LXL04_025599 | RubberDandelionOmics

Gene overview

LXL04_025599

Reference: OH-1004 Chr: Chr05 Coordinates: 114030212-114032238 Strand: + Type: protein_coding

cDNA / CDS / Protein Sequences

Available sequence downloads CDS FASTA Protein FASTA cDNA FASTA

cDNA

1014 bp · LXL04_025599|LXL04_025599|OH1004|cDNA

ATGTCTCGACAAGCCACTAGATTCATCGCTAATCTCTCATCAAAACTCACCTCTCGCACATCTCCTTCATCATCGTCGAATTCGATCTCTCAAGCGCGTTCTTTCGCGACAGCTCCTCCGCCCCCGGCGGTCTTCGTCGACAAGAACACCCGCGTGATCTGTCAAGGCATAACAGGCAAAAATGGCACCTTCCACACCGAGCAAGCCATCGAATACGGCACTAAGATGGTTGGTGGAGTCACGCCAAAGAAGGGTGGAAC...

CDS

Download CDS FASTA

1014 bp · LXL04_025599|LXL04_025599|OH1004|CDS

ATGTCTCGACAAGCCACTAGATTCATCGCTAATCTCTCATCAAAACTCACCTCTCGCACATCTCCTTCATCATCGTCGAATTCGATCTCTCAAGCGCGTTCTTTCGCGACAGCTCCTCCGCCCCCGGCGGTCTTCGTCGACAAGAACACCCGCGTGATCTGTCAAGGCATAACAGGCAAAAATGGCACCTTCCACACCGAGCAAGCCATCGAATACGGCACTAAGATGGTTGGTGGAGTCACGCCAAAGAAGGGTGGAAC...

Protein

Download Protein FASTA

337 aa · LXL04_025599|LXL04_025599|OH1004|PROTEIN

MSRQATRFIANLSSKLTSRTSPSSSSNSISQARSFATAPPPPAVFVDKNTRVICQGITGKNGTFHTEQAIEYGTKMVGGVTPKKGGTEHLGLPVFNSVADAKAETKANASVIYVPPPFAAAAIMEALEAELDLIVCITEGIPQHDMVRVKAALLQQSKTRLIGPNCPGIIKPGECKIGIMPGYIHKPGRIGIVSRSGTLTYEAVYQTTAVGLGQSTCVGIGGDPFNGTNFVDCMRKFIDDPQTEGIVLIGEIGGTAEEDA...

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_025599`
TK1151 ID	TkA06G049670
OH-1004 ID	LXL04_025599
Relationship / confidence	Rbh High Identity Coverage Synteny / Strict
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

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_025599

Location Chr05:114030212-114032238 (+)

Description Similar to SCOA: Succinate--CoA ligase [ADP-forming] subunit alpha-1, mitochondrial

Arabidopsis / Rice Reference Genes and Papers

Download references for this gene

Arabidopsis

Reference gene ID	Possible function	Papers / DOI
`At5g23250`	Succinyl-CoA synthetase functions in the citric acid cycle (TCA), coupling the hydrolysis of succinyl-CoA to the synthesis of ATP and thus represents the only step of substrate-level phosphorylation in the TCA.	No verified direct reference in this release
`At5g08300`	Succinyl-CoA synthetase functions in the citric acid cycle (TCA), coupling the hydrolysis of succinyl-CoA to the synthesis of ATP and thus represents the only step of substrate-level phosphorylation in the TCA.	No verified direct reference in this release

Rice

Reference gene ID	Possible function	Papers / DOI
`Os07g0577700`	Succinyl-CoA synthetase functions in the citric acid cycle (TCA), coupling the hydrolysis of succinyl-CoA to the synthesis of ATP and thus represents the only step of substrate-level phosphorylation in the TCA.	No verified direct reference in this release

Functional annotation source

View annotation sources

Functional annotation source: OH1004 · LXL04_025599 · GCA_047496595.1_OSU_TarKok_2.0.

GO annotations (OH1004 source)

GO:0006099 tricarboxylic acid cycle Biological Process

GO:0006104 succinyl-CoA metabolic process Biological Process

GO:0006105 succinate metabolic process Biological Process

GO:0005739 mitochondrion Cellular Component

GO:0005829 cytosol Cellular Component

GO:0005886 plasma membrane Cellular Component

GO:0009361 succinate-CoA ligase complex (ADP-forming) Cellular Component

GO:0009505 plant-type cell wall Cellular Component

GO:0000166 nucleotide binding Molecular Function

GO:0004775 succinate-CoA ligase (ADP-forming) activity Molecular Function

GO:0004776 succinate-CoA ligase (GDP-forming) activity Molecular Function

GO:0005507 copper ion binding Molecular Function

KEGG gene cross-reference

ath:AT5G08300

ath:AT5G23250

sly:543943

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.

Mitochondrion0.953

Rank 1 · LXL04_025599 · OH-1004

Cytoplasm0.068

Rank 2 · LXL04_025599 · OH-1004

Nucleus0.051

Rank 3 · LXL04_025599 · OH-1004

Cell membrane0.029

Rank 4 · LXL04_025599 · OH-1004

Plastid0.014

Rank 5 · LXL04_025599 · 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.

PF02629.26CoA_binding47-140 aa

PF13607.12Succ_CoA_lig187-321 aa

PF00549.25Ligase_CoA193-314 aa

Gene ID	Domain ID	Domain Name	Start aa	End aa	E-value	Score
LXL04_025599	`PF02629.26`	CoA_binding	47	140	1.3e-33	116.3
LXL04_025599	`PF13607.12`	Succ_CoA_lig	187	321	5.9e-10	39.8
LXL04_025599	`PF00549.25`	Ligase_CoA	193	314	1.7e-29	103.3

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
`Q8LAD2`	Arabidopsis thaliana	Succinate--CoA ligase [ADP-forming] subunit alpha-2, mitochondrial	84.412%	Swiss-Prot	strong database homology
`P68209`	Arabidopsis thaliana	Succinate--CoA ligase [ADP-forming] subunit alpha-1, mitochondrial	83.478%	Swiss-Prot	strong database homology
`Q6ZL94`	Oryza sativa subsp. japonica	Succinate--CoA ligase [ADP-forming] subunit alpha, mitochondrial	87.382%	Swiss-Prot	strong database homology

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