LXL04_003058 | RubberDandelionOmics

Gene overview

LXL04_003058

Reference: OH-1004 Chr: Chr01 Coordinates: 66014925-66026241 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

2034 bp · LXL04_003058|LXL04_003058|OH1004|cDNA

ATGTATTCCGGTAATATGGGCATGGATAGCCACGACATGATGGACATCGACAATTGGAGACCTCGGATAGCTCTTTCCATGTCCTACAATAGCGGTAGTCAACCACCGTCTATTGGAGATGTGAGGCAATTCGACGTTTCTGAACATTCCTACGGTATTCCGATGGATAGTGATGGACAGCCACCGTCGGTTACCGACGTCGGTAGAAGAGAAGCATCTCAAAGTGAGGCATCGTTCACCCGGTATGAGGGTCCTGATGC...

CDS

Download CDS FASTA

2034 bp · LXL04_003058|LXL04_003058|OH1004|CDS

ATGTATTCCGGTAATATGGGCATGGATAGCCACGACATGATGGACATCGACAATTGGAGACCTCGGATAGCTCTTTCCATGTCCTACAATAGCGGTAGTCAACCACCGTCTATTGGAGATGTGAGGCAATTCGACGTTTCTGAACATTCCTACGGTATTCCGATGGATAGTGATGGACAGCCACCGTCGGTTACCGACGTCGGTAGAAGAGAAGCATCTCAAAGTGAGGCATCGTTCACCCGGTATGAGGGTCCTGATGC...

Protein

Download Protein FASTA

677 aa · LXL04_003058|LXL04_003058|OH1004|PROTEIN

MYSGNMGMDSHDMMDIDNWRPRIALSMSYNSGSQPPSIGDVRQFDVSEHSYGIPMDSDGQPPSVTDVGRREASQSEASFTRYEGPDALEVQQHNLELQLACDGYLFNSSAIQIDFNDIPEDPCEQVSFFTLLILCYFNSRTNADNHENPYSHTRNPANDSTTILVPKRRLKLQIRTKISLPVYTGRPISGENNSAVEIALVDAITEQIINTGIESTARLQLVGFRVGTDDSWTFESFLEKVNSEKKGKRILQGNTFLQLK...

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_003058`
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_003058

Location Chr01:66014925-66026241 (-)

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
`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
`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
`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_003058 · 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.

Open Annotation Module

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.

Nucleus0.925

Rank 1 · LXL04_003058 · OH-1004

Cytoplasm0.163

Rank 2 · LXL04_003058 · OH-1004

Cell membrane0.031

Rank 3 · LXL04_003058 · OH-1004

Endoplasmic reticulum0.017

Rank 4 · LXL04_003058 · OH-1004

Mitochondrion0.015

Rank 5 · LXL04_003058 · 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_bind170-310 aa

PF20451.4Calmod_bind_M324-387 aa

PF00249.38Myb_DNA-binding554-594 aa

PF13921.13Myb_DNA-bind_6557-610 aa

PF00249.38Myb_DNA-binding638-668 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_003058	`PF07887.17`	Calmodulin_bind	170	310	1.2e-27	97.5
LXL04_003058	`PF20451.4`	Calmod_bind_M	324	387	5.7e-11	43.5
LXL04_003058	`PF00249.38`	Myb_DNA-binding	554	594	1.9e-21	76.6
LXL04_003058	`PF13921.13`	Myb_DNA-bind_6	557	610	2e-11	44.6
LXL04_003058	`PF00249.38`	Myb_DNA-binding	638	668	1.9e-21	76.6

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.

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Protein	Organism	Description	Identity	Database	Confidence
`C0SVV6`	Arabidopsis thaliana	Calmodulin-binding protein 60 A	34.106%	Swiss-Prot	weak database homology
`Q0WVV6`	Arabidopsis thaliana	Calmodulin-binding protein 60 D	32.571%	Swiss-Prot	weak database homology
`Q9FKL6`	Arabidopsis thaliana	Calmodulin-binding protein 60 B	33.224%	Swiss-Prot	weak database homology
`C0SV51`	Arabidopsis thaliana	Calmodulin-binding protein 60 C	32.119%	Swiss-Prot	weak database homology
`F4IPM3`	Arabidopsis thaliana	Calmodulin-binding protein 60 E	34.708%	Swiss-Prot	weak database homology

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