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    FAM178B family with sequence similarity 178 member B [ Homo sapiens (human) ]

    Gene ID: 51252, updated on 5-Mar-2024

    Summary

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    Official Symbol
    FAM178Bprovided by HGNC
    Official Full Name
    family with sequence similarity 178 member Bprovided by HGNC
    Primary source
    HGNC:HGNC:28036
    See related
    Ensembl:ENSG00000168754 AllianceGenome:HGNC:28036
    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
    Expression
    Biased expression in bone marrow (RPKM 5.6), testis (RPKM 2.5) and 3 other tissues See more
    Orthologs
    mouse all
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    Genomic context

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    See FAM178B in Genome Data Viewer
    Location:
    2q11.2
    Exon count:
    19
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (96875885..96986580, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (97382518..97493200, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (97541622..97652317, complement)

    Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11781 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11782 Neighboring gene ankyrin repeat domain 39 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:97531745-97532406 Neighboring gene collagen alpha-1(I) chain-like Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11783 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11784 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11785 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11786 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11787 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11788 Neighboring gene semaphorin 4C Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:97538976-97539476 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16234 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16235 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:97540777-97541537 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:97541538-97542298 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:97547779-97548334 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:97553339-97553894 Neighboring gene Sharpr-MPRA regulatory region 12522 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:97564470-97564614 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:97569425-97569924 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:97572409-97573004 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:97578973-97579660 Neighboring gene uncharacterized LOC101927053 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:97592729-97593442 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:97615759-97616400 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:97616401-97617040 Neighboring gene Sharpr-MPRA regulatory region 7419 Neighboring gene RNA, 5S ribosomal pseudogene 101 Neighboring gene small nucleolar RNA U13 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:97651354-97651874 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:97651875-97652395 Neighboring gene ribosomal L24 domain containing 1 pseudogene Neighboring gene cAMP responsive element binding protein 1 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. Cloning and functional analysis of cDNAs with open reading frames for 300 previously undefined genes expressed in CD34+ hematopoietic stem/progenitor cells. Zhang QH, et al. Genome Res, 2000 Oct. PMID 11042152, Free PMC Article
    2. Genome-scale RNAi screen for host factors required for HIV replication. Zhou H, et al. Cell Host Microbe, 2008 Nov 13. PMID 18976975
    3. A human protein-protein interaction network: a resource for annotating the proteome. Stelzl U, et al. Cell, 2005 Sep 23. PMID 16169070
    4. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. Kimura K, et al. Genome Res, 2006 Jan. PMID 16344560, Free PMC Article
    5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    GeneRIFs: Gene References Into Functions

    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

    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

    HIV-1 interactions

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    Replication interactions

    Interaction Pubs
    Knockdown of family with sequence similarity 178, member B (FAM178B) by siRNA inhibits HIV-1 replication in HeLa P4/R5 cells PubMed

    Go to the HIV-1, Human Interaction Database

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Homology

    General protein information

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    Preferred Names
    protein FAM178B

    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_001122646.3 → NP_001116118.2  protein FAM178B isoform A

      Status: VALIDATED

      Description
      Transcript Variant: This variant (A) represents the longest transcript and encodes the longest isoform (A).
      Source sequence(s)
      AC079395, AK122705, BC039488, BI826484
      Consensus CDS
      CCDS46366.2
      UniProtKB/Swiss-Prot
      A8MXN2, E9PD86, Q8IUY0, Q8IXR5, Q9P0P4
      Related
      ENSP00000429896.1, ENST00000490605.3
      Conserved Domains (2) summary
      PHA03321
      Location:51 → 194
      PHA03321; tegument protein VP11/12; Provisional
      pfam14816
      Location:189 → 541
      FAM178; Family of unknown function, FAM178

    2. NM_001172667.2 → NP_001166138.1  protein FAM178B isoform C precursor

      See identical proteins and their annotated locations for NP_001166138.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (C) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at an alternate start codon, compared to variant A. The encoded isoform (C) has a distinct N-terminus and is shorter than isoform A.
      Source sequence(s)
      AC092636, BC038583, BX103404
      UniProtKB/Swiss-Prot
      Q8IXR5
      Related
      ENST00000470789.5

    3. NM_016490.5 → NP_057574.2  protein FAM178B isoform B

      See identical proteins and their annotated locations for NP_057574.2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (B) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream start codon, compared to variant A. The encoded isoform (B) is shorter than isoform A.
      Source sequence(s)
      BC038583, BC051379
      Consensus CDS
      CCDS33252.1
      UniProtKB/Swiss-Prot
      Q8IXR5
      Related
      ENSP00000377160.2, ENST00000393526.6

    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_000002.12 Reference GRCh38.p14 Primary Assembly

      Range
      96875885..96986580 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060926.1 Alternate T2T-CHM13v2.0

      Range
      97382518..97493200 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8IXR5.3 GenPept UniProtKB/Swiss-Prot:Q8IXR5

    Gene LinkOut

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

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