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    SERBP1 SERPINE1 mRNA binding protein 1 [ Homo sapiens (human) ]

    Gene ID: 26135, updated on 13-Apr-2024

    Summary

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    Official Symbol
    SERBP1provided by HGNC
    Official Full Name
    SERPINE1 mRNA binding protein 1provided by HGNC
    Primary source
    HGNC:HGNC:17860
    See related
    Ensembl:ENSG00000142864 MIM:607378; AllianceGenome:HGNC:17860
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    CGI-55; CHD3IP; HABP4L; PAIRBP1; PAI-RBP1
    Summary
    Enables SUMO binding activity; mRNA 3'-UTR binding activity; and ribosome binding activity. Involved in PML body organization. Located in cytosol and nucleus. [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Ubiquitous expression in esophagus (RPKM 40.3), thyroid (RPKM 34.9) and 25 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    Location:
    1p31.3
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (67407810..67430402, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (67285390..67307973, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (67873493..67896085, complement)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene DNAJB6 pseudogene 4 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1173 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1174 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 979 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 980 Neighboring gene NANOG hESC enhancer GRCh37_chr1:67784539-67785040 Neighboring gene interleukin 12 receptor subunit beta 2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1175 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1176 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1177 Neighboring gene RNA, U6 small nuclear 387, pseudogene Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:67894622-67895258 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1180 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:67895894-67896529 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr1:67924294-67925217 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:67926895-67927395 Neighboring gene MPRA-validated peak278 silencer Neighboring gene ReSE screen-validated silencer GRCh37_chr1:67943422-67943604 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:67945137-67945276 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr1:67965969-67966472 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr1:67980737-67981378 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr1:67981379-67982018 Neighboring gene long intergenic non-protein coding RNA 1702 Neighboring gene Sharpr-MPRA regulatory region 10397 Neighboring gene Sharpr-MPRA regulatory region 12925 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:68005018-68005200 Neighboring gene RNA, U6 small nuclear 1031, pseudogene

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. G-Quadruplex-Induced Liquid-Liquid Phase Separation in Biomimetic Protocells. Liu X, et al. J Am Chem Soc, 2021 Jul 28. PMID 34270902
    2. miR-362-3p acts as a tumor suppressor by targeting SERBP1 in ovarian cancer. Cao S, et al. J Ovarian Res, 2021 Feb 1. PMID 33526047, Free PMC Article
    3. Overexpression of SERBP1 (Plasminogen activator inhibitor 1 RNA binding protein) in human breast cancer is correlated with favourable prognosis. Serce NB, et al. BMC Cancer, 2012 Dec 13. PMID 23236990, Free PMC Article
    4. Expression analysis and RNA localization of PAI-RBP1 (SERBP1) in epithelial ovarian cancer: association with tumor progression. Koensgen D, et al. Gynecol Oncol, 2007 Nov. PMID 17698176
    5. A genetically-encoded crosslinker screen identifies SERBP1 as a PKCε substrate influencing translation and cell division. Martini S, et al. Nat Commun, 2021 Nov 26. PMID 34836941, Free PMC Article

    See all (238) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. SERPINE1 mRNA Binding Protein 1 Is Associated with Ischemic Stroke Risk: A Comprehensive Molecular-Genetic and Bioinformatics Analysis of SERBP1 SNPs.
      Title: SERPINE1 mRNA Binding Protein 1 Is Associated with Ischemic Stroke Risk: A Comprehensive Molecular-Genetic and Bioinformatics Analysis of SERBP1 SNPs.
    2. YY1-induced long non-coding RNA small nucleolar RNA host gene 8 promotes the tumorigenesis of melanoma via the microRNA-656-3p/SERPINE1 mRNA binding protein 1 axis.
      Title: YY1-induced long non-coding RNA small nucleolar RNA host gene 8 promotes the tumorigenesis of melanoma via the microRNA-656-3p/SERPINE1 mRNA binding protein 1 axis.
    3. Circ_0046600 promotes hepatocellular carcinoma progression via up-regulating SERBP1 through sequestering miR-1258.
      Title: Circ_0046600 promotes hepatocellular carcinoma progression via up-regulating SERBP1 through sequestering miR-1258.
    4. G-Quadruplex-Induced Liquid-Liquid Phase Separation in Biomimetic Protocells.
      Title: G-Quadruplex-Induced Liquid-Liquid Phase Separation in Biomimetic Protocells.
    5. A genetically-encoded crosslinker screen identifies SERBP1 as a PKCepsilon substrate influencing translation and cell division.
      Title: A genetically-encoded crosslinker screen identifies SERBP1 as a PKCε substrate influencing translation and cell division.
    6. miR-362-3p acts as a tumor suppressor by targeting SERBP1 in ovarian cancer.
      Title: miR-362-3p acts as a tumor suppressor by targeting SERBP1 in ovarian cancer.
    7. CircRNA circBACH1 (hsa_circ_0061395) serves as a miR-656-3p sponge to facilitate hepatocellular carcinoma progression through increasing SERBP1 expression.
      Title: CircRNA circBACH1 (hsa_circ_0061395) serves as a miR-656-3p sponge to facilitate hepatocellular carcinoma progression through increasing SERBP1 expression.
    8. The RNA-binding protein SERBP1 functions as a novel oncogenic factor in glioblastoma by bridging cancer metabolism and epigenetic regulation.
      Title: The RNA-binding protein SERBP1 functions as a novel oncogenic factor in glioblastoma by bridging cancer metabolism and epigenetic regulation.
    9. we revealed that PVT1 functions as an endogenous "sponge" by competing for miR-448 binding to regulate the miRNA target SERBP1 and, therefore, promotes the proliferation and migration of PC cells.
      Title: LncRNA-PVT1 promotes pancreatic cancer cells proliferation and migration through acting as a molecular sponge to regulate miR-448.
    10. All these results suggested that miR-218/SERBP1 signal pathway could inhibit the malignant phenotype formation and that targeting this pathway may be a potential novel way for HCC therapeutics.
      Title: MiR-218 suppresses the metastasis and EMT of HCC cells via targeting SERBP1.
    Submit: New GeneRIF Correction See all GeneRIFs (29)

