TkA03G400920 | RubberDandelionOmics

Gene overview

TkA03G400920

Reference: TK1151 Chr: Chr03 Coordinates: 99719642-99722137 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1539 bp · TkA03G400920|TK1151|cDNA

AAACATTATCCTTTAACCAGTTACCTAATTTAAATACAATTTAAATGCTGAAGAAAACAGTGATAGCTATTTGGTATAATAACTTTTCAATATCATGATCTAGCAGATAATCATAAACAGTCACAGGTACGCATCAGAAACCCTAATCCAATCTCTCATCACAAACTTATTTTCGAACCCTTCTATCCTGTTCGTCCTGAAAACCTATGGTTGCTCCGTTTCAAATCCTTCTTCTGGACCTGATCAAAAACCAAAAAAAA...

CDS

Download CDS FASTA

885 bp · TkA03G400920|TK1151|CDS

ATGGACGACCTCCATGAAAACGAATCAGCAATGCAGATGGCAGACGACAATCCACCATACCATCCCCAACATTACATACAAGATCAAGAACACGAAGACTTACATCATTTAAGTAATGGAAACATGATTCACCATGATGAACAACAGGATAATGAAATTGGTGTTGGCCAAAACGATCCCATGGAAGATCCAGGAAACATGTCAGATAACCATAACACATTATTATCCCGTGGCACCATTGAAGATACAAACCAGCTCAC...

Protein

Download Protein FASTA

294 aa · TkA03G400920|TK1151|PROTEIN

MDDLHENESAMQMADDNPPYHPQHYIQDQEHEDLHHLSNGNMIHHDEQQDNEIGVGQNDPMEDPGNMSDNHNTLLSRGTIEDTNQLTLSFQGQVYVFDSVSPEKVQAVLLLLGGRETSSSMPYMSLTNHHQSNRDLATTQPRLNVPHRLASLMRFREKRKERNFEKKIRYTVRKEVALRMQRNKGQFTSSKPVNEDSATSWESNQGWQSDGSGSQHQETACRHCGTNEKSTPLMRRGPDGPRTLCNACGLMWANKGTLRD...

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	`TkA03G400920`
TK1151 ID	TkA03G400920
OH-1004 ID	LXL04_009136
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
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 TkA03G400920

Location Chr03:99719642-99722137 (-)

Description Similar to GATA28: GATA transcription factor 28

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g51600`	Transcriptional activator that specifically binds 5'-GATA-3' or 5'-GAT-3' motifs within gene promoters.	Characterization of Arabidopsis ZIM, a member of a novel plant-specific GATA factor gene family.2004 · DOI: 10.1093/jxb/erh078
`At3g21175`	Transcriptional activator that specifically binds 5'-GATA-3' or 5'-GAT-3' motifs within gene promoters.	Characterization of Arabidopsis ZIM, a member of a novel plant-specific GATA factor gene family.2004 · DOI: 10.1093/jxb/erh078

Rice

Reference gene ID	Possible function	Papers / DOI
`Os06g0698900`	Transcriptional activator that specifically binds 5'-GATA-3' or 5'-GAT-3' motifs within gene promoters.	No verified direct reference in this release
`Os02g0148500`	Transcriptional activator that specifically binds 5'-GATA-3' or 5'-GAT-3' motifs within gene promoters.	No verified direct reference in this release
`UniProt: A2XKR7`	Transcriptional activator that specifically binds 5'-GATA-3' or 5'-GAT-3' motifs within gene promoters.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_009136 · 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:0000976 transcription cis-regulatory region binding Molecular Function

GO:0008270 zinc ion binding Molecular Function

GO:0042802 identical protein binding Molecular Function

GO:0043565 sequence-specific DNA binding Molecular Function

KEGG gene cross-reference

ath:AT1G51600

ath:AT3G21175

dosa:Os02g0148500

dosa:Os06g0698900

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.

Nucleus0.953

Rank 1 · TkA03G400920 · TK1151

Cytoplasm0.136

Rank 2 · TkA03G400920 · TK1151

Cell membrane0.035

Rank 3 · TkA03G400920 · TK1151

Endoplasmic reticulum0.022

Rank 4 · TkA03G400920 · TK1151

Plastid0.011

Rank 5 · TkA03G400920 · 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.

PF06200tify83-113 aa

PF06203CCT148-190 aa

PF09425Jas_motif148-170 aa

PF00320GATA221-257 aa

PF14803Zn_ribbon_Nudix221-249 aa

PF02701Zn_ribbon_Dof238-262 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA03G400920	`PF06200`	tify	83	113	3.6e-13	49.3
TkA03G400920	`PF06203`	CCT	148	190	3.4e-16	59.7
TkA03G400920	`PF09425`	Jas_motif	148	170	1.8e-07	31.5
TkA03G400920	`PF00320`	GATA	221	257	4.2e-14	52.6
TkA03G400920	`PF14803`	Zn_ribbon_Nudix	221	249	0.98	10.1
TkA03G400920	`PF02701`	Zn_ribbon_Dof	238	262	0.017	16.0

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
`Q8H1G0`	Arabidopsis thaliana	sp\|Q8H1G0\|GAT28_ARATH GATA transcription factor 28	54.900%	Swiss-Prot	High
`Q8GXL7`	Arabidopsis thaliana	sp\|Q8GXL7\|GAT24_ARATH GATA transcription factor 24	56.900%	Swiss-Prot	High
`Q5Z4U5`	Oryza sativa subsp. japonica	sp\|Q5Z4U5\|GAT20_ORYSJ GATA transcription factor 20	59.700%	Swiss-Prot	Medium
`Q6Z433`	Oryza sativa subsp. japonica	sp\|Q6Z433\|GAT17_ORYSJ GATA transcription factor 17	61.800%	Swiss-Prot	Medium
`A2XKR7`	Oryza sativa subsp. indica	sp\|A2XKR7\|GAT18_ORYSI GATA transcription factor 18	53.700%	Swiss-Prot	Medium

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