Gene detail

Detailed information of BRAKERKREP00000012449.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: XP_047139499.1, tonsoku-like protein [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

BRAKERKRET00000012449

atgaatttttgtaaaaccataaaagtatcttttagaatatgtTTAGATTATCGaatccaaaagaaaaaagccaAAGAACGTGACGATTTTCTTGAAGCCGCAAAGATTTGCAATTGTTTAGGAGAGCTATATGCAGAGCATgGAGATCATCAAAATGCAATTATTGAGCACaaagaagaaatatatttaagtgaAGTTTCAGGAGACGCGATAGGTGTTGCTGTAGGTCATCGTAAAGTTGGAGAAGCTTACTGTTCATtagaaatgtttgaaaaagcttttttccaCCAGCAGAAGTATCTTgagATTGCAAAATCTAACAACAGCACTCTTGAGCAACAACGAGCACTAGCAACATTAGGACGGACATATTTTATACAGACAGACTGCACATCATCTCAAGAAGAAATAGATAGATGCTTagaatcttctttaaaattgtttcttcaAAGTCTTGAGCTTTGTGACCATTTGTATGGCAGTGTCTCTGAAAAAGAAATGCTTGAGATGAGAGCTCGTCTGTATTTAAATCTTGGGaatgtttatgataaaaaggaaaatagtGTTGATTCGTTGAAGTTTGTAAACAAAGCTCTTATCATTGCTAGagagCAAAAGTTACCAGAGGATATTTACCGCTGTCACTTCAGTCTTGCTGGTctttattttaagaacaatAATATGGACAAAGCTTTGCATAATGTCAAACAAGCTCTCTCTACTGCTAAAGAAATTCACAGCAAACTGCTGGAGTCAGATGCTTTGTTACTTATGGCACAAGTATTTCTACATGTAAGTGAATTTGAGCGagcaattcaaattttaaggCAAGTTCATTCATCTTCCCCGAGCAACGAAGAAGTAGTTAAAGTACTAAAATTGGCTATTTTAGGAGTACAATTAACTCGAAAGTATAATGAGGAGACtttagaaagaaatttattggTTTCTATATGTGAAAAATTAGGTGATTTCTATGCAAAGTTTTCCCCACAGCAAGCGTTGAAATACTATAAAGAACAATTAGACTTGTGTCTGGATAGTACTAATAGTATATTAGCTCCTATTTACAATTCACTGGCGCTGACATACTATGAATGTAAGCAGTACAAAGATGCATTACTCTATTATCAGCTTGAATTAAAGATGCACAGTAAAACTGAATATAATGAGaAATTTGATACTTTGTGTATGATCTTGAAAATATTGGAGCTTACTAGCGAACCCTTCGAAAagctaaaagttttcttaGATCTTGCTGCTGAATGTGCTAGAGAAAGTGAAAAGCCAAACTCTGCTATGATGGGTGTCTATAAGCAGTTTTCTGATGACATTTTGTGTTGTAAAACTCAAGaagattacaattttttgaaagtaaaaattgaacaGTCCATTGATGAAATTGAAGAAGAATCTGAGCATTCAAGTGATAGTGGAGATGGCCtttctttaaatgaagaagaaaagctGTTTATAGAGCATGAAGATGAAGAAGATTTGACAGACAAACATACTTCAAGAAgcacaaaaagaaaatcaaaaccaAAGaTCAACCAGGCTAATGCTCTAGGTGAAACCCCCCTTCATGTAGCAGCCATTGCAGGAAACACTGAGAGAGTGAAGATTCTTTTGCAACAGggaGCATCTATTCATGCACGAGATGCATCTGGATGGCAGCCTATTCATGAGGCATGCAATCATGGACATGTTGATATTGTTGAATTATTGATATTGAATGGAGCTGATGTAAATGACCCCGGAGGTAAACATTGTGGTGGCACTACACCTTTACATGATGCTTGTCAAAACGGTCATTTAGATGTGGTCAAACTACTTTTAACACATGGTGCTTCTCTTAACAACAGGAATAATGatGGCAATACTCCACTTGAAGTAGTACGCCAGCTTATAAAAGAAGACAAGGAAGAGTTTCGGGAAAATACAGATGATAAAGAACTTTACATAATGCGCCAAAATGTGGAGcagtttttatcaaacttgTACGTGCCGCATGATATAAGCATTAAAGATCGGAAcagcattatttttaatcaatcagCAAATGATGGTGCACAGAAatacattaataaaacttcAGGAAATGATGATGCCATTCTTCCTTATAAAAGAAGAAAGCTAAAGAACCATGCGCCattagaattatttataaCAGATTCACCTGATCTTGAACAAATAGAGGAAGATAATATTCCAACGACACCATCCACTGCTAGTTTAGATGAGGATAATTGTAATCTAGATTCACTGGATGATTTAGATATAGGTTTAGATTCAGGAGAGGATTTTAGtgaagaaatttctaaaaatgacTCTCCTGTTATGTCAAACTTGAGCTACAAAATCCCAAACAAAGTTCCCAACACACAAAACACTCGAGATACGATCCACACAAAAAGTTCTAAGAGTAAAATCTCAgcgaaaacaaaaagatatcgTCAATCAAAAATTAAGGTATTGCCTACATCAAAAGAAGATTTCCAATTCTcaagttacaataaaaaaagaaatagatgCAACAAATCCATGGCATTGAGGCAGCAGCATCTCGATAGCTTTATAGCAAGCCCTATAAATGATGCACGTTCAGAAAATTTGGAATCGGAAACTCAGTTACCAGAATCGCGAAATGAATTACTGaactataaacaaaatgtatttAGAGTTAAGGTTCATGTGAATGGCACGTGCTTTTTAATCCCATACTCTAATAATGGTGATGCAAATGTTAGTTGGCTGATTGAAAAGGTTCAGTCAAGGTATCGGACGGCTTGTGGTGTTTTTGCACGGCTAGTTCTAAAGACCAAAGACGGTGCTTTGTTAAATGAGAATGATGTCATAATGAATATAATAGTAAACAATGAAGAATTGGTTGGTGAGATATTAGAACTCGATTTCCCTTCGTTAAAAGAAAGATTTCAATTGGCTTgtcaagacaaaaaaataacTGTCAATGAAAACTTGCTTGAGCAGTTAACCGCTGATTTAAATCGCCTCCAGTTGTGCAACATGTTTCTCACAAACGATGATATTGTTGTACTAACGACGTGTTTGCCATGCAACGAAAATATAAATGCTCTTGATatctcaaaaactttattagGAGACGATGACTTCAAAAACTTCGCTGTTGTGTTGATGACCCTACCAAATCTCTCTTTTCTTGATATCTCAAACATCGGCATCACGTCAGCCggtttatgttatttttcagatcatttagaagaaaaagtaaaaaaagaatataggACGTTCATCAAGaagccAATATTATCCTCTCTTAACACTCTGATTATGGACTTCAATGATTTTTCTGATAAAGCTCTGTTTCAACGCGGTTTAAGAGATACTATTAAGATTTGCGTTGCATTGGTTACTTTAAGTTTTCGTCATTGTCAGTTGGGGTTTGACGCTTTTTATTCAGGATGTCCGTTAGAAAATTCTCATCTTCAAGTTCTACGAGCTTCTTGTATTGAAACCCCCCTAACATCTGTGCTGCAAACTATCAACACGATGGCATCCCTTACTTCGTTTGAAATTGCATTAATAAAACGTCCTACTTTGGAGTCTTCCCCTTTCAAACCATTTTCTAAGCATCTTCACATGCTATGTTTACCAAAACTGTCGGACCTTAAAGTAGAAAGCTTAACTGCCTTCGAAATATGCGAGATAGCAGCTATTGCGCCAtcgttaaaaagtttatctatTTGTAATTCAAATGACGTTTTTTCTTTGGTCAGATATCTGTCGCGTATGTCATGTTTGTATGAACTGGACATGTCTGGGTGTGATAATTTCGACACAAAAGCCTTGAGTGAGCTGGTTGAGAATATAGAAGCAAATCATTCACCTATCAAGAAGTTGACTCTCATCGCTTGTTCTATTAAGTCCCCattattggaaaaaacatGGACGTCATTGAATGGTGTAAccttaatttatttaaatatgaattttaacGAACTCGCGGTGCTAGATAAAATGCGTTTGCGCGATTGGTGGACTGCTTTACACGGAAACCAAACTCGTTGCGTCACTGTAGACAATAATTGTTTGTTTGAATGTCTATTCTGA

