LXL04_007337 | RubberDandelionOmics

Gene overview

LXL04_007337

Reference: OH-1004 Chr: Chr02 Coordinates: 44727291-44728901 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1611 bp · LXL04_007337|LXL04_007337|OH1004|cDNA

ATGCCGAGGATGATACGCACGTTAAAAAAGGTTCGAATGTCATATTCATGGAATAATTCCACTTGTGGGTTGTTCGGCAATGGAGGTTTTAGGGACTTAACAAGACCAGCTTTTGCAGCCATCAGATACTTTGTATCATGCACGTCAAAAGAAGATTCATACGAGTTGAACCGAATGTTAACACAATGTGAAGGCAGCATAAGATCTATTAAAAATATGCACGCTAAGATCATCATTGGAGGTTATGAGCAAAATGTTTT...

CDS

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1611 bp · LXL04_007337|LXL04_007337|OH1004|CDS

ATGCCGAGGATGATACGCACGTTAAAAAAGGTTCGAATGTCATATTCATGGAATAATTCCACTTGTGGGTTGTTCGGCAATGGAGGTTTTAGGGACTTAACAAGACCAGCTTTTGCAGCCATCAGATACTTTGTATCATGCACGTCAAAAGAAGATTCATACGAGTTGAACCGAATGTTAACACAATGTGAAGGCAGCATAAGATCTATTAAAAATATGCACGCTAAGATCATCATTGGAGGTTATGAGCAAAATGTTTT...

Protein

Download Protein FASTA

536 aa · LXL04_007337|LXL04_007337|OH1004|PROTEIN

MPRMIRTLKKVRMSYSWNNSTCGLFGNGGFRDLTRPAFAAIRYFVSCTSKEDSYELNRMLTQCEGSIRSIKNMHAKIIIGGYEQNVFVGSKLIAIYSGLGQSYIEDARKLFDNLSERDVFLWNMMIQTYANSDLCPKALDMYNKMREQDLHLDKYTFTFVLKASGIKKDEKAGRIIHGHVMKCGFYLDLFVGNALIAFYAKCQMIEPCMKVFDEMPKRDLVSWNTAISSCATNDRITKALDLFRTLLHEQSLITPDHATL...

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_007337`
TK1151 ID	TkA03G159420
OH-1004 ID	LXL04_007337
Relationship / confidence	Multi Source To Oh1004 / Complex relationship
Protein identity (%)	99.600
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

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SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_007337

Location Chr02:44727291-44728901 (-)

Description Similar to PCMP-H6: Pentatricopeptide repeat-containing protein At2g33760

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At2g33760`	Pentatricopeptide repeat-containing protein At2g33760.	No verified direct reference in this release
`At4g33990`	Pentatricopeptide repeat-containing protein At4g33990.	No verified direct reference in this release
`At3g12770`	Pentatricopeptide repeat-containing protein At3g12770.	No verified direct reference in this release
`At1g50270`	Pentatricopeptide repeat-containing protein At1g50270.	No verified direct reference in this release
`At3g26782`	Pentatricopeptide repeat-containing protein At3g26782, mitochondrial.	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_007337 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0009451 RNA modification Biological Process

GO:0031425 chloroplast RNA processing Biological Process

GO:0080156 mitochondrial mRNA modification Biological Process

GO:0005739 mitochondrion Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0003723 RNA binding Molecular Function

GO:0008270 zinc ion binding Molecular Function

KEGG gene cross-reference

ath:AT1G50270

ath:AT2G33760

ath:AT3G12770

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.

Mitochondrion0.719

Rank 1 · LXL04_007337 · OH-1004

Plastid0.165

Rank 2 · LXL04_007337 · OH-1004

Nucleus0.041

Rank 3 · LXL04_007337 · OH-1004

Cytoplasm0.027

Rank 4 · LXL04_007337 · OH-1004

Cell membrane0.006

Rank 5 · LXL04_007337 · 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.

PF13041.13PPR_2117-163 aa

PF13041.13PPR_2322-369 aa

PF01535.27PPR325-354 aa

PF20431.5E_motif438-499 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_007337	`PF13041.13`	PPR_2	117	163	8.8e-36	122.5
LXL04_007337	`PF13041.13`	PPR_2	322	369	8.8e-36	122.5
LXL04_007337	`PF01535.27`	PPR	325	354	4.5e-39	130.7
LXL04_007337	`PF20431.5`	E_motif	438	499	6.1e-11	43.1

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.

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Protein	Organism	Description	Identity	Database	Confidence
`P93011`	Arabidopsis thaliana	Pentatricopeptide repeat-containing protein At2g33760	35.332%	Swiss-Prot	moderate database homology
`O81767`	Arabidopsis thaliana	Pentatricopeptide repeat-containing protein At4g33990	34.096%	Swiss-Prot	moderate database homology
`Q9LTV8`	Arabidopsis thaliana	Pentatricopeptide repeat-containing protein At3g12770	33.464%	Swiss-Prot	moderate database homology
`Q9SX45`	Arabidopsis thaliana	Pentatricopeptide repeat-containing protein At1g50270	36.364%	Swiss-Prot	moderate database homology
`Q9LW32`	Arabidopsis thaliana	Pentatricopeptide repeat-containing protein At3g26782, mitochondrial	34.694%	Swiss-Prot	moderate database homology

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