Gene detail

Detailed information of OS493_013927-T1 in Lophelia pertusa

Genomic Location: scaffold_38:2683882...2689684
NR annotation: KAJ7385891.1, 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
Q2KJC1	Cell division cycle 5-like protein OS=Bos taurus OX=9913 GN=CDC5L PE=2 SV=1
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
PF00249 all species →	Myb_DNA-binding	Myb-like DNA-binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001005 all species →	Domain	SANT/Myb domain	Interproscan
IPR047242 all species →	Family	Pre-mRNA splicing factor component CDC5L/Cef1	Interproscan
IPR047240 all species →	Domain	Pre-mRNA splicing factor component CDC5L/Cef1, second SANT/myb-like domain	Interproscan
IPR009057 all species →	Homologous_superfamily	Homeobox-like domain superfamily	Interproscan
IPR017930 all species →	Domain	Myb domain	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_013927-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_013927-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

103TPM > 0

7Conditions

17.4Max TPM

3.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	2.52	4.57
polyp at pH7 6	18	17	3.68	6.46
coral polyp · control treatment	16	15	4.33	17.45
coral polyp · oil and dispersant treatment	16	15	3.36	11.72
coral polyp · oil treatment	16	15	2.80	15.09
coral polyp · dispersant treatment	16	15	2.33	8.69
Polyp	10	9	1.72	5.33

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.57
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.46
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.02
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.98
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.02
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.76
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.69
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.68
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.64
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.41
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.27
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.16
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.06
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.62
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.49
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.48
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.99
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.46
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.88
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.72
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.33
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.74
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.47
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.12
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.71
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.46
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.30
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.25
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.19
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.90
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.76
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.71
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.66
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.58
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.45
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.44
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.75
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.60
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.87
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.62
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.83
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.11
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.99
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.97
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.92
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.92
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.73
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.61
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.41
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.72
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.43
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.21
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.15
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.01
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.19
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.03
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.00
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.95
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.15
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.02
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.84
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.83
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.79
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.49
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.09
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.63
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.91
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.07
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.22
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.84
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.75
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.58
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.12
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.07
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.99
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.95
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.56
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.53
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.49
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.69
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.95
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.71
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.22
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.36
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.32
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.53
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.42
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.17
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.12
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.94
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.57
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.52
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.45
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.26
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.33
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.71
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.74
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.56
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.28
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.16
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.12
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.83
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.48
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.00

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.