TkA06G023860 | RubberDandelionOmics

Gene overview

TkA06G023860

Reference: TK1151 Chr: Chr06 Coordinates: 6489673-6492690 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2057 bp · TkA06G023860|TK1151|cDNA

TATAAATATTATTTGGGATTTGTAAATATCGGCTATAGATAAGAAGCTTCAGAGGACATGTAGGCGAGTCTGACACAAAGGTGTCAAAAGCTCAAACGTATCTCCAGCAAGTAGTAGATGCACTCAATAAATGACCTAGCAAACCAAAAATTTCATCTTTAAAACCCTAATTCCCTTCTTTTCTCTCTTTCTTTAAACCCATTGAATCGCATCTTCGCCTCCCTAATCTTTCCGATTCAATTGGTTTCATGTTTAGTAGG...

CDS

Download CDS FASTA

1236 bp · TkA06G023860|TK1151|CDS

ATGGATTCACGAGAATCATTAGCACCACCGCCGTCACTACAGCAACATCATGCCCATCACCAGCAGCACCCGCCGCCCGGTATGAATATGATGATGCCACCAAACTCATTCTCCACCCACCACCACCTATCCAACAACTCAAATACCGCTCCACCCAACAACAATAAAAATGCCAATATGATGAGCCCCAATTCGATGCAACAACGCTTCCCCTTTAATCCTTCTAACCAGTACGGTGACGGATCATCTCCGTCCGGCGG...

Protein

Download Protein FASTA

411 aa · TkA06G023860|TK1151|PROTEIN

MDSRESLAPPPSLQQHHAHHQQHPPPGMNMMMPPNSFSTHHHLSNNSNTAPPNNNKNANMMSPNSMQQRFPFNPSNQYGDGSSPSGGFRADGYSIEPARKKRGRPRKYSPSPDGNIALGLAPAPIAAIPASAGGNLDSSNDGSGGTPNADSSAKKNRGRPAGSGKKQLDALGAPGVGFTPHVIIVKAGEDIASTIMAFSQQGPRTVCILSANGAIGNVTLRQPATSGGTVTYEGRFEIISLSGSFLHSESNGNSSKPSGL...

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	`TkA06G023860`
TK1151 ID	TkA06G023860
OH-1004 ID	LXL04_026159
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.700
Protein coverage (%)	TK1151 86.618 / OH-1004 86.618 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 TkA06G023860

Location Chr06:6489673-6492690 (+)

Description Similar to AHL13: AT-hook motif nuclear-localized protein 13

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g33620`	Transcription factor that specifically binds AT-rich DNA sequences related to the nuclear matrix attachment regions (MARs).	No verified direct reference in this release
`At5g46640`	Transcription factor that specifically binds AT-rich DNA sequences related to the nuclear matrix attachment regions (MARs).	No verified direct reference in this release
`At4g17950`	Transcription factor that specifically binds AT-rich DNA sequences related to the nuclear matrix attachment regions (MARs).	No verified direct reference in this release
`At4g12080`	Transcription factor that specifically binds AT-rich DNA sequences related to the nuclear matrix attachment regions (MARs).	Identification of a novel plant MAR DNA binding protein localized on chromosomal surfaces.2004 · DOI: 10.1007/s11103-004-3249-5
`At4g25320`	Transcription factor that specifically binds AT-rich DNA sequences related to the nuclear matrix attachment regions (MARs) (By similarity).	Cell-to-cell movement of two interacting AT-hook factors in Arabidopsis root vascular tissue patterning.2013 · DOI: 10.1105/tpc.112.102210

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_026159 · 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:0010051 xylem and phloem pattern formation Biological Process

GO:0010089 xylem development Biological Process

GO:0005634 nucleus Cellular Component

GO:0005654 nucleoplasm Cellular Component

GO:0005730 nucleolus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0098687 chromosomal region Cellular Component

GO:0003677 DNA binding Molecular Function

GO:0003680 minor groove of adenine-thymine-rich DNA binding Molecular Function

GO:0003700 DNA-binding transcription factor activity Molecular Function

KEGG gene cross-reference

ath:AT2G33620

ath:AT4G12080

ath:AT4G17950

ath:AT4G25320

ath:AT5G46640

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.

Nucleus0.980

Rank 1 · TkA06G023860 · TK1151

Cytoplasm0.080

Rank 2 · TkA06G023860 · TK1151

Cell membrane0.024

Rank 3 · TkA06G023860 · TK1151

Endoplasmic reticulum0.015

Rank 4 · TkA06G023860 · TK1151

Plastid0.009

Rank 5 · TkA06G023860 · 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.

PF03153TFIIA9-66 aa

PF02178AT_hook100-110 aa

PF02178AT_hook154-165 aa

PF03479PCC175-293 aa

PF03153TFIIA348-391 aa

PF27722YqfB359-402 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA06G023860	`PF03153`	TFIIA	9	66	1.1	9.8
TkA06G023860	`PF02178`	AT_hook	100	110	0.95	10.2
TkA06G023860	`PF02178`	AT_hook	154	165	0.95	10.2
TkA06G023860	`PF03479`	PCC	175	293	5.3e-36	124.0
TkA06G023860	`PF03153`	TFIIA	348	391	1.1	9.8
TkA06G023860	`PF27722`	YqfB	359	402	3.2	8.8

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
`O22812`	Arabidopsis thaliana	sp\|O22812\|AHL10_ARATH AT-hook motif nuclear-localized protein 10	57.800%	Swiss-Prot	Medium
`Q9FIR1`	Arabidopsis thaliana	sp\|Q9FIR1\|AHL8_ARATH AT-hook motif nuclear-localized protein 8	56.800%	Swiss-Prot	Medium
`Q940I0`	Arabidopsis thaliana	sp\|Q940I0\|AHL13_ARATH AT-hook motif nuclear-localized protein 13	69.800%	Swiss-Prot	Low
`Q8VYJ2`	Arabidopsis thaliana	sp\|Q8VYJ2\|AHL1_ARATH AT-hook motif nuclear-localized protein 1	52.100%	Swiss-Prot	Low
`Q9SB31`	Arabidopsis thaliana	sp\|Q9SB31\|AHL3_ARATH AT-hook motif nuclear-localized protein 3	46.900%	Swiss-Prot	Medium

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