TkA01G592860 | RubberDandelionOmics

Gene overview

TkA01G592860

Reference: TK1151 Chr: Chr01 Coordinates: 149219382-149223675 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2777 bp · TkA01G592860|TK1151|cDNA

AGTCCCTTCCCCTGATCATGTTCATCCAAACCTTAACCTTCTTTCATCAACTGTCGTGCATGCATTTTGTGCATGCCTCTACTAACCCGATTTGTTTCTCCCACCAGTTCATAAAGCAACGGTCAAATTCCCAGCAGTCTTTTTTCAGAATATGTTAGTATTACGCGTGTGCGAGTATGAAAGGATATTAGAACTAGATTAGAGACTTGGATTAGAAATATTTGGGGGTCAAATGTCGTCGCCGGCGAAGATTTGCATGA...

CDS

Download CDS FASTA

2289 bp · TkA01G592860|TK1151|CDS

ATGTCGTCGCCGGCGAAGATTTGCATGAACGGATTGTGCGGGGCAACGACGACTCCTCAATGGAAGAAAGGTTGGCCCATGAAAACCGGCGGTTTTGCTAATCTCTGCTACGCTTGCGGAACTGCATATGATAATGTACGCTACTGTGAAAGGTTCCATCTTAATGAAGCAGGTTGGAGAGAATGCAATTCTTGTGAAAAGCCTGTTCATTGTGGATGCGTTGTTTCAAAATATCTTCATGAATGCCTTGATTTAGGAGG...

Protein

Download Protein FASTA

762 aa · TkA01G592860|TK1151|PROTEIN

MSSPAKICMNGLCGATTTPQWKKGWPMKTGGFANLCYACGTAYDNVRYCERFHLNEAGWRECNSCEKPVHCGCVVSKYLHECLDLGGILCIKCIRANTTQSLNQTIVNEIPNGFARFSATWQQPSYFDKLLTPLTTQGSEKQQHQHQNTSSTSTISLQFKQDEKTPIPTPTPCSNKDITSTFLKPLPLPLPLPSIFQNQLPDKNQKPNLGLKPTYEPFNSSLLPTSNGVTIHEKVTVVKQEQKRGPKPSKSGIRSHANKG...

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	`TkA01G592860`
TK1151 ID	TkA01G592860
OH-1004 ID	LXL04_000708
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	96.000
Protein coverage (%)	TK1151 99.344 / OH-1004 96.543 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

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 ID TkA01G592860

Location Chr01:149219382-149223675 (-)

Description Similar to VAL2: B3 domain-containing transcription repressor VAL2

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g30470`	Transcriptional repressor of gene expression involved in embryonic pathways, such as LEC1, ABI3, and FUS3.	Analysis of a sugar response mutant of Arabidopsis identified a novel B3 domain protein that functions as an active transcriptional repressor.2005 · DOI: 10.1104/pp.104.057752 Repression of the LEAFY COTYLEDON 1/B3 regulatory network in plant embryo development by VP1/ABSCISIC ACID INSENSITIVE 3-LIKE B3 genes.2007 · DOI: 10.1104/pp.106.092320 Two B3 domain transcriptional repressors prevent sugar-inducible expression of seed maturation genes in Arabidopsis seedlings.2007 · DOI: 10.1073/pnas.0607940104
`At4g32010`	Transcriptional repressor of gene expression involved in embryonic pathways, such as LEC1, ABI3, and FUS3.	Repression of the LEAFY COTYLEDON 1/B3 regulatory network in plant embryo development by VP1/ABSCISIC ACID INSENSITIVE 3-LIKE B3 genes.2007 · DOI: 10.1104/pp.106.092320
`At4g21550`	May be involved in plant development.	Repression of the LEAFY COTYLEDON 1/B3 regulatory network in plant embryo development by VP1/ABSCISIC ACID INSENSITIVE 3-LIKE B3 genes.2007 · DOI: 10.1104/pp.106.092320

Rice

Reference gene ID	Possible function	Papers / DOI
`Os07g0679700`	B3 domain-containing protein Os07g0679700.	No verified direct reference in this release
`Os07g0563300`	B3 domain-containing protein Os07g0563300.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_000708 · 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:0009737 response to abscisic acid Biological Process

GO:0009744 response to sucrose Biological Process

GO:0045892 negative regulation of DNA-templated transcription Biological Process

GO:0005634 nucleus Cellular Component

GO:0005739 mitochondrion 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:0008270 zinc ion binding Molecular Function

KEGG gene cross-reference

ath:AT2G30470

ath:AT4G32010

dosa:Os07g0563300

dosa:Os07g0679700

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.

Nucleus0.976

Rank 1 · TkA01G592860 · TK1151

Cytoplasm0.071

Rank 2 · TkA01G592860 · TK1151

Cell membrane0.025

Rank 3 · TkA01G592860 · TK1151

Endoplasmic reticulum0.014

Rank 4 · TkA01G592860 · TK1151

Plastid0.012

Rank 5 · TkA01G592860 · 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.

PF00320GATA13-43 aa

PF31197PHD_JHD148-81 aa

PF25813zf_VAL1_N52-98 aa

PF00320GATA57-65 aa

PF07496zf-CW59-67 aa

PF02362B3310-409 aa

PF00320GATA355-370 aa

PF31197PHD_JHD1515-533 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA01G592860	`PF00320`	GATA	13	43	0.0012	19.1
TkA01G592860	`PF31197`	PHD_JHD1	48	81	0.0024	18.5
TkA01G592860	`PF25813`	zf_VAL1_N	52	98	2e-21	76.4
TkA01G592860	`PF00320`	GATA	57	65	0.0012	19.1
TkA01G592860	`PF07496`	zf-CW	59	67	6.9e-12	45.9
TkA01G592860	`PF02362`	B3	310	409	2.5e-17	63.4
TkA01G592860	`PF00320`	GATA	355	370	0.0012	19.1
TkA01G592860	`PF31197`	PHD_JHD1	515	533	0.0024	18.5
TkA01G592860	`PF25813`	zf_VAL1_N	519	530	2e-21	76.4
TkA01G592860	`PF07496`	zf-CW	521	563	6.9e-12	45.9
TkA01G592860	`PF25813`	zf_VAL1_N	619	627	2e-21	76.4
TkA01G592860	`PF00320`	GATA	633	644	0.0012	19.1

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
`Q8W4L5`	Arabidopsis thaliana	sp\|Q8W4L5\|VAL1_ARATH B3 domain-containing transcription repressor VAL1	45.900%	Swiss-Prot	Medium
`Q5CCK4`	Arabidopsis thaliana	sp\|Q5CCK4\|VAL2_ARATH B3 domain-containing transcription repressor VAL2	45.500%	Swiss-Prot	Medium
`O65420`	Arabidopsis thaliana	sp\|O65420\|VAL3_ARATH B3 domain-containing transcription factor VAL3	31.200%	Swiss-Prot	Medium
`Q6Z3U3`	Oryza sativa subsp. japonica	sp\|Q6Z3U3\|Y7797_ORYSJ B3 domain-containing protein Os07g0679700	43.300%	Swiss-Prot	Medium
`Q0D5G4`	Oryza sativa subsp. japonica	sp\|Q0D5G4\|Y7633_ORYSJ B3 domain-containing protein Os07g0563300	38.700%	Swiss-Prot	Medium

JBrowse

View in Genome Browser

Gene Card