TkA07G387440 | RubberDandelionOmics

Gene overview

TkA07G387440

Reference: TK1151 Chr: Chr07 Coordinates: 97120075-97130754 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1691 bp · TkA07G387440|TK1151|cDNA

ACCAGCATGAAGTCGGTGATTGATCGATACCACAAAGCCAAAGATGAACAACAATTAACAACCCCAATTTCAGAGGTCAGGATGCAGATGGAGGAAAACTCAGAAGCAAAACCATCCAAGAGACAGCAGTGGCAGGACTCAGAGTCTTTCCCATTGAAAAATAGAACTACCAAGACCAAAGCAAACGGAACAAGAAGCTGCAAGTCTGATGGGCAAGGGGCAGATTCGGAAAATCTGGAATTGCAGTTCTGGCAAAGGGA...

CDS

Download CDS FASTA

708 bp · TkA07G387440|TK1151|CDS

ATGAAGTCGGTGATTGATCGATACCACAAAGCCAAAGATGAACAACAATTAACAACCCCAATTTCAGAGGTCAGGATGCAGATGGAGGAAAACTCAGAAGCAAAACCATCCAAGAGACAGCAGTGGCAGGACTCAGAGTCTTTCCCATTGAAAAATAGAACTACCAAGACCAAAGCAAACGGAACAAGAAGCTGCAAGTCTGATGGGCAAGGGGCAGATTCGGAAAATCTGGAATTGCAGTTCTGGCAAAGGGAGGCTAC...

Protein

Download Protein FASTA

235 aa · TkA07G387440|TK1151|PROTEIN

MKSVIDRYHKAKDEQQLTTPISEVRMQMEENSEAKPSKRQQWQDSESFPLKNRTTKTKANGTRSCKSDGQGADSENLELQFWQREATMLKQQLQSLQENHRRMMGEELSGLSVKDLQGMENQLEMSLKGIRMKKDQLLFEEIEELNRKGSLIHHENVELCTKMTQIREENIQLYNKVYGIRDGETVNRNVFLTNGSSMREDPHPHPPIHLQLSQPDPHEAVEPPLHSTNLGLQLH

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	`TkA07G387440`
TK1151 ID	TkA07G387440
OH-1004 ID	LXL04_030209
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.600
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 TkA07G387440

Location Chr07:97120075-97130754 (+)

Description Similar to AGL16: Agamous-like MADS-box protein AGL16

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g57230`	Probable transcription factor involved in the regulation of flowering time in long-day photoperiod.	MicroRNA-mediated regulation of stomatal development in Arabidopsis.2007 · DOI: 10.1105/tpc.107.050377 miR824-Regulated AGAMOUS-LIKE16 Contributes to Flowering Time Repression in Arabidopsis.2014 · DOI: 10.1105/tpc.114.124685
`At4g37940`	Probable transcription factor.	No verified direct reference in this release
`At2g22630`	Probable transcription factor.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os02g0579600`	Probable transcription factor.	No verified direct reference in this release
`Os02g0731200`	Transcriptional factor that targets the CArG motif 5'-C(A/T)TTAAAAAG-3' in the promoter of D14.	The interaction between OsMADS57 and OsTB1 modulates rice tillering via DWARF14.2013 · DOI: 10.1038/ncomms2542

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_030209 · 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:0006357 regulation of transcription by RNA polymerase II Biological Process

GO:0009908 flower development Biological Process

GO:0010440 stomatal lineage progression Biological Process

GO:0045944 positive regulation of transcription by RNA polymerase II Biological Process

GO:0048578 positive regulation of long-day photoperiodism, flowering Biological Process

GO:0048586 regulation of long-day photoperiodism, flowering Biological Process

GO:0005634 nucleus Cellular Component

GO:0000976 transcription cis-regulatory region binding Molecular Function

GO:0000978 RNA polymerase II cis-regulatory region sequence-specific DNA binding Molecular Function

GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific Molecular Function

GO:0003700 DNA-binding transcription factor activity Molecular Function

KEGG gene cross-reference

ath:AT2G22630

ath:AT3G57230

ath:AT4G37940

dosa:Os02g0579600

dosa:Os02g0731200

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

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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.

Nucleus0.876

Rank 1 · TkA07G387440 · TK1151

Cytoplasm0.220

Rank 2 · TkA07G387440 · TK1151

Cell membrane0.039

Rank 3 · TkA07G387440 · TK1151

Endoplasmic reticulum0.021

Rank 4 · TkA07G387440 · TK1151

Mitochondrion0.016

Rank 5 · TkA07G387440 · TK1151

LocPro · Direct prediction · Computational prediction, not experimental localization

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Predicted Functional Domains

Domain results are from Pfam-A/HMMER; positions are amino-acid coordinates on the protein sequence.

PF14662KASH_CCD2-38 aa

PF11365SOGA12-47 aa

PF01486K-box14-29 aa

PF28489TUSC165-105 aa

PF14662KASH_CCD72-179 aa

PF01486K-box74-163 aa

PF11365SOGA78-111 aa

PF30681ZPR84-92 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA07G387440	`PF14662`	KASH_CCD	2	38	0.013	16.2
TkA07G387440	`PF11365`	SOGA	12	47	1.2	10.9
TkA07G387440	`PF01486`	K-box	14	29	5.2e-28	97.7
TkA07G387440	`PF28489`	TUSC1	65	105	0.21	12.2
TkA07G387440	`PF14662`	KASH_CCD	72	179	0.013	16.2
TkA07G387440	`PF01486`	K-box	74	163	5.2e-28	97.7
TkA07G387440	`PF11365`	SOGA	78	111	1.2	10.9
TkA07G387440	`PF30681`	ZPR	84	92	0.021	15.9
TkA07G387440	`PF00170`	bZIP_1	85	102	3.9	8.4
TkA07G387440	`PF00477`	LEA_5	104	152	0.041	15.0
TkA07G387440	`PF30681`	ZPR	110	163	0.021	15.9
TkA07G387440	`PF00170`	bZIP_1	140	176	3.9	8.4
TkA07G387440	`PF11365`	SOGA	142	176	1.2	10.9
TkA07G387440	`PF28489`	TUSC1	143	176	0.21	12.2
TkA07G387440	`PF01486`	K-box	162	177	5.2e-28	97.7

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
`A2RVQ5`	Arabidopsis thaliana	sp\|A2RVQ5\|AGL16_ARATH Agamous-like MADS-box protein AGL16	60.800%	Swiss-Prot	Medium
`Q9SZJ6`	Arabidopsis thaliana	sp\|Q9SZJ6\|AGL21_ARATH Agamous-like MADS-box protein AGL21	57.100%	Swiss-Prot	Medium
`Q38840`	Arabidopsis thaliana	sp\|Q38840\|AGL17_ARATH Agamous-like MADS-box protein AGL17	64.800%	Swiss-Prot	Low
`Q6EP49`	Oryza sativa subsp. japonica	sp\|Q6EP49\|MAD27_ORYSJ MADS-box transcription factor 27	61.900%	Swiss-Prot	Low
`Q6Z6W2`	Oryza sativa subsp. japonica	sp\|Q6Z6W2\|MAD57_ORYSJ MADS-box transcription factor 57	65.300%	Swiss-Prot	Low

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