OLFML2B olfactomedin like 2B [Homo sapiens (human)] - Gene

Summary

Official Symbol: OLFML2Bprovided by HGNC
Official Full Name: olfactomedin like 2Bprovided by HGNC
Primary source: HGNC:HGNC:24558
See related: Ensembl:ENSG00000162745 AllianceGenome:HGNC:24558
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Homo sapiens
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary: This gene encodes an olfactomedin domain-containing protein. Most olfactomedin domain-containing proteins are secreted glycoproteins. [provided by RefSeq, Dec 2016]
Expression: Broad expression in gall bladder (RPKM 9.8), placenta (RPKM 5.9) and 16 other tissues See more
Orthologs: mouse all
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Genomic context

Location:: 1q23.3

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	1	NC_000001.11 (161983192..162023869, complement)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	1	NC_060925.1 (161327500..161368171, complement)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	1	NC_000001.10 (161952982..161993659, complement)

Chromosome 1 - NC_000001.11 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

The high expression of OLFML2B was associate with a short overall survival in gastric cancer patients.
Title: Bioinformatic exploration of OLFML2B overexpression in gastric cancer base on multiple analyzing tools.
Clinical trial of gene-disease association and gene-environment interaction. (HuGE Navigator)
Title: Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score.
Observational study of gene-disease association, gene-gene interaction, gene-environment interaction, and genetic testing. (HuGE Navigator)
Title: Integrative predictive model of coronary artery calcification in atherosclerosis.

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

EBI GWAS Catalog

Description
Common genetic variation near the phospholamban gene is associated with cardiac repolarisation: meta-analysis of three genome-wide association studies. EBI GWAS Catalog EBI GWAS CatalogPubMed
Genetic association study of QT interval highlights role for calcium signaling pathways in myocardial repolarization. EBI GWAS Catalog EBI GWAS CatalogPubMed
Genome wide association study (GWAS) of Chagas cardiomyopathy in Trypanosoma cruzi seropositive subjects. EBI GWAS Catalog EBI GWAS CatalogPubMed
Genome-wide association and population genetic analysis of C-reactive protein in African American and Hispanic American women. EBI GWAS Catalog EBI GWAS CatalogPubMed

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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Replication interactions

Interaction	Pubs
Knockdown of olfactomedin-like 2B (OLFML2B) 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

SHGC-146223 (e-PCR)
- UniSTS:172569

RH70774 (e-PCR)
- UniSTS:11162

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables extracellular matrix binding	IEA Inferred from Electronic Annotation more info
enables identical protein binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in extracellular matrix organization	IEA Inferred from Electronic Annotation more info
involved_in signal transduction	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in extracellular matrix	IEA Inferred from Electronic Annotation more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: olfactomedin-like protein 2B

Names: photomedin-2

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.

Genomic

NG_052853.1 RefSeqGene

Range

5597..46274

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001297713.2 → NP_001284642.1 olfactomedin-like protein 2B isoform 1 precursor

Status: REVIEWED

Description

Transcript Variant: This variant (1) uses an alternate in-frame splice site in the 5' coding region, compared to variant 3. The encoded isoform (1) is shorter than isoform 3.

Source sequence(s)

AK301499, AK316154, AL590408, BC067274

Consensus CDS

CCDS72966.1

UniProtKB/TrEMBL

B4DWE8, F2Z3N3

Related

ENSP00000356917.2, ENST00000367940.2

Conserved Domains (1) summary

pfam02191
Location:499 → 747

OLF; Olfactomedin-like domain
NM_001347700.2 → NP_001334629.1 olfactomedin-like protein 2B isoform 3 precursor

Status: REVIEWED

Description

Transcript Variant: This variant (3) represents the longest transcript and encodes the longest isoform (3).

Source sequence(s)

AL391825, AL590408, BC067274

UniProtKB/TrEMBL

B4DWE8
NM_015441.3 → NP_056256.1 olfactomedin-like protein 2B isoform 2 precursor

See identical proteins and their annotated locations for NP_056256.1

Status: REVIEWED

Description

Transcript Variant: This variant (2) uses an alternate in-frame splice site, compared to variant 3. The encoded isoform (2) is shorter than isoform 3.

Source sequence(s)

AL391825, AL590408, BC067274

Consensus CDS

CCDS1236.1

UniProtKB/Swiss-Prot

B7ZA39, Q5VU96, Q68BL8, Q6NX46, Q86X11, Q9Y3X6

UniProtKB/TrEMBL

B4DWE8

Related

ENSP00000294794.3, ENST00000294794.8

Conserved Domains (3) summary

pfam02191
Location:498 → 746

OLF; Olfactomedin-like domain

pfam06785
Location:125 → 252

UPF0242; Uncharacterized protein family (UPF0242)

cl25496
Location:349 → 481

Herpes_BLLF1; Herpes virus major outer envelope glycoprotein (BLLF1)

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

NC_000001.11 Reference GRCh38.p14 Primary Assembly

Range

161983192..162023869 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_011509398.3 → XP_011507700.1 olfactomedin-like protein 2B isoform X1

Conserved Domains (1) summary

pfam02191
Location:258 → 506

OLF; Olfactomedin-like domain