TkA04G513400 | RubberDandelionOmics

Gene overview

TkA04G513400

Reference: TK1151 Chr: Chr04 Coordinates: 129695055-129701806 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2935 bp · TkA04G513400|TK1151|cDNA

GTAGATTTTAGAACTATTTTAAAGAAATATGCTCCTCCAAATTCTCCATTGATTAATAATAAGTTTCTTACCCAAAATAAATCGTGAAGGACATGCTCCTCCAGATTCAAAAGAAATATGCTTCTCCAAATTCTCCATTGAATACGTACAAAACTACTTTTCCATTTCCTCCAATTGGAGTATTTGATTGATAGTGTGGTTGATTGAACGAAGCGGCCGGGAAATCGTCTTGACGGGTTGGGTAAGAACGTGTCCGTGGC...

CDS

Download CDS FASTA

2034 bp · TkA04G513400|TK1151|CDS

ATGGGAATTTGGAGTAGGTTCGGAACAGCGATTACAAGTATCTGCACATGTGGAGGAGGGAAACTCCAACACCACGAGGGACTTGGACCAATGTCTTGTATGGGTGTACGGTTACGGATTCAAGATCACCATGTGGTGATTGATAATGGCATACTGCAACTAACATTATCGAAACCAGACGGCCTTGTGACTGGGATACGATACAATTGCCTTGACAATCTTCTCGAGGTTCAAAATCACGAAGGGAACAGAGGGTATTG...

Protein

Download Protein FASTA

677 aa · TkA04G513400|TK1151|PROTEIN

MGIWSRFGTAITSICTCGGGKLQHHEGLGPMSCMGVRLRIQDHHVVIDNGILQLTLSKPDGLVTGIRYNCLDNLLEVQNHEGNRGYWDVVWSALDDSGRKGVFEVIKGTRFKVIVETEEQVEVSFSRTWEPCLKGKLAPINIDKRFVVLGGSSGFYSYAIYEHLGSEEWQAFSLGETRIAFKLRKDKFHYMAVSDDRRRYMPMPEDRLPGRAQPLAYQEAVSLLNPLVPQFRGEVDDKYQYTCENRNLMVHGWISNDQSP...

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	`TkA04G513400`
TK1151 ID	TkA04G513400
OH-1004 ID	LXL04_039182
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	87.500
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	`TkA04G513400`
Location	Chr04:129695055-129701806 (-)
Description	Similar to rhiE: Rhamnogalacturonate lyase (Dickeya dadantii (strain 3937)
Arabidopsis / Rice Reference Genes and Papers	Download references for this gene Arabidopsis No hit for this species in the current source table. Rice No hit for this species in the current source table.
Functional annotation source	View annotation sources Functional annotation source: OH1004 · `LXL04_039182` · 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:0000272 polysaccharide catabolic process Biological Process GO:0005975 carbohydrate metabolic process Biological Process GO:0045490 pectin catabolic process Biological Process GO:0071555 cell wall organization Biological Process GO:0005576 extracellular region Cellular Component GO:0016837 carbon-oxygen lyase activity, acting on polysaccharides Molecular Function GO:0030246 carbohydrate binding Molecular Function GO:0102210 rhamnogalacturonan endolyase activity Molecular Function
KEGG gene cross-reference	ang:An11g00390 ani:ANIA_06395 ddd:Dda3937_01465 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.

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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.

Cytoplasm0.280

Rank 1 · TkA04G513400 · TK1151

Endoplasmic reticulum0.222

Rank 2 · TkA04G513400 · TK1151

Lysosome / Vacuole0.201

Rank 3 · TkA04G513400 · TK1151

Nucleus0.161

Rank 4 · TkA04G513400 · TK1151

Extracellular0.123

Rank 5 · TkA04G513400 · 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.

PF06045Rhamnogal_lyase35-235 aa

PF26111Ig_Mok1347-61 aa

PF14686fn3_3228-243 aa

PF14686fn3_3391-463 aa

PF13620CarboxypepD_reg419-449 aa

PF13715CarbopepD_reg_2420-437 aa

PF09430EMC7_beta-sandw421-438 aa

PF14683CBM-like477-665 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
TkA04G513400	`PF06045`	Rhamnogal_lyase	35	235	5.8e-88	294.5
TkA04G513400	`PF26111`	Ig_Mok13	47	61	0.27	12.1
TkA04G513400	`PF14686`	fn3_3	228	243	3.4e-25	88.3
TkA04G513400	`PF14686`	fn3_3	391	463	3.4e-25	88.3
TkA04G513400	`PF13620`	CarboxypepD_reg	419	449	0.011	16.7
TkA04G513400	`PF13715`	CarbopepD_reg_2	420	437	0.0077	16.9
TkA04G513400	`PF09430`	EMC7_beta-sandw	421	438	0.002	19.0
TkA04G513400	`PF14683`	CBM-like	477	665	6.1e-50	169.9
TkA04G513400	`PF26111`	Ig_Mok13	558	584	0.27	12.1
TkA04G513400	`PF14686`	fn3_3	566	580	3.4e-25	88.3
TkA04G513400	`PF09430`	EMC7_beta-sandw	566	603	0.002	19.0
TkA04G513400	`PF13715`	CarbopepD_reg_2	566	601	0.0077	16.9
TkA04G513400	`PF13620`	CarboxypepD_reg	566	602	0.011	16.7

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.

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