRNA cleavage and polyadenylation specificity factor complex. Orthologous to human FIP1L1 (factor interacting with PAPOLA and CPSF1). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in CNS E11.5 (RPKM 15.0), CNS E14 (RPKM 12.7) and 28 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Fip1l1 in Genome Data Viewer
    Location:
    5 C3.3; 5 39.51 cM
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 5 NC_000071.7 (74695774..74759451)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 5 NC_000071.6 (74535438..74598790)

    Chromosome 5 - NC_000071.7Genomic Context describing neighboring genes Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:74596657-74596859 Neighboring gene RAS-like, family 11, member B Neighboring gene Sec1 family domain containing 2 Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:74656347-74656530 Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:74656616-74656725 Neighboring gene STARR-seq mESC enhancer starr_13406 Neighboring gene predicted gene, 32064 Neighboring gene VISTA enhancer mm139 Neighboring gene CapStarr-seq enhancer MGSCv37_chr5:74762842-74763025 Neighboring gene STARR-seq mESC enhancer starr_13407 Neighboring gene STARR-positive B cell enhancer ABC_E2746 Neighboring gene STARR-positive B cell enhancer ABC_E6339 Neighboring gene ligand of numb-protein X 1 Neighboring gene STARR-seq mESC enhancer starr_13408 Neighboring gene predicted gene, 32304 Neighboring gene STARR-seq mESC enhancer starr_13409 Neighboring gene predicted gene 15984

    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. Fip1 regulates mRNA alternative polyadenylation to promote stem cell self-renewal. Lackford B, et al. EMBO J, 2014 Apr 16. PMID 24596251, Free PMC Article
    2. Activation of FIP1L1-PDGFRalpha requires disruption of the juxtamembrane domain of PDGFRalpha and is FIP1L1-independent. Stover EH, et al. Proc Natl Acad Sci U S A, 2006 May 23. PMID 16690743, Free PMC Article
    3. Inositol 1,4,5-triphosphate receptor-binding protein released with inositol 1,4,5-triphosphate (IRBIT) associates with components of the mRNA 3' processing machinery in a phosphorylation-dependent manner and inhibits polyadenylation. Kiefer H, et al. J Biol Chem, 2009 Apr 17. PMID 19224921, Free PMC Article
    4. Transgenically-expressed secretoglobin 3A2 accelerates resolution of bleomycin-induced pulmonary fibrosis in mice. Cai Y, et al. BMC Pulm Med, 2015 Jul 16. PMID 26178733, Free PMC Article
    5. Integrative genomics positions MKRN1 as a novel ribonucleoprotein within the embryonic stem cell gene regulatory network. Cassar PA, et al. EMBO Rep, 2015 Oct. PMID 26265008, Free PMC Article

    See all (26) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. FIP1L1-PDGFRalpha activation requires disruption of the juxtamembrane domain of PDGFRalpha and is FIP1L1-independent
      Title: Activation of FIP1L1-PDGFRalpha requires disruption of the juxtamembrane domain of PDGFRalpha and is FIP1L1-independent.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

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

    Pathways from PubChem

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    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 RNA binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables enzyme regulator activity IC
    Inferred by Curator
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within mRNA processing IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within regulation of mRNA 3'-end processing IC
    Inferred by Curator
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of mRNA cleavage and polyadenylation specificity factor complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of mRNA cleavage and polyadenylation specificity factor complex IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    pre-mRNA 3'-end-processing factor FIP1
    Names
    FIP1 like 1
    FIP1-like 1 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_001159573.2 → NP_001153045.1  pre-mRNA 3'-end-processing factor FIP1 isoform 1

      See identical proteins and their annotated locations for NP_001153045.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes isoform 1.
      Source sequence(s)
      AC113300, AC164523
      Consensus CDS
      CCDS51520.1
      UniProtKB/Swiss-Prot
      Q8BWX7, Q99LH0, Q9D824, Q9DBB2
      Related
      ENSMUSP00000109164.2, ENSMUST00000113536.8
      Conserved Domains (1) summary
      pfam05182
      Location:153 → 195
      Fip1; Fip1 motif

