LXL04_009587 | RubberDandelionOmics

Gene overview

LXL04_009587

Reference: OH-1004 Chr: Chr02 Coordinates: 129266370-129275972 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2451 bp · LXL04_009587|LXL04_009587|OH1004|cDNA

ATGTCTCAGAAGAAAGCCTCGCCTCCTCAGGAGCTGCCTTCCGCCTCGTCTTCCGACGCCTGTGGCCGTCGTAAACGTCCTTCTTTCAGAAATGTGGTGCTTGAGGTGATGAATTTCAGCAAAATCAGCAAGTACATGGAGCCGATTTTGGAGCCGATAGTCCGCAAAGTTGTGAAAGAAGAACTAGAGTCAGCAATGGAAAAACACATAGCTGCCATGAACCGGGATACTGTGAATGAAACCGACTCTTCATTACCAAG...

CDS

Download CDS FASTA

2451 bp · LXL04_009587|LXL04_009587|OH1004|CDS

ATGTCTCAGAAGAAAGCCTCGCCTCCTCAGGAGCTGCCTTCCGCCTCGTCTTCCGACGCCTGTGGCCGTCGTAAACGTCCTTCTTTCAGAAATGTGGTGCTTGAGGTGATGAATTTCAGCAAAATCAGCAAGTACATGGAGCCGATTTTGGAGCCGATAGTCCGCAAAGTTGTGAAAGAAGAACTAGAGTCAGCAATGGAAAAACACATAGCTGCCATGAACCGGGATACTGTGAATGAAACCGACTCTTCATTACCAAG...

Protein

Download Protein FASTA

816 aa · LXL04_009587|LXL04_009587|OH1004|PROTEIN

MSQKKASPPQELPSASSSDACGRRKRPSFRNVVLEVMNFSKISKYMEPILEPIVRKVVKEELESAMEKHIAAMNRDTVNETDSSLPRKLQLQFLSSLSLPVFTGTRIEGGDCNTLKVALIDASTGKTVPSGIGSLSTVEIVVLEGDFDSNEVDNWTVEEFNNNIVRERQGKKPLLSGNTLLKLEQGIGLVGDLSFTDNSSWTRSRKFRLGARVLGSCDGDRVREAKSESFVVRDHRVYKKHHPPYLSDEVWRLEKIGKDG...

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_009587`
TK1151 ID	TkA03G449890
OH-1004 ID	LXL04_009587
Relationship / confidence	Rbh Below Probable Coverage Or Synteny Threshold / Review
Protein identity (%)	98.700
Protein coverage (%)	TK1151 99.081 / OH-1004 65.809 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_009587

Location Chr02:129266370-129275972 (-)

Description Similar to CBP60A: Calmodulin-binding protein 60 A

Arabidopsis / Rice Reference Genes and Papers

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Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g62570`	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
`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
`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
`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
`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

Rice

No hit for this species in the current source table.

Functional annotation source

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Functional annotation source: OH1004 · LXL04_009587 · 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:1900425 negative regulation of defense response to bacterium Biological Process

GO:0005634 nucleus Cellular Component

GO:0005739 mitochondrion 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:AT5G57580

ath:AT5G62570

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.

Nucleus0.928

Rank 1 · LXL04_009587 · OH-1004

Cytoplasm0.113

Rank 2 · LXL04_009587 · OH-1004

Cell membrane0.054

Rank 3 · LXL04_009587 · OH-1004

Endoplasmic reticulum0.041

Rank 4 · LXL04_009587 · OH-1004

Plastid0.023

Rank 5 · LXL04_009587 · 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.

PF07887.17Calmodulin_bind89-235 aa

PF20451.4Calmod_bind_M246-311 aa

PF20452.4Calmod_bind_C317-379 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_009587	`PF07887.17`	Calmodulin_bind	89	235	1.2e-56	191.6
LXL04_009587	`PF20451.4`	Calmod_bind_M	246	311	5.5e-31	107.7
LXL04_009587	`PF20452.4`	Calmod_bind_C	317	379	5.9e-14	52.7

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
`C0SVV6`	Arabidopsis thaliana	Calmodulin-binding protein 60 A	44.717%	Swiss-Prot	moderate database homology
`Q9FKL6`	Arabidopsis thaliana	Calmodulin-binding protein 60 B	44.804%	Swiss-Prot	moderate database homology
`C0SV51`	Arabidopsis thaliana	Calmodulin-binding protein 60 C	47.619%	Swiss-Prot	weak database homology
`Q0WVV6`	Arabidopsis thaliana	Calmodulin-binding protein 60 D	47.581%	Swiss-Prot	weak database homology
`F4IPM3`	Arabidopsis thaliana	Calmodulin-binding protein 60 E	42.582%	Swiss-Prot	weak database homology

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