Transcript

BRAKERKRET00000012449

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
D4A615	Tonsoku-like protein OS=Rattus norvegicus OX=10116 GN=Tonsl PE=3 SV=1
Q6NZL6	Tonsoku-like protein OS=Mus musculus OX=10090 GN=Tonsl PE=1 SV=2
A9JR78	Tonsoku-like protein OS=Danio rerio OX=7955 GN=tonsl PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004146 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13857 all species →	Ank_5	Ankyrin repeats (many copies)	Repeat	Interproscan
PF12796 all species →	Ank_2	Ankyrin repeats (3 copies)	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011990 all species →	Homologous_superfamily	Tetratricopeptide-like helical domain superfamily	Interproscan
IPR002110 all species →	Repeat	Ankyrin repeat	Interproscan
IPR052311 all species →	Family	MMS22L-TONSL complex component	Interproscan
IPR036770 all species →	Homologous_superfamily	Ankyrin repeat-containing domain superfamily	Interproscan
IPR019734 all species →	Repeat	Tetratricopeptide repeat	Interproscan
IPR032675 all species →	Homologous_superfamily	Leucine-rich repeat domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46358 all species →	TONSOKU-LIKE PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0000724 all species →	Biological Process	double-strand break repair via homologous recombination	Interproscan
GO:0031297 all species →	Biological Process	replication fork processing	Interproscan
GO:0043596 all species →	Cellular Component	nuclear replication fork	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
K09257	NFKBIL2; NF-kappa-B inhibitor-like protein 2	-	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 BRAKERKREP00000012449.1 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

11.3Max TPM

1.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	2	1.19	11.32
Whole	6	5	3.67	5.93
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	5.05	5.05
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	3.17	3.17
symbioic hydra M9 strain · symbioic hydra rep1	1	1	1.93	1.93
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
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977	11.32
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977	10.17
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
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
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	5.93
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	5.82
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	5.29
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	3.72
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	1.26
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	5.05
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	3.17
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	1.93
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.