    2. NM_001159574.2 → NP_001153046.1  pre-mRNA 3'-end-processing factor FIP1 isoform 3

      See identical proteins and their annotated locations for NP_001153046.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an alternate in-frame exon in the coding region, compared to variant 1. This results in a shorter protein (isoform 3), compared to isoform 1.
      Source sequence(s)
      AC113300, AC164523
      Consensus CDS
      CCDS51521.1
      UniProtKB/Swiss-Prot
      Q9D824
      Related
      ENSMUSP00000109163.3, ENSMUST00000113535.9
      Conserved Domains (1) summary
      pfam05182
      Location:153 → 195
      Fip1; Fip1 motif

    3. NM_001376964.1 → NP_001363893.1  pre-mRNA 3'-end-processing factor FIP1 isoform 4

      Status: VALIDATED

      Source sequence(s)
      AC113300, AC164523
      Conserved Domains (1) summary
      pfam05182
      Location:153 → 195
      Fip1; Fip1 motif

    4. NM_001376965.1 → NP_001363894.1  pre-mRNA 3'-end-processing factor FIP1 isoform 5

      Status: VALIDATED

      Source sequence(s)
      AC113300, AC164523
      Conserved Domains (1) summary
      pfam05182
      Location:153 → 195
      Fip1; Fip1 motif

    5. NM_024183.6 → NP_077145.2  pre-mRNA 3'-end-processing factor FIP1 isoform 2

      See identical proteins and their annotated locations for NP_077145.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate in-frame exon in the coding region, compared to variant 1. This results in a shorter protein (isoform 2), compared to isoform 1.
      Source sequence(s)
      AC113300, AC164523
      Consensus CDS
      CCDS19346.1
      UniProtKB/Swiss-Prot
      Q9D824
      Related
      ENSMUSP00000079059.6, ENSMUST00000080164.12
      Conserved Domains (1) summary
      pfam05182
      Location:153 → 195
      Fip1; Fip1 motif

    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
      74695774..74759451
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006504265.5 → XP_006504328.1  pre-mRNA 3'-end-processing factor FIP1 isoform X1

      See identical proteins and their annotated locations for XP_006504328.1

      Related
      ENSMUSP00000109162.3, ENSMUST00000113534.9
      Conserved Domains (1) summary
      pfam05182
      Location:153 → 195
      Fip1; Fip1 motif

    2. XM_006504267.5 → XP_006504330.1  pre-mRNA 3'-end-processing factor FIP1 isoform X3

      Conserved Domains (1) summary
      pfam05182
      Location:153 → 195
      Fip1; Fip1 motif

    3. XM_030254768.2 → XP_030110628.1  pre-mRNA 3'-end-processing factor FIP1 isoform X2

      Conserved Domains (1) summary
      pfam05182
      Location:153 → 195
      Fip1; Fip1 motif

    4. XM_036165429.1 → XP_036021322.1  pre-mRNA 3'-end-processing factor FIP1 isoform X5

      Conserved Domains (1) summary
      pfam05182
      Location:153 → 195
      Fip1; Fip1 motif

    5. XM_036165428.1 → XP_036021321.1  pre-mRNA 3'-end-processing factor FIP1 isoform X4

      Conserved Domains (1) summary
      pfam05182
      Location:153 → 195
      Fip1; Fip1 motif

    6. XM_036165431.1 → XP_036021324.1  pre-mRNA 3'-end-processing factor FIP1 isoform X7

      Conserved Domains (1) summary
      pfam05182
      Location:153 → 195
      Fip1; Fip1 motif

    7. XM_036165430.1 → XP_036021323.1  pre-mRNA 3'-end-processing factor FIP1 isoform X6

      Conserved Domains (1) summary
      pfam05182
      Location:153 → 195
      Fip1; Fip1 motif
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9D824.1 GenPept UniProtKB/Swiss-Prot:Q9D824

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