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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

TkA04G012240
Reference: TK1151 Chr: Chr04 Coordinates: 3044655-3049724 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

Download cDNA FASTA

2795 bp · TkA04G012240|TK1151|cDNA

AAAAATCAAAAAAGTTTATTAAAAAAAATGGAATAAAAAGGACTGCGGTTTCGCCCAAGAGAAAAACCCTCCCTCCCTGCGATCAAATCAAAAATTAACGCTTCTGTAGTTCTCTTTCGTTATCCCCTGTCGCCGTCGGATATTCTCAGTCCGTCGACTATTTTCCGGCGATCTTCGTTTTCTCTCACAGATCGCAGCACCTTCAAAACACTCACAGTATAATCATATCAAAGAACAGCAGTGTGAATTTACGGGGAAAA...

CDS

Download CDS FASTA

2280 bp · TkA04G012240|TK1151|CDS

ATGAAGTTCCAAATCGAAGATGTAACAGTCTACTTCCCATACGATCACATATACCCTGAACAGTACTCCTACATGATCGAACTCAAACGAGCCCTAGACGCCAAAGGACATTGCCTCCTTGAAATGCCCACCGGTACCGGAAAAACCATCGCCCTTCTCTCATTGATCACCAGCTACACTCTCTCCAAACCATCTAACCCCGTTAAGCTACTCTACTGTACTCGCACGGTTCACGAGATGGAAAAAACCCTAGCTGAGCT...

Protein

Download Protein FASTA

759 aa · TkA04G012240|TK1151|PROTEIN

MKFQIEDVTVYFPYDHIYPEQYSYMIELKRALDAKGHCLLEMPTGTGKTIALLSLITSYTLSKPSNPVKLLYCTRTVHEMEKTLAELKLLHKYQLENIGPSARMLALGLSSRKNLCINPEVVSAENRDSVDAGCRKLTASWVRALAIENPNIPTCSFYERYEKAGSDAVLPPGVYTLQDLRIFGKDKGWCPYFLARHMVQFANVVVYSYQYLLDPKVAGIISKEMQRESVVVFDEAHNIDNVCIEALSVSVRKQTLEGAT...

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.

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ID Mapping

Input IDTkA04G012240
TK1151 IDTkA04G012240
OH-1004 IDLXL04_036984
Relationship / confidenceRbh High Identity Coverage Synteny / Strict
Protein identity (%)97.900
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 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 IDTkA04G012240
LocationChr04:3044655-3049724 (-)
DescriptionSimilar to XPD: General transcription and DNA repair factor IIH helicase subunit XPD
Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene IDPossible functionPapers / DOI
At1g03190 ATP-dependent 5'-3' DNA helicase, component of the general transcription and DNA repair factor IIH (TFIIH) core complex, which is involved in general and transcription-coupled nucleotide excision repair (NER) of damaged DNA and, when complexed to CDK-activating kinase (CAK), involved in transcription by RNA polymerase II.
Arabidopsis UVH6, a homolog of human XPD and yeast RAD3 DNA repair genes, functions in DNA repair and is essential for plant growth.2003 · DOI: 10.1104/pp.103.021808
Evidence that heat and ultraviolet radiation activate a common stress-response program in plants that is altered in the uvh6 mutant of Arabidopsis thaliana.1997 · DOI: 10.1104/pp.115.4.1351

Rice

No hit for this species in the current source table.

Functional annotation source
View annotation sources

Functional annotation source: OH1004 · LXL04_036984 · 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:0000462 maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) Biological Process
GO:0006281 DNA repair Biological Process
GO:0006283 transcription-coupled nucleotide-excision repair Biological Process
GO:0006289 nucleotide-excision repair Biological Process
GO:0006357 regulation of transcription by RNA polymerase II Biological Process
GO:0006362 transcription elongation by RNA polymerase I Biological Process
GO:0006366 transcription by RNA polymerase II Biological Process
GO:0006367 transcription initiation at RNA polymerase II promoter Biological Process
GO:0006979 response to oxidative stress Biological Process
GO:0007059 chromosome segregation Biological Process
GO:0008283 cell population proliferation Biological Process
GO:0008340 determination of adult lifespan Biological Process
KEGG gene cross-reference
ath:AT1G03190
bta:100125238
hsa:2068
mmu:13871
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.

Nucleus0.683
Rank 1 · TkA04G012240 · TK1151
Cytoplasm0.340
Rank 2 · TkA04G012240 · TK1151
Endoplasmic reticulum0.036
Rank 3 · TkA04G012240 · TK1151
Cell membrane0.035
Rank 4 · TkA04G012240 · TK1151
Golgi apparatus0.033
Rank 5 · TkA04G012240 · 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.

PF04851ResIII24-77 aa
PF13086AAA_1128-134 aa
PF00270DEAD34-93 aa
PF13401AAA_2235-67 aa
PF00176SNF2-rel_dom38-241 aa
PF09848SLFN-g3_helicase44-85 aa
PF06733DEAD_272-256 aa
PF18127NAMPT_N191-242 aa
Gene IDDomain IDDomain NameStart aaEnd aaE-valueScore
TkA04G012240PF04851ResIII24775.6e-0730.3
TkA04G012240PF13086AAA_11281340.01216.1
TkA04G012240PF00270DEAD34938.5e-0626.3
TkA04G012240PF13401AAA_2235670.1313.3
TkA04G012240PF00176SNF2-rel_dom382410.0214.7
TkA04G012240PF09848SLFN-g3_helicase44850.1512.1
TkA04G012240PF06733DEAD_2722564.3e-51173.7
TkA04G012240PF18127NAMPT_N1912420.02715.4
TkA04G012240PF04851ResIII2022405.6e-0730.3
TkA04G012240PF00270DEAD2022418.5e-0626.3
TkA04G012240PF09848SLFN-g3_helicase2222410.1512.1
TkA04G012240PF13401AAA_222272480.1313.3
TkA04G012240PF06777HBB2704131.8e-41142.2
TkA04G012240PF18127NAMPT_N4114260.02715.4
TkA04G012240PF06777HBB4374701.8e-41142.2
TkA04G012240PF13307Helicase_C_25246996e-29102.0

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
Q8W4M7Arabidopsis thalianasp|Q8W4M7|ERCC2_ARATH General transcription and DNA repair factor IIH helicase subunit XPD81.900%Swiss-ProtHigh

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