LXL04_002354 | RubberDandelionOmics

Gene overview

LXL04_002354

Reference: OH-1004 Chr: Chr01 Coordinates: 46829024-46831992 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2178 bp · LXL04_002354|LXL04_002354|OH1004|cDNA

ATGGAAAAAGAGTtggatggtggtggtggtggtggcgacGGGGTGATAGTAGAGATTCCAGGTGTTGAAGAGAAGTCCAAAAATGAAGAAACTGAAGGCATTCAGACACCACTACCAATTTCTGTTCCTACTACTATTCCGCCTCTTCAAATTCAATCAAAACAAGATCAAAATCTTATATCAATGGCACAGTCGCCGTATCCAAAGCCAAAATCAAGACTCGTTGAGCCATCGGTTCCCGCCAATTGGAAGATAGATAA...

CDS

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2178 bp · LXL04_002354|LXL04_002354|OH1004|CDS

ATGGAAAAAGAGTTGGATGGTGGTGGTGGTGGTGGCGACGGGGTGATAGTAGAGATTCCAGGTGTTGAAGAGAAGTCCAAAAATGAAGAAACTGAAGGCATTCAGACACCACTACCAATTTCTGTTCCTACTACTATTCCGCCTCTTCAAATTCAATCAAAACAAGATCAAAATCTTATATCAATGGCACAGTCGCCGTATCCAAAGCCAAAATCAAGACTCGTTGAGCCATCGGTTCCCGCCAATTGGAAGATAGATAA...

Protein

Download Protein FASTA

725 aa · LXL04_002354|LXL04_002354|OH1004|PROTEIN

MEKELDGGGGGGDGVIVEIPGVEEKSKNEETEGIQTPLPISVPTTIPPLQIQSKQDQNLISMAQSPYPKPKSRLVEPSVPANWKIDNEKVSTTASSFQKPKTPKTSTPITPRTPLMASPGGQDDDDTDVYYTTALENKKRKQPKKKRILVLIEFTLFVCVTIMLVLSKTVDKLEKSEIWSLGLWKWCVLVMVIFCGRLFSEWFTSGVVFLIEREFLLKKKVLYFVYSLQKSVRVFIWLGLILLTWGLLINRGVHRSRNTH...

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_002354`
TK1151 ID	TkA01G452910
OH-1004 ID	LXL04_002354
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
Protein identity (%)	99.900
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

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Basic Information and Functional Annotation

Gene ID LXL04_002354

Location Chr01:46829024-46831992 (+)

Description Similar to MSL10: Mechanosensitive ion channel protein 10

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g12080`	Mechanosensitive channel that opens in response to stretch forces in the membrane lipid bilayer.	Two MscS homologs provide mechanosensitive channel activities in the Arabidopsis root.2008 · DOI: 10.1016/j.cub.2008.04.039 AtMSL9 and AtMSL10: Sensors of plasma membrane tension in Arabidopsis roots.2008 · DOI: 10.4161/psb.3.9.6487
`At5g19520`	Mechanosensitive channel that opens in response to stretch forces in the membrane lipid bilayer.	Two MscS homologs provide mechanosensitive channel activities in the Arabidopsis root.2008 · DOI: 10.1016/j.cub.2008.04.039 AtMSL9 and AtMSL10: Sensors of plasma membrane tension in Arabidopsis roots.2008 · DOI: 10.4161/psb.3.9.6487
`At1g53470`	Mechanosensitive channel that opens in response to stretch forces in the membrane lipid bilayer.	No verified direct reference in this release
`At2g17010`	Mechanosensitive channel that opens in response to stretch forces in the membrane lipid bilayer.	No verified direct reference in this release
`At3g14810`	Mechanosensitive channel that opens in response to stretch forces in the membrane lipid bilayer.	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_002354 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006820 monoatomic anion transport Biological Process

GO:0009846 pollen germination Biological Process

GO:0009859 pollen hydration Biological Process

GO:0010150 leaf senescence Biological Process

GO:0050982 detection of mechanical stimulus Biological Process

GO:0097468 programmed cell death in response to reactive oxygen species Biological Process

GO:0005634 nucleus Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0012505 endomembrane system Cellular Component

GO:0090406 pollen tube Cellular Component

GO:0008381 mechanosensitive monoatomic ion channel activity Molecular Function

KEGG gene cross-reference

ath:AT1G53470

ath:AT2G17010

ath:AT3G14810

ath:AT5G12080

ath:AT5G19520

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.

Cell membrane0.811

Rank 1 · LXL04_002354 · OH-1004

Endoplasmic reticulum0.121

Rank 2 · LXL04_002354 · OH-1004

Cytoplasm0.068

Rank 3 · LXL04_002354 · OH-1004

Lysosome / Vacuole0.050

Rank 4 · LXL04_002354 · OH-1004

Golgi apparatus0.034

Rank 5 · LXL04_002354 · 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.

PF00924.25MS_channel_2nd545-603 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_002354	`PF00924.25`	MS_channel_2nd	545	603	5.1e-09	36.8

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
`Q9LYG9`	Arabidopsis thaliana	Mechanosensitive ion channel protein 10	48.343%	Swiss-Prot	moderate database homology
`Q84M97`	Arabidopsis thaliana	Mechanosensitive ion channel protein 9	45.427%	Swiss-Prot	moderate database homology
`Q9LPG3`	Arabidopsis thaliana	Mechanosensitive ion channel protein 4	40.172%	Swiss-Prot	moderate database homology
`F4IME2`	Arabidopsis thaliana	Mechanosensitive ion channel protein 8	40.461%	Swiss-Prot	moderate database homology
`Q9LH74`	Arabidopsis thaliana	Mechanosensitive ion channel protein 5	40.693%	Swiss-Prot	moderate database homology

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