TkA06G058250 | RubberDandelionOmics

Gene overview

TkA06G058250

Reference: TK1151 Chr: Chr06 Coordinates: 15726526-15731019 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

960 bp · TkA06G058250|TK1151|cDNA

AAAATATGATACTTAATCAATATGAAAAAGAAGACTCGACATATTTTGGAAGACCGGATATATAATGATGGCCCTTGGATGGTGTAAACGAAACGGAAGAGTAGTATTTCATCTACAGAAAAACCAGACACAAGAAGATGGTGAGGGCACCTTGTTTTGACAACCATGGAGTTAAGAGAGGTGCATGGAGTGAAGAGGAAGACAATACGTTAAGATTGTACATTCAGAAATACGGTCATCGTAACTGGCGTGAACTTCCC...

CDS

Download CDS FASTA

714 bp · TkA06G058250|TK1151|CDS

ATGCATTTATCGTTCTACAGAAAAACCAGACACAAGAAGATGGTGAGGGCACCTTGTTTTGACAACCATGGAGTTAAGAGAGGTGCATGGAGTGAAGAGGAAGACAATACGTTAAGATTGTACATTCAGAAATACGGTCATCGTAACTGGCGTGAACTTCCCAAGTTGGCTGGTTTATCTAGATGCGGGAAAAGTTGTAGGTTAAGGTGGATCAATTATTTGCGCCCAAACTTAAGGCGTGGGAACTTTACAAAAGAAGA...

Protein

Download Protein FASTA

237 aa · TkA06G058250|TK1151|PROTEIN

MHLSFYRKTRHKKMVRAPCFDNHGVKRGAWSEEEDNTLRLYIQKYGHRNWRELPKLAGLSRCGKSCRLRWINYLRPNLRRGNFTKEEEDVILNLHKKLGSKWSVMAAQLPGRSDNEIKNHWNTHLKNRIRKDKIEQVGSHESTSKGYNPKGCPTERTDLESQEEVGVLIKVLSTGMSSSTTSEQSPNWLSDSGYSVSSNVRPCFLDYGDSFWTEPFLLDNDEVVFSTDCMFSPMFFI

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	`TkA06G058250`
TK1151 ID	TkA06G058250
OH-1004 ID	LXL04_025453
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	94.200
Protein coverage (%)	TK1151 79.747 / OH-1004 85.520 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 TkA06G058250

Location Chr06:15726526-15731019 (-)

Description Similar to MYB4: Transcription factor MYB4

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g56160`	Involved in metal ions homeostasis, including iron ions (Fe) acquisition, via the regulation of NAS4 and NAS2 genes expression.	Expression differences for genes involved in lignin, glutathione and sulphate metabolism in response to cadmium in Arabidopsis thaliana and the related Zn/Cd-hyperaccumulator Thlaspi caerulescens.2008 · DOI: 10.1111/j.1365-3040.2007.01764.x MYB72 is required in early signaling steps of rhizobacteria-induced systemic resistance in Arabidopsis.2008 · DOI: 10.1104/pp.107.113829 MYB72, a node of convergence in induced systemic resistance triggered by a fungal and a bacterial beneficial microbe.2009 · DOI: 10.1111/j.1438-8677.2008.00162.x β-Glucosidase BGLU42 is a MYB72-dependent key regulator of rhizobacteria-induced systemic resistance and modulates iron deficiency responses in Arabidopsis roots.2014 · DOI: 10.1111/nph.12980
`At3g12820`	Involved in metal ions homeostasis, including iron ions (Fe) acquisition, via the regulation of NAS4 and NAS2 genes expression.	No verified direct reference in this release
`At2g31180`	Transcription activator that regulates freezing tolerance by affecting expression of CBF genes.	AtMYB14 Regulates Cold Tolerance in Arabidopsis. 2013 · DOI: 10.1007/s11105-012-0481-z

