Gene detail

Detailed information of BRAKERKREP00000015656.1 in Hydra viridissima

Genomic Location: QPEY01000096.1:578511...587236
NR annotation: XP_002166715.2, uncharacterized protein LOC100214759 [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

BRAKERKRET00000015656

ATGAATCTATCAGGGGAGAATCTTCcatGCTGTTTTTGTCATGTTTATGGTGATGATGGAAAAAGTGGaaagtattttgttaacaGGCTAGAAAATATTGCAGCGcatcaattttgtttaTATTTTTCTGCTGGATTACCTCAGAATGGCAGAGACAATGAAGGGTTTGATGGGTTTCTAATACATGATGTATTAAAGGAAGCTAGAAGATCCTCTAAATTAAAATGTAAGTTCTGTAATGAGAGTGGTGCAAGCTCAGGATGTGAAGTCAAGTCTTGTCGTTTTGTATATCATTACAAATGTGGTTTGTCAAATGATGtgcaatttatatttaaaggcagattcaaCTCATACTGTAAAATTCATCGCAGCTTTCATGACATGTCTTATATCAATTCAATCGCTACTGTTGACTGTCCAGTGTGTTTAGAAGAAATAACCTCAACTGGTTGTGATATCTTGAAAATGCCATgctgcaaaaataaatatgccCACAAAGAATGCCTTCAAaaacaaGCTCTAGCTAGTGGATACTTCTTCAAATGTCCCACATGCAACAATGAGAAGCAATTTAGAAATGAAATGTCTAAGTTTGGCATATATATACCACAAAGAGATGCTGTTTGGGAAGAAAATGATGCATATCAAGAGCTACTTCACAGGTATGACAAATGCGATATGAAAGAATGCTTGTGTGAGTATGGAAACCAACATTCTGCTGCAGATGGtGATTGGAAGTTTATTCATTGTTCTCATTGTGGGCAAAGTGCAGCGCACGCTTTTTGTCTTGGTAAAATCATTTCATCTGATTGCGAATATATATGTTCTAACTGCAGCATTATAGTTAAAATACCTGAACATTGTCATGTCAAACAGGAAAGAAATGTAAAGCGAAAAGTACAGTCCAAAGATGATTCTTCTGTTTCTAATTGGAACCAACTTTACAATATAAAACCGTGTTATGTGAGAATCACACGATTGACCGATGAGTTCATTCATAATTACACTCAAGaTGGCACATGGAAATCTGGTTTGTGTGAAAATTCGTTCACTTCTCATTTACTTAGGGATCATTGTGATTCCCAAATCATTAACGTTTCTTCGAATGACTTAACCTGTTCAATCAAGAAAAACTGGGAAATTTGTCCAGGTAATAGCTTAGTGAGTGAAGAATCGAAATTCAAAAGTAATgagaatatttcaaatttgcaAAATAACTCGATCTTGAAGACCGAACGATATCCTATTAAAAGCAACCAAGATTCTGCAAACGAAAAATGTGAGACGCTAGTTTTTAGATCTACGCGAATGTCTAAAGTTGCAAATCGAATTCTATCATGGATAAGTCCGTTATCTTCGACGATGGATTGCGACGAAAATAAAGGGATAACTTCCTACGCAGTTAGTTCTGATTTTCTTCTTGCAGACAGtgagaataaaaagaataaaaaagaattactatTTCAAGATAAGACAAGCGTTCCTTCTTTCTGCGACATAGAGACGCCAAAATTAAGAAGTACGTTAACAGAGAAATCCACCATTTCACAAGATCTAATGTCGAAATGGAATTCTCCGGTCATGAAAAATGATTCCAAAGCACAGTTAACTTTATCTTCAGATGAGTCTTGCAAGATTTTAACTCAATTAGAGCCTTCGTTTCCCTCACATgacgaaaaaagaaaacctcaAAGCGTCGAGTTGCTAAACAGCAGTAATTTTGTTAATCGCAAAAATAATCATCTAAAAACTTGCGACAAACCGCAGTTTTCTGAGTCTGAAAACTTCGATGTTATGCAAGACTATTTTAATACAAGTAGCCAACAAAACTCGATTAATCCAAACGATACTGTAATGTTACAAAGCAGTTCAAATAAGAGCTTGATTATTTCTCGAAACAATTCAATTGGTAGTTTTTTAActgctaaaaagaaaactggtAATAAGAAGCAGAAAATCCTAACGAAATTTCGGAGAAACcacaagaaatgtttttatatccCAAATGAGCAAAGATCTTTAGATTtgtgggtaaaaaaaaattgcggtAGTTCTTGA

Transcript

BRAKERKRET00000015656

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q7L622	G2/M phase-specific E3 ubiquitin-protein ligase OS=Homo sapiens OX=9606 GN=G2E3 PE=1 SV=1
Q4R9C4	G2/M phase-specific E3 ubiquitin-protein ligase OS=Macaca fascicularis OX=9541 GN=G2E3 PE=2 SV=2
Q5F4A1	G2/M phase-specific E3 ubiquitin-protein ligase OS=Gallus gallus OX=9031 GN=G2E3 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004301 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13771 all species →	zf-HC5HC2H	PHD-like zinc-binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011011 all species →	Homologous_superfamily	Zinc finger, FYVE/PHD-type	Interproscan
IPR042013 all species →	Domain	PHF7/G2E3, ePHD domain	Interproscan
IPR001965 all species →	Domain	Zinc finger, PHD-type	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR001841 all species →	Domain	Zinc finger, RING-type	Interproscan
IPR051188 all species →	Family	PHD-type Zinc Finger Domain-Containing Protein	Interproscan
IPR034732 all species →	Domain	Extended PHD (ePHD) domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12420 all species →	PHD FINGER PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	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
K22371	G2H3; G2/M phase-specific E3 ubiquitin-protein ligase	EC:2.3.2.26	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 BRAKERKREP00000015656.1 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

16TPM > 0

7Conditions

130.0Max TPM

42.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	6	26.68	129.96
Whole	6	6	80.72	95.95
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	61.39	61.39
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	62.40	62.40
symbioic hydra M9 strain · symbioic hydra rep1	1	1	59.28	59.28
symbioic hydra M9 strain · symbioic hydra rep2	1	1	72.36	72.36
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
SRR21134055	whole body	whole body	not recorded	not recorded	SRP392977	129.96
SRR21134056	whole body	whole body	not recorded	not recorded	SRP392977	106.62
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977	70.61
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977	63.00
SRR21134050	whole body	whole body	not recorded	not recorded	SRP392977	60.66
SRR21134052	whole body	whole body	not recorded	not recorded	SRP392977	49.36
SRR21134051	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
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
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397	95.95
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	88.30
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	80.49
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	77.00
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	73.82
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	68.76
DRR048593	aposymbioic hydra M9 strain · aposymbioic hydra rep1	not recorded	not recorded	aposymbioic hydra rep1	DRP003902	61.39
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	62.40
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	59.28
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902	72.36
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.