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BIVM basic, immunoglobulin-like variable motif containing [ Homo sapiens (human) ]

Gene ID: 54841, updated on 11-Apr-2024

Summary

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Official Symbol
BIVMprovided by HGNC
Official Full Name
basic, immunoglobulin-like variable motif containingprovided by HGNC
Primary source
HGNC:HGNC:16034
See related
Ensembl:ENSG00000134897 MIM:619006; AllianceGenome:HGNC:16034
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
Summary
Located in extracellular space. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in kidney (RPKM 9.2), heart (RPKM 8.2) and 25 other tissues See more
Orthologs
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Genomic context

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Location:
13q33.1
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 13 NC_000013.11 (102799119..102841533)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 13 NC_060937.1 (102017295..102059729)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (103451469..103493883)

Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105370337 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:103425891-103426568 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:103426569-103427246 Neighboring gene testis expressed 30 Neighboring gene protein O-glucosyltransferase 2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7970 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5484 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5486 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5485 Neighboring gene BIVM-ERCC5 readthrough Neighboring gene NANOG hESC enhancer GRCh37_chr13:103478160-103478661 Neighboring gene RNY5 pseudogene 8 Neighboring gene ReSE screen-validated silencer GRCh37_chr13:103485696-103485895 Neighboring gene H3K27ac hESC enhancers GRCh37_chr13:103497312-103498136 and GRCh37_chr13:103498137-103498959 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5487 Neighboring gene ERCC excision repair 5, endonuclease Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr13:103518038-103519237 Neighboring gene methyltransferase like 21E, 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. Identification of genetic susceptibility in preterm newborns with bronchopulmonary dysplasia by whole-exome sequencing: BIVM gene may play a role. Luo X, et al. Eur J Pediatr, 2023 Apr. PMID 36757497, Free PMC Article
  2. BIVM, a novel gene widely distributed among deuterostomes, shares a core sequence with an unusual gene in Giardia lamblia. Yoder JA, et al. Genomics, 2002 Jun. PMID 12036287
  3. An evaluation of the assembly of an approximately 15-Mb region on human chromosome 13q32-q33 linked to bipolar disorder and schizophrenia. Christian SL, et al. Genomics, 2002 May. PMID 11991713
  4. The transcriptome of human CD34+ hematopoietic stem-progenitor cells. Kim YC, et al. Proc Natl Acad Sci U S A, 2009 May 19. PMID 19416867, Free PMC Article
  5. Shotgun proteomics reveals specific modulated protein patterns in tears of patients with primary open angle glaucoma naïve to therapy. Pieragostino D, et al. Mol Biosyst, 2013 Jun. PMID 23580065

See all (13) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Identification of genetic susceptibility in preterm newborns with bronchopulmonary dysplasia by whole-exome sequencing: BIVM gene may play a role.
    Title: Identification of genetic susceptibility in preterm newborns with bronchopulmonary dysplasia by whole-exome sequencing: BIVM gene may play a role.
  2. Observational study of gene-disease association. (HuGE Navigator)
    Title: Association between genetic variants in VEGF, ERCC3 and occupational benzene haematotoxicity.
Submit: New GeneRIF Correction

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

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Readthrough BIVM-ERCC5

Readthrough gene: BIVM-ERCC5, Included gene: ERCC5

Homology

Clone Names

  • FLJ44301, FLJ44556, MGC133326

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Component Evidence Code Pubs
located_in cytoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in extracellular space HDA PubMed 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
basic immunoglobulin-like variable motif-containing 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_001159596.2 → NP_001153068.1  basic immunoglobulin-like variable motif-containing protein isoform b

    See identical proteins and their annotated locations for NP_001153068.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) has multiple differences compared to variant 1. These differences result in a distinct 5' UTR and cause translation initiation at a downstream start codon, compared to variant 1. The encoded protein (isoform b) is shorter than isoform a.
    Source sequence(s)
    AF411385, BC112339, GD145579
    Consensus CDS
    CCDS53879.1
    UniProtKB/TrEMBL
    A0A494C1A7
    Related
    ENSP00000412794.2, ENST00000448849.3

  2. NM_017693.4 → NP_060163.2  basic immunoglobulin-like variable motif-containing protein isoform a

    See identical proteins and their annotated locations for NP_060163.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (a).
    Source sequence(s)
    AF411385, GD145579
    Consensus CDS
    CCDS9505.1
    UniProtKB/Swiss-Prot
    Q2M1J2, Q86UB2, Q9NXM4
    UniProtKB/TrEMBL
    A0A494C0D0
    Related
    ENSP00000257336.1, ENST00000257336.6

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_000013.11 Reference GRCh38.p14 Primary Assembly

    Range
    102799119..102841533
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060937.1 Alternate T2T-CHM13v2.0

    Range
    102017295..102059729
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q86UB2.3 GenPept UniProtKB/Swiss-Prot:Q86UB2

Gene LinkOut

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

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