LXL04_024784 | RubberDandelionOmics

Gene overview

LXL04_024784

Reference: OH-1004 Chr: Chr05 Coordinates: 98880713-98882354 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

846 bp · LXL04_024784|LXL04_024784|OH1004|cDNA

ATGACGCCCGTTTCATCTAAGCACTACTCAGATGATGTAAGCTTGCTAATGGTTCTAATCGACACAAATCCATTCTTCTGGAGCTCAACCGCCACCCCTTTCTCATTCTCCAAGTTTCTATCTCAAGTTCTTTCGTTCTTGAACTCAATCATTCTACTAAACCAACTGAATCAAGTGGTGGTGATAGCAACCGGATTCAACTCTTGTGATTACATATACGATTCTTCATTAGGTCATGGAAAACAGAGAGCTGAGACATT...

CDS

Download CDS FASTA

846 bp · LXL04_024784|LXL04_024784|OH1004|CDS

ATGACGCCCGTTTCATCTAAGCACTACTCAGATGATGTAAGCTTGCTAATGGTTCTAATCGACACAAATCCATTCTTCTGGAGCTCAACCGCCACCCCTTTCTCATTCTCCAAGTTTCTATCTCAAGTTCTTTCGTTCTTGAACTCAATCATTCTACTAAACCAACTGAATCAAGTGGTGGTGATAGCAACCGGATTCAACTCTTGTGATTACATATACGATTCTTCATTAGGTCATGGAAAACAGAGAGCTGAGACATT...

Protein

Download Protein FASTA

281 aa · LXL04_024784|LXL04_024784|OH1004|PROTEIN

MTPVSSKHYSDDVSLLMVLIDTNPFFWSSTATPFSFSKFLSQVLSFLNSIILLNQLNQVVVIATGFNSCDYIYDSSLGHGKQRAETLLQKLEEFVVRDEKLNKEESVDGIGSSLLSGSLSMALCYIQRVFRSGSLHPQPRILCLHGSQDGPGQYVAIMNSIFSAQRSMVPIDSCVIGSQHSAFLQQASYITGGVYLKPQHLDGLFQYLSTVFAADLHSRSFLQLPKPVGVDFRASCFCHKNTIDMGYICSVCLSIFCQHH...

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	`LXL04_024784`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID LXL04_024784

Location Chr05:98880713-98882354 (-)

Description Similar to TFB4: General transcription and DNA repair factor IIH subunit TFB4

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g18340`	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 CAK, in RNA transcription by RNA polymerase II.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_024784 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006281 DNA repair Biological Process

GO:0006289 nucleotide-excision repair Biological Process

GO:0006355 regulation of DNA-templated transcription Biological Process

GO:0006366 transcription by RNA polymerase II Biological Process

GO:0006367 transcription initiation at RNA polymerase II promoter Biological Process

GO:0000438 core TFIIH complex portion of holo TFIIH complex Cellular Component

GO:0000439 transcription factor TFIIH core complex Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005654 nucleoplasm Cellular Component

GO:0005669 transcription factor TFIID complex Cellular Component

GO:0005675 transcription factor TFIIH holo complex Cellular Component

GO:0097550 transcription preinitiation complex Cellular Component

KEGG gene cross-reference

ath:AT1G18340

bta:511896

hsa:2967

mmu:209357

rno:288651

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

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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.

Nucleus0.634

Rank 1 · LXL04_024784 · OH-1004

Cytoplasm0.381

Rank 2 · LXL04_024784 · OH-1004

Lysosome / Vacuole0.094

Rank 3 · LXL04_024784 · OH-1004

Golgi apparatus0.090

Rank 4 · LXL04_024784 · OH-1004

Endoplasmic reticulum0.051

Rank 5 · LXL04_024784 · OH-1004

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF03850.21Tfb413-267 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_024784	`PF03850.21`	Tfb4	13	267	3.6e-92	309.5

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

Protein	Organism	Description	Identity	Database	Confidence
`Q8LF41`	Arabidopsis thaliana	General transcription and DNA repair factor IIH subunit TFB4	71.918%	Swiss-Prot	strong database homology

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