Gene detail

Detailed information of BRAKERKREP00000020971.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: XP_012555166.2, E3 ubiquitin-protein ligase RNF31 [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

BRAKERKRET00000020971

ATGGATCCTCCACCCATTAAATCAAGGCCTATTGagtcaaaatataatttactctcaaatgttaaaaaacctATACCAACGCCACGTGATAGAAAAAGTGAACAGTTTTCAAACAGCCAAACATCTGGATACAATATTAACAAGATAAATAAAGAGtcttcatattttaataatttagaaCCAAATTCTACAGACAAGTTCACcagttttgaatttaataacaCCTTTTAtccatcaattttaaataatcaagaCGAGCTGAGACATGACACAAGGTTTATGAGTTTAACCTCTGATGAATTATATGGAAGATTTTCTATCCCAACTTCAGTTGAATATGAAAGTGGCTTGAGCAAATACCGCAAAGAGTTGCAGCAAATGGTGAAAAATAATGCACCTGCTGATGATAAATACCAAGTAGTGCACAACATATTAAAATTAGATCAATCAATAAACTCAAAGTATGTGGTTTTGGACATAGATTCTCTTCTAGACTCAAACaagGATGGTGATTTGTCCAAAATCCCTGATGCATTTAATGTCCTTGAAAAATACGCTgctaatcttttaaaagaagaaactgAGAGACATTTTTCTTGGAGAAAAATTACGACATATTCTTCagtgtttaaaaatactatgAGATTTGTTAATGGTGTTGATAAAGTTATTGAAAGAATGGGATACATTAATAAAGATATATTACCTACTGGAGATATTTCGTCTTTTGTTTTTCCAGTAAATGCTACTCCCAATAAAGTAATACTAATGGATTTAGTAGTGGATTTACTGATTGCAAAGCATGAAATAGATTCTTTGTTAAATGGTAGTCATCCTTGCTTTGAGAAACTAAGTTTGACAGGCACTATACCAGATGTTTACTTTACTCACTgtaattcatttaataatagGGATCGATcttttgaacaaaaagattCACTAGGTTATGATAGTCCAAGCATGGAGTTGGTTTTAAATCAACCAGGTCTAGTTAACATGTCATTGACAAGTGCTGATCCAAAAATACCTGTCATTTTTAACAGCAGCAGTAATGAAACATCATCTCAAAAACAAGgTCACTTTCAATGTCCAAATTGTAATTCTCAATTCCATACACAACCTAGATACTGCTCTAATTGTGGATATCAAACTGATGTTGGAaatcaagatatttttaataggcAAAGTTTAGAAGTAGTTCAAACTGAACAGAAGCAACAGCACTCAAAAAACTCacttttgcaacaaaaatttgaaccagaaaactttaaaacatttaaaggaTGGAATTGCAAACattgtacatttttaaatgattccACTGTGTCAATTTGTCAGGCGTGTTATCGAACATCTTTTGATGAATATAAGTCTGAACTTATGGAACCTCAAAAAGCTGAAACCAAAACGCCACTCAACTATAAACAATCAGATAAAAAAGACCAAATCCAGAATTCAATCAGATATAGAGAATATATGCAGCAAGAAAAGGAAATGAGATTGAGGCAAGAAAAAGAGCAGCAACGTCAAATGGTGATCGCCACACAGAACAAAATGAAGCAAAATGCATTGAATGTGGCTAAAATCCTTCAGATGGCCGAAAGAGAAGGATTTTCAATTCAGTTTTGTGAAATTGCCCTACTTTCTGTTGAAACCAATGAGTGGTCTCACATCAAGATGTGGATAAAAGAACAATTGCCTCGCTTAACAAATGAACTCATGGAATACAGTAAGCAAGCTTTTTCAGCACAAACACAAATACTCAGCAAAAAAGAAGCCCACCaatttttgtatgattttaaTGTTGACTTGCGGTTGGCGTTtgaagctttcaaaaaaaaaagagaaaaacagCTCAAAGATTTGATGGCAAAGTTCGGGGTTACTGAACTGGAAATACATAAAGCATTATTTGATTCagaagGCAACCAGTCCATTGCTGAAGGCTTCTTTTTCAGAAGCATCAATGCACACTGCATTAGGGATTCTTTGAACACAAACAAAgcttttatagaaaaactgaaagaccctaatattctaaaagatACTAAATGCTGCCTAATACTTGGAGAGCATCCAAAGCTCAGTTGGGGAAAAGctgaaaattgtttaaagttaataaatctTAACACTTACAGTGTTGAAGACTGTCTAGAAGCTGttgaaaacaatcttttttacaatgatTGTATCAAGTTTTTGTCATGTCCATGCTGCATGTGTTACGAGGAGTGCCCTAGACACAAGctTACATCCAACATTCATTGCCAATGTCAATACTGTATTGACTGCTATGTACAATTTTTGGATGTGACAATCACTCAACAGCACATTCGTAATTTGGTTTGTGCTAACTGCCAATTACCAACTGAGGAAGCTGCAATTAAAACATGCTATTTTGAGATTCTAGACTCTCAGtttcGCCACTATGTATCGAGCAACAAACTTACACCTGAATGTTACTCCTTGTTTCAAGAAAAACTACGTGATTTTACTTTAGTAAGCAATGAAAAGTTCAGATGGTGCGCTCATtgTCCTAGCTACGGTTTTCTCTGGGAAAATGATGATATAAGGATGCAGTGCAATAAATGCAACCTTTTCACTTGctttttatgtaaagaaaagtggtTGCCACAACATGACGGCATCTCATGCGAGAAATTTTCGGAATGGAAAATTGCAAACGATCCAGAGCTGCAAACAGCTTGTGCTGCTGATATGCTATCCAAAAATGGAATAGaatGTCCCCAATGCCATTTCAAGTACATTCTCGTGCGCGGTGGGTGTATGCATTTCACTTGCAATCAATGTGGCTATGAATTTTGCAGCGGCTGTTCGATGGGGTTTCTTAAGGGAGCGAGATGTCAAGTTAATCCCGAATGCGCAGGTAAAGGTTTACACGCTCACCACCCACgtgattgttatttttatttaagagaCAGAACAGTGGACGATCTAAGAAACCTTCTAGAAAAGAACAACGTTgagtttgaaacaaaaagacCTGAagacaaaagtGATGCCCCATTTAAATGTACGATACCAATATCTGAGGAATATCTCGATAAGCCGTGCGGTAATGACTCTCCAGATAACATGGCAGGATTATGCGAGAATCACTTTAAAGAGTACCTTGTGACCCTggtcaacaaaaacaacttggATCCCGTGTTCCTTTTATCGGTAGACGAGCTTAGCGTTGTATTGACAAGAAgttataaaaaggttttggTAAAAAATGCGGACGAAGTCGATGAAGAGTTTCATAAAAGATTACAAGAGTACGTCCGCACGGAGCTTCCTCTGCTGCCAAGAAAATGA

