Gene detail

Detailed information of BRAKERKREP00000012180.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: XP_012556741.2, CWF19-like protein 2 [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

BRAKERKRET00000012180

atgtcaatcaACTTTGTGAGCAAATCAAATCTTGATGAGTGCAAAAGAGAAAGGAAACAAAACCttgaaagaaaactttatcaGGCAAAAGATGAATATGAATATAGCAAGCGAAAAAGATTGATAGAGGATGAAAGAGGTGATTCAAAATGGATTCTTCCTTCTCTTGAAAAAAGGATTGGCAATGATagtgaagatgatgatgagtGGGAAGAAGCAGAGCAATCAAATAAATCTGTTGATGTTAAGGAATCTAATGCTTCATATCAAACTTCAATTGAAACTACAGAATCTTCTCAAACGCAAAGTAATATCTGTAAGAGAGAAGAATGGATGCTAGCGTCATCTCTTCTTGACATAGCTATGTCCTCATCAAGTCATCGtgagaataaaacaaaaatacgcAAAAAAGAAgagcaaacaaaaaaggaagaagaGAGAAAGtcTTTACATACATCAAGGGAACTAAATCCATACTGGAAAGATGGTGGAACTGGCTTGCCTTCAGAGGTTTTTGAtaaccaagaaaaaaataaaacaaatgcgCAAGTCCCTAAATatgttgaGGTAGGCGATGGTGGACAAAGTTGGATAGAAAAAGCATATGAGCGATCTAAGTTGCAAGCAGAAGAAGAAGGGGTTCCACTTGAAGAAATTGTTGCTCGGAGATGGGGTtCTATGGCCAAGTTAACTGCTCTTTTAAAAGCTTCCAAAAATTCTTCaagGCATAACCAAAACTCAAAACATGCTTCATCAGGCTGGAGAAAAACGTCGAACAATCAATCCcattctttacaaaaatcaaatgacTTGGAAACTTTAACCAAATCTGATCAAAACCAGGAGCAAAGGACAACCTGTCATGttaaagaaagcaaaattgttgaaaaggTTTGTGAGGAAAACCTGTCTTTAAAAGAGAATGCTCCCATTGATCATTCATCCTCTGAGAATAGATCTCCTGAACCCAATCTGCCAGTTAGGGTACCTTTGacagataaagaaaaaaacgaagTCAGTGCTAAAATGTTGCGTGCAGAATTAATGGGTAACACTGCACTTTATGCTCAACTGAAACTTGAATTGCAGCAAGGAAGATTGTTATCAGTGGCAAAAGCTCCAAACAATTTGCCTAAAGTTGAAGAAGTTCTTCTTACAAGAACAGATAAACATGGAAACCTCTACCCTGTAATGTTGCAGCATGATACTAAAGACctaatggaaaaaaagaaagcaggaaagaaaaaactgATCTCCATGCATGACCCTGAGGGTAATCGGATGAAGTACTTTGAAGACGATGATAGTACATCGCTTAAAACAATGGTTGAGCGTGAGCGACTAACAACAGCAGATGAGCAACACGCTATGATGCATAGAATGGCATCAAagCATTTAGGAACAACAATGGATGACGATTATACGGTTGACGATATGTTTGTAACAGCTTCTGCAACCAAAGGTATTTCAGcttcagaagaaaaaagaactatAAGCAAAGCAATTGCAGAACATCAGCTACGCGAGAAGCAACTAAATAGTTGCAGATTTTGTTTTGACAACcctaatttatcaaaacatttaattgtTGCCATTGGGGTGAAGgCTTATTTAGCTTTACCAATAAATGCCTCTCTGACGGACGGCCATTGCTTGATACTTCCTATGCAACATATTGCTGGGCAATCATTTATGGACGAAGATGTTCTACAGGAAGTTAAgCTTTTCAAGCAAGCTTTAACAAGGATGTTTTCAAATAACgATGAAGATGTATTATTCATTGAGTCGTGCAAAAATATTCACCGTCAAAATCACTGCAGTATTGAATGCATACCTGTTCCAAAAGAAGTGGGAGAAATGGCACctatttattttaagaaagcgATAACTGAAAGTGAGTCGGAATGGAgtcaaaataagaaacttgTTACTTTAACTTCGAAAGGCGGAGTTTCTAAAGCTGTTCCTAAAGGTCTTCCTTATTTTGCTGTTGAGTTTGGCCTAGACGGAGGTTTTGCTCACGTCATTGAAGACGAACGTTTATTTCCGAGTAATTTTGGAAAggaaataattGCTGGCATCATGGATTTGGAGGTAAGATTATGGCGGAATCCTCCGAAAGAAAGCTTTGATCAGCATAAACGTAAAGTAATGAAGTTCTCAGAGCAATGGAAACCGTTCGACTGGACTCAAGATCTAAAATAA

