LXL04_032989 | RubberDandelionOmics

Gene overview

LXL04_032989

Reference: OH-1004 Chr: Chr07 Coordinates: 32905554-32907602 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1715 bp · LXL04_032989|LXL04_032989|OH1004|cDNA

ATTTTAAACTTGCACGCAAAGTTTTAGTCGTTAACCTACAAAACGCATACACTCTTCACCACTGAATCAATAAACAACAAGAATAGTCttcaaaacaaataaaaatggCTTCTTTACTATTCCCAACGCCACCAGCAACTACCATCACCAACAGTCGCTTACTTCCTTCACTTCATCTTCACCACACAAAATCCATAAATCTCCGTTCTCACCCATCACCACCACCCTCATCTCGCCGAAAAAAGCTCCTCCCTCCACTC...

CDS

Download CDS FASTA

1611 bp · LXL04_032989|LXL04_032989|OH1004|CDS

ATGGCTTCTTTACTATTCCCAACGCCACCAGCAACTACCATCACCAACAGTCGCTTACTTCCTTCACTTCATCTTCACCACACAAAATCCATAAATCTCCGTTCTCACCCATCACCACCACCCTCATCTCGCCGAAAAAAGCTCCTCCCTCCACTCCGGGTAGCTGCCCCACCATCCCCCTCCACCACCGACGCTTCCATTGATCCTGAAATCGAAGAATCCGAAGCAAGTTCTTCATCGAAATTCTCATGGAGAGATCA...

Protein

Download Protein FASTA

536 aa · LXL04_032989|LXL04_032989|OH1004|PROTEIN

MASLLFPTPPATTITNSRLLPSLHLHHTKSINLRSHPSPPPSSRRKKLLPPLRVAAPPSPSTTDASIDPEIEESEASSSSKFSWRDHWYPISLIEDLDPNIPTPFTLLNRDLVIWFDKTNNQWAAFDDKCPHRLAPLSEGRIDDNGHLQCSYHGWSFDGCGSCSRIPQASSEGPEARAVQSPRACATRFPTMVSQGLLFVWPDENGLERARATQPPMLPDDFENPEFSTVTIQRDLFYGYDTLMENVSDPSHIDFAHHKV...

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_032989`
TK1151 ID	TkA08G218560
OH-1004 ID	LXL04_032989
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	98.700
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	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_032989

Location Chr07:32905554-32907602 (+)

Description Similar to PAO: Pheophorbide a oxygenase, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At3g44880`	Catalyzes the key reaction of chlorophyll catabolism, porphyrin macrocycle cleavage of pheophorbide a (pheide a) to a primary fluorescent catabolite (pFCC).	No verified direct reference in this release
`At4g25650`	Part of a translocon most abundantly expressed in etiolated plants and involved in the protochlorophyllide-dependent import of the precursor NADPH:protochlorophyllide oxidoreductase A (pPORA).	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os03g0146400`	Catalyzes the key reaction of chlorophyll catabolism, porphyrin macrocycle cleavage of pheophorbide a (pheide a) to a primary fluorescent catabolite (pFCC).	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_032989 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009812 flavonoid metabolic process Biological Process

GO:0009908 flower development Biological Process

GO:0010154 fruit development Biological Process

GO:0012501 programmed cell death Biological Process

GO:0015031 protein transport Biological Process

GO:0015996 chlorophyll catabolic process Biological Process

GO:0042742 defense response to bacterium Biological Process

GO:0005737 cytoplasm Cellular Component

GO:0005829 cytosol Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0009534 chloroplast thylakoid Cellular Component

GO:0009535 chloroplast thylakoid membrane Cellular Component

KEGG gene cross-reference

ath:AT3G44880

ath:AT4G25650

osa:4331611

These KEGG gene identifiers are linked through homologous proteins; they do not establish pathway function for this gene.

Open Annotation Module

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.

Plastid0.967

Rank 1 · LXL04_032989 · OH-1004

Mitochondrion0.041

Rank 2 · LXL04_032989 · OH-1004

Nucleus0.018

Rank 3 · LXL04_032989 · OH-1004

Cytoplasm0.017

Rank 4 · LXL04_032989 · OH-1004

Cell membrane0.011

Rank 5 · LXL04_032989 · OH-1004

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.

PF00355.33Rieske87-170 aa

PF19112.7VanA_C240-278 aa

PF08417.19PaO296-389 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_032989	`PF00355.33`	Rieske	87	170	7.3e-23	81.0
LXL04_032989	`PF19112.7`	VanA_C	240	278	1.2e-06	29.5
LXL04_032989	`PF08417.19`	PaO	296	389	4.5e-19	69.1

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
`Q9FYC2`	Arabidopsis thaliana	Pheophorbide a oxygenase, chloroplastic	69.388%	Swiss-Prot	strong database homology
`Q8W496`	Arabidopsis thaliana	Protochlorophyllide-dependent translocon component 52, chloroplastic	32.432%	Swiss-Prot	moderate database homology
`Q0DV66`	Oryza sativa subsp. japonica	Pheophorbide a oxygenase, chloroplastic	69.275%	Swiss-Prot	strong database homology

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