Gene detail

Detailed information of BRAKERKREP00000001765.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: XP_002162060.3, programmed cell death 6-interacting protein-like [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

BRAKERKRET00000001765

atgaattcTTACTTGCTATGTCCATTAAAGAAAACTCAATCTGTTGATATTGTGAAGCCCATTTCAAACTACATAACAAATACGTTTTCAAGCAGTGtgcttaatgaaaataaaaatgttttagcaGAATTCAGTCAGCTTCGCAGCAATGCTGTAATTCATTCTTTAGACAAGCATGAAGTGTCACTTGAAACTCTACAAAGGTACTATGATCAGTTGGTTGTTATGGAAGGTAAATTGCCAATTGCAGAAGACCAGATTCGTATTTCATTTACATGGTATGATGCTTTCAACAAAGGTTCTATCTTTGGATCAACAAAATGctCTCTCAGTAGTGGCGCTTATGAGCGGTTCTgtgttttgtttaacattgCTGCACTTTTATCCCAGTTAGCAAGTATGCAAAACCACTCCACGGATGATGGATTAAAAACTGCTGCAAAATATTACCAGCAATCAGCTggtatattttcatatttaaaagataatgtttTTCCTGTTCTTCGTATGCTTCCCACACCTGACTTATCTGTCAGTTGTTTAACTGCTCTTACATCTATCATGCTTGCGCAGGCTCAggattgtttttatgaaaaagcttCCTCAgATAAGATGAAAGACACTGTTGTTGCAAAAATTGCAATGCAAGCTGCTGACTTTTATCAAGATGCCCATCGAAATGCAACTCATTATGAAACTAAAGGATTATGGGAAAAGGATTGGATAACTGTTCTCCAAACCAAACATGGTTATTTTGTAGCAGCTGCTGAATTTCACCAATCCAAAGTCAATGAAGCATCAAACAAATATGGTGAAAGAGTCGCACGTTTACAGAAAGCTGAAAAGTCTATAAATGATGCTATAAAAAGTGCTGGCAACTTTAACATTCCTGAGGTTAAGaacatGGCTGGCATTATTTCCAAAACTCTTATCCAAGCTAAGAAAGACAATGAGTTCATTTACCTGGATAAAGTTCCAACTCCAGATCAGCTGGCACCTGTTGAGCGTGCTAATCTTGTAAAAGCACTTCCTATTGCATCACCAATGTCAAGcaattttcaagatttatttttaaaacttgtaccAATAGCTGTTCATGAAGCAACCAGTACCTATGATGCTGCAAAAAGTGCTCTCATTAATAGTGAAATTGGAAAATTGAGAGAAGCTACACATTTTATTAATGgtgtgcTGGCTTCATTAAATCTTCCAGCTGCCATCGAAGATCTTTCTGGTGAGATGGTTCCCTCATCTGTGCTGGAAAAATCTgcagaaataaaagaaaaaggtgGCTTAGAAGTGATTGATCAGATGATCGAAAATCTGCCTAATCTTTTATCAAGAAATCGAGAAATTCTTGATGAgactTTCCACATGATGTCAGAAGAGGAGCAAGATGATCAAAAAATGCGTGAATACTTTAAAGATAGATGGACTCGCACACCATCATCAAAACTTACTCAGCAACTGAAGGAGGAAGGTGCtaagtacaaaaatatcttaGATAATGCCACAAATGCTGATAACATAGTAAAAGCAAAGTACAATGAACATCAAAGAGGGCTGcaaatactttcaaaatcaaatgcTGAAATTGCTAGTTCCCTTCCAAAAGTTGGAGTTATTACATCTAATAGTGGTCTGGCAGCTGTTCAGGAGTTACGCCAGTATATGCAGCAGGttgatcaaattaaaaaagcacgTGAACAACTTGAAGAAGAGTTCAAGAGTACCACTGTTGATATTCAGAGCAAATTCTTACAAGCTTTAACTGCAGAAGGTTATCTTGATTGTCAAAAGATAGTTGGTCAGAATATTGAAGATGTTTATGCACATTTGAGAAATCAAGCGGAAAAGAGCATAGAGGATCAAAAGCTGCTGCTCGAGAAGATACAGACAGCGTATGATAGTTTTGCTGCAGCTACAAAAGGTGCTGGTGCTAATCCCCGTGATCAAATGCTGAAAGACTTAGCTAGTGCTTATGATGCTTACATAGAGCTAACAAATAATCTTGAAGAAGGATCAAAATTCTACTACAACCTCACTGAACTTCTTTTGAAGTTCCAGAATAAAGTGAGTGATCTTGTTTTTGCACGAAAGACAGAAAAAGAAGATCTAACtaaAGATCTCCAGCAAGAAGCAGCTAAGGGTACTGCTATTCCACCTCCTAATATACCTGCTCACCATCAACAACAGCCAACTAAACCTGACAGACCGCCACCTCCAAGTAATAAATCAACACCTGCACCTAGTGTTCCGCAAAATCAACCTTCTAGTAATCCTCCAGAACAACCGCAATACAATCCTAACCCATATCCTGTTCAACCTATGTTTATGCCGCAACCTGGTTACTACGCTCCTACTGGTATGACGCCATATCCTTATCCTTATCAGCCAAATTACAGAGAGTATCCTGCAAATCAAACACAAGTTCAGCCTGGACAATATATTCCTCCATACGTTCAACAGCAACCTCCAATGGGATACCAGGGTTATCAGTGGCAACAAAGGCCTCCCCAGCAATAA

