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Gene Card

Enter a TK1151 or OH-1004 gene ID to view sequences, annotations and analyses in the corresponding reference genome.
Flanking length, max 10000 bp
Examples TkA01G624900 LXL04_000258

Gene overview

TkA01G400280
Reference: TK1151 Chr: Chr01 Coordinates: 99917778-99922884 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

1333 bp · TkA01G400280|TK1151|cDNA

GGAAAGTTAGGAGGGAAAGTTATCATTCCACTTCCTTTCATTTCCTTCCAAATCATTTCATTTAAACTCAGGAACACGAAATGTTTTTTTTATTTTCCTCTCTTTTCCACCCATTTCCTTTCCTTTCCCTCGATAAATTAAACTCGGGAACAAGGTGCTACTGATTCTTGAAATAAGTTTTTGAGAAACAACAAAAGATAAAGTTAATTGCGTTTAGGGTTCGCAATATTGATTTGGAGTTCGGCAGCCATTTTAGCCTT...

CDS

Download CDS FASTA

2985 bp · TkA01G400280|TK1151|CDS

ATGGAGAATTCTACAAGTGTTGAAAAACGCAAGCAACCAGAAGAAAGTCCAGAAGTGGCAGATGCTGAAATCAAGAACCAAGAACCAGGGTCAAAGAAGCCACGGTCTGTGGCACGGACATGCGTACATGAGGTGGCAGTTCCAAGTGGTTATGCTTCCACTAAAGACGAAACTATCCATGGAACACTATCAGATCCAGTTTACAATGGTCAAATGGCTAAAACCTACCCATTTGTCCTTGACCCCTTTCAGCAAATTTC...

Protein

Download Protein FASTA

994 aa · TkA01G400280|TK1151|PROTEIN

MENSTSVEKRKQPEESPEVADAEIKNQEPGSKKPRSVARTCVHEVAVPSGYASTKDETIHGTLSDPVYNGQMAKTYPFVLDPFQQISVSCLERKESVLVSAHTSAGKTAVAEYAIAMSFRDKQRVIYTSPLKALSNQKYRELSQEFSDVGLMTGDVTLSPNASCLVMTTEILRGMLYRGSEVLKEVAWVIFDEIHYMKDRERGVVWEESIIFLPPAIKMVFLSATMSNATEFAEWICNIHKQPCHVVYTDFRPTPLQHYV...

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.

Download Gene (CDS) Download Protein

ID Mapping

Input IDTkA01G400280
TK1151 IDTkA01G400280
OH-1004 IDLXL04_001312
Relationship / confidenceRbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)48.800
Protein coverage (%)TK1151 95.976 / OH-1004 95.405
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 versionTK1151 / 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 IDTkA01G400280
LocationChr01:99917778-99922884 (+)
DescriptionSimilar to MTR4: DExH-box ATP-dependent RNA helicase DExH9
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At2g06990 ATP-dependent RNA helicase that associates with the RNA exosome complex, with the cap binding complex (CBC) and with the NEXT- like complex.
The RNA helicases AtMTR4 and HEN2 target specific subsets of nuclear transcripts for degradation by the nuclear exosome in Arabidopsis thaliana.2014 · DOI: 10.1371/journal.pgen.1004564

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_001312 · 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:0000292 RNA fragment catabolic process Biological Process
GO:0000398 mRNA splicing, via spliceosome Biological Process
GO:0000460 maturation of 5.8S rRNA Biological Process
GO:0000467 exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) Biological Process
GO:0006364 rRNA processing Biological Process
GO:0006397 mRNA processing Biological Process
GO:0006401 RNA catabolic process Biological Process
GO:0006974 DNA damage response Biological Process
GO:0008380 RNA splicing Biological Process
GO:0016075 rRNA catabolic process Biological Process
GO:0016076 snRNA catabolic process Biological Process
GO:0031125 rRNA 3'-end processing Biological Process
KEGG gene cross-reference
ath:AT1G59760
hsa:23517
mmu:72198
sce:YJL050W
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.

Nucleus0.601
Rank 1 · TkA01G400280 · TK1151
Cytoplasm0.328
Rank 2 · TkA01G400280 · TK1151
Mitochondrion0.120
Rank 3 · TkA01G400280 · TK1151
Cell membrane0.039
Rank 4 · TkA01G400280 · TK1151
Endoplasmic reticulum0.026
Rank 5 · TkA01G400280 · 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.

PF13234MTR4_beta-barrel67-95 aa
PF00270DEAD82-230 aa
PF20720nSTAND385-133 aa
PF22527DEXQc_Suv3101-213 aa
PF30203LIF1_N198-242 aa
PF00270DEAD269-284 aa
PF00271Helicase_C321-353 aa
PF30232aq_1631354-414 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA01G400280PF13234MTR4_beta-barrel67957.5e-58196.8
TkA01G400280PF00270DEAD822301.7e-2693.6
TkA01G400280PF20720nSTAND3851330.1412.5
TkA01G400280PF22527DEXQc_Suv31012131.6e-0834.9
TkA01G400280PF30203LIF1_N1982420.1312.7
TkA01G400280PF00270DEAD2692841.7e-2693.6
TkA01G400280PF00271Helicase_C3213534.4e-0937.3
TkA01G400280PF30232aq_16313544142.18.6
TkA01G400280PF00271Helicase_C3704724.4e-0937.3
TkA01G400280PF30203LIF1_N4684970.1312.7
TkA01G400280PF13166AAA_135265870.439.9
TkA01G400280PF21408MTR4-like_stalk5285912e-1557.5
TkA01G400280PF07798CCDC90-like5285928.07.0
TkA01G400280PF13234MTR4_beta-barrel5927927.5e-58196.8
TkA01G400280PF21408MTR4-like_stalk7417572e-1557.5
TkA01G400280PF21408MTR4-like_stalk7447572e-1557.5

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

ProteinOrganismDescriptionIdentityDatabaseConfidence
Q9ZVW2Arabidopsis thalianasp|Q9ZVW2|HEN2_ARATH DExH-box ATP-dependent RNA helicase DExH1078.900%Swiss-ProtHigh

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