TkA05G444150 | RubberDandelionOmics

Gene overview

TkA05G444150

Reference: TK1151 Chr: Chr05 Coordinates: 111056680-111059470 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1954 bp · TkA05G444150|TK1151|cDNA

CTCCTGGATAATTCAATTAAAATATTGATTTTCTCATAGTTATATAAACAGGTTGCCTTGTTACCATTTTATAGGAAACTTGAAAAGGGCGAAGAGCAACTTGATCAAGAAATGACTCCAAGTAATCTCTTCATCTACATTCTTTTAGCTTTTATTCCTTCCACTTTCATTAGGGCATGGACACCCCTCCCTCATCAACACCCTGACCCTGAAGCCATTGTTATGCAACTCCAAAGAAAACTTAACGCGTCAATAACCTC...

CDS

Download CDS FASTA

1731 bp · TkA05G444150|TK1151|CDS

ATGACTCCAAGTAATCTCTTCATCTACATTCTTTTAGCTTTTATTCCTTCCACTTTCATTAGGGCATGGACACCCCTCCCTCATCAACACCCTGACCCTGAAGCCATTGTTATGCAACTCCAAAGAAAACTTAACGCGTCAATAACCTCAAGAAGACGAATGCTCGATACAAACCCATCATTTGCCCAATCAAAAGATCAAACTCTCTGTCAGACCGGAAACCCAGTCGACGACTGCTGGCGATGTGACCCAAACTGGGT...

Protein

Download Protein FASTA

576 aa · TkA05G444150|TK1151|PROTEIN

MTPSNLFIYILLAFIPSTFIRAWTPLPHQHPDPEAIVMQLQRKLNASITSRRRMLDTNPSFAQSKDQTLCQTGNPVDDCWRCDPNWVNNRQRLADCAIGFGQGAMGGKGGRIYTVIDSSDNDPENPPPGTLRHAVIQAEPLWIIFAKDMHINLKTELIVSSSKTIDGRGAIVHITGKGCIVIENVGNIIIHGVYIHDCEPSGNAKIRVSPTDVVGRGKSDGDGLTIKGVRNLWIDHCSFARCTDGLVDVTEGSTAVTITN...

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	`TkA05G444150`
TK1151 ID	TkA05G444150
OH-1004 ID	LXL04_022086
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	95.000
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

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID TkA05G444150

Location Chr05:111056680-111059470 (-)

Description Similar to At3g53190: Probable pectate lyase 12

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g53190`	Probable pectate lyase 12.	No verified direct reference in this release
`At3g54920`	Susceptibility factor required for infection by most powdery mildews, but not by unrelated pathogens.	PMR6, a pectate lyase-like gene required for powdery mildew susceptibility in Arabidopsis.2002 · DOI: 10.1105/tpc.003509
`At1g67750`	Probable pectate lyase 5.	No verified direct reference in this release
`At4g24780`	Probable pectate lyase 18.	No verified direct reference in this release
`At5g63180`	Probable pectate lyase 22.	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_022086 · 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:0009664 plant-type cell wall organization Biological Process

GO:0042547 cell wall modification involved in multidimensional cell growth Biological Process

GO:0045490 pectin catabolic process Biological Process

GO:0098542 defense response to other organism Biological Process

GO:0005576 extracellular region Cellular Component

GO:0005739 mitochondrion Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0016020 membrane Cellular Component

GO:0098552 side of membrane Cellular Component

GO:0030570 pectate lyase activity Molecular Function

GO:0046872 metal ion binding Molecular Function

KEGG gene cross-reference

ath:AT1G67750

ath:AT3G24230

ath:AT3G53190

ath:AT3G54920

ath:AT4G13710

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.

Extracellular0.374

Rank 1 · TkA05G444150 · TK1151

Cell membrane0.194

Rank 2 · TkA05G444150 · TK1151

Lysosome / Vacuole0.158

Rank 3 · TkA05G444150 · TK1151

Cytoplasm0.147

Rank 4 · TkA05G444150 · TK1151

Endoplasmic reticulum0.139

Rank 5 · TkA05G444150 · 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.

PF00544Pectate_lyase_4154-356 aa

PF13229Beta_helix162-269 aa

PF23251KH_PARP14_4257-291 aa

PF16101PRIMA1506-522 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA05G444150	`PF00544`	Pectate_lyase_4	154	356	7.7e-26	91.7
TkA05G444150	`PF13229`	Beta_helix	162	269	1.5e-05	25.4
TkA05G444150	`PF23251`	KH_PARP14_4	257	291	0.26	11.8
TkA05G444150	`PF16101`	PRIMA1	506	522	0.29	11.6

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
`Q9SCP2`	Arabidopsis thaliana	sp\|Q9SCP2\|PLY12_ARATH Probable pectate lyase 12	60.200%	Swiss-Prot	Medium
`Q93Z04`	Arabidopsis thaliana	sp\|Q93Z04\|PLY13_ARATH Probable pectate lyase 13	55.500%	Swiss-Prot	High
`Q9FXD8`	Arabidopsis thaliana	sp\|Q9FXD8\|PLY5_ARATH Probable pectate lyase 5	59.300%	Swiss-Prot	High
`Q9C5M8`	Arabidopsis thaliana	sp\|Q9C5M8\|PLY18_ARATH Probable pectate lyase 18	58.300%	Swiss-Prot	Medium
`Q93Z25`	Arabidopsis thaliana	sp\|Q93Z25\|PLY22_ARATH Probable pectate lyase 22	55.800%	Swiss-Prot	High

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