Gene detail

Detailed information of BRAKERKREP00000023736.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: WP_028354421.1, tyrosine recombinase XerC [Bordetella petrii]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8Y3C8	Tyrosine recombinase XerC 1 OS=Ralstonia nicotianae (strain ATCC BAA-1114 / GMI1000) OX=267608 GN=xerC1 PE=3 SV=1
B2U7W2	Tyrosine recombinase XerC OS=Ralstonia pickettii (strain 12J) OX=402626 GN=xerC PE=3 SV=1
A6VE54	Tyrosine recombinase XerC OS=Pseudomonas paraeruginosa (strain DSM 24068 / PA7) OX=381754 GN=xerC PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0014420 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00589 all species →	Phage_integrase	Phage integrase family	Family	Interproscan
PF02899 all species →	Phage_int_SAM_1	Phage integrase, N-terminal SAM-like domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR010998 all species →	Homologous_superfamily	Integrase/recombinase, N-terminal	Interproscan
IPR011010 all species →	Homologous_superfamily	DNA breaking-rejoining enzyme, catalytic core	Interproscan
IPR002104 all species →	Domain	Integrase, catalytic domain	Interproscan
IPR004107 all species →	Domain	Integrase, SAM-like, N-terminal	Interproscan
IPR013762 all species →	Homologous_superfamily	Integrase-like, catalytic domain superfamily	Interproscan
IPR044068 all species →	Domain	Core-binding (CB) domain	Interproscan
IPR050090 all species →	Family	Bacterial tyrosine recombinase XerC/XerD complex	Interproscan
IPR023009 all species →	Family	Tyrosine recombinase XerC/XerD	Interproscan
IPR011931 all species →	Family	Tyrosine recombinase XerC	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR30349 all species →	PHAGE INTEGRASE-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0006310 all species →	Biological Process	DNA recombination	Interproscan
GO:0015074 all species →	Biological Process	DNA integration	Interproscan
GO:0007059 all species →	Biological Process	chromosome segregation	Interproscan
GO:0051301 all species →	Biological Process	cell division	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
K03733	xerC; integrase/recombinase XerC	-	Chromosome and associated proteins	ko03036	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000023736.1 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

23TPM > 0

7Conditions

5,692.0Max TPM

1,864.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	13	2,013.60	5,691.95
Whole	6	6	1,544.41	1,660.99
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	1,675.06	1,675.06
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	1,768.59	1,768.59
symbioic hydra M9 strain · symbioic hydra rep1	1	1	2,533.80	2,533.80
symbioic hydra M9 strain · symbioic hydra rep2	1	1	2,572.18	2,572.18
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
SRR21134054	whole body	whole body	not recorded	not recorded	SRP392977	5,691.95
SRR21134056	whole body	whole body	not recorded	not recorded	SRP392977	4,405.87
SRR21134057	whole body	whole body	not recorded	not recorded	SRP392977	4,007.65
SRR21134055	whole body	whole body	not recorded	not recorded	SRP392977	3,943.81
SRR21134050	whole body	whole body	not recorded	not recorded	SRP392977	2,558.78
SRR21134053	whole body	whole body	not recorded	not recorded	SRP392977	2,286.36
SRR21134052	whole body	whole body	not recorded	not recorded	SRP392977	2,248.13
SRR21134061	whole body	whole body	not recorded	not recorded	SRP392977	2,087.62
SRR21134051	whole body	whole body	not recorded	not recorded	SRP392977	2,007.59
SRR21134065	whole body	whole body	not recorded	not recorded	SRP392977	1,968.69
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977	1,895.69
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977	1,578.12
SRR21134059	whole body	whole body	not recorded	not recorded	SRP392977	1,564.55
SRR21134058	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
SRR21134066	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134067	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397	1,660.99
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	1,660.03
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	1,569.35
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	1,565.04
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	1,416.74
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	1,394.30
DRR048593	aposymbioic hydra M9 strain · aposymbioic hydra rep1	not recorded	not recorded	aposymbioic hydra rep1	DRP003902	1,675.06
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	1,768.59
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	2,533.80
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902	2,572.18
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.