LXL04_007403 | RubberDandelionOmics

Gene overview

LXL04_007403

Reference: OH-1004 Chr: Chr02 Coordinates: 46688591-46696520 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2031 bp · LXL04_007403|LXL04_007403|OH1004|cDNA

ATGggaaagaagaaggaaatgTTTTTAGCAACCAGAATATTAATTGTTGCTGTTCTTCACTTCATAATTTATACTGCTGAATGCAAACGCGTAATCAATACAAAAAAGGCTGTCAGGAGCGCTTCAGAAGGTTCCGTTTTGTACCCTCCGGTGCAATTGCATATCAACGATGATCAAGTGGTGGTCGACAATGGCATTTTTAGTATCACCCTACAGAGTCCTCAAGGCACGGTCACGAGTATAAATTATAATGGAATCGA...

CDS

Download CDS FASTA

2031 bp · LXL04_007403|LXL04_007403|OH1004|CDS

ATGGGAAAGAAGAAGGAAATGTTTTTAGCAACCAGAATATTAATTGTTGCTGTTCTTCACTTCATAATTTATACTGCTGAATGCAAACGCGTAATCAATACAAAAAAGGCTGTCAGGAGCGCTTCAGAAGGTTCCGTTTTGTACCCTCCGGTGCAATTGCATATCAACGATGATCAAGTGGTGGTCGACAATGGCATTTTTAGTATCACCCTACAGAGTCCTCAAGGCACGGTCACGAGTATAAATTATAATGGAATCGA...

Protein

Download Protein FASTA

676 aa · LXL04_007403|LXL04_007403|OH1004|PROTEIN

MGKKKEMFLATRILIVAVLHFIIYTAECKRVINTKKAVRSASEGSVLYPPVQLHINDDQVVVDNGIFSITLQSPQGTVTSINYNGIDNILSDRNAINDRGYWDVNWSDPENPKDNLDKLAGDELDVIMSDENQVELSFKRHWTFSHKNSHISLNVDKRFIILRGTSGFYSYGIFDRPKGWPDVDIYQGRIVFKLQEKLFRYMAVSDERQRVMPTFEDRKRGEPLDYPEAVLLTHPSNTLLKGEVDDKYQYSTENKDNRVH...

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	`LXL04_007403`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

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Basic Information and Functional Annotation

Gene ID	`LXL04_007403`
Location	Chr02:46688591-46696520 (-)
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_007403` · GCA_047496595.1_OSU_TarKok_2.0.
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.

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.

Lysosome / Vacuole0.353

Rank 1 · LXL04_007403 · OH-1004

Endoplasmic reticulum0.192

Rank 2 · LXL04_007403 · OH-1004

Extracellular0.160

Rank 3 · LXL04_007403 · OH-1004

Cytoplasm0.141

Rank 4 · LXL04_007403 · OH-1004

Golgi apparatus0.129

Rank 5 · LXL04_007403 · OH-1004

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.

PF06045.18Rhamnogal_lyase51-244 aa

PF14686.13fn3_3394-465 aa

PF14683.13CBM-like480-668 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_007403	`PF06045.18`	Rhamnogal_lyase	51	244	1.8e-78	263.5
LXL04_007403	`PF14686.13`	fn3_3	394	465	3.7e-24	85.0
LXL04_007403	`PF14683.13`	CBM-like	480	668	1e-46	159.5

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.

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