Transcript

BRAKERKRET00000001765

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9W6C5	Programmed cell death 6-interacting protein OS=Xenopus laevis OX=8355 GN=pdcd6ip PE=1 SV=1
Q9WU78	Programmed cell death 6-interacting protein OS=Mus musculus OX=10090 GN=Pdcd6ip PE=1 SV=3
Q8WUM4	Programmed cell death 6-interacting protein OS=Homo sapiens OX=9606 GN=PDCD6IP PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004844 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03097 all species →	BRO1	BRO1-like domain	Repeat	Interproscan
PF13949 all species →	ALIX_LYPXL_bnd	ALIX V-shaped domain binding to HIV	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR004328 all species →	Domain	BRO1 domain	Interproscan
IPR045251 all species →	Family	Vacuolar protein-sorting protein Bro1-like	Interproscan
IPR025304 all species →	Domain	ALIX V-shaped domain	Interproscan
IPR038499 all species →	Homologous_superfamily	BRO1 domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23030 all species →	PCD6 INTERACTING PROTEIN-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000281 all species →	Biological Process	mitotic cytokinesis	Interproscan
GO:0005768 all species →	Cellular Component	endosome	Interproscan
GO:0071985 all species →	Biological Process	multivesicular body sorting pathway	Interproscan
GO:0005515 all species →	Molecular Function	protein 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
K12200	PDCD6IP, ALIX, RIM20; programmed cell death 6-interacting protein	-	Exosome	ko04147	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000001765.1 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

15TPM > 0

7Conditions

56.7Max TPM

16.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	7	16.02	56.70
Whole	6	5	23.32	31.34
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	15.17	15.17
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	18.80	18.80
symbioic hydra M9 strain · symbioic hydra rep1	1	1	16.54	16.54
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
SRR21134056	whole body	whole body	not recorded	not recorded	SRP392977	56.70
SRR21134057	whole body	whole body	not recorded	not recorded	SRP392977	52.13
SRR21134066	whole body	whole body	not recorded	not recorded	SRP392977	49.96
SRR21134055	whole body	whole body	not recorded	not recorded	SRP392977	49.34
SRR21134054	whole body	whole body	not recorded	not recorded	SRP392977	49.30
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977	15.56
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977	15.47
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
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
SRR21134067	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	31.34
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	28.54
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	27.66
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	26.39
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	25.99
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	15.17
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	18.80
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	16.54
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.