LXL04_018040 | RubberDandelionOmics

Gene overview

LXL04_018040

Reference: OH-1004 Chr: Chr04 Coordinates: 5458770-5462630 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2244 bp · LXL04_018040|LXL04_018040|OH1004|cDNA

ATGAAAGAGAAGGTGGAATCCgtaagaaagaaagaaagaagcGAGGCCGGAAGCTGTTTGATATTGGCCGGAATCCCAAATTTGGCTTCTAGCCGAGCCGAAAGTCACCAACTCACCATTTATGACGTGGCAATGTACGGCCCATCTGGCAATCCAACGGCTAAAAATGTCACACAACCAAAAGATCTCCAGGAGAAGGCATTAAGCTTACGACACTCGCTAGTCGTCAGGGTAGACTCTTCCACACCCGTAGTCACTAT...

CDS

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2244 bp · LXL04_018040|LXL04_018040|OH1004|CDS

ATGAAAGAGAAGGTGGAATCCGTAAGAAAGAAAGAAAGAAGCGAGGCCGGAAGCTGTTTGATATTGGCCGGAATCCCAAATTTGGCTTCTAGCCGAGCCGAAAGTCACCAACTCACCATTTATGACGTGGCAATGTACGGCCCATCTGGCAATCCAACGGCTAAAAATGTCACACAACCAAAAGATCTCCAGGAGAAGGCATTAAGCTTACGACACTCGCTAGTCGTCAGGGTAGACTCTTCCACACCCGTAGTCACTAT...

Protein

Download Protein FASTA

747 aa · LXL04_018040|LXL04_018040|OH1004|PROTEIN

MKEKVESVRKKERSEAGSCLILAGIPNLASSRAESHQLTIYDVAMYGPSGNPTAKNVTQPKDLQEKALSLRHSLVVRVDSSTPVVTIVVFLKNWEKMQTRNMERKNSIRERGKRSLEGNEDEQQQPERKRPALASVIVEALKVDSLQKLCSSLEPILRRVVSEEVERALAKLGPARLTNGRFVTFSLHLHKYITVYQFTDLPFSRPSSPKRIEGPDGRNLQLHFKSRMSLPLFTGGKVEGEQGAAIHIVLLDANTGRVVT...

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_018040`
TK1151 ID	TkA08G031930
OH-1004 ID	LXL04_018040
Relationship / confidence	Non Reciprocal Best Hit / Complex relationship
Protein identity (%)	95.200
Protein coverage (%)	TK1151 81.579 / OH-1004 16.600 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_018040

Location Chr04:5458770-5462630 (-)

Description Similar to CBP60B: Calmodulin-binding protein 60 B

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g57580`	Transcription activator that binds DNA in a sequence-specific manner, likely 5'-GAAATTTTGG-3', to promote the expression of target genes.	No verified direct reference in this release
`At4g25800`	Transcription activator that binds DNA in a sequence-specific manner, likely 5'-GAAATTTTGG-3', to promote the expression of target genes.	No verified direct reference in this release
`At2g18750`	Transcription activator that binds DNA in a sequence-specific manner, likely 5'-GAAATTTTGG-3', to promote the expression of target genes.	No verified direct reference in this release
`At2g24300`	Transcription activator that binds DNA in a sequence-specific manner, likely 5'-GAAATTTTGG-3', to promote the expression of target genes.	No verified direct reference in this release
`At4g31000`	Transcription activator that binds DNA in a sequence-specific manner, likely 5'-GAAATTTTGG-3', to promote the expression of target genes.	No verified direct reference in this release

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_018040 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006351 DNA-templated transcription Biological Process

GO:0080142 regulation of salicylic acid biosynthetic process Biological Process

GO:0005634 nucleus Cellular Component

GO:0003700 DNA-binding transcription factor activity Molecular Function

GO:0005516 calmodulin binding Molecular Function

GO:0043565 sequence-specific DNA binding Molecular Function

KEGG gene cross-reference

ath:AT2G18750

ath:AT2G24300

ath:AT4G25800

ath:AT4G31000

ath:AT5G57580

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.

Nucleus0.934

Rank 1 · LXL04_018040 · OH-1004

Cytoplasm0.111

Rank 2 · LXL04_018040 · OH-1004

Cell membrane0.054

Rank 3 · LXL04_018040 · OH-1004

Endoplasmic reticulum0.035

Rank 4 · LXL04_018040 · OH-1004

Plastid0.018

Rank 5 · LXL04_018040 · 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.

PF07887.17Calmodulin_bind220-367 aa

PF20451.4Calmod_bind_M380-446 aa

PF20452.4Calmod_bind_C451-513 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_018040	`PF07887.17`	Calmodulin_bind	220	367	3.9e-63	212.7
LXL04_018040	`PF20451.4`	Calmod_bind_M	380	446	6.6e-33	113.8
LXL04_018040	`PF20452.4`	Calmod_bind_C	451	513	3.1e-24	85.6

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
`Q9FKL6`	Arabidopsis thaliana	Calmodulin-binding protein 60 B	62.780%	Swiss-Prot	strong database homology
`Q0WVV6`	Arabidopsis thaliana	Calmodulin-binding protein 60 D	62.946%	Swiss-Prot	strong database homology
`C0SV51`	Arabidopsis thaliana	Calmodulin-binding protein 60 C	61.145%	Swiss-Prot	strong database homology
`F4IPM3`	Arabidopsis thaliana	Calmodulin-binding protein 60 E	51.903%	Swiss-Prot	strong database homology
`F4JR57`	Arabidopsis thaliana	Calmodulin-binding protein 60 F	48.074%	Swiss-Prot	moderate database homology

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