Gene detail

Detailed information of BRAKERKREP00000016625.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: XP_047129998.1, TBC1 domain family member 23 [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

BRAKERKRET00000016625

ATGGCCGACACAATGGAAGATTTAGCATGGAAAACTGACCTAACCTTATGCTTGTCAAAACAGCCAGATTTACTTCGGTTAAAGTCACTATgtaaagggaaaaaaattcCAGCAGATTGTCGGCCAGAGTTATGGAAGCGCTGCTTAAATGTTATTGGCAAACCAGATGCGTTAATTACCTGGGATGGTCTGATTGATATGCAAGAGCAAGATATTCTTAAAGAAGATTGCATTCTACAAGCtgccAAGTTGAAACTTTTGgaagaagatgaagaagaagTAGCACGAGATATGGAGGGGctgataactttttattgtaaatcaCGAGGAGAAAAATATAGATCTTCGAGCGGTTTTGTTGAATTACTTTCACAGTTTATTACACTTGATCTACAATTATCAGAAGTCTATAACTGTTTTTATGCCATGCAATCAAAGTTTCTCCCAAGggaatGCTATCGTGAAGGAAAACCATTCCATTTGTTTCGTCAGTTGCTGCAATACCATGATCCTCAGCTTTGTTCATTTCTTGATTCCAGAAAGATTCCTCCTGACTTATATGCACAAAAATGGCTGCGAAGTTTATTTGTTGCTGTTTGTGATACTGATGTAGTTCATGCCATGTGGGATATTTACTTCCTTGAATCTGACCCAtatcttgttttctttttaatgctgGTTATGGTATTAAATGCAAAAGACCAAATATTGGGAatgtcaacaaaaaacaagtcTTCTATTGTAgATATGATAACTAATTTCCCATCACAACTTGGGGTTGATGATATAGAAGATTTTTGCACTCTGTCTCAGTATTACGCTGATCGTACTCCACAGTCATACAGAAAGGAGTTTCagccatttttatttggatCAAAGATCACAACAACagattatatttcaaattcgTTATGTCTACAAGTGTCAGTGACTGAGTTGTTTGAAGCTGTTGAAGGTCGATCAaaggaggatgttcgtttttttttggttgattGCCGACCAGCTGAACAATATAACAATGGTCATTTGTCTACAGCTTTTCATTTGGATGCTAACTTaATGCTGCAAGCTCCATCAGAGTTTCAAACATCTGTTATGGCGTTATTCGCTACTCAGCAGCAAGCTATAGATGCTGGTTCTAATGCAGCGGGTGAGCATTTATGTTTCATTGGTTCAGGGAGGGAATTTGAAGATCAATATGTCAACATGGTTGTTGCAAATTTCCTTCAGCGCGGAACACATTTTGTTAGTATTGCAAAAGGTGGATATGCAgCTCTTCATGAATTGCTGGCAgatgatctaaaaaataatttacaagaTCACAACCCAAAAGGTTGCATAGTATGTTCACCTGATGCTGCTATTAGCTCTGAGGATGAGAGTCATGAGCTTTCAAAGAGTGATTTATCACCAGTATCTGCTCCAATATCTCCAAAGACTCGTATGGTGGACAAACTCTCCAACAGTATAAGAAGTCGTGGAGCTGATGTGAAAGAAAGACTAGGCCGCTTAATTAATGAGAGCAAGCCTCAAGAcaggcATATAAGTGAGAAAGATGTAAAAAGCAAGGGTTATCGAGGCGTTAATCTGGATATTTTCAGTATTGAGGATCCTGATGaCACGCCATCTTCAAGTGGAGATGAGAGCCATGAAGCTGTGAACATTGACACATGGATCAAACGTTCAGATGTTATTCGCCATTTTCCATGCAGTGAAATTACTGTTTCTGGTCAAATGTTCTCCAGctatATATTGCTAACAATGACTCATTTATTCATCTTGAGAGAAATTGTAGACAAAAATCGTGCTGGTTGGGCTCATATTCAATCTCGCCCTCATCTATCTTCTATTATAAAGATTACATCAAAACGTAAACACCCTGATTTGATAACTTTCAAATATGGTACTAGTAATGGTGATGAATTTAATGTGACTGGTTCCCAAAGGTTTCTTATTCCAAACTCAAAACAAGCCATGAAAAGAATAAAGGAAAGAATTCTAAAACtgattgaataa

Transcript

BRAKERKRET00000016625

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q5R8I6	TBC1 domain family member 23 OS=Pongo abelii OX=9601 GN=TBC1D23 PE=2 SV=1
Q5F415	TBC1 domain family member 23 OS=Gallus gallus OX=9031 GN=TBC1D23 PE=2 SV=1
Q9NUY8	TBC1 domain family member 23 OS=Homo sapiens OX=9606 GN=TBC1D23 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005967 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF19430 all species →	TBC1D23_C	TBC1 domain family member 23 C-terminal	Domain	Interproscan
PF00581 all species →	Rhodanese	Rhodanese-like domain	Domain	Interproscan
PF00566 all species →	RabGAP-TBC	Rab-GTPase-TBC domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001763 all species →	Domain	Rhodanese-like domain	Interproscan
IPR000195 all species →	Domain	Rab-GAP-TBC domain	Interproscan
IPR045799 all species →	Domain	TBC1 domain family member 23, C-terminal domain	Interproscan
IPR039755 all species →	Family	TBC1 domain family member 23	Interproscan
IPR036873 all species →	Homologous_superfamily	Rhodanese-like domain superfamily	Interproscan
IPR035969 all species →	Homologous_superfamily	Rab-GAP-TBC domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13297 all species →	UNCHARACTERIZED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005802 all species →	Cellular Component	trans-Golgi network	Interproscan
GO:0042147 all species →	Biological Process	retrograde transport, endosome to Golgi	Interproscan
GO:0099041 all species →	Biological Process	vesicle tethering to Golgi	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
K22555	TBC1D23; TBC1 domain family member 23	-	Membrane trafficking	ko04131	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000016625.1 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

5TPM > 0

7Conditions

0.1Max TPM

0.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	0	0.00	0.00
Whole	6	4	0.05	0.09
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	0	0.00	0.00
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	0.01	0.01
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	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	0.09
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	0.08
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	0.07
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	0.04
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397	0.00
SRR10058804	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	0.00
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	0.01
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	0.00
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.