Gene detail

Detailed information of asel_s0027.g86.t1 in Acropora selago

Genomic Location: sc0000027_pilon:1349606...1357893
NR annotation: XP_015771967.1, PREDICTED: succinyl-CoA ligase [GDP-forming] subunit beta, mitochondrial-like [Acropora digitifera]
Species Acropora selago · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

asel_s0027.g86.t1

ATTTCACGTTCGCGAAACTTTACATCATTTTGCCGTAAATGTGCCTGCATATCTAGCAAATTTAGGCCCCAATCTCTACAGACAGGTGCTGTAGCACTCATTCAAACACGGTGGCTGAATTTGCAAGAATATCAAAGCAAGACATTAATGGCCGACAATGGGCTTCATGTGCAGAGATTTAAAGTGACAGACAACGCTAAAGAAGCTGTGCAGATTGCGAAAGAACTTAATGTGAAAGAGTTTGTAGTGAAAGCACAAATTCTTGCCGGTGGAAGAGGAAAAGGGTCCTTTAGTAGTGGCCTGAAAAGTGGTGTTCACGTAACACAGGATGCAAACAAAGTTGGAGAACTGATTGAAGACATGGTGGGGTACAACTTGACGACACCACAGACACTGCCAAGTGGAGTGCTGGTCAAAAAGGTGATGGTTGCAGAAAGTTATGATATAGCTCGTGAGACGTACTTGGCAATTCTAATGGACAGAAATTCTCAAGGACCAGTGATTGTGGCAAGTCCTAAGGGAGGCGTTGACATCGAGGAGGTTGCCAAGGAGACGCCTGAACACATACACAAGGTGGCAATAGACATTTTTAAAGGAATTCAAGATACTGATGCAAAATACCTGGCAGAGAAGTTGGAGTTTAAAGGAGCACTGCTTGATGAGGCTGCTAAACAGATCAAATTGCTTTATAAACTTTTCCTAAAAGTAGATGCCACCCAAGTAGAAATCAATCCCTTTGGAGAAACCCTAGATGGAAAAGTGGTTTGCTTCGACGCCAAGTTTAACTTCGATGACAGCGCTAAATTCCGCCAACGGGACGTGTTTGCGATGGACGATGAAAGCGAAAGTGACCCGCGGGAAGTCGAAGCAGGAAAACACGCCCTGAATTATATTAGTTTGGACGGAGACATTGCCTGCCTTGTCAATGGCGCCGGCCTCGCAATGGCAACAATGGACATAATCAAACTCTATGGGGGTAGCCCTGCTAACTTCCTTGACTTAGGGGGTGGAGTACAGGAGGAAGGTGTATTTCAAGCTTTCAACATCGTGACTAAAGATCCAAGGGTCAAATCAATCTTAGTCAATATATTCGGTGGAATTGTTGATTGTTCGATTGTCGCCAATGGAATTACTTCAGCGTACAAGAGGCTTAACGTGAAAGTCCCCGTCGTAGTTCGGCTTGAAGGCAGAAATGTGAAAGCGGCCAAAGACATTCTAACTAAGAGCGGCATGCCGCTGATACCAGCAGATGATATGGACGACGCTGCGAAAAAAGTCGTCGATAGCCTTACAAGCTGATGGGCTGTGGGTAGTAATGGACGATCCGCGGGATGACCCGAGATAACTAACGGGATCAAGAATTATAGAATTTCATGGGGGCGCTTTGCTATCCTGGATTTCTGAATTTCTATGAAAATCTTAGGGAAAAAAAAAAACTTTTTGTGACAATTCTACTGCAAAGAGTGTGATTGATTTGTTTGTTTTCCTGTTTGTTCAACAGTTTTGCTTTCTTCATTTCTGTTTGAGTTTCCACATCGGCACCAAAGTGAATCTCATACCTTTATTATCAGTAAAGAGCTCTAGATTATTTAATCCGTTCTCACTTTTTATATTTTTTACTTGACCTTATTTCCTGGGATTGTGGTTAGCCTTTGCCAGTGTCAAACATTCGCGTACGTTGAGTTTCGCCACTCAGCTTTTGTAGGTCTTAAATGATATGAATCTATCTTTTAACAGCCCAAACTACTACTCAGACTAAAATCTTTTATTCTTCGTGAACTGTGTTTTACTTCTCAATGTCCCACAATTTGAAAAACAAACATGACTATGAAAAGCTACGAGAATTTCTATGTCACCCATCGTTAATCCAGAATCGCGCGAGACTAACCAGCGCTAACCACGCTTCCAAGAACTCGGTCTATGTTTTTTCCAATGCATGAAGCAGATCTACAACTTctacaactttgtttcgtcaaatacaatagttggtggatggcttaccccgcaaatagctaaaaaatgctaattgaggcggggtaagccaaatacaagaacacacctattaaaagacaataagtgtacgcaagagatattagttgaacaaattaacgatacaact

