LXL04_010925 | RubberDandelionOmics

Gene overview

LXL04_010925

Reference: OH-1004 Chr: Chr02 Coordinates: 155238187-155238609 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

423 bp · LXL04_010925|LXL04_010925|OH1004|cDNA

ATGAACAGATCAAGTGATTACGAACGCGTTTTCAGTCACATCGATAGAGATGGTAACGGCATGATCTCTCCATCAGAGCTGCAACGTTGTGTCGGATTGATCTGGAACGAAGAAATTTTACTTGAAGAGGTAGAAATCGTTGTGGAATCGTCACGGGGAAACAacggagaattagggtttgAAGATTTTGTTAGTTTGATGGAAAGCGCACAGGAAGATGAGAAGGTTGAAGACTTGCGGAAAGCTTTCAGAATGTACGA...

CDS

Download CDS FASTA

423 bp · LXL04_010925|LXL04_010925|OH1004|CDS

ATGAACAGATCAAGTGATTACGAACGCGTTTTCAGTCACATCGATAGAGATGGTAACGGCATGATCTCTCCATCAGAGCTGCAACGTTGTGTCGGATTGATCTGGAACGAAGAAATTTTACTTGAAGAGGTAGAAATCGTTGTGGAATCGTCACGGGGAAACAACGGAGAATTAGGGTTTGAAGATTTTGTTAGTTTGATGGAAAGCGCACAGGAAGATGAGAAGGTTGAAGACTTGCGGAAAGCTTTCAGAATGTACGA...

Protein

Download Protein FASTA

140 aa · LXL04_010925|LXL04_010925|OH1004|PROTEIN

MNRSSDYERVFSHIDRDGNGMISPSELQRCVGLIWNEEILLEEVEIVVESSRGNNGELGFEDFVSLMESAQEDEKVEDLRKAFRMYEMDGTDCITADSLNRMLNRLGESRSVDECAGMINRFDLNGDGVLNFDEFRAMMV

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_010925`
TK1151 ID	TkA03G555750
OH-1004 ID	LXL04_010925
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	100.000
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_010925

Location Chr02:155238187-155238609 (-)

Description Similar to CML19: Putative calcium-binding protein CML19

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At1g76650`	Potential calcium sensor that binds calcium in vitro.	Developmental and stimulus-induced expression patterns of Arabidopsis calmodulin-like genes CML37, CML38 and CML39.2007 · DOI: 10.1007/s11103-007-9189-0
`At3g01830`	Potential calcium sensor.	No verified direct reference in this release
`At5g42380`	Potential calcium sensor that binds calcium in vitro.	Developmental and stimulus-induced expression patterns of Arabidopsis calmodulin-like genes CML37, CML38 and CML39.2007 · DOI: 10.1007/s11103-007-9189-0

Rice

Reference gene ID	Possible function	Papers / DOI
`Os01g0955500`	Potential calcium sensor.	No verified direct reference in this release
`Os01g0955100`	Potential calcium sensor.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_010925 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0001666 response to hypoxia Biological Process

GO:0009414 response to water deprivation Biological Process

GO:0009611 response to wounding Biological Process

GO:0010193 response to ozone Biological Process

GO:0042128 nitrate assimilation Biological Process

GO:0071456 cellular response to hypoxia Biological Process

GO:1900459 positive regulation of brassinosteroid mediated signaling pathway Biological Process

GO:0005634 nucleus Cellular Component

GO:0005737 cytoplasm Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0005102 signaling receptor binding Molecular Function

GO:0005509 calcium ion binding Molecular Function

KEGG gene cross-reference

ath:AT1G76650

ath:AT3G01830

ath:AT5G42380

dosa:Os01g0955100

osa:107277351

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.

Cytoplasm0.619

Rank 1 · LXL04_010925 · OH-1004

Nucleus0.419

Rank 2 · LXL04_010925 · OH-1004

Cell membrane0.062

Rank 3 · LXL04_010925 · OH-1004

Endoplasmic reticulum0.052

Rank 4 · LXL04_010925 · OH-1004

Lysosome / Vacuole0.046

Rank 5 · LXL04_010925 · 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.

PF00036.39EF-hand_17-31 aa

PF13405.13EF-hand_67-31 aa

PF13499.13EF-hand_78-67 aa

PF13202.13EF-hand_510-31 aa

PF13499.13EF-hand_777-139 aa

PF13833.13EF-hand_891-140 aa

PF00036.39EF-hand_1117-139 aa

PF13202.13EF-hand_5119-139 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_010925	`PF00036.39`	EF-hand_1	7	31	6.9e-20	69.8
LXL04_010925	`PF13405.13`	EF-hand_6	7	31	9.4e-19	66.0
LXL04_010925	`PF13499.13`	EF-hand_7	8	67	3.8e-21	75.9
LXL04_010925	`PF13202.13`	EF-hand_5	10	31	1.6e-13	50.1
LXL04_010925	`PF13499.13`	EF-hand_7	77	139	3.8e-21	75.9
LXL04_010925	`PF13833.13`	EF-hand_8	91	140	2.2e-15	56.8
LXL04_010925	`PF00036.39`	EF-hand_1	117	139	6.9e-20	69.8
LXL04_010925	`PF13202.13`	EF-hand_5	119	139	1.6e-13	50.1

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
`Q9SRE6`	Arabidopsis thaliana	Calcium-binding protein CML38	44.928%	Swiss-Prot	moderate database homology
`Q9SGI8`	Arabidopsis thaliana	Probable calcium-binding protein CML40	41.549%	Swiss-Prot	moderate database homology
`Q9FIH9`	Arabidopsis thaliana	Calcium-binding protein CML37	46.212%	Swiss-Prot	moderate database homology
`Q8RYJ8`	Oryza sativa subsp. japonica	Putative calcium-binding protein CML19	44.286%	Swiss-Prot	moderate database homology
`Q8RYK0`	Oryza sativa subsp. japonica	Probable calcium-binding protein CML31	46.667%	Swiss-Prot	moderate database homology

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