    Phenotypes

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    Find tests for this gene in the NIH Genetic Testing Registry (GTR)

    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

    Description
    A genome-wide scan of Ashkenazi Jewish Crohn's disease suggests novel susceptibility loci.
    EBI GWAS Catalog

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    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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    Markers

    Homology

    Clone Names

    • FLJ90489, DKFZp564M2423

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables RNA binding EXP
    Inferred from Experiment
    more info
    		 PubMed 
    enables RNA binding HDA PubMed 
    enables SUMO binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables cadherin binding HDA PubMed 
    enables mRNA 3'-UTR binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables mRNA 3'-UTR binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables ribosome binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables translation elongation factor binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables translation repressor activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in PML body organization IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in negative regulation of translation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of mRNA stability NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in ribosome hibernation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
    		  
    located_in extracellular exosome HDA PubMed 
    located_in membrane HDA PubMed 
    is_active_in non-membrane-bounded organelle 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 
    located_in perinuclear region of cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  

    General protein information

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    Preferred Names
    SERPINE1 mRNA-binding protein 1
    Names
    PAI-1 mRNA binding protein
    PAI1 RNA-binding protein 1
    chromodomain helicase DNA binding protein 3 interacting protein
    plasminogen activator inhibitor 1 RNA-binding 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_001018067.2 → NP_001018077.1  SERPINE1 mRNA-binding protein 1 isoform 1

      See identical proteins and their annotated locations for NP_001018077.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript and encodes the longest isoform (1).
      Source sequence(s)
      AK074970, AL358512, AL590559, BC008045
      Consensus CDS
      CCDS30746.1
      UniProtKB/Swiss-Prot
      Q5VU19, Q5VU20, Q5VU22, Q8NC51, Q8WUH0, Q96SE2, Q9BTY3, Q9BUM4, Q9Y367, Q9Y4S3
      UniProtKB/TrEMBL
      Q63HR1
      Related
      ENSP00000360034.2, ENST00000370995.6
      Conserved Domains (2) summary
      pfam04774
      Location:189 → 313
      HABP4_PAI-RBP1; Hyaluronan / mRNA binding family
      pfam16174
      Location:5 → 152
      IHABP4_N; Intracellular hyaluronan-binding protein 4 N-terminal

    2. NM_001018068.2 → NP_001018078.1  SERPINE1 mRNA-binding protein 1 isoform 2

      See identical proteins and their annotated locations for NP_001018078.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate, in-frame splice site in the coding region, compared to variant 1. It encodes isoform 2, which is shorter than isoform 1.
      Source sequence(s)
      AL358512, AL590559, BC020555
      Consensus CDS
      CCDS30748.1
      UniProtKB/TrEMBL
      Q63HR1
      Related
      ENSP00000360029.5, ENST00000370990.5
      Conserved Domains (2) summary
      pfam04774
      Location:189 → 307
      HABP4_PAI-RBP1; Hyaluronan / mRNA binding family
      pfam16174
      Location:5 → 152
      IHABP4_N; Intracellular hyaluronan-binding protein 4 N-terminal

    3. NM_001018069.2 → NP_001018079.1  SERPINE1 mRNA-binding protein 1 isoform 3

      See identical proteins and their annotated locations for NP_001018079.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate, in-frame splice site in the coding region, compared to variant 1. It encodes isoform 3, which is shorter than isoform 1.
      Source sequence(s)
      AF151813, AL358512, AL590559
      Consensus CDS
      CCDS30747.1
      UniProtKB/TrEMBL
      Q63HR1
      Related
      ENSP00000354591.6, ENST00000361219.11
      Conserved Domains (2) summary
      pfam04774
      Location:189 → 298
      HABP4_PAI-RBP1; Hyaluronan / mRNA binding family
      pfam16174
      Location:5 → 152
      IHABP4_N; Intracellular hyaluronan-binding protein 4 N-terminal

    4. NM_015640.4 → NP_056455.3  SERPINE1 mRNA-binding protein 1 isoform 4

      See identical proteins and their annotated locations for NP_056455.3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) uses alternate, in-frame splice sites in the coding region, compared to variant 1. It encodes isoform 4, which is shorter than isoform 1.
      Source sequence(s)
      AK074970, AL358512, BI464676, BX647139
      Consensus CDS
      CCDS639.1
      UniProtKB/TrEMBL
      Q5VU21, Q63HR1
      Related
      ENSP00000360033.4, ENST00000370994.8
      Conserved Domains (2) summary
      pfam04774
      Location:189 → 292
      HABP4_PAI-RBP1; Hyaluronan / mRNA binding family
      pfam16174
      Location:5 → 152
      IHABP4_N; Intracellular hyaluronan-binding protein 4 N-terminal

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

      Range
      67407810..67430402 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      67285390..67307973 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8NC51.2 GenPept UniProtKB/Swiss-Prot:Q8NC51

    Gene LinkOut

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

    Chemical Information
    Molecular Biology Databases
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    Tools
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