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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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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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