Gene detail

Detailed information of BRAKERKREP00000019784.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: AAC63362.1, head-activator binding protein precursor [Hydra viridissima]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

BRAKERKRET00000019784

ATGGCGTACGTGCGCATCCATAAAGTTTCGCATaataattctctttttttcttactttttattgCTGTATTCCAGTTTGTAACTGTTAATGTATCAAATGCTAGTTCCCTTTCTGTTAACCCATCATTCTTACCAAGAACGCGTGATGGTAATCGGGAGaaatttcacataaaaataaacgtGAATGAGGAATTTAACTCAACACCAAAAAATCACATTGCAAGCAGCTTTCGTCGATACATTCGAAGTGCTGCCACAGAACTGCCTCAAAGTACACCATTTTCGTTCAATGATTCTCATTATATTGCTAAAGTTCATTGGTCAGGAAGCAACAGCTCAACAATTCTCATCCTTATGACTGATCCTGACTTTATGCTTAGCAGTTTAAGGCcaagttatttttacatatcacGAGATTAtggtaaaacttttaaaaactataccGATGACCTAATTCTTCCTAACAGAACACATGCTGTagttacagattttttttcaagtagtgctgataataataaatatatattggtAGCAAAATTTcaccaatatatttttcagtcAGACGATGAGTGGAATTCATTTCAACGAGTTGCTGTTCCTTTTAAACccatagaaataaaatatcatcCAAGAAATGCTTATTATGTTATGGCTTATGAAAAAGATGAAGGAAACAAAATGTTATATGTGTCAACCAGGAATGGCAAATCATGGCAATACAAAGCTTCTAGAGTTGTCAATTATTTCTGGGGGTATGCGCCACCCTATGACTTAGGAATTGATCTTTACTTTCAAAGAGAAAAGTATTATGATTATGGCGGAATGGTCCATAAAGCATCTCCGTGGGGTTTCTTTTCTTCAAGTGTTATTGCATATGATGTTGTTGATTTCAAGCTTGTTGAGGAATACATGGGGTATGCGCCACCCTATGACTTTGGAATTGATCTTTACTTTCAAAGAGAAAAGTATTATGATTATGGCGGAATGGTCCATAAAGCATCTCCGTGGGGTTTCTTTTCTTCAAGTGTTATTGCATATGATGTTGTTGATTTCAAGCTTGTTGAGGAATACATgtttattgtgaaaaatGGAACAGACCCAACATATAAAACATTGCAAGTTTCTGTAAACAGAGGCGAGTTTCAAAATACTACATTTCCTATTCAAAATGCATTGagCTACATTATTGCAGATGCAACTGAAGATGAGGTAATGGTGGCAGTTGCACATGAAAAAGCTGCCAATCTATATATCTCTGGAAGAGATGGAACTAAGTTTAGTTTGTCGATGACAAACATCTTgtattataatgaaaatgatggCAGGAAAAGGTTTTTTGAACATGATTTTGTGGAGTTATACAAAGTTGAAGGAATCTCTGGTATTTACATTGCTACACAATTATCTAGTGAAGAAGTGGGTCGGAGGAATCTTCAATCATATATAACCTTTGATAAAGGAGGAGAGTGGTCACTTATCAGGGCTCCTGTGGATTCTGAAAATTGCAGCATCGAaagTAGATGCTCACTGCATATCTCATTAGAGTTTGGTTATCATAATCCATACACTCGATTCACACCtgctttttcaaagaaatctgcTCCTGGTTTCATAATTGCTActgGAAGTGTTGGTAGCAGTCTGACCTCATCCCCCTCTGTTTACTTTTCAAGTGATGCTGGAATCAGTTGGAAGAAGatctTTGATGGTAATTACTATTACGCCTTTGTTGATCATGGTGGTGTGATAGTAGGTGTTGAAAAGTATGGCATGACATCTTATCTTCGATATAGCTATGATGAAGGGAATACATGGTATTCATACAATTTTTACAAGACACCATTAAGAATCTATGGTTTGTTAACAGAACCTGGAGAAAAAACTACAGTGTTCACACTTTTTGGATCTTTGCCTGAAGCACATTCTTGGATTGTTATACAAGAAAAAGATTATAAGACCTGGGAGGTAACAGACCTGCGTAACAGTACTCAACACTGTTTACTTGGTAAAAAGCAAATATACAAGCGTCGTGACCCAACTTCACTATGTTACAATGGATATGATTATGACCGTCCCATATCTTCCTTTCCATGTCTTTGCACCAGGGAAGATTATGACTGtgatTTTGGTTTCAAATTATCTTGGAAAGGATGGTCTAGTATTTCTTGTGCTCCTGACACAGACAACATTTTTTCTGCTAATCAGACCATTCCTGCCTGGTGCAAACCAGgaaaattttacaatcatTCTACTGGATACCGCAAAGTCCCTGGTGATGAATGCAATGGTGGCATCGAAGATCAATTAAACCCCATACTTCGTGCATGTccaataaaaaaGTCATCTGAATACTTGTTTTATTCAACAAGAAGAAACATTTATCGCTACGATTTTGTTACGAAAGAGGTGATTGAGTTCGACTTGAACGACATGAAAAATGTGGTATCTCTGGAAGTCGATTACaattcaaatgttttgttttacgCTGATATCATGCTTGACAAAATTGTCGTTATGAATATGAATACAGgcaATATTTCTGTACTTTTGCAAATGAACAATTCGGTTGTTCATATAGAAGCTCTTTCATATGATTGGATGAATGGCAATCTGTACTATTGTGATGCAGGATTGGCAGAAATAGGAACaataagtttacaaaaaaaatatagaaaagttcttgtaaaaaatgatacatTAGATAAACCCAGGGCTTTGGTATTGCATCCTCAAAAAGGTTTTACCacagatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgatgNaaGTTACAACCCATGCAGTTCATCCAGATGTAGTTTTTGGTGTTTGCCTATTGCTGATTACCCAGGGTACCGATGTACTTGTCCTGACAATCTTGTTGATAATGGAAATGGCAACTGCACATGCCCAGGATCTGAGGTCTATCAAGATGGGGAGTGCAAACCAAAGTTAGATTGCATGGATAATCAGTTTAAATGTACTAATGGTGATTGCATTCCGTTGACTTGGAAGTGTGATATGGATACTGATTGCAATGATTCATCAGATGAAGACAAAAATATATGCaataaagtAAAGTGCAACGCTAACCAATTCACATGTGCAAATAATCGTTGTTTACCAAGTTTGTCATGGCATTGTGATGGTGAAAATGATTGTGGGGATGGTAGTGATGAAAAACATTGTTCTAACTGTACAGAAAGCACCCATTTCTTATGCCCAAATAATCGATGTATTTCTAAATCTTGGCTTTGTGATGGAGATAATGACTGTTCTGATGGTTTTGATGAAACTCCTGCTATCTGTGGAGCAAAAACTACTCAAATGCCATATACCGAACCCACACAGCCACAATTCTGCTCACAGAATCAattcaaatgcaaaaataacaattgtattgcttcttttttcaaatgtaatgGGTTAGATGATTGTGGAGATAACTCAGATGAGAGCTCTTGTCAATCCACATTCACCCCACCAGTAACATCACTTAAATGTGGTTTCGGTGAGGCGTATTGTGCAGATCGTAAAGagtgttatcaaaaaatatccaAATGTGATGGTATGCTTGATTGTCGAGATGGCTCTGATGAATATAATTGTAAAACCATGCCAACCACACCAATAATTGcCTGTACTGGTTTTAGATGCAAAACTGGTGAATgcatttcactaaaaaaagtttgtgacACGAGAAAGGATTGTCCTTTAGGGGAAGATGAGAGTATCTGCAAAGGAATGTtaaatgacGTTTGCTACCCTGCGCCCTTTGGTTTCAATTGCACTACTTTACCTGATGGCCGATGCTACTCACACAGTAAAATGTGtgataaaaactttgactGTGCAGATCTTTCAGACGAAGATCCTAAAGTCTGCGAGGTCACTAAGAGGGTATCAAATCTAGCCTTTAGCGTTAATCAAACTTCAGTTTTGTTATCGTGGGAACATCCTCCTGTTAAATTAAAGGATGTTGAGGGATATGTGGTTTCTTAtattgatgaaaaaaataaagttaccGAAATACCAATTGGTCTTCAGAAGTCTTACACCGTTACAAACCTTAAACCTTGCAGACAGTATGTGTTCGCAGTTGCCATCGCTCATAATAATGTTGAAAAGAACAAGTGGTTATACACTTCAACTGATCCCTTGCGGACCGGGGGGGTTAGAAAACCTGAGGGAGCTTATAATATTGATGTTTATCCATCATTTGTTTCTTGGACAGAAGATGTAGGAAATTGCTTTCTTcaatatgaaataatatacaaaatgTTGAAATGTGATCAAATAGTTGACGAAATAATGTTGGATGGAGATactagaattaaaaatatggatGCACTATTACTCAGTTATGGTGGAAAACTTCGAAACGCGTACAGTTGCGTTATTTTGATCGCATATGAATCTTCTGAAGGAAATCCCTTTAATCGTACATCCACGCCATTTCAGTACACACCTGTTGGAACTTTGGAAGCAGCTCCTGTTAAACAACAAGaaaatcaCAGTTCTTTCAAATCGAAGGCCATTATATGGGGTATTCCAGTAGCATTAGTACTGATTGCTCTGTTTGTTGGGTTATTTGTCATGATTTACAAATACCGACGTTTACAACACAGTTTTTTGGCGTTCGCGGCACGCGGAAGTTACGCGCATCAAGATGATTTTGACGATGATAATATGGTCGTGGGTTTTCACTCAGGTGAGGACGCCCCAATGATCAATCGCTTCTCAGACGATGAGCCACTTGTTGTCgcttaa

