LXL04_014601 | RubberDandelionOmics

Gene overview

LXL04_014601

Reference: OH-1004 Chr: Chr03 Coordinates: 53515888-53519961 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2469 bp · LXL04_014601|LXL04_014601|OH1004|cDNA

ATGGCCTCTCAACCGCCGAAGAAGAAACCGAGAAAGAGGAATATAATCAGAGAGAGCACGGGACAACTAGAGCGATTCGACTCACTCCCATGGACCTCATCTCTTCCCGGTGCCGACGACGACCCATTCTCTGCATTCGCCGGAATAAATGACTTTGAAGGAGGTGTTTTGTCTCTTGAAGAGATTGATGAATCAGAGTACAAATTGGAGCTTCCCAAAGGTTTTCAAAAGGGAGGGAAAAAACCGGAAAAACCGACAAA...

CDS

Download CDS FASTA

2469 bp · LXL04_014601|LXL04_014601|OH1004|CDS

ATGGCCTCTCAACCGCCGAAGAAGAAACCGAGAAAGAGGAATATAATCAGAGAGAGCACGGGACAACTAGAGCGATTCGACTCACTCCCATGGACCTCATCTCTTCCCGGTGCCGACGACGACCCATTCTCTGCATTCGCCGGAATAAATGACTTTGAAGGAGGTGTTTTGTCTCTTGAAGAGATTGATGAATCAGAGTACAAATTGGAGCTTCCCAAAGGTTTTCAAAAGGGAGGGAAAAAACCGGAAAAACCGACAAA...

Protein

Download Protein FASTA

822 aa · LXL04_014601|LXL04_014601|OH1004|PROTEIN

MASQPPKKKPRKRNIIRESTGQLERFDSLPWTSSLPGADDDPFSAFAGINDFEGGVLSLEEIDESEYKLELPKGFQKGGKKPEKPTKRKREETNSDEAINKDLKNNETEKEVNTGETGKDAEKKKKKKKKKKKKKDKTPKESTDNKQETDNKEETDNKEESVTTVAETNDRIENEEDKVDDSEYHAWYELRLHPLLMKSISNLKFTEPTPIQKACIPAGAHQGKDVIGAAETGSGKTLAFGLPILQRLLEERDKSERQLE...

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_014601`
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_014601

Location Chr03:53515888-53519961 (-)

Description Similar to Os04g0510400: DEAD-box ATP-dependent RNA helicase 13

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g16840`	DEAD-box ATP-dependent RNA helicase 13.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os04g0510400`	DEAD-box ATP-dependent RNA helicase 13.	No verified direct reference in this release
`UniProt: A2XVF7`	DEAD-box ATP-dependent RNA helicase 13.	No verified direct reference in this release

Functional annotation source

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Functional annotation source: OH1004 · LXL04_014601 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006364 rRNA processing Biological Process

GO:0009409 response to cold Biological Process

GO:0031425 chloroplast RNA processing Biological Process

GO:0005634 nucleus Cellular Component

GO:0005730 nucleolus Cellular Component

GO:0003723 RNA binding Molecular Function

GO:0003724 RNA helicase activity Molecular Function

GO:0005524 ATP binding Molecular Function

GO:0016887 ATP hydrolysis activity Molecular Function

KEGG gene cross-reference

ath:AT3G16840

cnb:CNBL0260

ddi:DDB_G0281841

dosa:Os04g0510400

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.

Nucleus0.949

Rank 1 · LXL04_014601 · OH-1004

Cytoplasm0.100

Rank 2 · LXL04_014601 · OH-1004

Mitochondrion0.020

Rank 3 · LXL04_014601 · OH-1004

Cell membrane0.018

Rank 4 · LXL04_014601 · OH-1004

Endoplasmic reticulum0.011

Rank 5 · LXL04_014601 · 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.

PF00270.36DEAD209-414 aa

PF00271.38Helicase_C480-587 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_014601	`PF00270.36`	DEAD	209	414	5e-41	140.9
LXL04_014601	`PF00271.38`	Helicase_C	480	587	3.2e-31	108.6

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
`Q93Y39`	Arabidopsis thaliana	DEAD-box ATP-dependent RNA helicase 13	62.344%	Swiss-Prot	strong database homology
`A3AVH5`	Oryza sativa subsp. japonica	DEAD-box ATP-dependent RNA helicase 13	61.319%	Swiss-Prot	strong database homology
`A2XVF7`	Oryza sativa subsp. indica	DEAD-box ATP-dependent RNA helicase 13	61.319%	Swiss-Prot	strong database homology

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