Transcript

BRAKERKRET00000020971

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q924T7	E3 ubiquitin-protein ligase RNF31 OS=Mus musculus OX=10090 GN=Rnf31 PE=1 SV=2
Q96EP0	E3 ubiquitin-protein ligase RNF31 OS=Homo sapiens OX=9606 GN=RNF31 PE=1 SV=1
Q8IPJ3	E3 ubiquitin-protein ligase lubel OS=Drosophila melanogaster OX=7227 GN=LUBEL PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003221 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF18091 all species →	E3_UbLigase_RBR	E3 Ubiquitin Ligase RBR C-terminal domain	Domain	Interproscan
PF01485 all species →	IBR	IBR domain, a half RING-finger domain	Domain	Interproscan
PF16678 all species →	HOIP-UBA	HOIP UBA domain pair	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR041031 all species →	Domain	RNF31, C-terminal	Interproscan
IPR036443 all species →	Homologous_superfamily	Zinc finger, RanBP2-type superfamily	Interproscan
IPR002867 all species →	Domain	IBR domain	Interproscan
IPR026254 all species →	Family	E3 ubiquitin-protein ligase RNF31-like	Interproscan
IPR047540 all species →	Domain	E3 ubiquitin-protein ligase RNF31-like, BRcat domain	Interproscan
IPR044066 all species →	Domain	TRIAD supradomain	Interproscan
IPR001876 all species →	Domain	Zinc finger, RanBP2-type	Interproscan
IPR047542 all species →	Domain	E3 ubiquitin-protein ligase RNF31-like, Rcat domain	Interproscan
IPR036339 all species →	Homologous_superfamily	PUB-like domain superfamily	Interproscan
IPR032065 all species →	Domain	E3 ubiquitin-protein ligase RNF31, UBA-like domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR16004 all species →	RING FINGER PROTEIN 31-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0008270 all species →	Molecular Function	zinc ion binding	Interproscan
GO:0004842 all species →	Molecular Function	ubiquitin-protein transferase activity	Interproscan
GO:0036435 all species →	Molecular Function	K48-linked polyubiquitin modification-dependent protein binding	Interproscan
GO:0061630 all species →	Molecular Function	ubiquitin protein ligase activity	Interproscan
GO:0070530 all species →	Molecular Function	K63-linked polyubiquitin modification-dependent protein binding	Interproscan
GO:0071797 all species →	Cellular Component	LUBAC complex	Interproscan
GO:0097039 all species →	Biological Process	protein linear polyubiquitination	Interproscan
GO:1990450 all species →	Molecular Function	linear polyubiquitin 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
K11974	RNF31, HOIP; E3 ubiquitin-protein ligase RNF31	EC:2.3.2.31	Ubiquitin system	ko04121	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000020971.1 across 29 RNA-seq samples of Hydra viridissima. This gene has no row in the species' RNA-seq expression matrix, so every value below is shown as zero — the matrix simply does not cover this transcript. 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

0TPM > 0

7Conditions

0.0Max TPM

0.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
whole body	18	0	0.00	0.00
Whole	6	0	0.00	0.00
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	0	0.00	0.00
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	0	0.00	0.00
symbioic hydra M9 strain · symbioic hydra rep1	1	0	0.00	0.00
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
SRR21134050	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134051	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134052	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134053	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134054	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134055	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134056	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134057	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134058	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134059	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134061	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134062	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134063	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134065	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134066	whole body	whole body	not recorded	not recorded	SRP392977
SRR21134067	whole body	whole body	not recorded	not recorded	SRP392977
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397
DRR048593	aposymbioic hydra M9 strain · aposymbioic hydra rep1	not recorded	not recorded	aposymbioic hydra rep1	DRP003902
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902
ERR13389755	unannotated	not recorded	not recorded	not recorded	ERP162636

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.