TkA02G015530 | RubberDandelionOmics

Gene overview

TkA02G015530

Reference: TK1151 Chr: Chr02 Coordinates: 3586620-3593028 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2290 bp · TkA02G015530|TK1151|cDNA

ACGAAACCAAAATCAATTCATTTTTCAATTGTTTGAGTTTTCTAACCTAGCACACTCCTGTCGGCGTCGACACTCTCGTCTCCCGACCTCCCGCCTCATCACCATCACCAGCTCGTCTGCTCCCCACCGGCCACCTGCTCCGCCATCGCCTCCCTGCTCCGACGTCCCCTCCCTGTTCCGCACCTCTTCCTCGACGCACGACGACAGGCAGCACCGCAGCAGCGCTCACGACCTGAAGTCCTGAACTTCTCCGCACCTCC...

CDS

Download CDS FASTA

1530 bp · TkA02G015530|TK1151|CDS

ATGGGGTATGAAAACGACCGCCATTGTGGACCTACATCAAAGCAGAATTGTTTGGTTCTTGCCCCTCATTCTTACAAGATTCCTCATAGATGGCCTACTGGTAGAGATGTTATTTGGATCGATAATGTTAAAATAAATGAACAACAGGTTCTTTCATCCGGAAGTTTGACTAAAAGGATGATGTTGTTAGATGAAGATCAAATCTCATTTAGTTTTGCATCTTCAATGGTTGATGATAGTATTGAAGATTACTCTCATCA...

Protein

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509 aa · TkA02G015530|TK1151|PROTEIN

MGYENDRHCGPTSKQNCLVLAPHSYKIPHRWPTGRDVIWIDNVKINEQQVLSSGSLTKRMMLLDEDQISFSFASSMVDDSIEDYSHQIAEMIGLRNESYFVNAGARTILDIGCGFGTAHLFPKQLLTMCIANYESSGSQVEITLERGLPAMVASFTSKKLPFPSLSFDMVHSAWDGVDWNHKDGIHLIEMDRVLRPGGYFVWTSQIANTPISTRNKENLKKWDFIRNFAKDLCWELSQQDKTIVWKKPSNKDCYASRNQG...

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	`TkA02G015530`
TK1151 ID	TkA02G015530
OH-1004 ID	LXL04_030121
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	97.600
Protein coverage (%)	TK1151 95.678 / OH-1004 66.486 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 TkA02G015530

Location Chr02:3586620-3593028 (-)

Description Similar to QUA2: Probable pectin methyltransferase QUA2

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g78240`	May be involved in the synthesis of homogalacturonan.	Homogalacturonan synthesis in Arabidopsis thaliana requires a Golgi-localized protein with a putative methyltransferase domain.2007 · DOI: 10.1111/j.1365-313x.2007.03086.x The TUMOROUS SHOOT DEVELOPMENT2 gene of Arabidopsis encoding a putative methyltransferase is required for cell adhesion and co-ordinated plant development.2007 · DOI: 10.1111/j.1365-313x.2007.03123.x The OSU1/QUA2/TSD2-encoded putative methyltransferase is a critical modulator of carbon and nitrogen nutrient balance response in Arabidopsis.2008 · DOI: 10.1371/journal.pone.0001387
`At1g13860`	Probable methyltransferase PMT4.	No verified direct reference in this release
`At2g03480`	Probable methyltransferase PMT5.	No verified direct reference in this release
`At1g04430`	Probable methyltransferase PMT8.	No verified direct reference in this release
`At5g14430`	Probable methyltransferase PMT9.	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_030121 · 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:0007155 cell adhesion Biological Process

GO:0009735 response to cytokinin Biological Process

GO:0010289 homogalacturonan biosynthetic process Biological Process

GO:0032259 methylation Biological Process

GO:0048364 root development Biological Process

GO:0048367 shoot system development Biological Process

GO:0000138 Golgi trans cisterna Cellular Component

GO:0000139 Golgi membrane Cellular Component

GO:0000325 plant-type vacuole Cellular Component

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005739 mitochondrion Cellular Component

KEGG gene cross-reference

ath:AT1G04430

ath:AT1G13860

ath:AT1G78240

ath:AT2G03480

ath:AT3G23300

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.

Golgi apparatus0.557

Rank 1 · TkA02G015530 · TK1151

Extracellular0.118

Rank 2 · TkA02G015530 · TK1151

Cell membrane0.090

Rank 3 · TkA02G015530 · TK1151

Endoplasmic reticulum0.062

Rank 4 · TkA02G015530 · TK1151

Nucleus0.054

Rank 5 · TkA02G015530 · 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.

PF03141Methyltransf_294-499 aa

PF13847Methyltransf_31107-117 aa

PF13649Methyltransf_25108-198 aa

PF08241Methyltransf_11109-201 aa

PF13847Methyltransf_31160-223 aa

PF20922Anamorsin_N162-209 aa

PF17166DUF5126358-394 aa

PF13649Methyltransf_25414-464 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA02G015530	`PF03141`	Methyltransf_29	4	499	4.3e-123	412.3
TkA02G015530	`PF13847`	Methyltransf_31	107	117	0.0018	18.8
TkA02G015530	`PF13649`	Methyltransf_25	108	198	4.9e-07	31.1
TkA02G015530	`PF08241`	Methyltransf_11	109	201	9.6e-09	36.5
TkA02G015530	`PF13847`	Methyltransf_31	160	223	0.0018	18.8
TkA02G015530	`PF20922`	Anamorsin_N	162	209	0.017	15.5
TkA02G015530	`PF17166`	DUF5126	358	394	0.21	12.3
TkA02G015530	`PF13649`	Methyltransf_25	414	464	4.9e-07	31.1
TkA02G015530	`PF13847`	Methyltransf_31	421	495	0.0018	18.8
TkA02G015530	`PF08241`	Methyltransf_11	451	468	9.6e-09	36.5
TkA02G015530	`PF20922`	Anamorsin_N	451	476	0.017	15.5

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
`Q9C9Q8`	Arabidopsis thaliana	sp\|Q9C9Q8\|PMTT_ARATH Probable pectin methyltransferase QUA2	65.100%	Swiss-Prot	High
`Q8GYW9`	Arabidopsis thaliana	sp\|Q8GYW9\|PMT4_ARATH Probable methyltransferase PMT4	53.900%	Swiss-Prot	High
`Q3EC77`	Arabidopsis thaliana	sp\|Q3EC77\|PMT5_ARATH Probable methyltransferase PMT5	54.000%	Swiss-Prot	High
`Q940J9`	Arabidopsis thaliana	sp\|Q940J9\|PMT8_ARATH Probable methyltransferase PMT8	36.300%	Swiss-Prot	Medium
`Q8VZV7`	Arabidopsis thaliana	sp\|Q8VZV7\|PMT9_ARATH Probable methyltransferase PMT9	35.600%	Swiss-Prot	Medium

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