Gene detail

Detailed information of BRAKERKREP00000014868.1 in Hydra viridissima

Genomic Location: not available for this species
NR annotation: XP_047128533.1, cell division cycle 5-related protein [Hydra vulgaris]
Species Hydra viridissima · all data for this species · gene families

Sequence

CDS

BRAKERKRET00000014868

ATGCCGcgcatttttattaaaggtgGTGTTTGGTCAAATACAGaggatgAAATTCTTAAAGCAGCTGTTATGAAGTATGGCAAAAATCAATGGAGTCGAATAGCATCACTTCTTCATAAGAAGTCAGGTAAGCAGTGCAAGGCTCGTTGGTATGAATGGTTGGATCCTAGTATCAAAAAGACTGAATGGAGTAGAGAAGAAGATGAAAAACTCTTACATCTTGCAAAACTAATGCCAACACAGTGGCGAACAATTGCTCCTTTAGTAGGAAGAACTGCTGCACAGTGTCTTGAGAGATATGAATATCTTCTGGATCAAGCTCAGCGTAAAGATGGGGAAGGTCTTGATGAAGATCCTCGGAAGCTACGACCAGGTGAAATTGATCCAGCACCTGAAACAAAACCAGCAAGACCTGATCCTATAGATATGGATGAAGatgAAATGGAAATGCTATCAGAAGCAAGAGCTAGGTTAGCAAACACACAGggtaaaaaagcaaaaagaaaagcaagagAAAAGCAACTTGAAGAAGCTCGTAGATTAGCATCATTGCAAAAGCGAAGGGAGCTAAGAGCTGCAGGGATAGAAATCCAGAGATTTCGACGAAAAAAGCGTGCAGTAGATTACAATGCAGAAATTCCTTTTGAACGAAAACCTGCACaaggttTCTATGACACTAGTAATGAGGATGTCAAAGCTTTGGAgccaaattataaaaaattaaggcAGGAGCATTTAGATGAAAAGCGTCGTGATATTCAAGAagagcgtgaaagaagaaaagacaaagaaaaacaaaaaaagagaaaagaaaatgatctTCCTGGTGCAATTTCATCTATTAATAAAATGATGAATCAGGATGGTTCAAAAAGAAGAAGTAAATTGGTTCTACCATCTCCACAAATCACTGATGCTGAGTTGGAGGAGGTTGTAAAGCTTGGTATAGCAAGTGAGCAAGCAAAAGCTTTTGTTGATAATGAAGATGAAAGTGCAAGCAAAGGTTTACTTTCAGATTATTCTATTACTCCTGGTACTAACTTACCAATTAGAACACCAAGAGCACCAGCAATGCAAGACACCATTTTCCAAGAAGCTCAAAATATTCTTGCATTGCAACAAGTTGATACACCATTAAAAGGTGGTATTAATACCCCAATGTATACCAGCAACTTTGATGGAGCCACACCCAAGCACCAGCAAATACAAACACCCAATTTAATGATTGCAACACCTTTCAGAACACCTGCAGATGGGGGACAAGGCTTTACTCCCAGAAACACTCCCCGTGTAGGAGGAGTACCTCAAGGAATGACTCCTGGAGCATCTGTTAGggataatttaaacataaacagAGATGACATTTATGAAAAtcaaatggaaataaaaactcaacttATAGCAGGATTGCAAAGCTTGCCTAAACCAAgcaatgattttgaaattgtgGTGCCAGATaaatttgaaataaatttggatGAAAGCGTTGATACAGGATTTGTAGAAGATGCATCAGATATAGAGGCAAGAAACTATcttaagcaaaaagaaaaagaAGCTGCGGAATTTCGAAGACAAGCATTGTCTGTTCAGAGGAACTTGCCTCGTCCTTCTGATGTAAATACTTCAGTGTTAAGGCCTGATGAGATGAGAAGAGATCTAAATCCGTACCAGGAAGCTGAAGAAATGATAAAAGCTGAGATGGTGCATATGTTACGCCACGATATAGTTTACCACCCGACAGAACATCAATTGAGCCTGctcagtttgaaaaaaacaagcGTCTCTGCACAAGCCGTAGTCAATTCAAATAAACGTGTTCTTGAAGAATCgcctttagaaaaaatttctgataaaGAAATGGAGGCGGCTCGGTCTTTACTAAACgaagaaattgaaattgttaaaaaagctatGGCACACGGTGATCTATCCATCGATGTGTACACAAGAGTGTGGGAAGAGTGTTATGGTCAGTTATTATATCTACCAAACCAACAACGCTATACTCGCGCAGCACTTGCTAGCAAAAAAGATCGTGTTGAATCGCTTGAAAAACGCCTCGAGatTAACCGTTTACACATGACCGAAGATGCAAAGAAAGCAACTAAGCTAGAAAAGAAGCTTAAACTCTTACTCGGAGGTTATCAGTCGAGAGCTGTGGGTTTAAGTAAGCAGATTTCTGACCTACACGATCAAATCGAACAGTGTCGAATTGAAGCAGAGACGTTTGAGATGTTACACAAACAAGAACTTCAAGCAGTTCCCAGGCGCATTTCGGCATTAGAAGAAGATGTCGTCCGTCAAACAGCTCGTGAACGTGATTTGCAGCATAAATACTCAGATTTGTTATACGAACGTGATCGACTAGTAAAAATCAGTGAGGAGCGGAGGTAG

Transcript

BRAKERKRET00000014868

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
A7SD85	Cell division cycle 5-related protein OS=Nematostella vectensis OX=45351 GN=cdc5l PE=3 SV=1
Q99459	Cell division cycle 5-like protein OS=Homo sapiens OX=9606 GN=CDC5L PE=1 SV=2
Q6A068	Cell division cycle 5-like protein OS=Mus musculus OX=10090 GN=Cdc5l PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006746 (this species only)
Transcription factor family	MYB · all TF in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13921 all species →	Myb_DNA-bind_6	Myb-like DNA-binding domain	Domain	Interproscan
PF11831 all species →	Myb_Cef	pre-mRNA splicing factor component	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR047240 all species →	Domain	Pre-mRNA splicing factor component CDC5L/Cef1, second SANT/myb-like domain	Interproscan
IPR017930 all species →	Domain	Myb domain	Interproscan
IPR001005 all species →	Domain	SANT/Myb domain	Interproscan
IPR021786 all species →	Domain	Pre-mRNA splicing factor component Cdc5p/Cef1, C-terminal	Interproscan
IPR009057 all species →	Homologous_superfamily	Homeobox-like domain superfamily	Interproscan
IPR047242 all species →	Family	Pre-mRNA splicing factor component CDC5L/Cef1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45885 all species →	CELL DIVISION CYCLE 5-LIKE PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000398 all species →	Biological Process	mRNA splicing, via spliceosome	Interproscan
GO:0000974 all species →	Cellular Component	Prp19 complex	Interproscan
GO:0000977 all species →	Molecular Function	RNA polymerase II transcription regulatory region sequence-specific DNA binding	Interproscan
GO:0000981 all species →	Molecular Function	DNA-binding transcription factor activity, RNA polymerase II-specific	Interproscan
GO:0005681 all species →	Cellular Component	spliceosomal complex	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	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
K12860	CDC5L, CDC5, CEF1; pre-mRNA-splicing factor CDC5/CEF1	-	DNA repair and recombination proteins	ko03400	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of BRAKERKREP00000014868.1 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.