TkA04G169090 | RubberDandelionOmics

Gene overview

TkA04G169090

Reference: TK1151 Chr: Chr04 Coordinates: 43667596-43669301 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1510 bp · TkA04G169090|TK1151|cDNA

ATGCTATCGTAAAAGGTGTTTTCAGTACTTAAAGTAACATTCGCAATAGCAATACCAACAGCAGCCATGGGGGTTACACACACTAAACCCACACACACATAACAGAACAGGGACCATTACCCTTTGTATATAAACACTAAAACACACACTCCCATCGACAAGCTGCCACCTTCTTCAATCACTTTGAATGTCTTCCTTCCTCTTCCTAATTCTTCTATCTTTTGGCTTCATCCACGATCAGAAATAAACCAGGCGAGTCT...

CDS

Download CDS FASTA

744 bp · TkA04G169090|TK1151|CDS

ATGGATATATTGTCTGTCTCTTCCGATAGTTTGAGCATGCAAGAAAGCAAGAATAACACAAAATGGACTAGCGAACAGAACACATGGTTCGAAAGTGCTCTTGCTATATTCGATACAGAAACGCCAGACCGGTGGTCAAATGTCGCCGCTATGGTTCCCGGAAAATCAGAGATCGATGTCAAGAATCAATACGAGAAACTGAAAGCCGATATTAATGAAATCGAAGCCGGTTTGGTTCCCGATCCGGGGTATTTTGAACT...

Protein

Download Protein FASTA

247 aa · TkA04G169090|TK1151|PROTEIN

MDILSVSSDSLSMQESKNNTKWTSEQNTWFESALAIFDTETPDRWSNVAAMVPGKSEIDVKNQYEKLKADINEIEAGLVPDPGYFELVEDHSFSIFGKRPRSCDQERRKGVPWTEEEHRRFLLGLQVHGKGDWRSISRNFVMTKTPTQVASHAQKYYARQHSDGKEKRRPSIHDIKIINHSNTGNIQSSPPSINKPIGSLPKELLPWNNTSDETVMAYPFEIAKMNKNVRVYNSGLRLQPTRYQVQG

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	`TkA04G169090`
TK1151 ID	TkA04G169090
OH-1004 ID	LXL04_035084
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	98.800
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 TkA04G169090

Location Chr04:43667596-43669301 (-)

Description Similar to DIVARICATA: Transcription factor DIVARICATA

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g08520`	Transcription activator that coordinates abscisic acid (ABA) biosynthesis and signaling-related genes via binding to the specific promoter motif 5'-(A/T)AACCAT-3'.	Salt-Related MYB1 Coordinates Abscisic Acid Biosynthesis and Signaling during Salt Stress in Arabidopsis.2015 · DOI: 10.1104/pp.15.00962

Rice

Reference gene ID	Possible function	Papers / DOI
`UniProt: B8A9B2`	Transcription activator that binds to 5'-TATCCA-3' elements in gene promoters.	No verified direct reference in this release
`Os01g0524500`	Transcription activator that binds to 5'-TATCCA-3' elements in gene promoters.	Three novel MYB proteins with one DNA binding repeat mediate sugar and hormone regulation of alpha-amylase gene expression.2002 · DOI: 10.1105/tpc.001735 Convergent starvation signals and hormone crosstalk in regulating nutrient mobilization upon germination in cereals.2012 · DOI: 10.1105/tpc.112.097741
`Os10g0561400`	Transcription repressor that binds to 5'-TATCCA-3' elements in gene promoters.	Three novel MYB proteins with one DNA binding repeat mediate sugar and hormone regulation of alpha-amylase gene expression.2002 · DOI: 10.1105/tpc.001735 A novel MYBS3-dependent pathway confers cold tolerance in rice.2010 · DOI: 10.1104/pp.110.153015

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_035084 · 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:0009414 response to water deprivation Biological Process

GO:0009646 response to absence of light Biological Process

GO:0009651 response to salt stress Biological Process

GO:0009723 response to ethylene Biological Process

GO:0009737 response to abscisic acid Biological Process

GO:0009738 abscisic acid-activated signaling pathway Biological Process

GO:0009739 response to gibberellin Biological Process

GO:0009744 response to sucrose Biological Process

GO:0009751 response to salicylic acid Biological Process

GO:0009787 regulation of abscisic acid-activated signaling pathway Biological Process

KEGG gene cross-reference

ath:AT5G08520

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.

Nucleus0.918

Rank 1 · TkA04G169090 · TK1151

Cytoplasm0.149

Rank 2 · TkA04G169090 · TK1151

Cell membrane0.028

Rank 3 · TkA04G169090 · TK1151

Endoplasmic reticulum0.013

Rank 4 · TkA04G169090 · TK1151

Plastid0.013

Rank 5 · TkA04G169090 · 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.

PF26150LEA-2_41-68 aa

PF29489FimW_M14-51 aa

PF15963Myb_DNA-bind_715-66 aa

PF00249Myb_DNA-binding21-67 aa

PF23082Myb_DNA-binding_221-67 aa

PF15963Myb_DNA-bind_7107-140 aa

PF00249Myb_DNA-binding111-156 aa

PF23588HTH_CHD1_Hrp3111-137 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA04G169090	`PF26150`	LEA-2_4	1	68	0.052	14.5
TkA04G169090	`PF29489`	FimW_M	14	51	0.26	11.7
TkA04G169090	`PF15963`	Myb_DNA-bind_7	15	66	0.0013	19.2
TkA04G169090	`PF00249`	Myb_DNA-binding	21	67	2.8e-18	66.5
TkA04G169090	`PF23082`	Myb_DNA-binding_2	21	67	7.5e-05	23.5
TkA04G169090	`PF15963`	Myb_DNA-bind_7	107	140	0.0013	19.2
TkA04G169090	`PF00249`	Myb_DNA-binding	111	156	2.8e-18	66.5
TkA04G169090	`PF23588`	HTH_CHD1_Hrp3	111	137	0.041	14.6
TkA04G169090	`PF23082`	Myb_DNA-binding_2	113	165	7.5e-05	23.5
TkA04G169090	`PF25826`	DUF7952	113	161	0.074	13.9
TkA04G169090	`PF29489`	FimW_M	120	184	0.26	11.7
TkA04G169090	`PF26150`	LEA-2_4	169	186	0.052	14.5

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.

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Protein	Organism	Description	Identity	Database	Confidence
`Q9FNN6`	Arabidopsis thaliana	sp\|Q9FNN6\|SRM1_ARATH Transcription factor SRM1	44.400%	Swiss-Prot	Medium
`B8A9B2`	Oryza sativa subsp. indica	sp\|B8A9B2\|MYBS1_ORYSI Transcription factor MYBS1	46.300%	Swiss-Prot	Medium
`Q8LH59`	Oryza sativa subsp. japonica	sp\|Q8LH59\|MYBS1_ORYSJ Transcription factor MYBS1	46.300%	Swiss-Prot	Medium
`Q7XC57`	Oryza sativa subsp. japonica	sp\|Q7XC57\|MYBS3_ORYSJ Transcription factor MYBS3	68.900%	Swiss-Prot	Low

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