Gene detail

Detailed information of BRAKERKREP00000001656.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: XP_047136920.1, integrin alpha-7 [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

BRAKERKRET00000001656

ATgtggagaaatttttttggcatGGTTTTAGTTTGGGCATGCAAATATATTGTTTGTTTCAATTTGGACTATGAGTACACTGTTTCCAAACGTGGTCCTGCTAATAGCTATTTCGGATTCTCTGTCACTGAATATTTAGATGGAAGTAAACCATGGATTGTTGTTGGTGCTCCTTTAGCAAATAGCAGTTACTTAAAAGGCTCAGATAGTTTGAAATCAGGAGCTGTTTATAAATGTGATGTAACTAGTCCAAGTAGTGACTGTAGTCAACCATCAGATCAAATTAGGTTTGATGAACTTGATAATACAGGCCGAGAAACAAAGTCTGGTCAATGGTTTGGGGTTTCCTTAGATACCAGTGGAGTTGGACAGCCAATTATAagTTGCGCTCATAGGTATATCAATCACTTCAATGGCCGGTACAGGTTATTGGAAGGAAAATGTTGGAGAGTTGATGAGAAGTTTTCATCAATAGGTGCGATTAGTCcatgtcaaaagaaaaatcaagagGAAAAAAGTTCACTTTTAAACTATGAAGTGTATGGTTGGTGTCAAGCTGGAGTCGGACTTAAAGCTTTGCCTGAggCAGATGATGAAAATCGTTATTTGATAGGTGCAATTGGGTCAAAGAATTTTATAGgtttttctgttgtttatGGTAACTTCTTTTCATCAGATGTGAAAGcttttgcATCTGGTGGGCCTCGGCACCAAAGTTTTGGAAAGgTGCTAATCTACAAAGATGTTATCAATCAAAACCCCTTTCAAGAACTACCTGAAACTTTTGATAAGTTCCAAATTGCATCTGGCTTTGGAATTGCTATATGTGCTATTGATTCAAACAACAATGGACTTTCAGAGTTAATTATTGGTGCGCCATTCTATGCTGATTCAATATCAATATACAACCATGGAAAAGTTTATgtctatgaaaaaaatctgaagggtAATAAACTTGAACTAATAAAAGAGCTTTTTGGCAAAAGAGATGGTGTTATTGAACTCAATGCCCATTTTGGTTATGCACTTGCAAATGCAGGCGATCTAAATAAAGATGGTTTTCCAGacTTGGTTGTGGGTGCCCCATATGAAGATGGTGGTCAAGGAGCAGTGTATGTGTTTCAAGGTTCCAACAATGGTCTTATTAATAAATACTcacaaTATATCAAGGCATCCTCGGTTATGTCAGGTTTAACAAAGAGGTCTCTTATTGCTCCTTTAAAAGCTTTTGGACGTTCATTGGCAACCGGATCAGATCTAGATGACAACAGTTACAATGATGTTCTTGTCGGTGCTTATGCTTCAGATCAAGTTGTTCTTCTCAGAAGTCGCCCAGTGATCCAAATTGATGTTAAAATTACCTTTTCACctgaaaaaatcaacattagtGATCGTCAATGCATAATCAATGGAAAGCTTACACCCTGTTTCAACATGACCTTTTGCTACAACTTCTCTGAGAAAAATGCCAATGTTTACAAAAGTTCAGACCAAATTCctgtaaaatacattataattGCCGATGCAATGCAAAGGTCAAGAATCAACTTTTCTCCTGGAAAAAGCCAGATAGAATTAACAAAGTTGACATCAAAGAATACAAACTGCATTACTctttacaaagtttattttgtttataataaggATGgcattattcaaatttatccTGATATTACTTTTGATGTAAAGTTCTCTATTCCTTATGGTGAAAATGAGTTTCCTAAACCAGCTGTTAGTGATACAAAAATTGTGAGCTTAGACAAATATCCGTGTCTTGATGAAAGCTTGTTAGGTGAAAAAGCTGAGCACATAAAAAGAATGAAGctcgCTTTTCAGAGAGAATGCTCTGACTGTATTCCAGATTTGTCTCTACACGCACAAGAACGCCaaacatTTCGTTTGGGGcgaaaaacttttacaataaatgtAACCTTAGAAAACAGAGGACGAGATCCAGCCTTTGATGTTGTACTAAGATTTAATTTTCCTAAAGATATCTCACTAGATAAAATCCTTATTAGTAATgtACCAATATATTGTCAAAATGACCTCTGTGAGATTactaataaatttgaaaaagggAATAAGattGTCGTCAGCGTAGAATTAAACATGAAGAACTTTGGGCCAGCGAGTCAAAACAAAATGCAGATGAATGTTTCTTGtgcaAATCAAGAAAATGGTACACTTGGCGACAACTcagtagatatttttttcaatgttaaagTAGAAGCAGATGTTGAAATACTTGGTGGGAAATCAACACAACAAGTTACCTATGGCGGAAAAATTATGGGAGAAAGTGCAATGAGAAATGTGGATGATATTGGAGAAACTGTTGAACATAAATTTGTTATTCACAATATTGGACCTGATACTGTTCCAAGTGTTAATGTAACTATTTCCTGGCCCACTGAAGTTGTTTCTGGAAAACACCTGCTATACCTAACAGAAGTTATAACTGCACCTAGTACTGTTCAATGCGTTGTCTCTTCTCTAAATCTTCTAAATCTACagggTGTGTCAAGATTTGCTGGTGGCAGTGAAAGTCGTGGAAATAGCAATGCaatctCGAATGCAGATATATCGCGAAAGCGTCGTGATCTTAGCGATACAACCTCCAGCAACAGTACAACAGATAAAGAAAACAGAAAGAAAGATGGCAGAATactaaattgTAATTCGGCCAGATGTATACCAATTAGATGTACAATTGAGAATTTTTCTGTTACCCAAACTGTGTCTGTAACTGTTCGATCCAAGCTATGGCGATCATCTTTGCTTATTGATTATTATGGTGAAGTTCTAACAGTTGTTTCTTATGCTGAAGTCACCGTAGGTGTTAATGTCTCATATCTTGCTGATACAAATACTCAAAATAACGCTGTAGAGatatttacaaatatcCAACCAGTTTTTGCACCTGTTTCTAAAGAGAAGATAGCGACTTGGATGATTGCACTTGCTGTTATTGCTGGTGTAATTCTACTTGCTCTGCTTGTTTTTGGATTttacaagcTTGGATTTTTCAAACGAAAACGAACAATAGAAGGTAAATATGGAAAGAAACAAGAAGATAAATCAGATAAATTACTTCTTAACAACAAGCGATAA

