kera keratocan [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: keraprovided by ZNC
Official Full Name: keratocanprovided by ZNC
Primary source: ZFIN:ZDB-GENE-041210-165
See related: Ensembl:ENSDARG00000056938 AllianceGenome:ZFIN:ZDB-GENE-041210-165
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: zgc:136259; si:dkeyp-38g8.3
Summary: Predicted to act upstream of or within visual perception. Predicted to be located in extracellular region. Predicted to be active in extracellular space. Is expressed in central nervous system; corneal epithelial cell; epidermis; and eye. Human ortholog(s) of this gene implicated in arcus senilis; cornea plana; and corneal dystrophy. Orthologous to human KERA (keratocan). [provided by Alliance of Genome Resources, Nov 2024]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 4

Exon count:: 4

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	4	NC_007115.7 (16338611..16345059, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	4	NC_007115.6 (16348180..16356083, complement)

Chromosome 4 - NC_007115.7 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: 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?

Data indicate that mammalian keratocan is conserved in zebrafish in terms of gene structure, expression pattern, and promoter function.
Title: Molecular analysis and characterization of zebrafish keratocan (zKera) gene.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by ZFIN

Process	Evidence Code	Pubs
acts_upstream_of_or_within visual perception	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
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

General protein information

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Preferred Names: keratocan

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_001025548.2 → NP_001020719.1 keratocan precursor

See identical proteins and their annotated locations for NP_001020719.1

Status: PROVISIONAL

Source sequence(s)

BC115058

UniProtKB/Swiss-Prot

Q0PZF1, Q5RI43

Related

ENSDARP00000073976.5, ENSDART00000079521.6

Conserved Domains (3) summary

sd00033
Location:72 → 95

LRR_RI; leucine-rich repeat [structural motif]

pfam13855
Location:266 → 328

LRR_8; Leucine rich repeat

cl26018
Location:105 → 291

NEL; C-terminal novel E3 ligase, LRR-interacting

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCz11 Primary Assembly

Genomic

NC_007115.7 Reference GRCz11 Primary Assembly

Range

16338611..16345059 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_005164765.3 → XP_005164822.1 keratocan isoform X1

See identical proteins and their annotated locations for XP_005164822.1

UniProtKB/Swiss-Prot

Q5RI43

Conserved Domains (4) summary

smart00013
Location:33 → 67

LRRNT; Leucine rich repeat N-terminal domain

cd00116
Location:68 → 175

LRR_RI; Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond ...

sd00033
Location:65 → 88

LRR_RI; leucine-rich repeat [structural motif]

pfam13855
Location:135 → 196

LRR_8; Leucine rich repeat