Gene detail

Detailed information of BRAKERKREP00000001339.1 in Hydra viridissima

Genomic Location: QPEY01000003.1:1629791...1636122
NR annotation: XP_002164144.2, endonuclease III-like protein 1 isoform X1 [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
A7M7B9	Endonuclease III-like protein 1 OS=Gallus gallus OX=9031 GN=NTHL1 PE=2 SV=1
Q2KID2	Endonuclease III-like protein 1 OS=Bos taurus OX=9913 GN=NTHL1 PE=2 SV=1
P78549	Endonuclease III-like protein 1 OS=Homo sapiens OX=9606 GN=NTHL1 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007221 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00633 all species →	HHH	Helix-hairpin-helix motif	Motif	Interproscan
PF00730 all species →	HhH-GPD	HhH-GPD superfamily base excision DNA repair protein	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR003265 all species →	Domain	HhH-GPD domain	Interproscan
IPR000445 all species →	Conserved_site	Helix-hairpin-helix motif	Interproscan
IPR023170 all species →	Homologous_superfamily	Helix-hairpin-helix, base-excision DNA repair, C-terminal	Interproscan
IPR030841 all species →	Family	Endonuclease III-like protein 1	Interproscan
IPR004036 all species →	Conserved_site	Endonuclease III-like, conserved site-2	Interproscan
IPR011257 all species →	Homologous_superfamily	DNA glycosylase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR43286 all species →	ENDONUCLEASE III-LIKE PROTEIN 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006284 all species →	Biological Process	base-excision repair	Interproscan
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0003906 all species →	Molecular Function	DNA-(apurinic or apyrimidinic site) endonuclease activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006281 all species →	Biological Process	DNA repair	Interproscan
GO:0006285 all species →	Biological Process	base-excision repair, AP site formation	Interproscan
GO:0019104 all species →	Molecular Function	DNA N-glycosylase activity	Interproscan
GO:0000703 all species →	Molecular Function	oxidized pyrimidine nucleobase lesion DNA N-glycosylase activity	Interproscan
GO:0006296 all species →	Biological Process	obsolete nucleotide-excision repair, DNA incision, 5'-to lesion	Interproscan
GO:0003824 all species →	Molecular Function	catalytic activity	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
K10773	NTHL1, nth; endonuclease III	EC:3.2.2.- EC:4.2.99.18	DNA repair and recombination proteins	ko03400	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000001339.1 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

8TPM > 0

7Conditions

0.6Max TPM

0.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	0	0.00	0.00
Whole	6	5	0.28	0.64
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	0.24	0.24
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	0.16	0.16
symbioic hydra M9 strain · symbioic hydra rep1	1	1	0.03	0.03
symbioic hydra M9 strain · symbioic hydra rep2	1	0	0.00	0.00
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
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
SRR21134064	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
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	0.64
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	0.37
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	0.33
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	0.30
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	0.04
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	0.24
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	0.16
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	0.03
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902	0.00
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.