TkAUNG081810 | RubberDandelionOmics

Gene overview

TkAUNG081810

Reference: TK1151 Chr: ChrUn Coordinates: 23298257-23303974 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

4943 bp · TkAUNG081810|TK1151|cDNA

GTTAGATCGATCGAGCTATATGGGTTTTGCAAATTCCAATTTTAACCTCGTTATCGCACCCGTCCACTGGATCCATGAACCCGGTTGGATCAGGGCCAATTGTTGATACCGTAGAGTCGGTGCCACGGTTAAAGAAGAGAAAAGGGAGGAGAAGGAGAACTAGGTCATCTTCTTCGCCATTAGCATTCGATAACCACACCAGAGCACCTTTATATCCAAATCCTAATTTTGCTTTCCTCATTACGTCACTGTTCGCACGG...

CDS

Download CDS FASTA

2136 bp · TkAUNG081810|TK1151|CDS

ATGGAAGAGTCGAAGCATAAATCTAGCAAGAAGGAAGATTATGTGAGGAAAGAGGAAGAGCTGAAGAGAGGGCATCGTGAGAAGGATCGTAATGGGGACAGGCGTAGAGAGAAGGAGAGAGACAGGGATAAAGAGAGAGAAAGGAGTGTTGATGACAAGTACAAAGAGAAAGAGAAGCACAAGGAGAGGCATAGAGATAAGGAGAAGGAGAAGGAGAAGAAAGAGAGAGAGAGAGAGAAGGAGCGTGAACGTGAACGTGA...

Protein

Download Protein FASTA

711 aa · TkAUNG081810|TK1151|PROTEIN

MEESKHKSSKKEDYVRKEEELKRGHREKDRNGDRRREKERDRDKERERSVDDKYKEKEKHKERHRDKEKEKEKKEREREKERERERERAKEKENREKERERERVKEREREKEREREKEKERERRERREREERDREKMREKRREAERDHNSGGNDDVRDRDRKRRRRDDDHKEERERKVSSRRREDSVDNSVVSKKVDENSSDKKEVRTREEDMEEEQRKLDDEMEKRRRRVQEWQEKRRKKEESEKEQTDDEPKSGKTWT...

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	`TkAUNG081810`
TK1151 ID	TkAUNG081810
OH-1004 ID	LXL04_026656
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	95.900
Protein coverage (%)	TK1151 81.997 / OH-1004 49.822 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 TkAUNG081810

Location ChrUn:23298257-23303974 (-)

Description Similar to RH42: DEAD-box ATP-dependent RNA helicase 42

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g20920`	Helicase required for pre-mRNA splicing, cold-responsive gene regulation and cold tolerance.	A DEAD box RNA helicase is critical for pre-mRNA splicing, cold-responsive gene regulation, and cold tolerance in Arabidopsis.2013 · DOI: 10.1105/tpc.112.108340
`At3g09620`	DEAD-box ATP-dependent RNA helicase 45.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os08g0159900`	DEAD-box ATP-dependent RNA helicase 42.	No verified direct reference in this release
`Os08g0154200`	DEAD-box ATP-dependent RNA helicase 45.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_026656 · 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:0000398 mRNA splicing, via spliceosome Biological Process

GO:0035196 miRNA processing Biological Process

GO:1903241 U2-type prespliceosome assembly Biological Process

GO:0001650 fibrillar center Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005684 U2-type spliceosomal complex Cellular Component

GO:0015030 Cajal body Cellular Component

GO:0016607 nuclear speck 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:AT1G20920

ath:AT3G09620

dosa:Os08g0154200

mmu:212880

rno:245957

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.

Nucleus0.970

Rank 1 · TkAUNG081810 · TK1151

Cytoplasm0.101

Rank 2 · TkAUNG081810 · TK1151

Cell membrane0.018

Rank 3 · TkAUNG081810 · TK1151

Mitochondrion0.012

Rank 4 · TkAUNG081810 · TK1151

Endoplasmic reticulum0.008

Rank 5 · TkAUNG081810 · 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.

PF00270DEAD486-657 aa

PF04023FeoA618-633 aa

PF04023FeoA655-690 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkAUNG081810	`PF00270`	DEAD	486	657	7.2e-50	169.7
TkAUNG081810	`PF04023`	FeoA	618	633	0.041	14.7
TkAUNG081810	`PF04023`	FeoA	655	690	0.041	14.7

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
`Q8H0U8`	Arabidopsis thaliana	sp\|Q8H0U8\|RH42_ARATH DEAD-box ATP-dependent RNA helicase 42	74.000%	Swiss-Prot	Medium
`Q9SF41`	Arabidopsis thaliana	sp\|Q9SF41\|RH45_ARATH DEAD-box ATP-dependent RNA helicase 45	73.600%	Swiss-Prot	Medium
`Q84UQ1`	Oryza sativa subsp. japonica	sp\|Q84UQ1\|RH42_ORYSJ DEAD-box ATP-dependent RNA helicase 42	70.700%	Swiss-Prot	Medium
`Q0J7Y8`	Oryza sativa subsp. japonica	sp\|Q0J7Y8\|RH45_ORYSJ DEAD-box ATP-dependent RNA helicase 45	68.700%	Swiss-Prot	Medium

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