Gene detail

Detailed information of BRAKERKREP00000019463.1 in Hydra viridissima

Genomic Location: QPEY01000169.1:209870...227297
NR annotation: XP_047133171.1, protein fantom [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

BRAKERKRET00000019463

ATggcaacaaaattattaaaacttgtcAAAGatagaagaaaaatacaagaaGGAGCACCTGTGAATGTAGTTGAGCTGCATGAGAAAGTTGAAGAACTTCAATCAAAAGTCTTTTctcttgaaaaattgaatacaCTTCTCAAAAAtaagCTGGAAGTCAATCGACAGCAGCTACAAACCCATGGCAAAAAGACAACACCTTATGATCACATACAATCACGAGTTAATGCAGGTcccacaaataaaaaatcgaCTTCAGCTGCTCTCCGTGAACAGAGAATAAAAGAGCAAATAAGGGTGCAAGGAAGCCCACTTCCTCCAAAGGATTCACCACAATACAGTTTGCCTTATGATCAAAGCTCACCTAGGGCACGTGCCGCCCTACCAATTCTTCCGCAACCAAGatatggTCATAGTTTGCTTGAGGAAAGCAGACTTGAGAAATACGAGTTGGATAATCTTGTTGTGAGTCTTCAGAATCAGTTGCATGAATATGagcaaaaagtaaactttCTGCAGGAAGAGctttttaaaaaagagttaaagCATGAAGAAGATATGCAAAAACTTCGTTCATCAGGGACTCATAATCAAAAAAATGCAATCAGAGAAAATGTAGAATTAATTAAACTCCAGCgagaagtaaaagaaaaaattgcaaGTTTGCAAAATTTGCAAAGCAAGTATCATAACCTTGAGGagctGATGAACAAAATGAAAGTGAGCCATAATCAAGTTCTGGAAGAAATGGAAAACTTAACGTCAAAATTGAAAGATGAACAAGTAAAGAATTCACTTTTGCAAAGTGAATTGAGTCATGGAAATATAtctcaaaaaacattaacccagaaagaagaacaaattaatgatttaaaatctgAAGTTCAACTTCTTAAAGAAGCTCATGATAAGTTGCTGCACAGtACTTTTGATATGGAGAAGGACAGAGAATATCGAGCAAAGGAAATCCACTATCAAACAAAAATTACACAACTAGAAGCTACAATTAAGTGTGATGTCAGTGAAAAGAATGAGATTTTAGACAAACTAACTAGTGAAAGAGataTAAGCGAACATTCCAAACGACAACTGCGtgaattacaaataaaatattatgatttACAAGAGCGTCATAATGATCTTAtggaaaaaatgaagttttttagtaGTGAAAGTGCTGTTGATTTCAATGAAGTCCAAGAGGCTTTGCTTCTgattaagACTCGCAAAGAAAAGGAAAACCAAGACTTGCTGTTTATAGACAAAGCAGAGAATCAAATAGATAAAGATTTGCGCAAGGAAATTCAAGAGTTGCATGTAAGCCATGCTGATACCATTAGGGAGCTAGAGAAAACAAGAAGCATGCTTGTTTTACAACATAACATTAATAAAGATTATCAAAAAGAGGTTGAGGTGACCACTAAAAAAATGGATGAATTAAAGCGTGAATGTGACATTCGTGTTAAAGAATATGCTGAACTTCTTGACATTCGTGCTGATCGaatcaaaaaattagaaTCACAGTTGAGAGATGTTGCTTATGGCacaaaacaatacaaaatcaaaaaagatgatacaGTTCTTGAGGAAGATGAACAAGATGTGGATTTTCAGCTAGAGAGAGGAGagaatatatttgaaatacattttGGAAAGgcTAATATTACAAAAGATGGTTTGGAAGAATTTAATGGAAGTGAGTTAAGCACATTTTTGtcatatgaattttttgaacatGAATTGCAGACAACGCCACTAGCTTTTGGCTCAAATGTTGACTTCAACCACACCtcaatttataaagtaaaagtggatgatttttttcttcattacttGCAAAAAGAAGCAATGCTGGTTGAATTCCATCAAGCTTTTGGCATAGAGTATCGAACTGTTGCTAAATCTAGTATACATTTTAGTCAATTACTCGATCGCAGTTATGGTAGATTACATGGAACCATATCTTGCATGGGTGTTGAGAGAAATAAAGAGATAGCAGTAGTGGAGTTTTGGATTAGGCTGCGTGTGCCAATGGAGCAAGCACTGCGTCTTTATAAGGAACGTACAAAAGCACTGGGATATGTGACCTCTAAAGAGTTGAATCAACTTGAAAACCCGACCAATCAGTCCCTTCGTGATTCATCCATCAATGAACTTCTTATTAGTATTAAGCAATGTCAACAACTTATTCCTAAAAACAAGGATGTCCAACCATCTTCCTATTgtgtttataagttttttgattttgctgATCATGATACAGATATTGTGAGCCATTCTAACTCTCCTCAGTTTCATGATGACTGTATATTTCCTGTTCCTATGACAGAAGAACTTGACAACTATTTGAAGAATTCTTCACTTGAGGTGTATGTATTTGATGATCTTGATACAGATTTAACTTCTTATATTGGCTTGGCCACTGTTCCTTTAATTACACTTGCTCAAGACAAACCTCTAAAAGGAAAGTTTGAACTGATCAGTGGAGTTGATGGATCATTGACTGGAATAATTGAAGTGGCACTCTCTTGGCAATATACATATCTTCCTGCTAGTGCAAAGAAGGCAAGAACTTATCCTCAACCCATTGACACCAGAACAGATCGTCAGGGTAGTCCAATTCAACCTCATAAAAGTGGAATGGTACCAATAATGACATCAGGAAAGCTATTTGAGCCTCAAGTCTTGAAGGCTGATAAGGATATGGATTCTGTTATAAACCCACCATTTGACCATGAACCGCACAAGATAGTATCTAGTAAAAAGTCTGcttcaaatgaaaaatctgTTTCTGGCAAGCGTGTTtctattattgaaaaagtaaaagatgaaATGCAAGTTACTGTAGATGATGCAATGCTGAACGAATCACTTAAGACAATGGATATTGGAGAActaatatcaaaaactaataaccagttaaataaaaatggagaaGCTTATGATACATCAAAAAAGGCTGAGGCTGGAGATGATCACAGAGGAAATGATGACGTTTTTAATGCGGGTGATACAATGTTTGAAGAGTCAGgttctgatgaagatgatgatgatgttgtTGTTACGTCAGCCCGTTTAGTAAAATCTCTAATTGATAATCAAGTCGAGAGCTCAGAGGGAGCTGAAGATACAGAAGACGATGCTATTGTATcttcatctttttcaaaagatagGAAGATAAATACTTTGCccGTGCCTCAAACTGTTGTAATAGAGATCTTAAGTTTAACTCTGTTCGAAGATGCTGCTCTCTTAAAGATGAAGAGGATTCAGCAGTTGTTCATTTCATACAAATTCCTTGATTTTGATCCTGAAGAGTTGGAAACGCCGATGTCTTTACCAAAGCCCAAACCTAACAGACCCATAtcgtttaattttaaaaaagTGTTCCATTTGGATGGGGAGAAAAATAGTAAATCAAGACAACACTTAATGCATCTTCTTATGCCAGATCATCCAAATGAAGGGAGgttatttTTTACCGTAGTTAGTGATCCTACTGGTGACACTGAGGGAGATTGTGAAGATGTAGGAATCGCTTACGTGGATCTCATAGAAATTTTGCGTAACGGTAAAGATGTCATAGAAGAAGATATTGAAGTGTACGATTTGATTGGGTTAGAGAACGAAGTTATTGGTTCTCTTACTGTGACTGTAGAGGCGTTGAACGTATTGAGAAGTCTTTATGAAGATTAG