Rice

Reference gene ID	Possible function	Papers / DOI
`Os04g0517100`	Transcriptional activator involved in cold stress response.	Overexpression of the rice Osmyb4 gene increases chilling and freezing tolerance of Arabidopsis thaliana plants.2004 · DOI: 10.1046/j.1365-313x.2003.01938.x Supra-optimal expression of the cold-regulated OsMyb4 transcription factor in transgenic rice changes the complexity of transcriptional network with major effects on stress tolerance and panicle development.2010 · DOI: 10.1111/j.1365-3040.2010.02221.x The rice Osmyb4 gene enhances tolerance to frost and improves germination under unfavourable conditions in transgenic barley plants.2012 · DOI: 10.1007/s13353-011-0081-x
`Os02g0624300`	Acts as a negative regulator of cold tolerance.	The OsMYB30 Transcription Factor Suppresses Cold Tolerance by Interacting with a JAZ Protein and Suppressing β-Amylase Expression.2017 · DOI: 10.1104/pp.16.01725

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_025453 · 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:0009409 response to cold Biological Process

GO:0009411 response to UV Biological Process

GO:0009414 response to water deprivation Biological Process

GO:0009651 response to salt stress Biological Process

GO:0009809 lignin biosynthetic process Biological Process

GO:0045893 positive regulation of DNA-templated transcription Biological Process

GO:0050826 response to freezing Biological Process

GO:2000652 regulation of secondary cell wall biogenesis Biological Process

GO:0005634 nucleus Cellular Component

GO:0000976 transcription cis-regulatory region binding Molecular Function

GO:0003677 DNA binding Molecular Function

KEGG gene cross-reference

ath:AT1G79180

ath:AT2G31180

ath:AT3G23250

dosa:Os02g0624300

dosa:Os04g0517100

osa:4330027

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.

Nucleus0.924

Rank 1 · TkA06G058250 · TK1151

Cytoplasm0.193

Rank 2 · TkA06G058250 · TK1151

Mitochondrion0.023

Rank 3 · TkA06G058250 · TK1151

Cell membrane0.019

Rank 4 · TkA06G058250 · TK1151

Endoplasmic reticulum0.008

Rank 5 · TkA06G058250 · 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.

PF23588HTH_CHD1_Hrp315-53 aa

PF09111SLIDE26-53 aa

PF15963Myb_DNA-bind_726-46 aa

PF11626Rap1_C26-58 aa

PF00249Myb_DNA-binding27-74 aa

PF13921Myb_DNA-bind_630-88 aa

PF08914Myb_Rap131-79 aa

PF09111SLIDE71-102 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA06G058250	`PF23588`	HTH_CHD1_Hrp3	15	53	0.15	12.8
TkA06G058250	`PF09111`	SLIDE	26	53	0.0017	19.1
TkA06G058250	`PF15963`	Myb_DNA-bind_7	26	46	0.01	16.3
TkA06G058250	`PF11626`	Rap1_C	26	58	0.27	12.0
TkA06G058250	`PF00249`	Myb_DNA-binding	27	74	3.2e-34	117.5
TkA06G058250	`PF13921`	Myb_DNA-bind_6	30	88	1.4e-22	80.4
TkA06G058250	`PF08914`	Myb_Rap1	31	79	0.16	13.1
TkA06G058250	`PF09111`	SLIDE	71	102	0.0017	19.1
TkA06G058250	`PF00249`	Myb_DNA-binding	80	125	3.2e-34	117.5
TkA06G058250	`PF13921`	Myb_DNA-bind_6	83	135	1.4e-22	80.4
TkA06G058250	`PF15963`	Myb_DNA-bind_7	83	136	0.01	16.3
TkA06G058250	`PF08914`	Myb_Rap1	83	131	0.16	13.1
TkA06G058250	`PF23588`	HTH_CHD1_Hrp3	84	98	0.15	12.8

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
`Q9SGU3`	Arabidopsis thaliana	sp\|Q9SGU3\|MYB72_ARATH Transcription factor MYB72	56.800%	Swiss-Prot	Medium
`Q9LTV4`	Arabidopsis thaliana	sp\|Q9LTV4\|MYB10_ARATH Transcription factor MYB10	66.900%	Swiss-Prot	Medium
`Q9SJX8`	Arabidopsis thaliana	sp\|Q9SJX8\|MYB14_ARATH Transcription factor MYB14	66.900%	Swiss-Prot	Medium
`Q7XBH4`	Oryza sativa subsp. japonica	sp\|Q7XBH4\|MYB4_ORYSJ Transcription factor MYB4	65.500%	Swiss-Prot	Medium
`Q6K1S6`	Oryza sativa subsp. japonica	sp\|Q6K1S6\|MYB30_ORYSJ Transcription factor MYB30	64.700%	Swiss-Prot	Medium

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