Gene detail

Detailed information of BRAKERKREP00000016655.1 in Hydra viridissima

Genomic Location: QPEY01000109.1:683305...696300
NR annotation: XP_047126017.1, latent-transforming growth factor beta-binding protein 1-like [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

BRAKERKRET00000016655

ATGATCAACAACGTAATTTCTTATGTGGTTTTCctctttcaatttattaattgcGCTACTTTTGGAGGATATAATAATGCGCAATGGAtggtttctgaaaaaattaattctaattTGGGAGTTCCATTTCTGCATAAGCTGAAttatcaaaaatctaaaatactTGATCTTCTGACACAAAATGGATCAAAGCTGCCAAATAATTCCTGGGTTAAGTTTCAGTGGAAAAGTAATGAAATATACGGACTTCCTTTAGAAGGCAATCAAGGTTCTTCAACTTTCTTAATCAAAAGAACAACTAGGGAAGGTGTATCATTCCAggagttaaatatttttgttcatgAAATGCAACAAGAATTTTTCCATGAAGTAAAACTGTGCACGTCATTTAATCACgagacatttttaaacaacttagaCAATCGGTACTCTCTTGCCAAAATATTAGCACAGTATTTGTTGGACACTGATGTACAAAATATTAAggtaagagattttaaaaaaagctgtttaaGGTTTTCTTTTCTGCATGTCGATGATGGAAAAAATTGCAAtagagaaaaaatgaaagaactGTCAAATAAACTGCATCCAGAGGTTGCACAGGAACTAAGGGATAGATTATCGCATATTGTGGCAGTGTCTGATGTAAACTTAACCTTGGCCGGCGAATGCTTGAGCCCACCTGCTGGCAAGTCCCCGTTCAAATGGCTAAAATCAGCCACTCCTTTTCTTCTGTTAAGTGCTATTATATTCATACCAGTAGGTATTTCTTGTTATGTCTGCAGAGCAGTAAGATCGAGGAAGAATGCTCTGCGTCTATTGTCAGATAAGAAGTTAAGAGAAGAACAAGCGGCTATTGCCGAAGAAATTAAAAGGTTTACggaattttgtaaattacacGAAGATAACGTCGAAAGTGAACAAGAGTTGTTCACTCCAAAATGGGATTATTCAgctcaaaaaaacaaaaagacttttattgaaaatattttgggaCAATATACTCCTTATTCTAAAGAAAACGCATTTAACCAAAGCAGTTCTATATCGTCAAATAACAATTCTGATGAAAACAAACTGACGAGCACTAAATCTTTGAACCCAATATCTAGGTACTTTCGTATTTACACACCAGCAGTCAAAAAGCGAGAACAAGACCTTTTGCaagctaaaaaattgaaaagacaAGCATCAATTCGAAGCAACATGAACGGTATGCATATGAAAAAACCAACGCAGTATTTAACTGTACAACGCTCGGCTAAGCGAGCAAGTTTACAGGATACGAGTGAAAGTCACTtgttaaaagttgaagatgaaaaatacaaaaagtctGTTTCATTTAATGAGCTGTCAGATTTGACtcaaaaggaatttaaaaatacaagctCTCTGAGCGCATATCGAAGAACGTCAAAATGCTTTGATACCATGCCGTCTTCTTTTTCGTGTAGTGCTGTGGATAAAATTGATTCTAAATGTGACAAATGTGTAGGGACATCGCAAGAAATATCTGTAAACAGAAGGAAATCTATCCTAATAAACAGCGTCAGCAGCTTTCTTCTTTCGAAAGCAACACTTTCAGCATCGAAGAGCGGACTTCATAGTCCCCCGCCTACAACcgaaaaaaatgtttcgttACCTCCTTTTCCGAAattagaagaaaagaaaacaaattgtttgcTTAGTaacgaaattgaaaaaaatgatgaaaatcagGAAATAAGAATAGAGAGCATTCCagtttttccagttttaacTAGGAAACAACGTTTTATAAGCTCGCTGAAGAATATTGCAtttgttggtaaaaaaaaaatctctcaatCAGTACGAGAAACGTTTATTGCTAAACAGAAACATGATGCAGCAACCAACACGTTAGCTGTCGATAACGAAAAACCATACGCAGGAACATCGATAAATTTGTACTGTGACGTTCAAGAAACCGCTGCCAAATGCGACAATCCAGAAAATCATCCTATTGTTAGCATTTGCTGTGCTTCCCCAACAAACTGTTTTGATACCGTTCATGTTAAAGATAACGAGGCGAAGAATTTTGCGAGCAGGTCAAACTTAACTGTAGATAAACCGTTTCCCTTCCTCTCAGAAAGAGAACTTGGAAAAATATCATTGAACAACTCAGAGAAAAACAACGAAACCCAATTCATTTGCAATCAAAACCAACCATGTTGCAATATTTCAAACTACAGTTTCAACCAAATTTGGgatgaaaaagtaaatcaaaacaatctccgagaaaattttaaatcatcttCTAACTGTATTCTCTCTCAAGATCTAAAGGAGCATCACGACAAACGAAAAAGATTTTCCCTCCAAGACAATCAAAGGTCGACAAGTGAATCAGTGTTAACAAAAAACGAGCGTAACAAAGTGAGATCATTCAATAAAACATGCCATCAAAGACCATTGGCTGAAAATTTACTAAAGAGAAACTGCAATGCAGATGAGTTTGGATGGCCTCGGCATCAAACAAGCAAATCAATCCTGACATCCACCAACCCTTATCCTCGATTTGATTACGATACCCTGGATAATGAAATTCGCGTCAGTAACTTTAGCCCAACTCAAGATGCAGATTATCAATTTGTTTCATCTAATTATAACTCAAGCAGCGTTCACGATTCTGAAAGCTCTGATCCGAGCTACTCTTCCACATGCACGCCAATAAGTTCTGATACTCCGATACCTTATTACCATAAACAAATTGCTCAAAGGACGCTCAGTGCAAAAGATCGGAGAGATTTGTTTAGGATGCAACGTTCAAGAATTTATaggaatacaaaaaatgcaagCCCAGTTATATACGAGGATAGTATTGTTGGAGACATGAATAGTTGGAGTTCAACCGTTTTACCCTCTTGTGGagataaaaacaagtttttgttaCGAAAAGGTTCGTGGCAAAAATACCATCATAAATACGAATCAAGGAGCTCAGAAAGCATAGGTACGTTAGGCACTTATTTAGATCTAGGTTCTGaatatgaattaaaagctGATGCAATACCATTATATGAAAAAGAGTACGCCCGTTCTTCTAGTACCTCATGGAATAATGAAACATTCGTGAAACGCGGAGAGCATGAAATATTTGAGAACTATAAATTAACCAGAACGAGTCCCACTTCGGTTCCTGGAAAACTTAATGCATATTTTCAgccaaaaatatataaatctcGAGCTAAAAATAACAgGTTTTCATTATCATCAGAAGACCCTTCAAGTTGTTGCAAAGATGGCTATGCTAGAGGAGCTGAAATTTTGCTTACTGATGTGACATGTACAGCTGATGCAtcattagataaaaaatttactggaGTCAATGCTATTATGTGTCGtggtttttttcaacaatgttGTACAATAACAGCCCAACAAAACTTTTGTCAAATGGGTGAAAGATTAGctcaAGCAAATTACTTATGCGTGACAAATTATCGTGTTGGAGGAGAACATCAGAAAATTTGCTGTGATTGCTGTAAAGAGGGCATAATACATGGTCAAAATGGTGAAGAATGTACATATAGTACTACAAATGATactgtttgtaaaaaatcatttgaaaaatgctGTAACAGTGTGGTAAAGacagaaaaggttaCTCTTtctccaataaaaaaagatttgtgcTCAGAAACTACTTGTGATAAACGCTATTCAATTGGATGCATTTATGACCAAGGCAACATTAAGTGTGTATGTAAAAATGGGTTTTATTCAAGTGATCGGCTAACCTGTTTGgATATTAATGAATGTGCTTCAAGTGTTTGTCCAACAGGAGCTTTATGTACAAATACAGTGGGAAGTTTCACATGCACCTGTGGCGAGGGATATATTATGAGTGATGCGGCTTGTGTTTTACCAGTTGCTAGTAAATGTCAGAATggatatatatttaaagatggGATATGTCAAGatgaAGATGAATGTTTAAGCCATACACATCGATGTCCAAAAGACTTATACTGCCTTAATGAGATAGGAGATTACAGATGTTTACCAAACTGTCAACAGcctttttatcaattactaCAAGACAATGTTTGCCAAGatgTAGATGAATGTATGGAAGGAACTGCAAAATGCACCAAACACTTTCAGTGTGTTAATACACAAGGTGGATATGATTGTAAACGAACCAAATGTGAAAAGGGTTTTAAACTTATTGATGGATACTGTGAAgacaCAAACGAGTGTTTAATTGATAGAGCTAATTGCGATTATAAATGCATAAACACTAAAGGCTCATACCGGTGTACTTGTCCTAAAGGCTATGAAGTTAGGGGCAACTATTGTTACGatattGATGAATGTTCTTCAAGTCCGTGCGCTGCCGGTTCCTTTTGTTTCAACAACTTTGGATCATTTGCATGCATCAATCAAACATGCCCCAATAAGTTCTTCAATCGAGTTGGAAATAAGAATAGTGAAATAGCAGCATGCAGAAAAGTAGATGATTGTCAAGGAAGTAAAGAATGCGATGCAAATCTTTTGcaatctgttaaaaaagttgccTATAGATTTTACGACAAAGTTCCTATAAGAGGATTCCTCTTCAATTATTGGACAAGTTTCAGTAGACAATTTTACACTGTGAAATCGGAACTTGTCAGCGgTAACAATGATGGTTTTTTTACGATTGAAAATGTGTccaatgaaaaaatacaaatctaTAACAGTAAAATCATAAATGGTCCACAGCAgattcatttgataatgcgAACTGACGTTTCAACGCATAACAAAGTGTTATTATGGCAATACGAATAtcatatgtttttatatgtatCAGAATATAAGTTTAATTAG

