LXL04_030027 | RubberDandelionOmics

Gene overview

LXL04_030027

Reference: OH-1004 Chr: Chr06 Coordinates: 106005790-106008433 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1995 bp · LXL04_030027|LXL04_030027|OH1004|cDNA

ATGGGAGGAACTGCAAGAATCCTAACCCTCTCATTATCttcaaccaccaccacccgcCTCTCTTTCTCCCTCCTTTCCTTCCCCAAATTCCATCCTCCTCGTAGGGTTTATCAAGGGTTTAGGTCCCTCTCCATcaccgccgccgccgccaccaccacccccTTCACAGACGAACCATCATTAGAATCATCCAAGCACTCTATCCTCCTTGAACGTCTCAGAATCAGACACCTCAAAGATTCAGTAGGTAGTACCTACAA...

CDS

Download CDS FASTA

1995 bp · LXL04_030027|LXL04_030027|OH1004|CDS

ATGGGAGGAACTGCAAGAATCCTAACCCTCTCATTATCTTCAACCACCACCACCCGCCTCTCTTTCTCCCTCCTTTCCTTCCCCAAATTCCATCCTCCTCGTAGGGTTTATCAAGGGTTTAGGTCCCTCTCCATCACCGCCGCCGCCGCCACCACCACCCCCTTCACAGACGAACCATCATTAGAATCATCCAAGCACTCTATCCTCCTTGAACGTCTCAGAATCAGACACCTCAAAGATTCAGTAGGTAGTACCTACAA...

Protein

Download Protein FASTA

664 aa · LXL04_030027|LXL04_030027|OH1004|PROTEIN

MGGTARILTLSLSSTTTTRLSFSLLSFPKFHPPRRVYQGFRSLSITAAAATTTPFTDEPSLESSKHSILLERLRIRHLKDSVGSTYKTNNKKAQSIPFQESEIEDGSSKHLKSKKEEEYSFTELGLSEEVLAALTEMGITAPTEIQSLGIPAVIDEKSVVLGSHTGSGKTLAYLLPLVQLLRQDEALNGMAMKPRRPRAVVLCPTRELCEQVFGVAKAISHHARFRATMVSGGGRLRPQEDALNSPIDMVVGTPGRVLQH...

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_030027`
TK1151 ID	TkA07G371360
OH-1004 ID	LXL04_030027
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.200
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_030027

Location Chr06:106005790-106008433 (+)

Description Similar to RH39: DEAD-box ATP-dependent RNA helicase 39

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g09730`	DEAD-box ATP-dependent RNA helicase 39.	No verified direct reference in this release
`At3g06980`	Probably involved in resistance to biotic and abiotic stresses.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os01g0184500`	DEAD-box ATP-dependent RNA helicase 39.	No verified direct reference in this release
`Os03g0108600`	Probably involved in resistance to biotic and abiotic stresses.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_030027 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006401 RNA catabolic process Biological Process

GO:0006968 cellular defense response Biological Process

GO:0050832 defense response to fungus Biological Process

GO:0071369 cellular response to ethylene stimulus Biological Process

GO:0071395 cellular response to jasmonic acid stimulus Biological Process

GO:0071446 cellular response to salicylic acid stimulus Biological Process

GO:0110102 ribulose bisphosphate carboxylase complex assembly Biological Process

GO:1901259 chloroplast rRNA processing Biological Process

GO:1902775 mitochondrial large ribosomal subunit assembly Biological Process

GO:0005634 nucleus Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005829 cytosol Cellular Component

KEGG gene cross-reference

ath:AT3G06980

ath:AT4G09730

dosa:Os01g0184500

dosa:Os03g0108600

sfr:Sfri_0461

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.

Plastid0.905

Rank 1 · LXL04_030027 · OH-1004

Mitochondrion0.060

Rank 2 · LXL04_030027 · OH-1004

Nucleus0.059

Rank 3 · LXL04_030027 · OH-1004

Cytoplasm0.020

Rank 4 · LXL04_030027 · OH-1004

Cell membrane0.009

Rank 5 · LXL04_030027 · 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.

PF00270.36DEAD143-325 aa

PF00271.38Helicase_C362-473 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_030027	`PF00270.36`	DEAD	143	325	1.2e-38	133.2
LXL04_030027	`PF00271.38`	Helicase_C	362	473	1.1e-28	100.3

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
`Q56X76`	Arabidopsis thaliana	DEAD-box ATP-dependent RNA helicase 39	61.169%	Swiss-Prot	strong database homology
`Q8GUG7`	Arabidopsis thaliana	DEAD-box ATP-dependent RNA helicase 50	35.149%	Swiss-Prot	moderate database homology
`Q5VRY0`	Oryza sativa subsp. japonica	DEAD-box ATP-dependent RNA helicase 39	63.361%	Swiss-Prot	strong database homology
`Q0DVX2`	Oryza sativa subsp. japonica	DEAD-box ATP-dependent RNA helicase 50	30.321%	Swiss-Prot	moderate database homology

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