Gene detail

Detailed information of BRAKERKREP00000019151.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: XP_047123760.1, calcium homeostasis endoplasmic reticulum protein [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

BRAKERKRET00000019151

ATGTCTGCAATGAAAATTCCTGATGATGAAGAGCAAAGAAACATCATTGACAAACTTGCAAACTTTGTTGCTCGCAATGGTCCTAAATTTGAAGAGCTTACCaagagtaaacaaaaagacaATCCAAAATTTGCCTTCTTGTTTGGAGGAGATTATCACAGTTACTATTGCTGGAAAGTTGGCTTGGAAACCACACAGTGTGAAGCACAAAAGCGTCTGAATCAACAACAAGAGCAACCACCTCCTCCTCCTGTTTTCCAACAACAGCTACCTCCACTTCCTCCACAGTTTACCATGCAGCCTCCTGAGataatgGCTCCTTCACCTAGAAAGGAGTTTGATTTAGAGGAGTTCAGAGTCTTATTGCAAAAGTTAATCTTAGCTTGTACAAAAGATAATATTCAGAATGGTAAAACATGGATTGTGGATAATTGCAAGAACCCTGAACAGTTCACAGCGACTGCAAGATTCTTGCTACACAGaATGCTTGAAGAATCTCTGCCTTTCCAACAAAAGTTGCATATTGTATACCTCACTAATGATCTTTTGCATCACAGCAGGAAAAAAGATGTCCCTCAGTTACAAGAGGGCTTacaaaactacattttacCAATTGTAGCTGTCGTTCATAATGGAGAGGCTACAgataatcaacaaaaacttgCTAAGGTTGTCAAGATATGGGAAACGCAAAGATTCTTCAGTCCAGATATCTTGGAGaaattaaGTATGAGTGATAAGTTGTATGACACCCAATTAGATGTGATTGAAAAAGAAAGGGAATTTATGAGGgctgaaaaagataaaaaaagaagagagcAGCAAGAACAAAGGCAGAGAGAGGAAGAGAAAAAGCCCATAGAAGAACCAGTGAACCAAAGCTACAACATGTATGACCATCCTCAAGCACAGGACTATCCTCCTCCCCCTATTCCTGGACACTTTCAACAGTTTCAGCAGTTTAACCAATGGCATcaaccaccaccaccaccagtTGCACAGCAAGATCCGTATCATTTTTATGGTTCAAATTATACACCTTCAGTTCGCCCTCCAGCACCGTTTCCACCACCTCCCAGATTTCCATTACCTGAGCCAGgAAATTTTGATCAACCACCACCTGCATTCCCCCCTTTTGATATCCCACCCCAATTCCAAAACCCTGAAATCCAAACATTTGATTACAGTCATCAACGGGCTCCACCTGGTCAAGTACCAACTCCTATGACATTTGACTATGAGCATGGCAGAGCTCATCATCCACCAGAACAAGAGGTTTTGCATGATCCAACTATACCAATGGCACCCTATTATGATCTCCCAGCTGGACTTATGGTACCACTTATAAagATATGGGATTGTGAATATAATCCAATAGACCCAAAAGATCTTCGATTGCCTATACCACAACCTCCAAGTGAGAGACTGCTGGCAGCAATTGAAGCATTTTACAGTCCACCTTCTCATGAAAGACCTAGAGACAGTCAAGGATGGGAAAAGAATGggctttttgaattttataaagcCAAGCTTAagtatataaaagataaagaacGCAATCTTTCAACCATCGAACGCTCTCTATCGCCACCTTCCAGTCGATCTCCATCACCTGAATCTACTGGAAGTCCCCTGGTGAAAGAGAGGCGAAAAAGCAGAACTCCTAGTCCAAAACGTTCTCGTAGTCGGAGTAGAGAGAGGCAAAGGTCAGCAAGTCCAAACGAACGGTCTCAGAATAATCGACGAAGTGCTTCAAGAAGTCGTTCCAGGAGTCCAGTACGAAGatCTCGAAGTCGGTCTTATTCCCGATCGAAATCACGATCACCACCTCGCAGGAGCCCAGTTAAAAGAAGTCCTACACCACCTGAGAGTTTTGTTGGACTCACTACAAGGCCTATGGAGTCGAGAATCGATGACTCAAATGTTGGTCATCAGATGTTAATGAAAATGGGTTGGGGAGGCCAAGGCTTAGGAAAAAAGGAAACTGGAATTGTTAATCCTATTAAAGGAGGTGAAATCAGGGATAGACAGGATAAATTCAAGggTATTGGGTCGGATATGAACGATCCTTTCGAGAATTTTaggaaaaacaaaagttattcatACAGCAGACcaAGATCAAGTTCCAAAAAGTAA

Transcript

BRAKERKRET00000019151

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8IWX8	Calcium homeostasis endoplasmic reticulum protein OS=Homo sapiens OX=9606 GN=CHERP PE=1 SV=3
Q8CGZ0	Calcium homeostasis endoplasmic reticulum protein OS=Mus musculus OX=10090 GN=Cherp PE=1 SV=1
O49570	SUPPRESSOR-OF-WHITE-APRICOT/SURP RNA-binding domain containing protein 1 OS=Arabidopsis thaliana OX=3702 GN=SWAP1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004389 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01585 all species →	G-patch	G-patch domain	Family	Interproscan
PF04818 all species →	CID	CID domain	Repeat	Interproscan
PF01805 all species →	Surp	Surp module	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR035967 all species →	Homologous_superfamily	SWAP/Surp superfamily	Interproscan
IPR000467 all species →	Domain	G-patch domain	Interproscan
IPR008942 all species →	Homologous_superfamily	ENTH/VHS	Interproscan
IPR000061 all species →	Domain	SWAP/Surp	Interproscan
IPR006569 all species →	Domain	CID domain	Interproscan
IPR039037 all species →	Family	Calcium homeostasis endoplasmic reticulum protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12323 all species →	SR-RELATED CTD ASSOCIATED FACTOR 6	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0006396 all species →	Biological Process	RNA processing	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0006874 all species →	Biological Process	intracellular calcium ion homeostasis	Interproscan
GO:0048471 all species →	Cellular Component	perinuclear region of cytoplasm	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
K12841	CHERP; calcium homeostasis endoplasmic reticulum protein	-	Spliceosome	ko03041	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000019151.1 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

14TPM > 0

7Conditions

100.7Max TPM

18.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	5	14.76	100.75
Whole	6	5	19.44	27.54
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	34.17	34.17
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	38.01	38.01
symbioic hydra M9 strain · symbioic hydra rep1	1	1	35.86	35.86
symbioic hydra M9 strain · symbioic hydra rep2	1	1	45.23	45.23
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
SRR21134053	whole body	whole body	not recorded	not recorded	SRP392977	100.75
SRR21134051	whole body	whole body	not recorded	not recorded	SRP392977	93.03
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977	37.22
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977	20.32
SRR21134056	whole body	whole body	not recorded	not recorded	SRP392977	14.32
SRR21134050	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134052	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
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
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
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
SRR10058804	Whole	Whole	not recorded	not recorded	SRP220397	27.54
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	24.55
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	23.51
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	21.19
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	19.84
SRR10058802	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	34.17
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	38.01
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	35.86
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902	45.23
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.