Transcript

BRAKERKRET00000016655

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q5Y4N8	Adhesion G protein-coupled receptor E2 OS=Rattus norvegicus OX=10116 GN=Adgre1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008196 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF07645 all species →	EGF_CA	Calcium-binding EGF domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000152 all species →	PTM	EGF-type aspartate/asparagine hydroxylation site	Interproscan
IPR018097 all species →	Conserved_site	EGF-like calcium-binding, conserved site	Interproscan
IPR000020 all species →	Domain	Anaphylatoxin/fibulin	Interproscan
IPR009030 all species →	Homologous_superfamily	Growth factor receptor cysteine-rich domain superfamily	Interproscan
IPR049883 all species →	Domain	NOTCH1 EGF-like calcium-binding domain	Interproscan
IPR050751 all species →	Family	Extracellular matrix structural protein	Interproscan
IPR000742 all species →	Domain	EGF-like domain	Interproscan
IPR001881 all species →	Domain	EGF-like calcium-binding domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24034 all species →	EGF-LIKE DOMAIN-CONTAINING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0005576 all species →	Cellular Component	extracellular region	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
K17307	FBLN1_2; fibulin 1/2	-	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 BRAKERKREP00000016655.1 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

23TPM > 0

7Conditions

3,180.0Max TPM

906.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	13	348.70	887.38
Whole	6	6	1,701.29	2,315.30
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	3,179.95	3,179.95
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	2,659.10	2,659.10
symbioic hydra M9 strain · symbioic hydra rep1	1	1	1,858.64	1,858.64
symbioic hydra M9 strain · symbioic hydra rep2	1	1	2,091.60	2,091.60
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
SRR21134061	whole body	whole body	not recorded	not recorded	SRP392977	887.38
SRR21134052	whole body	whole body	not recorded	not recorded	SRP392977	876.12
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977	846.05
SRR21134065	whole body	whole body	not recorded	not recorded	SRP392977	828.44
SRR21134050	whole body	whole body	not recorded	not recorded	SRP392977	717.50
SRR21134053	whole body	whole body	not recorded	not recorded	SRP392977	602.08
SRR21134059	whole body	whole body	not recorded	not recorded	SRP392977	595.50
SRR21134051	whole body	whole body	not recorded	not recorded	SRP392977	532.79
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977	261.83
SRR21134056	whole body	whole body	not recorded	not recorded	SRP392977	125.34
SRR21134054	whole body	whole body	not recorded	not recorded	SRP392977	3.14
SRR21134055	whole body	whole body	not recorded	not recorded	SRP392977	0.29
SRR21134057	whole body	whole body	not recorded	not recorded	SRP392977	0.17
SRR21134058	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
SRR21134066	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134067	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	2,315.30
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	2,143.84
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	1,899.01
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	1,572.85
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	1,166.37
SRR10058802	Whole	Whole	not recorded	not recorded	SRP220397	1,110.37
DRR048593	aposymbioic hydra M9 strain · aposymbioic hydra rep1	not recorded	not recorded	aposymbioic hydra rep1	DRP003902	3,179.95
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	2,659.10
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	1,858.64
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902	2,091.60
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.