TkA01G478490 | RubberDandelionOmics

Gene overview

TkA01G478490

Reference: TK1151 Chr: Chr01 Coordinates: 119847571-119849685 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1354 bp · TkA01G478490|TK1151|cDNA

AAGAAAGAAAGCCACGTGGCAAGGCACCCTCTCCATGTACTCCCTCACTCTCACACTCCCGCCACTCACTGTAACCACCATAACCGCCACCGCCACACCACCTCTCATTTCTCCAATTAAAACACCTTCTAATTTCTCCTCCCGTCGTTTTCTTCGCTTTTACAAATTAAACATCACCAATCCCCTCCACCAACCCCGCCGGAGACGCTCTGCACTGCATTTTTCCATTTTTATTTCACATTATGACCAATCACAACCGC...

CDS

Download CDS FASTA

1053 bp · TkA01G478490|TK1151|CDS

ATGACCAATCACAACCGCAACCATAACCCTAACAACAATAAAATCATCCACAACCACAACCACCTCCTCCCATCACCCACCACCACCACCCGCTCAAACTCCACCATCCAAGCCTGCGCTGCCTGCCGCTACCAACGACGGAAGTGTGCCCCTGATTGCATTCTCGCGCCTTACTTCCCTCACGACCGGCAACGTCAGTTCCAAAACGCACATAAACTCTTCGGTGTAAGCAACATTACGAAGATTATTCGTCACCTGGA...

Protein

Download Protein FASTA

350 aa · TkA01G478490|TK1151|PROTEIN

MTNHNRNHNPNNNKIIHNHNHLLPSPTTTTRSNSTIQACAACRYQRRKCAPDCILAPYFPHDRQRQFQNAHKLFGVSNITKIIRHLDQPQKDEAMRTIIYQSDVRAQDPVGGCYRIIRELHRQIEISRTELEIVLQQLAYCRTLAVQNQTQCQPQFNQDQIVIDEVDCDIHLVNNPDDANAHLYNDSSVDRLHRRNSLDLDLDNIPLPQQEHNEQYVSGKQDSNELDAGWENDQVAVPAPAPVQSWAAVHDSPPSSANCF...

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	`TkA01G478490`
TK1151 ID	TkA01G478490
OH-1004 ID	LXL04_002155
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.100
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 TkA01G478490

Location Chr01:119847571-119849685 (+)

Description Similar to LBD22: LOB domain-containing protein 22

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g13850`	LOB domain-containing protein 22.	No verified direct reference in this release
`At1g72980`	LOB domain-containing protein 7.	No verified direct reference in this release
`At3g47870`	LOB domain-containing protein 27.	No verified direct reference in this release
`At1g65620`	Negative regulator of cell proliferation in the adaxial side of leaves.	No verified direct reference in this release
`At5g63090`	Not known; ectopic expression of LOB leads to alterations in the size and shape of leaves and floral organs and causes male and female sterility.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_002155 · 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:0006355 regulation of DNA-templated transcription Biological Process

GO:0009555 pollen development Biological Process

GO:0009556 microsporogenesis Biological Process

GO:0009736 cytokinin-activated signaling pathway Biological Process

GO:0009786 regulation of asymmetric cell division Biological Process

GO:0010199 organ boundary specification between lateral organs and the meristem Biological Process

GO:0048364 root development Biological Process

GO:0080117 secondary growth Biological Process

GO:0005634 nucleus Cellular Component

GO:0000976 transcription cis-regulatory region binding Molecular Function

GO:0001216 DNA-binding transcription activator activity Molecular Function

GO:0001217 DNA-binding transcription repressor activity Molecular Function

KEGG gene cross-reference

ath:AT1G16530

ath:AT1G72980

ath:AT3G13850

ath:AT3G47870

ath:AT5G63090

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.

Nucleus0.956

Rank 1 · TkA01G478490 · TK1151

Cytoplasm0.099

Rank 2 · TkA01G478490 · TK1151

Cell membrane0.030

Rank 3 · TkA01G478490 · TK1151

Endoplasmic reticulum0.026

Rank 4 · TkA01G478490 · TK1151

Plastid0.012

Rank 5 · TkA01G478490 · 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.

PF17834GHD7-24 aa

PF03195LOB38-133 aa

PF11333DUF313595-128 aa

PF11333DUF3135150-184 aa

PF17834GHD168-182 aa

PF17663DUF5525235-280 aa

PF17834GHD317-344 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA01G478490	`PF17834`	GHD	7	24	0.25	11.8
TkA01G478490	`PF03195`	LOB	38	133	3.2e-37	127.8
TkA01G478490	`PF11333`	DUF3135	95	128	0.15	13.1
TkA01G478490	`PF11333`	DUF3135	150	184	0.15	13.1
TkA01G478490	`PF17834`	GHD	168	182	0.25	11.8
TkA01G478490	`PF17663`	DUF5525	235	280	0.043	12.6
TkA01G478490	`PF17834`	GHD	317	344	0.25	11.8

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
`Q9LRW1`	Arabidopsis thaliana	sp\|Q9LRW1\|LBD22_ARATH LOB domain-containing protein 22	73.200%	Swiss-Prot	Low
`Q9SSM9`	Arabidopsis thaliana	sp\|Q9SSM9\|LBD7_ARATH LOB domain-containing protein 7	50.800%	Swiss-Prot	Low
`Q9STS6`	Arabidopsis thaliana	sp\|Q9STS6\|LBD27_ARATH LOB domain-containing protein 27	51.400%	Swiss-Prot	Low
`O04479`	Arabidopsis thaliana	sp\|O04479\|AS2_ARATH Protein ASYMMETRIC LEAVES 2	40.000%	Swiss-Prot	Low
`Q9FML4`	Arabidopsis thaliana	sp\|Q9FML4\|LOB_ARATH Protein LATERAL ORGAN BOUNDARIES	43.100%	Swiss-Prot	Low

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