LXL04_001370 | RubberDandelionOmics

Gene overview

LXL04_001370

Reference: OH-1004 Chr: Chr01 Coordinates: 25062499-25064532 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1017 bp · LXL04_001370|LXL04_001370|OH1004|cDNA

ATGGTTGGTTCGTTTGCATATCAGCCACCGGATTTCTTCATATCCGGTCTCGGAGCAAGTTCCAAGCCTTTCCATCTCATCACCAACGCCGCCGCTCTACGCCTTGGTCGCTTCCTTCGCCACAGTTTCGTCTCCCATCGCCATCACTTGGGGTCTATTCTACAATCATCTTCAAAGATTCCTCGATTTGGCCATCTTCTCCAGTTAAACGGAGTGTCTCAGGGAAAATCAGACCAATTTAATTGGTTCAAGTTTCCTCA...

CDS

Download CDS FASTA

1017 bp · LXL04_001370|LXL04_001370|OH1004|CDS

ATGGTTGGTTCGTTTGCATATCAGCCACCGGATTTCTTCATATCCGGTCTCGGAGCAAGTTCCAAGCCTTTCCATCTCATCACCAACGCCGCCGCTCTACGCCTTGGTCGCTTCCTTCGCCACAGTTTCGTCTCCCATCGCCATCACTTGGGGTCTATTCTACAATCATCTTCAAAGATTCCTCGATTTGGCCATCTTCTCCAGTTAAACGGAGTGTCTCAGGGAAAATCAGACCAATTTAATTGGTTCAAGTTTCCTCA...

Protein

Download Protein FASTA

338 aa · LXL04_001370|LXL04_001370|OH1004|PROTEIN

MVGSFAYQPPDFFISGLGASSKPFHLITNAAALRLGRFLRHSFVSHRHHLGSILQSSSKIPRFGHLLQLNGVSQGKSDQFNWFKFPQWPHDAWGTAFSSCLLFFGGDGNQPNLGDQEKAYLRTPTRGPVNRRRLTNILLAINVLAYAAQVASQGQLLMWGAKINGLIDKGQLWRLVTPAFLHANLGHLMINCYSLNSIGPTMEHLSGPTRYLTIYMASAISSSGMSYRFSKAPAVGASGAIFGLVGAFAIFVLRHNNMVK...

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_001370`
TK1151 ID	TkA01G542360
OH-1004 ID	LXL04_001370
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	98.800
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_001370

Location Chr01:25062499-25064532 (-)

Description Similar to RBL10: RHOMBOID-like protein 10, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g25290`	Rhomboid-type serine protease that catalyzes intramembrane proteolysis.	Rhomboid proteins in the chloroplast envelope affect the level of allene oxide synthase in Arabidopsis thaliana.2012 · DOI: 10.1111/j.1365-313x.2012.05090.x
`At5g38510`	Probable rhomboid-type serine protease that catalyzes intramembrane proteolysis.	No verified direct reference in this release
`At1g63120`	Rhomboid-type serine protease that catalyzes intramembrane proteolysis.	An Arabidopsis Rhomboid homolog is an intramembrane protease in plants.2005 · DOI: 10.1016/j.febslet.2005.09.049

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_001370 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006508 proteolysis Biological Process

GO:0006654 phosphatidic acid biosynthetic process Biological Process

GO:0019374 galactolipid metabolic process Biological Process

GO:0046473 phosphatidic acid metabolic process Biological Process

GO:0000139 Golgi membrane Cellular Component

GO:0005794 Golgi apparatus Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009506 plasmodesma Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0009706 chloroplast inner membrane Cellular Component

GO:0031969 chloroplast membrane Cellular Component

GO:0004252 serine-type endopeptidase activity Molecular Function

KEGG gene cross-reference

ath:AT1G25290

ath:AT1G63120

ath:AT5G38510

bsu:BSU04610

bsu:BSU24870

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.

Plastid0.709

Rank 1 · LXL04_001370 · OH-1004

Mitochondrion0.264

Rank 2 · LXL04_001370 · OH-1004

Nucleus0.031

Rank 3 · LXL04_001370 · OH-1004

Cytoplasm0.029

Rank 4 · LXL04_001370 · OH-1004

Endoplasmic reticulum0.013

Rank 5 · LXL04_001370 · 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.

PF01694.29Rhomboid169-306 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_001370	`PF01694.29`	Rhomboid	169	306	1e-37	130.2

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
`F4ICF4`	Arabidopsis thaliana	RHOMBOID-like protein 10, chloroplastic	50.489%	Swiss-Prot	strong database homology
`Q9FFX0`	Arabidopsis thaliana	RHOMBOID-like protein 9, chloroplastic	31.013%	Swiss-Prot	weak database homology
`Q9CAN1`	Arabidopsis thaliana	RHOMBOID-like protein 2	35.185%	Swiss-Prot	weak database homology

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