TkA07G004720 | RubberDandelionOmics

Gene overview

TkA07G004720

Reference: TK1151 Chr: Chr07 Coordinates: 1270036-1276522 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2307 bp · TkA07G004720|TK1151|cDNA

AAATAGAGAGGTCCATCTCTGTTCCTATCACAAAAAATCGATCACTGCTCTCTCCCGTTTACAAGTTTCCGTCCCACTTAGACTCTAGGTCAAAATGCTAACTTTCTCCATTTGAGTTCTTCAGATCTTTACTCGTAATTCCTTTCCCAAAACTGTTCTTCAATTCCAAATTGCAAAACATTGGCTTATATTTTTTTACGCCAACGATTTTGCTTCTAATTTGCTACCAATACCAAAAACCATCGATTCCCACCTCGTTG...

CDS

Download CDS FASTA

1467 bp · TkA07G004720|TK1151|CDS

ATGAATAGTAACTACGCACGAGGAGGAGGGGGAAGATATCCGCCGGGAATTGGGCGCGGTGGTGGGAATAATTATGGAAACCCTAATCCTAATTTCCAACAACAGTATGCTCAAAGGAATCCAGCGCACCACCAGCAGTTTCAACAACAGCAGCAGCAGCAACAACAACAATGGCTGAGAAGAAACCCTGTCGGAAATGATTCGAGCGCGGTTGACGAAGTGGAAAAGACAATACAGTCGGAGACTGCTGACCCGAGTGG...

Protein

Download Protein FASTA

488 aa · TkA07G004720|TK1151|PROTEIN

MNSNYARGGGGRYPPGIGRGGGNNYGNPNPNFQQQYAQRNPAHHQQFQQQQQQQQQQWLRRNPVGNDSSAVDEVEKTIQSETADPSGQDWKAQLRLPPADTRYRTEDVTATKGNEFEDYFLKRELLMGIYEKGFERPSPIQEESIPIALTGSDILARAKNGTGKTAAFCIPALEKIDQDSNVIQVVILVPTRELALQTSQVCKELGKHLNIQVMVTTGGTSLKDDIMRLYQPVHLLVGTPGRILDLSKKGICVLKDCAML...

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	`TkA07G004720`
TK1151 ID	TkA07G004720
OH-1004 ID	LXL04_026733
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
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	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 TkA07G004720

Location Chr07:1270036-1276522 (+)

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.

Cytoplasm0.609

Rank 1 · TkA07G004720 · TK1151

Nucleus0.497

Rank 2 · TkA07G004720 · TK1151

Mitochondrion0.045

Rank 3 · TkA07G004720 · TK1151

Endoplasmic reticulum0.044

Rank 4 · TkA07G004720 · TK1151

Cell membrane0.038

Rank 5 · TkA07G004720 · 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.

PF00271Helicase_C43-57 aa

PF00270DEAD138-303 aa

PF04851ResIII154-297 aa

PF00271Helicase_C179-224 aa

PF14617CMS1188-264 aa

PF16846Cep3301-376 aa

PF30425YjiV_C303-321 aa

PF22723NA-iREase2329-398 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA07G004720	`PF00271`	Helicase_C	43	57	6.4e-32	110.8
TkA07G004720	`PF00270`	DEAD	138	303	1.1e-46	159.4
TkA07G004720	`PF04851`	ResIII	154	297	0.00086	20.0
TkA07G004720	`PF00271`	Helicase_C	179	224	6.4e-32	110.8
TkA07G004720	`PF14617`	CMS1	188	264	0.29	11.2
TkA07G004720	`PF16846`	Cep3	301	376	0.094	12.0
TkA07G004720	`PF30425`	YjiV_C	303	321	0.087	12.9
TkA07G004720	`PF22723`	NA-iREase2	329	398	0.21	12.7
TkA07G004720	`PF00271`	Helicase_C	338	446	6.4e-32	110.8
TkA07G004720	`PF30425`	YjiV_C	387	417	0.087	12.9

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q8RXK6`	Arabidopsis thaliana	sp\|Q8RXK6\|RH8_ARATH DEAD-box ATP-dependent RNA helicase 8	82.900%	Swiss-Prot	High
`Q94BV4`	Arabidopsis thaliana	sp\|Q94BV4\|RH6_ARATH DEAD-box ATP-dependent RNA helicase 6	85.000%	Swiss-Prot	High
`Q7XMK8`	Oryza sativa subsp. japonica	sp\|Q7XMK8\|RH6_ORYSJ DEAD-box ATP-dependent RNA helicase 6	80.400%	Swiss-Prot	High
`Q6H7S2`	Oryza sativa subsp. japonica	sp\|Q6H7S2\|RH8_ORYSJ DEAD-box ATP-dependent RNA helicase 8	88.800%	Swiss-Prot	High
`Q109G2`	Oryza sativa subsp. japonica	sp\|Q109G2\|RH12_ORYSJ DEAD-box ATP-dependent RNA helicase 12	88.000%	Swiss-Prot	High

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