TkA01G641990 | RubberDandelionOmics

Gene overview

TkA01G641990

Reference: TK1151 Chr: Chr01 Coordinates: 162450999-162452122 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1029 bp · TkA01G641990|TK1151|cDNA

CTTATTTTCTCTCATTTAAACCTTCACATGCGCACTCCAATTCATCAACAACATATATATACCATTGATCATATCGATCTCTCTCGGCAATTATTCCAAGAAACCCATCTGTTGATCCATATATATATATGGACCCTGGCCACCTTCTTATAATAAACGAAGGTGTTAACGCAGGTTACGGTGGTGGTGGCGGTTTTGATAGGTTTCCACAATGGACCGTAGAAGAAACAAGGGAGTTATTGCAGATAAGGGCAGAACTG...

CDS

Download CDS FASTA

810 bp · TkA01G641990|TK1151|CDS

ATGGACCCTGGCCACCTTCTTATAATAAACGAAGGTGTTAACGCAGGTTACGGTGGTGGTGGCGGTTTTGATAGGTTTCCACAATGGACCGTAGAAGAAACAAGGGAGTTATTGCAGATAAGGGCAGAACTGGATTCGACGTTCATGGAGACAAAACGCAACAAGCTTCTATGGGAAGTTACATCTACAAAGATGAAGGAGCGGGGTTATAATCGCAGTGGTGATCAGTGCAAAAGCAAGTGGAAGAATCTTGTTACTCG...

Protein

Download Protein FASTA

269 aa · TkA01G641990|TK1151|PROTEIN

MDPGHLLIINEGVNAGYGGGGGFDRFPQWTVEETRELLQIRAELDSTFMETKRNKLLWEVTSTKMKERGYNRSGDQCKSKWKNLVTRYKGCESETMEQEGSARQQFQFYDEIQAIFTNRMQRLLWMEAEGVACGSRKREMKFVFDNDESDVEKASGSSKTMKKNKKKGVESGSSQCNPEDTNSGVVSNLKGMMEEYLKHEMEWMEWYKVKEDERRMKEMEWRQTMEALEKERIMVYERWREREEQRSMREEDRAKKRDAL...

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	`TkA01G641990`
TK1151 ID	TkA01G641990
OH-1004 ID	LXL04_000014
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	100.000
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 version	TK1151 / GWHBCHF00000000

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SNP / Indel variants and carrier samplesCRA009020 · TK1151

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Basic Information and Functional Annotation

Gene ID TkA01G641990

Location Chr01:162450999-162452122 (-)

Description Similar to GT-3B: Trihelix transcription factor GT-3b

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g38250`	Probable transcription factor that may play a role in the induction of CAM4 in response to pathogen and salt.	Pathogen- and NaCl-induced expression of the SCaM-4 promoter is mediated in part by a GT-1 box that interacts with a GT-1-like transcription factor.2004 · DOI: 10.1104/pp.104.041442
`At5g01380`	Probable transcription factor that binds specifically to the core DNA sequence 5'-GTTAC-3'.	Analysis of GT-3a identifies a distinct subgroup of trihelix DNA-binding transcription factors in Arabidopsis.2004 · DOI: 10.1016/s0014-5793(04)00222-4
`At1g13450`	Probable transcription factor that binds specifically to the core DNA sequence 5'-GGTTAA-3'.	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_000014 · 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:0006351 DNA-templated transcription Biological Process

GO:0006355 regulation of DNA-templated transcription Biological Process

GO:0005634 nucleus Cellular Component

GO:0005730 nucleolus Cellular Component

GO:0016592 mediator complex Cellular Component

GO:0000976 transcription cis-regulatory region binding Molecular Function

GO:0003677 DNA binding Molecular Function

GO:0003700 DNA-binding transcription factor activity Molecular Function

GO:0042802 identical protein binding Molecular Function

GO:0043565 sequence-specific DNA binding Molecular Function

KEGG gene cross-reference

ath:AT1G13450

ath:AT1G76890

ath:AT2G38250

ath:AT3G25990

ath:AT5G01380

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.

Nucleus0.981

Rank 1 · TkA01G641990 · TK1151

Cytoplasm0.060

Rank 2 · TkA01G641990 · TK1151

Cell membrane0.020

Rank 3 · TkA01G641990 · TK1151

Endoplasmic reticulum0.011

Rank 4 · TkA01G641990 · TK1151

Plastid0.009

Rank 5 · TkA01G641990 · TK1151

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.

PF18211Csm1_B14-86 aa

PF13837Myb_DNA-bind_428-115 aa

PF00249Myb_DNA-binding28-84 aa

PF13921Myb_DNA-bind_629-86 aa

PF18211Csm1_B107-141 aa

PF13837Myb_DNA-bind_4160-173 aa

PF13921Myb_DNA-bind_6201-213 aa

PF18211Csm1_B208-237 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA01G641990	`PF18211`	Csm1_B	14	86	0.12	12.9
TkA01G641990	`PF13837`	Myb_DNA-bind_4	28	115	3.5e-22	79.3
TkA01G641990	`PF00249`	Myb_DNA-binding	28	84	0.67	10.8
TkA01G641990	`PF13921`	Myb_DNA-bind_6	29	86	0.011	16.6
TkA01G641990	`PF18211`	Csm1_B	107	141	0.12	12.9
TkA01G641990	`PF13837`	Myb_DNA-bind_4	160	173	3.5e-22	79.3
TkA01G641990	`PF13921`	Myb_DNA-bind_6	201	213	0.011	16.6
TkA01G641990	`PF18211`	Csm1_B	208	237	0.12	12.9
TkA01G641990	`PF13837`	Myb_DNA-bind_4	215	232	3.5e-22	79.3
TkA01G641990	`PF13921`	Myb_DNA-bind_6	220	241	0.011	16.6
TkA01G641990	`PF00249`	Myb_DNA-binding	237	240	0.67	10.8

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.

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Protein	Organism	Description	Identity	Database	Confidence
`O80450`	Arabidopsis thaliana	sp\|O80450\|TGT3B_ARATH Trihelix transcription factor GT-3b	54.900%	Swiss-Prot	High
`Q9SDW0`	Arabidopsis thaliana	sp\|Q9SDW0\|TGT3A_ARATH Trihelix transcription factor GT-3a	49.400%	Swiss-Prot	Medium
`Q9FX53`	Arabidopsis thaliana	sp\|Q9FX53\|TGT1_ARATH Trihelix transcription factor GT-1	34.300%	Swiss-Prot	Low

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