TkA03G404660 | RubberDandelionOmics

Gene overview

TkA03G404660

Reference: TK1151 Chr: Chr03 Coordinates: 100611771-100612242 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

390 bp · TkA03G404660|TK1151|cDNA

ATGTTCGCGTTTTTAAGTTTTATACTTTTTACGTCAATACTTGTAAATTTTAGGGAGAACCAACAGCTTTCCAAGTACACAGACACAAAATCAGCCAGGGCTGTCCTGGTTACCGAGCTCAAGAAGCTGATCGAATTAAACCCAGATTTGAAAGACAAGTGTCAGTTTCCTTCCTTCAAGAACGCAAGGCTTCGTTTACTAGTCAACCAAAGTCTAAACTGGCAACATCAACTTTGCCCTAAACCTCTACCCAATCCCCA...

CDS

Download CDS FASTA

390 bp · TkA03G404660|TK1151|CDS

ATGTTCGCGTTTTTAAGTTTTATACTTTTTACGTCAATACTTGTAAATTTTAGGGAGAACCAACAGCTTTCCAAGTACACAGACACAAAATCAGCCAGGGCTGTCCTGGTTACCGAGCTCAAGAAGCTGATCGAATTAAACCCAGATTTGAAAGACAAGTGTCAGTTTCCTTCCTTCAAGAACGCAAGGCTTCGTTTACTAGTCAACCAAAGTCTAAACTGGCAACATCAACTTTGCCCTAAACCTCTACCCAATCCCCA...

Protein

Download Protein FASTA

129 aa · TkA03G404660|TK1151|PROTEIN

MFAFLSFILFTSILVNFRENQQLSKYTDTKSARAVLVTELKKLIELNPDLKDKCQFPSFKNARLRLLVNQSLNWQHQLCPKPLPNPQIKTLFRDHVCERTNAVQPSSNQTSNSMFRAAGLQAVCIIYSF

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	`TkA03G404660`
TK1151 ID	TkA03G404660
OH-1004 ID	LXL04_002707
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	56.800
Protein coverage (%)	TK1151 82.171 / OH-1004 6.246 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

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Basic Information and Functional Annotation

Gene ID TkA03G404660

Location Chr03:100611771-100612242 (-)

Description Similar to TPR4: Topless-related protein 4

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g15880`	Transcription corepressor of Zinc finger transcription factors GAF1/IDD2 and ENY/IDD1 in regulation of gibberellin homeostasis and signaling.	No verified direct reference in this release
`At1g80490`	Transcriptional corepressor.	Arabidopsis resistance protein SNC1 activates immune responses through association with a transcriptional corepressor.2010 · DOI: 10.1073/pnas.1002828107
`At1g15750`	Transcriptional corepressor.	No verified direct reference in this release
`At3g16830`	Transcriptional corepressor.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os03g0254700`	Probable downstream regulator of strigolactones signaling (By similarity).	MODD Mediates Deactivation and Degradation of OsbZIP46 to Negatively Regulate ABA Signaling and Drought Resistance in Rice.2016 · DOI: 10.1105/tpc.16.00171

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_002707 · 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:0000122 negative regulation of transcription by RNA polymerase II Biological Process

GO:0006351 DNA-templated transcription Biological Process

GO:0006355 regulation of DNA-templated transcription Biological Process

GO:0009733 response to auxin Biological Process

GO:0009791 post-embryonic development Biological Process

GO:0009867 jasmonic acid mediated signaling pathway Biological Process

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

GO:0010051 xylem and phloem pattern formation Biological Process

GO:0010072 primary shoot apical meristem specification Biological Process

GO:0010229 inflorescence development Biological Process

GO:0010336 gibberellic acid homeostasis Biological Process

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

KEGG gene cross-reference

ath:AT1G15750

ath:AT1G80490

ath:AT3G15880

dosa:Os03g0254700

dosa:Os08g0162100

osa:4332285

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.

Mitochondrion0.475

Rank 1 · TkA03G404660 · TK1151

Cytoplasm0.276

Rank 2 · TkA03G404660 · TK1151

Nucleus0.230

Rank 3 · TkA03G404660 · TK1151

Cell membrane0.066

Rank 4 · TkA03G404660 · TK1151

Endoplasmic reticulum0.061

Rank 5 · TkA03G404660 · 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.

PF21889TPR1-like_2nd14-53 aa

PF21359zf_topless57-97 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA03G404660	`PF21889`	TPR1-like_2nd	14	53	3.7e-11	44.1
TkA03G404660	`PF21359`	zf_topless	57	97	2.3e-21	75.8

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
`Q27GK7`	Arabidopsis thaliana	sp\|Q27GK7\|TPR4_ARATH Topless-related protein 4	64.400%	Swiss-Prot	High
`Q0WV90`	Arabidopsis thaliana	sp\|Q0WV90\|TPR1_ARATH Topless-related protein 1	60.600%	Swiss-Prot	High
`Q94AI7`	Arabidopsis thaliana	sp\|Q94AI7\|TPL_ARATH Protein TOPLESS	60.600%	Swiss-Prot	High
`Q9LRZ0`	Arabidopsis thaliana	sp\|Q9LRZ0\|TPR2_ARATH Topless-related protein 2	67.000%	Swiss-Prot	High
`Q10NY2`	Oryza sativa subsp. japonica	sp\|Q10NY2\|TPR3_ORYSJ Protein TPR3	60.600%	Swiss-Prot	High

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