Gene detail

Detailed information of OS493_013894-T1 in Lophelia pertusa

Genomic Location: scaffold_38:2256487...2264518
NR annotation: KAJ7385858.1, CDC5 cell division cycle 5-like protein [Desmophyllum pertusum]
Species Lophelia pertusa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

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
O08837	Cell division cycle 5-like protein OS=Rattus norvegicus OX=10116 GN=Cdc5l PE=1 SV=2
Q99459	Cell division cycle 5-like protein OS=Homo sapiens OX=9606 GN=CDC5L PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006746 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF11831 all species →	Myb_Cef	pre-mRNA splicing factor component	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR047242 all species →	Family	Pre-mRNA splicing factor component CDC5L/Cef1	Interproscan
IPR021786 all species →	Domain	Pre-mRNA splicing factor component Cdc5p/Cef1, C-terminal	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

No KEGG orthology assignment for OS493_013894-T1.

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

Expression pattern (RNA-seq)

Transcript abundance of OS493_013894-T1 across 110 RNA-seq samples of Lophelia pertusa. 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.

110Samples

110TPM > 0

7Conditions

47.7Max TPM

26.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	26.65	43.73
polyp at pH7 6	18	18	28.85	47.71
coral polyp · control treatment	16	16	30.86	41.31
coral polyp · oil and dispersant treatment	16	16	27.68	47.05
coral polyp · oil treatment	16	16	28.10	34.88
coral polyp · dispersant treatment	16	16	19.37	39.28
Polyp	10	10	26.58	44.88

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.73
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.93
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.52
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.76
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.52
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.13
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.14
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.23
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.16
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.10
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.96
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.93
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.60
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.69
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.63
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.89
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.04
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.66
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.71
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.55
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.64
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.98
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.67
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.77
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.49
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.44
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.16
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.98
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.86
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.60
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.40
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.35
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.08
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.12
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.91
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.50
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.31
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.65
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.68
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.53
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.42
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.97
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.07
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.52
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.79
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.57
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.52
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.23
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.24
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.96
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.69
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.68
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	47.05
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.28
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.02
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.30
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.05
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.56
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.01
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.33
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.80
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.73
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.50
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.81
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.15
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.10
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.00
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.19
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.88
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.35
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.11
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.16
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.05
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.12
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.08
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.71
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.42
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.32
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.51
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.19
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.90
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.70
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.63
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.42
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.28
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.62
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.53
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.18
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.17
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.41
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.18
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.16
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.61
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.00
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.49
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.61
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.86
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.17
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.42
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.18
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	44.88
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	36.09
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	29.26
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	28.19
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	26.14
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	24.86
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	23.47
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	21.24
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	17.29
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	14.40

Source: CnidoSite RNA-seq expression matrices (LPERT_TPM, StringTie quantification over 110 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.