TkA01G503320 | RubberDandelionOmics

Gene overview

TkA01G503320

Reference: TK1151 Chr: Chr01 Coordinates: 126034751-126039053 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1514 bp · TkA01G503320|TK1151|cDNA

CCGTCTATTTGCAGAGTAGAAAATGGAAGAGGACAAAGAAGAATTGAAATCATTCAAAGAATTAGGAGTAATCGAGCAATTAATCGAAGCTTGTGATAGTTTAGGCTGGAAAAATCCTTCTAAGATACAGACCGAAGCCATTCCTCATGCACTTCAAGGGAAGGATTTAATCGGGCTAGCACAAACCGGTTCTGGTAAAACTGGAGCTTTTGCTCTTCCAATTCTTCAAGCTCTCTTTGAAGCTCCACAAGCCTTCTTCG...

CDS

Download CDS FASTA

1326 bp · TkA01G503320|TK1151|CDS

ATGGAAGAGGACAAAGAAGAATTGAAATCATTCAAAGAATTAGGAGTAATCGAGCAATTAATCGAAGCTTGTGATAGTTTAGGCTGGAAAAATCCTTCTAAGATACAGACCGAAGCCATTCCTCATGCACTTCAAGGGAAGGATTTAATCGGGCTAGCACAAACCGGTTCTGGTAAAACTGGAGCTTTTGCTCTTCCAATTCTTCAAGCTCTCTTTGAAGCTCCACAAGCCTTCTTCGCCTGCGTGCTTTCTCCCACAAG...

Protein

Download Protein FASTA

441 aa · TkA01G503320|TK1151|PROTEIN

MEEDKEELKSFKELGVIEQLIEACDSLGWKNPSKIQTEAIPHALQGKDLIGLAQTGSGKTGAFALPILQALFEAPQAFFACVLSPTRELAIQIAEQFEALGSSIGVRSAVLVGGVDQVQQSIALGKRPHVVVATPGRLIDHLTNTKGFSLRSIKYLVLDEADRLLNEDFEKSLDEILNAIPRERRTYLFSATMTKKVQKLQRACLRNPVKIEAASKYSTVDTLNQQYLFVPAKLKDCYLLYILIEKSASKSMVFTRTCEA...

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	`TkA01G503320`
TK1151 ID	TkA01G503320
OH-1004 ID	LXL04_001856
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	95.300
Protein coverage (%)	TK1151 97.052 / OH-1004 96.145 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

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SNP / Indel variants and carrier samplesCRA009020 · TK1151

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID TkA01G503320

Location Chr01:126034751-126039053 (-)

Description Similar to RH10: DEAD-box ATP-dependent RNA helicase 10

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g60990`	May participate in leaf polarity establishment by repressing leaf-polarity and homeobox-related genes.	A genetic link between epigenetic repressor AS1-AS2 and a putative small subunit processome in leaf polarity establishment of Arabidopsis.2016 · DOI: 10.1242/bio.019109

Rice

Reference gene ID	Possible function	Papers / DOI
`UniProt: A2XKG2`	Has ATP-dependent RNA helicase activity in vitro.	No verified direct reference in this release
`Os03g0669000`	Has ATP-dependent RNA helicase activity in vitro.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_001856 · 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:0006364 rRNA processing Biological Process

GO:0006397 mRNA processing Biological Process

GO:0008380 RNA splicing Biological Process

GO:0005634 nucleus Cellular Component

GO:0005654 nucleoplasm Cellular Component

GO:0005730 nucleolus Cellular Component

GO:0005829 cytosol Cellular Component

GO:0016020 membrane 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:AT5G60990

dosa:Os03g0669000

hsa:51202

mmu:67755

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.

Nucleus0.895

Rank 1 · TkA01G503320 · TK1151

Cytoplasm0.180

Rank 2 · TkA01G503320 · TK1151

Mitochondrion0.031

Rank 3 · TkA01G503320 · TK1151

Cell membrane0.020

Rank 4 · TkA01G503320 · TK1151

Endoplasmic reticulum0.013

Rank 5 · TkA01G503320 · 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.

PF00270DEAD34-199 aa

PF04851ResIII48-193 aa

PF13401AAA_2253-179 aa

PF00271Helicase_C83-121 aa

PF00271Helicase_C174-198 aa

PF16203ERCC3_RAD25_C209-349 aa

PF00271Helicase_C239-347 aa

PF13401AAA_22257-281 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA01G503320	`PF00270`	DEAD	34	199	3.9e-48	164.1
TkA01G503320	`PF04851`	ResIII	48	193	7.6e-06	26.6
TkA01G503320	`PF13401`	AAA_22	53	179	0.013	16.5
TkA01G503320	`PF00271`	Helicase_C	83	121	9.5e-30	103.8
TkA01G503320	`PF00271`	Helicase_C	174	198	9.5e-30	103.8
TkA01G503320	`PF16203`	ERCC3_RAD25_C	209	349	3.9e-07	30.3
TkA01G503320	`PF00271`	Helicase_C	239	347	9.5e-30	103.8
TkA01G503320	`PF13401`	AAA_22	257	281	0.013	16.5
TkA01G503320	`PF22590`	Cas3-like_C_2	286	346	0.023	15.7
TkA01G503320	`PF20708`	DUF6822	308	427	0.16	11.9
TkA01G503320	`PF00271`	Helicase_C	379	424	9.5e-30	103.8
TkA01G503320	`PF22590`	Cas3-like_C_2	406	406	0.023	15.7

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
`Q8GY84`	Arabidopsis thaliana	sp\|Q8GY84\|RH10_ARATH DEAD-box ATP-dependent RNA helicase 10	76.300%	Swiss-Prot	High
`A2XKG2`	Oryza sativa subsp. indica	sp\|A2XKG2\|RH10_ORYSI DEAD-box ATP-dependent RNA helicase 10	66.900%	Swiss-Prot	High
`Q7Y183`	Oryza sativa subsp. japonica	sp\|Q7Y183\|RH10_ORYSJ DEAD-box ATP-dependent RNA helicase 10	66.900%	Swiss-Prot	High

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