LXL04_012005 | RubberDandelionOmics

Gene overview

LXL04_012005

Reference: OH-1004 Chr: Chr03 Coordinates: 4665388-4666765 Strand: - Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

729 bp · LXL04_012005|LXL04_012005|OH1004|cDNA

ATGGCTGCCCAATCTCTCTCGGTAATTCCAGTTTCCCCTTCATCTTCCGGTTGCCGGTGTCGGAATTCATGCAATTCGTCGTTTCTCCCGTCCAGGAGGATGAATTCCAGGGCCAGGATAAGTTCATTCATCGGACTACAGCTCTCTATTCCTCAATCGAATTCGAGGCAAAGGAATTTAGGCCGGTACTCATCTATCGTCGCAACGGTTTCGTCTACCCCTACAGCTCCGACACCAGAGAAGGCAACTCCTGGAAAAAC...

CDS

Download CDS FASTA

729 bp · LXL04_012005|LXL04_012005|OH1004|CDS

ATGGCTGCCCAATCTCTCTCGGTAATTCCAGTTTCCCCTTCATCTTCCGGTTGCCGGTGTCGGAATTCATGCAATTCGTCGTTTCTCCCGTCCAGGAGGATGAATTCCAGGGCCAGGATAAGTTCATTCATCGGACTACAGCTCTCTATTCCTCAATCGAATTCGAGGCAAAGGAATTTAGGCCGGTACTCATCTATCGTCGCAACGGTTTCGTCTACCCCTACAGCTCCGACACCAGAGAAGGCAACTCCTGGAAAAAC...

Protein

Download Protein FASTA

242 aa · LXL04_012005|LXL04_012005|OH1004|PROTEIN

MAAQSLSVIPVSPSSSGCRCRNSCNSSFLPSRRMNSRARISSFIGLQLSIPQSNSRQRNLGRYSSIVATVSSTPTAPTPEKATPGKTAKWSFRFIKSVAMGELEARKLKFMNTGTEALLMGILVEGTSLAAKLLRESGVTLFKVRDETVRLLGKSDMYIFSPEHPPLTEPAQRAIDWAINEKLKSGETGEVTTSHLLLGIWAQKESAAHRIMATLGFDDDKANHLAKSMDIEIILSYKKMGL

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_012005`
Source version	OH-1004 / GCA_047496595.1_OSU_TarKok_2.0

Open Full ID Mapping

SNP / Indel variants and carrier samplesCRA009020 · OH-1004

Expand to load variant records for this gene.

Basic Information and Functional Annotation

Gene ID LXL04_012005

Location Chr03:4665388-4666765 (-)

Description Similar to CLPT1: ATP-dependent Clp protease ATP-binding subunit CLPT1, chloroplastic

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At4g25370`	Accessory protein regulating the assembly of the plastidial Clp protease system.	Assembly of the chloroplast ATP-dependent Clp protease in Arabidopsis is regulated by the ClpT accessory proteins.2011 · DOI: 10.1105/tpc.110.082321 Structures, Functions, and Interactions of ClpT1 and ClpT2 in the Clp Protease System of Arabidopsis Chloroplasts.2015 · DOI: 10.1105/tpc.15.00106
`At4g12060`	Accessory protein regulating the assembly of the plastidial Clp protease system.	Assembly of the chloroplast ATP-dependent Clp protease in Arabidopsis is regulated by the ClpT accessory proteins.2011 · DOI: 10.1105/tpc.110.082321 Structures, Functions, and Interactions of ClpT1 and ClpT2 in the Clp Protease System of Arabidopsis Chloroplasts.2015 · DOI: 10.1105/tpc.15.00106

Rice

No hit for this species in the current source table.

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_012005 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0034605 cellular response to heat Biological Process

GO:0005829 cytosol Cellular Component

GO:0009507 chloroplast Cellular Component

GO:0009532 plastid stroma Cellular Component

GO:0009570 chloroplast stroma Cellular Component

GO:0009579 thylakoid Cellular Component

GO:0009941 chloroplast envelope Cellular Component

GO:0005524 ATP binding Molecular Function

GO:0016887 ATP hydrolysis activity Molecular Function

GO:0043424 protein histidine kinase binding Molecular Function

KEGG gene cross-reference

ath:AT4G12060

ath:AT4G25370

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.

Plastid0.926

Rank 1 · LXL04_012005 · OH-1004

Nucleus0.057

Rank 2 · LXL04_012005 · OH-1004

Mitochondrion0.044

Rank 3 · LXL04_012005 · OH-1004

Cytoplasm0.016

Rank 4 · LXL04_012005 · OH-1004

Cell membrane0.012

Rank 5 · LXL04_012005 · 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.

PF02861.26Clp_N103-212 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_012005	`PF02861.26`	Clp_N	103	212	4.5e-13	50.2

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
`Q93WL3`	Arabidopsis thaliana	ATP-dependent Clp protease ATP-binding subunit CLPT1, chloroplastic	64.943%	Swiss-Prot	strong database homology
`Q8GW78`	Arabidopsis thaliana	ATP-dependent Clp protease ATP-binding subunit CLPT2, chloroplastic	61.392%	Swiss-Prot	moderate database homology

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