loxl2b lysyl oxidase-like 2b [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: loxl2bprovided by ZNC
Official Full Name: lysyl oxidase-like 2bprovided by ZNC
Primary source: ZFIN:ZDB-GENE-050208-29
See related: Ensembl:ENSDARG00000044074 AllianceGenome:ZFIN:ZDB-GENE-050208-29
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: im:7136137; wu:fk12g04; zgc:158414; si:dkeyp-32b1.1
Summary: Predicted to enable calcium ion binding activity; copper ion binding activity; and protein-lysine 6-oxidase activity. Predicted to be involved in several processes, including collagen fibril organization; peptidyl-lysine oxidation; and positive regulation of cell differentiation. Predicted to act upstream of or within chromatin organization. Predicted to be located in several cellular components, including basement membrane; chromatin; and endoplasmic reticulum. Predicted to be active in collagen-containing extracellular matrix and extracellular space. Is expressed in diencephalon; head mesenchyme; hindbrain; notochord; and pectoral fin. Orthologous to human LOXL2 (lysyl oxidase like 2). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: human all
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Genomic context

Location:: chromosome: 5

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	5	NC_007116.7 (27440357..27487121)
105	previous assembly	GRCz10 (GCF_000002035.5)	5	NC_007116.6 (26840204..26887636)

Chromosome 5 - NC_007116.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Markers

fc27b03.y1 (e-PCR)
- UniSTS:193348

fk12g04.x1 (e-PCR)
- UniSTS:200597

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables calcium ion binding	ISS Inferred from Sequence or Structural Similarity more info
enables copper ion binding	IEA Inferred from Electronic Annotation more info
enables copper ion binding	ISS Inferred from Sequence or Structural Similarity more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables oxidoreductase activity	IEA Inferred from Electronic Annotation more info
enables oxidoreductase activity, acting on the CH-NH2 group of donors, oxygen as acceptor	IEA Inferred from Electronic Annotation more info
enables protein-lysine 6-oxidase activity	IBA Inferred from Biological aspect of Ancestor more info
enables protein-lysine 6-oxidase activity	IEA Inferred from Electronic Annotation more info
enables protein-lysine 6-oxidase activity	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within chromatin organization	IEA Inferred from Electronic Annotation more info
involved_in collagen fibril organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in collagen fibril organization	ISS Inferred from Sequence or Structural Similarity more info
involved_in endothelial cell migration	ISS Inferred from Sequence or Structural Similarity more info
involved_in endothelial cell proliferation	ISS Inferred from Sequence or Structural Similarity more info
involved_in epithelial to mesenchymal transition	ISS Inferred from Sequence or Structural Similarity more info
involved_in heterochromatin organization	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of stem cell population maintenance	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
involved_in peptidyl-lysine oxidation	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of chondrocyte differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of epithelial to mesenchymal transition	ISS Inferred from Sequence or Structural Similarity more info
involved_in response to hypoxia	ISS Inferred from Sequence or Structural Similarity more info
involved_in sprouting angiogenesis	IBA Inferred from Biological aspect of Ancestor more info
involved_in sprouting angiogenesis	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in basement membrane	IEA Inferred from Electronic Annotation more info
located_in basement membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in chromatin	ISS Inferred from Sequence or Structural Similarity more info
located_in chromosome	IEA Inferred from Electronic Annotation more info
is_active_in collagen-containing extracellular matrix	IBA Inferred from Biological aspect of Ancestor more info
located_in endoplasmic reticulum	IEA Inferred from Electronic Annotation more info
located_in endoplasmic reticulum	ISS Inferred from Sequence or Structural Similarity more info
located_in extracellular region	IEA Inferred from Electronic Annotation more info
is_active_in extracellular space	IBA Inferred from Biological aspect of Ancestor more info
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: lysyl oxidase homolog 2b

NP_001074095.1

EC 1.4.3.13

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)

NM_001080626.1 → NP_001074095.1 lysyl oxidase homolog 2b precursor

See identical proteins and their annotated locations for NP_001074095.1

Status: PROVISIONAL

Source sequence(s)

BC129226

UniProtKB/Swiss-Prot

A1L1V4, A5WUR2, A6MH31, A9JRQ9

Related

ENSDARP00000157626.1, ENSDART00000185815.1

Conserved Domains (3) summary

smart00202
Location:53 → 154

SR; Scavenger receptor Cys-rich

pfam00530
Location:62 → 154

SRCR; Scavenger receptor cysteine-rich domain

pfam01186
Location:540 → 734

Lysyl_oxidase; Lysyl oxidase