Transcript

BRAKERKRET00000019463

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8CG73	Protein fantom OS=Mus musculus OX=10090 GN=Rpgrip1l PE=1 SV=2
Q68CZ1	Protein fantom OS=Homo sapiens OX=9606 GN=RPGRIP1L PE=1 SV=2
Q9EPQ2	X-linked retinitis pigmentosa GTPase regulator-interacting protein 1 OS=Mus musculus OX=10090 GN=Rpgrip1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003431 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF18111 all species →	RPGR1_C	Retinitis pigmentosa G-protein regulator interacting C-terminal	Domain	Interproscan
PF11618 all species →	C2-C2_1	First C2 domain of RPGR-interacting protein 1	Domain	Interproscan
PF00168 all species →	C2	C2 domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR031139 all species →	Family	RPGRIP1 family	Interproscan
IPR035892 all species →	Homologous_superfamily	C2 domain superfamily	Interproscan
IPR000008 all species →	Domain	C2 domain	Interproscan
IPR041091 all species →	Domain	RPGRIP1, C-terminal	Interproscan
IPR021656 all species →	Domain	RPGR-interacting protein 1, first C2 domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14240 all species →	RETINITIS PIGMENTOSA GTPASE REGULATOR-INTERACTING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0035869 all species →	Cellular Component	ciliary transition zone	Interproscan
GO:1905515 all species →	Biological Process	non-motile cilium assembly	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
K16550	RPGRIP1L; protein fantom	-	Cilium and associated proteins	ko03037	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000019463.1 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.