Transcript

BRAKERKRET00000019784

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q92673	Sortilin-related receptor OS=Homo sapiens OX=9606 GN=SORL1 PE=1 SV=2
Q98930	Sortilin-related receptor (Fragment) OS=Gallus gallus OX=9031 GN=SORL1 PE=2 SV=1
Q95209	Sortilin-related receptor OS=Oryctolagus cuniculus OX=9986 GN=SORL1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000636 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF15902 all species →	Sortilin-Vps10	Sortilin, neurotensin receptor 3,	Repeat	Interproscan
PF00041 all species →	fn3	Fibronectin type III domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002172 all species →	Repeat	Low-density lipoprotein (LDL) receptor class A repeat	Interproscan
IPR036055 all species →	Homologous_superfamily	LDL receptor-like superfamily	Interproscan
IPR023415 all species →	Conserved_site	Low-density lipoprotein (LDL) receptor class A, conserved site	Interproscan
IPR036116 all species →	Homologous_superfamily	Fibronectin type III superfamily	Interproscan
IPR031778 all species →	Domain	Sortilin, N-terminal	Interproscan
IPR011042 all species →	Homologous_superfamily	Six-bladed beta-propeller, TolB-like	Interproscan
IPR006581 all species →	Domain	VPS10	Interproscan
IPR013783 all species →	Homologous_superfamily	Immunoglobulin-like fold	Interproscan
IPR003961 all species →	Domain	Fibronectin type III	Interproscan
IPR000033 all species →	Repeat	LDLR class B repeat	Interproscan
IPR050310 all species →	Family	VPS10-related sortilin family receptors	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12106 all species →	SORTILIN RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0005794 all species →	Cellular Component	Golgi apparatus	Interproscan
GO:0006892 all species →	Biological Process	post-Golgi vesicle-mediated transport	Interproscan
GO:0016021 all species →	Cellular Component	membrane	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
K24498	SORL1; sortilin-related receptor	-	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 BRAKERKREP00000019784.1 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.