TkA06G467320 | RubberDandelionOmics

Gene overview

TkA06G467320

Reference: TK1151 Chr: Chr06 Coordinates: 115581707-115584983 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2161 bp · TkA06G467320|TK1151|cDNA

ACTAATTTGGGGCTATTTTTTTTGTGAGCCCTATTTTGAAAAGTTTGGATCCCCATTTTTGTTCCCCATATACAAACCTGTCGCGTTCATTTCTTCCTCGCTTGACTTCAGGTCAAAAAATACGAAGAATTATCGAATTCGGTTCATCAGATCTTTCTTTATTCCTCATCCAATTACTGAAGTCATTTTCAATCCGTATCACGCAACTGCATATTCAAATTATTAGCAAAAGAAATGCGTACTTTCCCTCGCTTCTTGTG...

CDS

Download CDS FASTA

1497 bp · TkA06G467320|TK1151|CDS

ATGAATAACAACGGACGTGGAGGAGGACGGTATCCGCCGGGAATCGGGCGTGGTGGTGGTGGGAATTATCAGGGAAGCACTAACCCTAGTTTCCAGCAACAGAGAAATTATCAACAACAGCAGTATGCGCAGAGGAATCCGATGCAAAACCAACAGTATCAACAGCAGCAACAACAACAACAGCAACAACAACAACAACAGTGGTTAAGAAGAAACTCACTGGAGAACCATACAAGCACCACGGTTGAAGTCGAAAAGAC...

Protein

Download Protein FASTA

498 aa · TkA06G467320|TK1151|PROTEIN

MNNNGRGGGRYPPGIGRGGGGNYQGSTNPSFQQQRNYQQQQYAQRNPMQNQQYQQQQQQQQQQQQQQWLRRNSLENHTSTTVEVEKTMQSEGNDSSSQDWKAQLRLPPADTRYRTEDVTATKGNEFEDYFLKRDLLMGIYEKGFERPSPVQEESIPIALTGSDILARAKNGTGKTAAFCIPILEKIDQDTNVIQAVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDIMRLYQPVHLLVGTPGRILDLTKKG...

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	`TkA06G467320`
TK1151 ID	TkA06G467320
OH-1004 ID	LXL04_026733
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	88.400
Protein coverage (%)	TK1151 98.594 / OH-1004 98.156 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	TK1151 / GWHBCHF00000000

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · TK1151

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID TkA06G467320

Location Chr06:115581707-115584983 (-)

Description Similar to RH8: DEAD-box ATP-dependent RNA helicase 8

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g00660`	ATP-dependent RNA helicase involved in mRNA turnover, and more specifically in mRNA decapping.	No verified direct reference in this release
`At2g45810`	ATP-dependent RNA helicase involved in mRNA turnover, and more specifically in mRNA decapping.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os04g0533000`	ATP-dependent RNA helicase involved in mRNA turnover, and more specifically in mRNA decapping.	No verified direct reference in this release
`Os02g0641800`	ATP-dependent RNA helicase involved in mRNA turnover, and more specifically in mRNA decapping.	No verified direct reference in this release
`Os10g0503700`	ATP-dependent RNA helicase involved in mRNA turnover, and more specifically in mRNA decapping.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_026733 · GCA_047496595.1_OSU_TarKok_2.0. These OH1004 annotations are retrieved through ID mapping; the Arabidopsis/rice table below uses protein alignments from the query reference.

GO annotations (OH1004 source)

GO:0006397 mRNA processing Biological Process

GO:0016032 viral process Biological Process

GO:0017148 negative regulation of translation Biological Process

GO:0019060 intracellular transport of viral protein in host cell Biological Process

GO:0033962 P-body assembly Biological Process

GO:0034063 stress granule assembly Biological Process

GO:0051028 mRNA transport Biological Process

GO:0000932 P-body Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005829 cytosol Cellular Component

GO:0010494 cytoplasmic stress granule Cellular Component

GO:0043657 host cell Cellular Component

KEGG gene cross-reference

ath:AT2G45810

ath:AT4G00660

dosa:Os02g0641800

dosa:Os04g0533000

dosa:Os10g0503700

osa:4336501

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

Open Annotation Module

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.

Cytoplasm0.636

Rank 1 · TkA06G467320 · TK1151

Nucleus0.468

Rank 2 · TkA06G467320 · TK1151

Mitochondrion0.046

Rank 3 · TkA06G467320 · TK1151

Endoplasmic reticulum0.041

Rank 4 · TkA06G467320 · TK1151

Cell membrane0.039

Rank 5 · TkA06G467320 · TK1151

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.

PF03867FTZ22-95 aa

PF03153TFIIA23-105 aa

PF29509Mdt3032-83 aa

PF20802MAML1_3_TAD136-92 aa

PF00271Helicase_C47-70 aa

PF14617CMS149-75 aa

PF00270DEAD59-65 aa

PF00270DEAD148-313 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA06G467320	`PF03867`	FTZ	22	95	0.84	9.9
TkA06G467320	`PF03153`	TFIIA	23	105	0.0092	16.7
TkA06G467320	`PF29509`	Mdt30	32	83	8.4	6.0
TkA06G467320	`PF20802`	MAML1_3_TAD1	36	92	9.1	8.2
TkA06G467320	`PF00271`	Helicase_C	47	70	1.2e-31	109.9
TkA06G467320	`PF14617`	CMS1	49	75	0.16	12.0
TkA06G467320	`PF00270`	DEAD	59	65	3.8e-47	160.9
TkA06G467320	`PF00270`	DEAD	148	313	3.8e-47	160.9
TkA06G467320	`PF20802`	MAML1_3_TAD1	168	190	9.1	8.2
TkA06G467320	`PF00271`	Helicase_C	191	234	1.2e-31	109.9
TkA06G467320	`PF14617`	CMS1	200	274	0.16	12.0
TkA06G467320	`PF00271`	Helicase_C	348	456	1.2e-31	109.9

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
`Q8RXK6`	Arabidopsis thaliana	sp\|Q8RXK6\|RH8_ARATH DEAD-box ATP-dependent RNA helicase 8	88.500%	Swiss-Prot	High
`Q94BV4`	Arabidopsis thaliana	sp\|Q94BV4\|RH6_ARATH DEAD-box ATP-dependent RNA helicase 6	85.200%	Swiss-Prot	High
`Q7XMK8`	Oryza sativa subsp. japonica	sp\|Q7XMK8\|RH6_ORYSJ DEAD-box ATP-dependent RNA helicase 6	87.900%	Swiss-Prot	High
`Q6H7S2`	Oryza sativa subsp. japonica	sp\|Q6H7S2\|RH8_ORYSJ DEAD-box ATP-dependent RNA helicase 8	87.600%	Swiss-Prot	High
`Q109G2`	Oryza sativa subsp. japonica	sp\|Q109G2\|RH12_ORYSJ DEAD-box ATP-dependent RNA helicase 12	87.500%	Swiss-Prot	High

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