LXL04_018154 | RubberDandelionOmics

Gene overview

LXL04_018154

Reference: OH-1004 Chr: Chr04 Coordinates: 7792704-7793944 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1143 bp · LXL04_018154|LXL04_018154|OH1004|cDNA

ATGGAATTCTTCAAAGCTCATAACCTACTCTTAATTGTGATTCTTACCCTCACACTATCCAGCATCACAAGTGTTACAAACTCCATGTCTTCTTCTAATACCCCAAATAAGGGAGCTTATTGGCCTTCATGGGCCATAAACTTCCCGCCATCCGCCATTGACACAACTCTTTTCACTCACTTCTACTACGCTTTCCTTTCTCCCAACAACACCACCTTCAAATTCGAAATAGATAACCCAACCGCTTTCTTGCTCAAAAA...

CDS

Download CDS FASTA

1143 bp · LXL04_018154|LXL04_018154|OH1004|CDS

ATGGAATTCTTCAAAGCTCATAACCTACTCTTAATTGTGATTCTTACCCTCACACTATCCAGCATCACAAGTGTTACAAACTCCATGTCTTCTTCTAATACCCCAAATAAGGGAGCTTATTGGCCTTCATGGGCCATAAACTTCCCGCCATCCGCCATTGACACAACTCTTTTCACTCACTTCTACTACGCTTTCCTTTCTCCCAACAACACCACCTTCAAATTCGAAATAGATAACCCAACCGCTTTCTTGCTCAAAAA...

Protein

Download Protein FASTA

380 aa · LXL04_018154|LXL04_018154|OH1004|PROTEIN

MEFFKAHNLLLIVILTLTLSSITSVTNSMSSSNTPNKGAYWPSWAINFPPSAIDTTLFTHFYYAFLSPNNTTFKFEIDNPTAFLLKNFTTTLHTKNPNLKTLFSVGGASEGRQIFSNMAATHKSRKSFIFSTIEVARKFEFDGVDLDWEFPETPTDMKNFRRLIHEWRIAVQKESKSTGMPRILLSAATYYSPVLTLDDIYRKYPVASINRNLDWINAMCYDYRGSWDLSATGAPALLYDPNSNVSTSYGLQAWIKEKIH...

Flanking Sequence Download

Sequence orientation and download details

Upstream/downstream are capped at 10000 bp per side. Negative-strand genes are reverse-complemented so the final FASTA follows transcriptional 5′→3′ orientation.

ID Mapping

Input ID	`LXL04_018154`
TK1151 ID	TkA08G023310
OH-1004 ID	LXL04_018154
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	100.000
Protein coverage (%)	TK1151 100.000 / OH-1004 100.000 Coverage and evidence Coverage is the aligned span of the best-scoring HSP divided by representative protein length. A homolog match does not establish functional validation.
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_018154

Location Chr04:7792704-7793944 (+)

Description Similar to CHIT5B: Class V chitinase CHIT5b

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g19810`	Can hydrolyze glycol chitin and chitin oligosaccharides (e.g. N-acetylglucosamine) (GlcNAc)4, (GlcNAc)5 and (GlcNAc)6.	A class V chitinase from Arabidopsis thaliana: gene responses, enzymatic properties, and crystallographic analysis.2011 · DOI: 10.1007/s00425-011-1390-3 Introduction of a tryptophan side chain into subsite +1 enhances transglycosylation activity of a GH-18 chitinase from Arabidopsis thaliana, AtChiC.2013 · DOI: 10.1093/glycob/cws125

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_018154 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0000272 polysaccharide catabolic process Biological Process

GO:0005975 carbohydrate metabolic process Biological Process

GO:0006032 chitin catabolic process Biological Process

GO:0009651 response to salt stress Biological Process

GO:0009737 response to abscisic acid Biological Process

GO:0009753 response to jasmonic acid Biological Process

GO:0009877 nodulation Biological Process

GO:0050832 defense response to fungus Biological Process

GO:0005576 extracellular region Cellular Component

GO:0009505 plant-type cell wall Cellular Component

GO:0099503 secretory vesicle Cellular Component

GO:0004568 chitinase activity Molecular Function

KEGG gene cross-reference

ath:AT4G19810

mtr:25481955

mtr:25493983

mtr:25493984

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

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Gene expression

View expression in different studies, tissues and treatments. Results are presented separately by study and measurement unit.

View expression for this gene

Data sources and gene correspondence

Expression data come from public transcriptome studies. Reference genomes, sample metadata and measurement units are shown with the results. Ambiguous cross-reference correspondences do not select an expression record automatically; missing values do not mean zero expression.

Subcellular Localization Top 5

Computational predictions or homology annotations below do not replace localization experiments.

Extracellular0.480

Rank 1 · LXL04_018154 · OH-1004

Cell membrane0.126

Rank 2 · LXL04_018154 · OH-1004

Endoplasmic reticulum0.093

Rank 3 · LXL04_018154 · OH-1004

Lysosome / Vacuole0.092

Rank 4 · LXL04_018154 · OH-1004

Cytoplasm0.089

Rank 5 · LXL04_018154 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF00704.35Glyco_hydro_1839-365 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_018154	`PF00704.35`	Glyco_hydro_18	39	365	2e-69	235.4

Arabidopsis / Rice Protein Homology

Only Arabidopsis and rice are shown. Swiss-Prot entries are reviewed; TrEMBL entries are supplementary sequence candidates. Similarity is not experimental validation.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`O81862`	Arabidopsis thaliana	Class V chitinase	39.130%	Swiss-Prot	moderate database homology

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