Transcript

BRAKERKRET00000012180

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8BG79	CWF19-like protein 2 OS=Mus musculus OX=10090 GN=Cwf19l2 PE=1 SV=1
Q2TBE0	CWF19-like protein 2 OS=Homo sapiens OX=9606 GN=CWF19L2 PE=1 SV=4
Q28C44	CWF19-like protein 2 OS=Xenopus tropicalis OX=8364 GN=cwf19l2 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004123 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04676 all species →	CwfJ_C_2	Protein similar to CwfJ C-terminus 2	Family	Interproscan
PF04677 all species →	CwfJ_C_1	Protein similar to CwfJ C-terminus 1	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR040194 all species →	Family	Cwf19-like protein	Interproscan
IPR036265 all species →	Homologous_superfamily	HIT-like superfamily	Interproscan
IPR006767 all species →	Domain	Cwf19-like protein, C-terminal domain-2	Interproscan
IPR006768 all species →	Domain	Cwf19-like, C-terminal domain-1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12072 all species →	CWF19, CELL CYCLE CONTROL PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000398 all species →	Biological Process	mRNA splicing, via spliceosome	Interproscan
GO:0071014 all species →	Cellular Component	post-mRNA release spliceosomal complex	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
K24940	CWF19L2; CWF19-like protein 2	-	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 BRAKERKREP00000012180.1 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

16TPM > 0

7Conditions

25.7Max TPM

4.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole body	18	7	3.98	25.72
Whole	6	5	5.14	7.20
aposymbioic hydra M9 strain · aposymbioic hydra rep1	1	1	5.30	5.30
aposymbioic hydra M9 strain · aposymbioic hydra rep2	1	1	4.89	4.89
symbioic hydra M9 strain · symbioic hydra rep1	1	1	5.81	5.81
symbioic hydra M9 strain · symbioic hydra rep2	1	1	0.47	0.47
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
SRR21134065	whole body	whole body	not recorded	not recorded	SRP392977	25.72
SRR21134064	whole body	whole body	not recorded	not recorded	SRP392977	13.82
SRR21134050	whole body	whole body	not recorded	not recorded	SRP392977	11.21
SRR21134053	whole body	whole body	not recorded	not recorded	SRP392977	10.21
SRR21134060	whole body	whole body	not recorded	not recorded	SRP392977	7.63
SRR21134052	whole body	whole body	not recorded	not recorded	SRP392977	2.95
SRR21134055	whole body	whole body	not recorded	not recorded	SRP392977	0.15
SRR21134051	whole body	whole body	not recorded	not recorded	SRP392977	0.00
SRR21134054	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
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
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	7.20
SRR10058805	Whole	Whole	not recorded	not recorded	SRP220397	6.02
SRR10058806	Whole	Whole	not recorded	not recorded	SRP220397	6.00
SRR10058807	Whole	Whole	not recorded	not recorded	SRP220397	5.96
SRR10058803	Whole	Whole	not recorded	not recorded	SRP220397	5.66
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	5.30
DRR048594	aposymbioic hydra M9 strain · aposymbioic hydra rep2	not recorded	not recorded	aposymbioic hydra rep2	DRP003902	4.89
DRR048595	symbioic hydra M9 strain · symbioic hydra rep1	not recorded	not recorded	symbioic hydra rep1	DRP003902	5.81
DRR048596	symbioic hydra M9 strain · symbioic hydra rep2	not recorded	not recorded	symbioic hydra rep2	DRP003902	0.47
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.