LXL04_005268 | RubberDandelionOmics

Gene overview

LXL04_005268

Reference: OH-1004 Chr: Chr01 Coordinates: 159322606-159327435 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1656 bp · LXL04_005268|LXL04_005268|OH1004|cDNA

ATGACATTACTCCCAAGTGCATCGCAAATCGATGGGAATCACCCTTCTGGACTCGATTGGACTACCGAGGTATGCCGCTCCTCTATCAAATTCACTTCTGAAGGAACACGAGTCATGCAAGTATGCTGTACAAAAGACCTAAATTCAATAACCAACATCACCACAAAAGACGAATTCCTCCGACGCAAATTCGGCGACCTAACAATCATGTACGACATAATCCGCACATACGAATCAAACTACTGGACCGAAGTCACAAT...

CDS

Download CDS FASTA

1656 bp · LXL04_005268|LXL04_005268|OH1004|CDS

ATGACATTACTCCCAAGTGCATCGCAAATCGATGGGAATCACCCTTCTGGACTCGATTGGACTACCGAGGTATGCCGCTCCTCTATCAAATTCACTTCTGAAGGAACACGAGTCATGCAAGTATGCTGTACAAAAGACCTAAATTCAATAACCAACATCACCACAAAAGACGAATTCCTCCGACGCAAATTCGGCGACCTAACAATCATGTACGACATAATCCGCACATACGAATCAAACTACTGGACCGAAGTCACAAT...

Protein

Download Protein FASTA

551 aa · LXL04_005268|LXL04_005268|OH1004|PROTEIN

MTLLPSASQIDGNHPSGLDWTTEVCRSSIKFTSEGTRVMQVCCTKDLNSITNITTKDEFLRRKFGDLTIMYDIIRTYESNYWTEVTIENHNSLGRLDNWNLTWDWMRDEFINDIKGAYPYTRDSSPCIFGPQGAFYQQMDFLTVLNCERSPTLINLPIPLPRSYVFPQVQKEERNHDSISGFANGGNGKKHEVEEKTVWVEGIVPGIDICNHDLKAAATWEVDGTGSATGWALNSLKKPIVSENWLHQCWKEHRHVPHDS...

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_005268`
TK1151 ID	TkA03G042580
OH-1004 ID	LXL04_005268
Relationship / confidence	Multi Candidate From Tk1151 / Complex relationship
Protein identity (%)	75.700
Protein coverage (%)	TK1151 79.193 / OH-1004 58.258 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

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_005268

Location Chr01:159322606-159327435 (+)

Description Similar to At2g35920: DExH-box ATP-dependent RNA helicase DExH1

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g35920`	DExH-box ATP-dependent RNA helicase DExH1.	No verified direct reference in this release
`At1g48650`	DExH-box ATP-dependent RNA helicase DExH3.	No verified direct reference in this release
`At2g01130`	DExH-box ATP-dependent RNA helicase DExH5, mitochondrial.	No verified direct reference in this release
`At4g16120`	COBRA-like protein 7.	No verified direct reference in this release
`At5g49270`	COBRA-like protein 9.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_005268 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009932 cell tip growth Biological Process

GO:0010053 root epidermal cell differentiation Biological Process

GO:0010215 cellulose microfibril organization Biological Process

GO:0048765 root hair cell differentiation Biological Process

GO:0048768 root hair cell tip growth Biological Process

GO:0052324 plant-type cell wall cellulose biosynthetic process Biological Process

GO:0005634 nucleus Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005768 endosome Cellular Component

GO:0005794 Golgi apparatus Cellular Component

GO:0005802 trans-Golgi network Cellular Component

GO:0005829 cytosol Cellular Component

KEGG gene cross-reference

ath:AT1G48650

ath:AT2G01130

ath:AT2G35920

ath:AT4G16120

ath:AT5G49270

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.

Cytoplasm0.238

Rank 1 · LXL04_005268 · OH-1004

Nucleus0.186

Rank 2 · LXL04_005268 · OH-1004

Extracellular0.169

Rank 3 · LXL04_005268 · OH-1004

Endoplasmic reticulum0.166

Rank 4 · LXL04_005268 · OH-1004

Cell membrane0.129

Rank 5 · LXL04_005268 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

Open Subcellular Module

Predicted Functional Domains

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

PF04833.21COBRA_N81-158 aa

PF00271.38Helicase_C358-446 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_005268	`PF04833.21`	COBRA_N	81	158	3.3e-19	70.1
LXL04_005268	`PF00271.38`	Helicase_C	358	446	9.3e-09	36.2

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.

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Protein	Organism	Description	Identity	Database	Confidence
`F4ILR7`	Arabidopsis thaliana	DExH-box ATP-dependent RNA helicase DExH1	63.964%	Swiss-Prot	weak database homology
`F4HYJ7`	Arabidopsis thaliana	DExH-box ATP-dependent RNA helicase DExH3	43.891%	Swiss-Prot	weak database homology
`F4IM84`	Arabidopsis thaliana	DExH-box ATP-dependent RNA helicase DExH5, mitochondrial	43.256%	Swiss-Prot	weak database homology
`Q8GZ17`	Arabidopsis thaliana	COBRA-like protein 7	58.594%	Swiss-Prot	weak database homology
`Q9FJ13`	Arabidopsis thaliana	COBRA-like protein 9	55.556%	Swiss-Prot	weak database homology

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