Gene detail

Detailed information of BRAKERKREP00000016077.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: XP_002157521.3, succinate--CoA ligase [GDP-forming] subunit beta, mitochondrial [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9YI36	Succinate--CoA ligase [GDP-forming] subunit beta, mitochondrial (Fragment) OS=Columba livia OX=8932 GN=SUCLG2 PE=1 SV=1
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

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
IPR005809 all species →	Family	Succinate--CoA ligase-like, beta subunit	Interproscan
IPR016102 all species →	Homologous_superfamily	Succinyl-CoA synthetase-like	Interproscan
IPR005811 all species →	Domain	ATP-citrate synthase/succinyl-CoA ligase, C-terminal domain	Interproscan
IPR017866 all species →	Conserved_site	Succinyl-CoA synthetase, beta subunit, conserved site	Interproscan
IPR013650 all species →	Domain	ATP-grasp fold, succinyl-CoA synthetase-type	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:0006099 all species →	Biological Process	tricarboxylic acid cycle	Interproscan
GO:0004776 all species →	Molecular Function	succinate-CoA ligase (GDP-forming) activity	Interproscan
GO:0005739 all species →	Cellular Component	mitochondrion	Interproscan
GO:0006104 all species →	Biological Process	succinyl-CoA metabolic process	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

No KEGG orthology assignment for BRAKERKREP00000016077.1.

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000016077.1 across 29 RNA-seq samples of Hydra viridissima. 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.

29Samples

10TPM > 0

7Conditions

0.5Max TPM

0.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	1	0.00	0.02
Whole	6	5	0.05	0.25
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	0.40	0.40
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	0.49	0.49
symbioic hydra M9 strain · symbioic hydra rep1	1	1	0.01	0.01
symbioic hydra M9 strain · symbioic hydra rep2	1	1	0.06	0.06
unannotated	1	0	0.00	0.00

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977	0.02
SRR21134050	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134051	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134052	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134053	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134054	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134055	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134056	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134057	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134058	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134059	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134061	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134062	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134063	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134065	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134066	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134067	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	0.25
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	0.02
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	0.02
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	0.01
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	0.01
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397	0.00
DRR048593	aposymbioic hydra M9 strain · aposymbioic hydra rep1	not recorded	not recorded	aposymbioic hydra rep1	DRP003902	0.40
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	0.49
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	0.01
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902	0.06
ERR13389755	unannotated	not recorded	not recorded	not recorded	ERP162636	0.00

Source: CnidoSite RNA-seq expression matrices (HVIRI_TPM, StringTie quantification over 29 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.