TkA01G060560 | RubberDandelionOmics

Gene overview

TkA01G060560

Reference: TK1151 Chr: Chr01 Coordinates: 15600600-15602002 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1189 bp · TkA01G060560|TK1151|cDNA

TAGGGTTTTCTTCGACCTTAAAAATCTTTTCGTTTTATTTTGCCGCTACTACTTCTTCGGCTCCTTGCTCTTTCTCTCTGCTCTGAAGTCTGAAAATTTTCTCTACTGATCTCTCTAGATTATTGAGCTATTTTCCTTCGATCAGCTAGCTGGAGGGTTGCTGATTCGTTTAAAGAAACCGAGTTCGATCTCATTGCTACAGTTCCAGCTCGTGTTCTACTGTGCTTCCGAAGTAAATCACTAGTTTATCTTCAATCATT...

CDS

Download CDS FASTA

501 bp · TkA01G060560|TK1151|CDS

ATGGGCGATCTAAGCGATAAGGGTTCGGAGTGTGATGATATGATGAACTGTAAGAGCAGTCCAGAAAGAGGCGGATCATCTTCATCGGACGGTGGTAGTAATTTCCTCAAAACCTGTGCCGATTGTGGGACCACCAAAACACCTCTCTGGCGAGGCGGCCCAGCTGGCCCTAAGTCCTTATGCAATGCTTGCGGGATCAGAAGCAGAAAGAAGAGAAGAGCACTTTTGGGTATGCCAAAAGACGAGAAAAAACCAAAGAA...

Protein

Download Protein FASTA

166 aa · TkA01G060560|TK1151|PROTEIN

MGDLSDKGSECDDMMNCKSSPERGGSSSSDGGSNFLKTCADCGTTKTPLWRGGPAGPKSLCNACGIRSRKKRRALLGMPKDEKKPKKTTTNTTATSASGDSQTSGLTSSKSIEMGDFCLKKRLMALGSEVVLQRPRSRVTKQRRKIGEEEQAAILLMALSCGSVFV

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	`TkA01G060560`
TK1151 ID	TkA01G060560
OH-1004 ID	LXL04_015428
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	77.100
Protein coverage (%)	TK1151 99.398 / OH-1004 99.401 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 TkA01G060560

Location Chr01:15600600-15602002 (+)

Description Similar to GATA16: GATA transcription factor 16

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g16870`	Transcriptional regulator that specifically binds 5'-GATA-3' or 5'-GAT-3' motifs within gene promoters.	No verified direct reference in this release
`At3g06740`	Transcriptional regulator that specifically binds 5'-GATA-3' or 5'-GAT-3' motifs within gene promoters.	No verified direct reference in this release
`At5g49300`	Transcriptional regulator that specifically binds 5'-GATA-3' or 5'-GAT-3' motifs within gene promoters.	No verified direct reference in this release
`At5g26930`	Transcriptional regulator that specifically binds 5'-GATA-3' or 5'-GAT-3' motifs within gene promoters.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os02g0220400`	Transcriptional regulator that specifically binds 5'-GATA-3' or 5'-GAT-3' motifs within gene promoters (By similarity).	Rice cytokinin GATA transcription Factor1 regulates chloroplast development and plant architecture.2013 · DOI: 10.1104/pp.113.217265

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_015428 · 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:0007623 circadian rhythm Biological Process

GO:0009416 response to light stimulus Biological Process

GO:0009658 chloroplast organization Biological Process

GO:0009733 response to auxin Biological Process

GO:0009735 response to cytokinin Biological Process

GO:0009736 cytokinin-activated signaling pathway Biological Process

GO:0009739 response to gibberellin Biological Process

GO:0009740 gibberellic acid mediated signaling pathway Biological Process

GO:0009910 negative regulation of flower development Biological Process

GO:0009938 negative regulation of gibberellic acid mediated signaling pathway Biological Process

KEGG gene cross-reference

ath:AT3G06740

ath:AT3G16870

ath:AT5G26930

ath:AT5G49300

ath:AT5G56860

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.

Nucleus0.982

Rank 1 · TkA01G060560 · TK1151

Cytoplasm0.078

Rank 2 · TkA01G060560 · TK1151

Cell membrane0.022

Rank 3 · TkA01G060560 · TK1151

Endoplasmic reticulum0.013

Rank 4 · TkA01G060560 · TK1151

Plastid0.009

Rank 5 · TkA01G060560 · 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.

PF24458DUF757310-13 aa

PF23545Zn_ribbon_HMPTM34-51 aa

PF24458DUF757338-64 aa

PF00320GATA39-73 aa

PF09723Zn_ribbon_839-70 aa

PF23545Zn_ribbon_HMPTM58-64 aa

PF09723Zn_ribbon_8160-165 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA01G060560	`PF24458`	DUF7573	10	13	0.068	13.9
TkA01G060560	`PF23545`	Zn_ribbon_HMPTM	34	51	0.019	15.2
TkA01G060560	`PF24458`	DUF7573	38	64	0.068	13.9
TkA01G060560	`PF00320`	GATA	39	73	3.8e-17	62.3
TkA01G060560	`PF09723`	Zn_ribbon_8	39	70	0.3	11.8
TkA01G060560	`PF23545`	Zn_ribbon_HMPTM	58	64	0.019	15.2
TkA01G060560	`PF09723`	Zn_ribbon_8	160	165	0.3	11.8

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.

Download current result

Protein	Organism	Description	Identity	Database	Confidence
`Q9LIB5`	Arabidopsis thaliana	sp\|Q9LIB5\|GAT17_ARATH GATA transcription factor 17	45.100%	Swiss-Prot	Medium
`Q8LG10`	Arabidopsis thaliana	sp\|Q8LG10\|GAT15_ARATH GATA transcription factor 15	50.000%	Swiss-Prot	High
`Q9FJ10`	Arabidopsis thaliana	sp\|Q9FJ10\|GAT16_ARATH GATA transcription factor 16	51.900%	Swiss-Prot	High
`Q8LC59`	Arabidopsis thaliana	sp\|Q8LC59\|GAT23_ARATH GATA transcription factor 23	70.500%	Swiss-Prot	Low
`Q6YW48`	Oryza sativa subsp. japonica	sp\|Q6YW48\|CGA1_ORYSJ Protein CYTOKININ-RESPONSIVE GATA TRANSCRIPTION FACTOR 1	75.000%	Swiss-Prot	Low

JBrowse

View in Genome Browser

Gene Card