TkA01G426890 | RubberDandelionOmics

Gene overview

TkA01G426890

Reference: TK1151 Chr: Chr01 Coordinates: 106578375-106584668 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

3838 bp · TkA01G426890|TK1151|cDNA

TTCACATCTCTCTGTGCTTTCTCTCTCTTGAAATCCCTAAAAGGAAGAGGGAGAAGAAATAGTTTCAGTAAAGGGAATTCGTTTCTCTCTCTCTACAAACCCTCAGATCTGTCTCTGTAATCTTTCGTCGTCTAATTCGAAGCTTTTGGGCAAAAAGGAAAGCTATGTCGTCCCTTAGTAGGGAGCTTGTGTTTTTAATACTTCAATTTTTAGACGAAGAGAAGTTCAAGGAGACTGTTCACAGGTTGGAGCAAGAATCA...

CDS

Download CDS FASTA

3420 bp · TkA01G426890|TK1151|CDS

ATGTCGTCCCTTAGTAGGGAGCTTGTGTTTTTAATACTTCAATTTTTAGACGAAGAGAAGTTCAAGGAGACTGTTCACAGGTTGGAGCAAGAATCAGGCTTTTTCTTCAACATTCGTTACTTTGAAGAAATGGTGACAAATGGCGAGTGGGATGAGGTGGAAAAGTATCTTTCAGGATTCACAAAAGTGGATGATAACAGATATTCAATGAAGATTTTCTTTGAGATACGAAAGCAGAAGTACCTAGAAGCTCTAGACAA...

Protein

Download Protein FASTA

1139 aa · TkA01G426890|TK1151|PROTEIN

MSSLSRELVFLILQFLDEEKFKETVHRLEQESGFFFNIRYFEEMVTNGEWDEVEKYLSGFTKVDDNRYSMKIFFEIRKQKYLEALDKKDRAKAVEILVKDLKVFSAFNEDLFKEITQLLTLENFRDNEQLSKYGDTKSARGIMLGELKKLIEANPLFRDKLNFPTLKNSRLRTLINQSLNWQHQLCKNPKPNPDIKTLFVDHSCGQSQPNGARAPSPVNNPLMGAVPKPAGFPPLGAHGPFQPTPATIPTSLAGWMANPS...

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	`TkA01G426890`
TK1151 ID	TkA01G426890
OH-1004 ID	LXL04_002707
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	99.900
Protein coverage (%)	TK1151 100.000 / OH-1004 64.097 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 TkA01G426890

Location Chr01:106578375-106584668 (+)

Description Similar to TPR4: Topless-related protein 4

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

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
`At1g15750`	Transcriptional corepressor.	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

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
`Os08g0162100`	Transcriptional corepressor involved in branch formation regulation, presumably by suppressing primary branch formation and promoting secondary branch formation.	OsLIS-L1 encoding a lissencephaly type-1-like protein with WD40 repeats is required for plant height and male gametophyte formation in rice.2012 · DOI: 10.1007/s00425-011-1532-7

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.

Nucleus0.702

Rank 1 · TkA01G426890 · TK1151

Cytoplasm0.293

Rank 2 · TkA01G426890 · TK1151

Cell membrane0.057

Rank 3 · TkA01G426890 · TK1151

Lysosome / Vacuole0.048

Rank 4 · TkA01G426890 · TK1151

Golgi apparatus0.028

Rank 5 · TkA01G426890 · 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.

PF25437BRWD1_N3-31 aa

PF17814LisH_TPL5-34 aa

PF23627LisH_WDR267-34 aa

PF21889TPR1-like_2nd37-161 aa

PF10607CTLH70-135 aa

PF21359zf_topless164-204 aa

PF13570Beta-prop_ACSF4335-387 aa

PF19056WD40_2343-406 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA01G426890	`PF25437`	BRWD1_N	3	31	0.092	13.7
TkA01G426890	`PF17814`	LisH_TPL	5	34	1.5e-12	47.6
TkA01G426890	`PF23627`	LisH_WDR26	7	34	0.31	11.2
TkA01G426890	`PF21889`	TPR1-like_2nd	37	161	1.8e-63	213.1
TkA01G426890	`PF10607`	CTLH	70	135	0.008	17.0
TkA01G426890	`PF21359`	zf_topless	164	204	6.2e-25	87.2
TkA01G426890	`PF13570`	Beta-prop_ACSF4	335	387	0.0035	17.5
TkA01G426890	`PF19056`	WD40_2	343	406	0.00034	20.1
TkA01G426890	`PF23414`	Beta-prop_EML_2	348	475	5.4e-37	128.3
TkA01G426890	`PF25171`	Beta-prop_WDR36-Utp21_1st	349	392	1.7e-21	77.6
TkA01G426890	`PF30552`	CFAP251_N	349	392	1.3e-08	35.2
TkA01G426890	`PF23381`	Beta-prop_IFT122_1st	351	391	1.2e-46	160.1
TkA01G426890	`PF00400`	WD40	351	385	1.4e-35	120.9
TkA01G426890	`PF24805`	EIF3I	351	396	1.8e-16	60.9
TkA01G426890	`PF23756`	Beta-prop_HPS5	351	392	1.4e-06	28.5
TkA01G426890	`PF24807`	WD40_CDC20-Fz	352	397	1.1e-32	114.3

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	74.600%	Swiss-Prot	High
`Q94AI7`	Arabidopsis thaliana	sp\|Q94AI7\|TPL_ARATH Protein TOPLESS	72.500%	Swiss-Prot	High
`Q0WV90`	Arabidopsis thaliana	sp\|Q0WV90\|TPR1_ARATH Topless-related protein 1	71.900%	Swiss-Prot	High
`Q10NY2`	Oryza sativa subsp. japonica	sp\|Q10NY2\|TPR3_ORYSJ Protein TPR3	73.200%	Swiss-Prot	High
`Q0J7U6`	Oryza sativa subsp. japonica	sp\|Q0J7U6\|TPR2_ORYSJ Protein TOPLESS-RELATED PROTEIN 2	65.900%	Swiss-Prot	High

JBrowse

View in Genome Browser

Gene Card