TkA06G040200 | RubberDandelionOmics

Gene overview

TkA06G040200

Reference: TK1151 Chr: Chr06 Coordinates: 10855573-10856873 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

705 bp · TkA06G040200|TK1151|cDNA

GTTCTGTACCACTGTTTTGCTGGTTAGTGTGCCACGTAGCTGCTTATCCATGGTGGTTACAGTCAAGTGCGGCCATTGTGCAGGTCTCCTTTCTGTGAACATGATGAGATCCTCCTTTCTTCCTCTTCATCTCTTTTCTTCCATTGATATCCAAGAAGAGCCAAAAGGGGAAGTTTCTAAAGAAGACGAAGAAGTACCCAAATTACATTTGAGCAAGCGTAGCTCTTCACCTATCATCTCGACTTCCTCATCAGACGAAG...

CDS

Download CDS FASTA

486 bp · TkA06G040200|TK1151|CDS

ATGGTGGTTACAGTCAAGTGCGGCCATTGTGCAGGTCTCCTTTCTGTGAACATGATGAGATCCTCCTTTCTTCCTCTTCATCTCTTTTCTTCCATTGATATCCAAGAAGAGCCAAAAGGGGAAGTTTCTAAAGAAGACGAAGAAGTACCCAAATTACATTTGAGCAAGCGTAGCTCTTCACCTATCATCTCGACTTCCTCATCAGACGAAGACAACGAAGATGATCTTGTTTTAGTAAACCATGTCGTCAACAAACCCCC...

Protein

Download Protein FASTA

161 aa · TkA06G040200|TK1151|PROTEIN

MVVTVKCGHCAGLLSVNMMRSSFLPLHLFSSIDIQEEPKGEVSKEDEEVPKLHLSKRSSSPIISTSSSDEDNEDDLVLVNHVVNKPPEKRQRAPSAYNKFIKEEIIRLKTQHPNMSHKQAFGTAAKNWAHSPPSQQNEGEKSKGSGNESEMIQELGSDQPS

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	`TkA06G040200`
TK1151 ID	TkA06G040200
OH-1004 ID	LXL04_002690
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	41.500
Protein coverage (%)	TK1151 81.366 / OH-1004 35.135 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 TkA06G040200

Location Chr06:10855573-10856873 (-)

Description Similar to YAB5: Axial regulator YABBY 5

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g23420`	Essential for the formation and the abaxial-adaxial asymmetric growth of the ovule outer integument.	No verified direct reference in this release
`At2g26580`	Promotes adaxial cell identity.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os12g0621100`	Protein YABBY 6.	No verified direct reference in this release
`Os07g0571800`	Protein YABBY 7.	No verified direct reference in this release
`UniProt: A2X7Q3`	Protein YABBY 4.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_002690 · 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:0003002 regionalization Biological Process

GO:0006355 regulation of DNA-templated transcription Biological Process

GO:0009944 polarity specification of adaxial/abaxial axis Biological Process

GO:0010154 fruit development Biological Process

GO:0010158 abaxial cell fate specification Biological Process

GO:0045165 cell fate commitment Biological Process

GO:0050793 regulation of developmental process Biological Process

GO:1902183 regulation of shoot apical meristem development Biological Process

GO:2000024 regulation of leaf development Biological Process

GO:0005634 nucleus Cellular Component

GO:0000976 transcription cis-regulatory region binding Molecular Function

GO:0003700 DNA-binding transcription factor activity Molecular Function

KEGG gene cross-reference

ath:AT1G08465

ath:AT2G26580

dosa:Os03g0650000

dosa:Os04g0536300

dosa:Os12g0621100

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.

Nucleus0.848

Rank 1 · TkA06G040200 · TK1151

Cytoplasm0.256

Rank 2 · TkA06G040200 · TK1151

Mitochondrion0.037

Rank 3 · TkA06G040200 · TK1151

Cell membrane0.033

Rank 4 · TkA06G040200 · TK1151

Endoplasmic reticulum0.022

Rank 5 · TkA06G040200 · 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.

PF24868YABBY_N1-26 aa

PF04690YABBY72-137 aa

PF06244Ccdc12480-133 aa

PF09011HMG_box_287-129 aa

PF00505HMG_box92-136 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA06G040200	`PF24868`	YABBY_N	1	26	2.8e-08	33.9
TkA06G040200	`PF04690`	YABBY	72	137	2e-31	108.9
TkA06G040200	`PF06244`	Ccdc124	80	133	1.7e-07	32.2
TkA06G040200	`PF09011`	HMG_box_2	87	129	0.013	16.8
TkA06G040200	`PF00505`	HMG_box	92	136	0.0021	19.2

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
`Q9LDT3`	Arabidopsis thaliana	sp\|Q9LDT3\|YAB4_ARATH Axial regulator YABBY 4	49.600%	Swiss-Prot	Medium
`Q8GW46`	Arabidopsis thaliana	sp\|Q8GW46\|YAB5_ARATH Axial regulator YABBY 5	42.700%	Swiss-Prot	Medium
`Q2QM17`	Oryza sativa subsp. japonica	sp\|Q2QM17\|YAB6_ORYSJ Protein YABBY 6	41.700%	Swiss-Prot	Medium
`A2PZN8`	Oryza sativa subsp. japonica	sp\|A2PZN8\|YAB7_ORYSJ Protein YABBY 7	40.700%	Swiss-Prot	Medium
`A2X7Q3`	Oryza sativa subsp. indica	sp\|A2X7Q3\|YAB4_ORYSI Protein YABBY 4	39.200%	Swiss-Prot	Medium

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