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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

TkA03G401150
Reference: TK1151 Chr: Chr03 Coordinates: 99786246-99789638 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2000 bp · TkA03G401150|TK1151|cDNA

CGGCTCGTTAAAGGGTAGAAATGTAATTTACCATTACACGATAACTTGTCTATAAATCATGACTGTAGCCGTTAACCGTATCTGCCTCTCTGGTCTTCATCTCCTCCGAAAACCCTAGATATTTGTTTATTCTCTTTCAGGTGTATACCCCTCAATCTCTGCTCTTATTCCAGCCGCTTGTTGTTTGATCTCGATCTGTTTCAACGCACATCAGTCGCAACAGAGCTGAGTATTTAGTTCGACGAAAGTATTGTTGTGCA...

CDS

Download CDS FASTA

1035 bp · TkA03G401150|TK1151|CDS

ATGGATGTCATCTGTCAAGCAAAATCTGGAATGGGAAAAACCGCTGTTTTTGTCCTCTCTACACTTCAACAGATCGAGCCTGTAGCAGGTCAAGTTGCTGCCCTTGTTCTTTGTCACACCAGAGAGCTAGCTTACCAGATCTGCCATGAGTTTGAGAGGTTCAGTAGATACTTGCCTGATCTGAAAGTTGCTGTGTTTTATGGAGGAGTGAACATTAGGACACATAAGGAACTGCTGAAGAATGAATGTCCTCATATTGT...

Protein

Download Protein FASTA

344 aa · TkA03G401150|TK1151|PROTEIN

MDVICQAKSGMGKTAVFVLSTLQQIEPVAGQVAALVLCHTRELAYQICHEFERFSRYLPDLKVAVFYGGVNIRTHKELLKNECPHIVVGTPGRVLGLARDKDLGLKNVRHFILDECDKMLESLDMRKDVQDIFKMTPHDKQVMMFSATLSKEIRPVCKKFMQDPMEIYVDDEAKLTLHGLVQHYIKLGEMEKNRKLNDLLDALDFNQVVIFVKSVSRAAELNKLLVECNFPSICIHSGMSQEERLTRYKGFKEGLKRILV...

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 IDTkA03G401150
TK1151 IDTkA03G401150
OH-1004 IDLXL04_009147
Relationship / confidenceMulti Source To Oh1004 / Complex relationship
Protein identity (%)100.000
Protein coverage (%)TK1151 100.000 / OH-1004 74.783
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 IDTkA03G401150
LocationChr03:99786246-99789638 (-)
DescriptionSimilar to RH56: DEAD-box ATP-dependent RNA helicase 56
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At5g11170 ATP-dependent RNA helicase involved in pre-mRNA splicing. No verified direct reference in this release
At5g11200 ATP-dependent RNA helicase involved in pre-mRNA splicing. No verified direct reference in this release

Rice

Reference gene IDPossible functionPapers / DOI
Os01g0550000 ATP-binding RNA helicase involved in pre-mRNA splicing.
Rice APOPTOSIS INHIBITOR5 coupled with two DEAD-box adenosine 5'-triphosphate-dependent RNA helicases regulates tapetum degeneration.2011 · DOI: 10.1105/tpc.110.082636
Os01g0549700 ATP-binding RNA helicase involved in pre-mRNA splicing.
Rice APOPTOSIS INHIBITOR5 coupled with two DEAD-box adenosine 5'-triphosphate-dependent RNA helicases regulates tapetum degeneration.2011 · DOI: 10.1105/tpc.110.082636
Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_009147 · 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:0000245 spliceosomal complex assembly Biological Process
GO:0000398 mRNA splicing, via spliceosome Biological Process
GO:0006397 mRNA processing Biological Process
GO:0006406 mRNA export from nucleus Biological Process
GO:0008380 RNA splicing Biological Process
GO:0009555 pollen development Biological Process
GO:0010099 regulation of photomorphogenesis Biological Process
GO:0045727 positive regulation of translation Biological Process
GO:0046686 response to cadmium ion Biological Process
GO:0048653 anther development Biological Process
GO:0051028 mRNA transport Biological Process
GO:1904707 positive regulation of vascular associated smooth muscle cell proliferation Biological Process
KEGG gene cross-reference
ath:AT5G11170
ath:AT5G11200
dosa:Os01g0549700
dosa:Os01g0550000
osa:4326192
osa:4326193
rno:114612
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.

Cytoplasm0.548
Rank 1 · TkA03G401150 · TK1151
Nucleus0.507
Rank 2 · TkA03G401150 · TK1151
Mitochondrion0.056
Rank 3 · TkA03G401150 · TK1151
Cell membrane0.048
Rank 4 · TkA03G401150 · TK1151
Endoplasmic reticulum0.045
Rank 5 · TkA03G401150 · 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.

PF00270DEAD2-153 aa
PF04851ResIII5-150 aa
PF31243vWA_HGL220-47 aa
PF00271Helicase_C33-80 aa
PF14617CMS169-135 aa
PF22590Cas3-like_C_280-91 aa
PF00271Helicase_C131-150 aa
PF00271Helicase_C192-300 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA03G401150PF00270DEAD21538.5e-37127.2
TkA03G401150PF04851ResIII51502.4e-0731.5
TkA03G401150PF31243vWA_HGL220470.113.0
TkA03G401150PF00271Helicase_C33801.5e-30106.4
TkA03G401150PF14617CMS1691350.01815.1
TkA03G401150PF22590Cas3-like_C_280910.0001622.7
TkA03G401150PF00271Helicase_C1311501.5e-30106.4
TkA03G401150PF00271Helicase_C1923001.5e-30106.4
TkA03G401150PF22590Cas3-like_C_22062980.0001622.7
TkA03G401150PF00270DEAD2202628.5e-37127.2
TkA03G401150PF31243vWA_HGL23063330.113.0
TkA03G401150PF14617CMS13123310.01815.1

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
Q56XG6Arabidopsis thalianasp|Q56XG6|RH15_ARATH DEAD-box ATP-dependent RNA helicase 1593.600%Swiss-ProtHigh
Q9LFN6Arabidopsis thalianasp|Q9LFN6|RH56_ARATH DEAD-box ATP-dependent RNA helicase 5693.600%Swiss-ProtHigh
Q5JK84Oryza sativa subsp. japonicasp|Q5JK84|RH15_ORYSJ DEAD-box ATP-dependent RNA helicase 1591.900%Swiss-ProtHigh
Q0JM17Oryza sativa subsp. japonicasp|Q0JM17|RH56_ORYSJ DEAD-box ATP-dependent RNA helicase 5691.900%Swiss-ProtHigh

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