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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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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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