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P53590	Succinate--CoA ligase [GDP-forming] subunit beta, mitochondrial (Fragment) OS=Sus scrofa OX=9823 GN=SUCLG2 PE=1 SV=2
Q3MHX5	Succinate--CoA ligase [GDP-forming] subunit beta, mitochondrial OS=Bos taurus OX=9913 GN=SUCLG2 PE=2 SV=1
Q96I99	Succinate--CoA ligase [GDP-forming] subunit beta, mitochondrial OS=Homo sapiens OX=9606 GN=SUCLG2 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001643 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00549 all species →	Ligase_CoA	CoA-ligase	Domain	Interproscan
PF08442 all species →	ATP-grasp_2	ATP-grasp domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR034722 all species →	Family	Succinate--CoA ligase [GDP-forming] subunit beta, mitochondrial	Interproscan
IPR016102 all species →	Homologous_superfamily	Succinyl-CoA synthetase-like	Interproscan
IPR005809 all species →	Family	Succinate--CoA ligase-like, beta subunit	Interproscan
IPR005811 all species →	Domain	ATP-citrate synthase/succinyl-CoA ligase, C-terminal domain	Interproscan
IPR013650 all species →	Domain	ATP-grasp fold, succinyl-CoA synthetase-type	Interproscan
IPR017866 all species →	Conserved_site	Succinyl-CoA synthetase, beta subunit, conserved site	Interproscan
IPR013815 all species →	Homologous_superfamily	ATP-grasp fold, subdomain 1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11815 all species →	SUCCINYL-COA SYNTHETASE BETA CHAIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004776 all species →	Molecular Function	succinate-CoA ligase (GDP-forming) activity	Interproscan
GO:0006104 all species →	Biological Process	succinyl-CoA metabolic process	Interproscan
GO:0006099 all species →	Biological Process	tricarboxylic acid cycle	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0042709 all species →	Cellular Component	succinate-CoA ligase complex	Interproscan
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K01900	LSC2; succinyl-CoA synthetase beta subunit	EC:6.2.1.4 EC:6.2.1.5	Exosome	ko04147	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of asel_s0027.g86.t1 across 24 RNA-seq samples of Acropora selago. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

24Samples

23TPM > 0

1Conditions

134.6Max TPM

89.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
coral larvae	24	23	89.44	134.55

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR14308005	coral larvae	coral larvae	not recorded	not recorded	SRP315987	134.55
SRR14308008	coral larvae	coral larvae	not recorded	not recorded	SRP315987	105.52
SRR14308017	coral larvae	coral larvae	not recorded	not recorded	SRP315987	100.92
SRR14308015	coral larvae	coral larvae	not recorded	not recorded	SRP315987	100.33
SRR14308010	coral larvae	coral larvae	not recorded	not recorded	SRP315987	98.93
SRR14308027	coral larvae	coral larvae	not recorded	not recorded	SRP315987	97.22
SRR14308004	coral larvae	coral larvae	not recorded	not recorded	SRP315987	96.64
SRR14308013	coral larvae	coral larvae	not recorded	not recorded	SRP315987	94.22
SRR14308012	coral larvae	coral larvae	not recorded	not recorded	SRP315987	93.38
SRR14308007	coral larvae	coral larvae	not recorded	not recorded	SRP315987	92.91
SRR14308025	coral larvae	coral larvae	not recorded	not recorded	SRP315987	92.56
SRR14308011	coral larvae	coral larvae	not recorded	not recorded	SRP315987	91.82
SRR14308021	coral larvae	coral larvae	not recorded	not recorded	SRP315987	91.23
SRR14308024	coral larvae	coral larvae	not recorded	not recorded	SRP315987	91.02
SRR14308020	coral larvae	coral larvae	not recorded	not recorded	SRP315987	89.11
SRR14308022	coral larvae	coral larvae	not recorded	not recorded	SRP315987	88.98
SRR14308006	coral larvae	coral larvae	not recorded	not recorded	SRP315987	88.05
SRR14308019	coral larvae	coral larvae	not recorded	not recorded	SRP315987	86.26
SRR14308026	coral larvae	coral larvae	not recorded	not recorded	SRP315987	86.09
SRR14308014	coral larvae	coral larvae	not recorded	not recorded	SRP315987	83.51
SRR14308016	coral larvae	coral larvae	not recorded	not recorded	SRP315987	83.28
SRR14308023	coral larvae	coral larvae	not recorded	not recorded	SRP315987	83.14
SRR14308018	coral larvae	coral larvae	not recorded	not recorded	SRP315987	76.83
SRR14308009	coral larvae	coral larvae	not recorded	not recorded	SRP315987	0.00

Source: CnidoSite RNA-seq expression matrices (ASELA_TPM, StringTie quantification over 24 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.