Transcript

BRAKERKRET00000001656

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P26007	Integrin alpha-6 OS=Gallus gallus OX=9031 GN=ITGA6 PE=2 SV=1
B8JK39	Integrin alpha-9 OS=Mus musculus OX=10090 GN=Itga9 PE=1 SV=1
Q24247	Integrin alpha-PS1 OS=Drosophila melanogaster OX=7227 GN=mew PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000604 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01839 all species →	FG-GAP	FG-GAP repeat	Repeat	Interproscan
PF08441 all species →	Integrin_A_Ig_1	Integrin alpha Ig-like domain 1	Domain	Interproscan
PF20806 all species →	Integrin_A_Ig_3	Integrin alpha Ig-like domain 3	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR028994 all species →	Homologous_superfamily	Integrin alpha, N-terminal	Interproscan
IPR013517 all species →	Repeat	FG-GAP repeat	Interproscan
IPR032695 all species →	Homologous_superfamily	Integrin domain superfamily	Interproscan
IPR000413 all species →	Family	Integrin alpha chain	Interproscan
IPR013519 all species →	Repeat	Integrin alpha beta-propellor	Interproscan
IPR013649 all species →	Domain	Integrin alpha, first immunoglubulin-like domain	Interproscan
IPR018184 all species →	Conserved_site	Integrin alpha chain, C-terminal cytoplasmic region, conserved site	Interproscan
IPR048286 all species →	Domain	Integrin alpha, third immunoglobulin-like domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23220 all species →	INTEGRIN ALPHA	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0007155 all species →	Biological Process	cell adhesion	Interproscan
GO:0008305 all species →	Cellular Component	integrin complex	Interproscan
GO:0005178 all species →	Molecular Function	integrin binding	Interproscan
GO:0007160 all species →	Biological Process	cell-matrix adhesion	Interproscan
GO:0007229 all species →	Biological Process	integrin-mediated signaling pathway	Interproscan
GO:0009897 all species →	Cellular Component	external side of plasma membrane	Interproscan
GO:0033627 all species →	Biological Process	cell adhesion mediated by integrin	Interproscan
GO:0098609 all species →	Biological Process	cell-cell adhesion	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

No KEGG orthology assignment for BRAKERKREP00000001656.1.

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000001656.1 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

1TPM > 0

7Conditions

0.0Max TPM

0.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	0	0.00	0.00
Whole	6	1	0.01	0.04
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	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
SRR10058803	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
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	0.00
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	0.00
SRR10058807	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	0.00
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.