Gene detail

Detailed information of OS493_003362-T1 in Lophelia pertusa

Genomic Location: scaffold_7:728155...729051
NR annotation: KAJ7393704.1, hypothetical protein OS493_003362 [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
Q3ZBL9	Cyclin-H OS=Bos taurus OX=9913 GN=CCNH PE=2 SV=1
P51947	Cyclin-H OS=Xenopus laevis OX=8355 GN=ccnh PE=1 SV=1
P51946	Cyclin-H OS=Homo sapiens OX=9606 GN=CCNH PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009312 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF16899 all species →	Cyclin_C_2	Cyclin C-terminal domain	Domain	Interproscan
PF00134 all species →	Cyclin_N	Cyclin, N-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR043198 all species →	Family	Cyclin/Cyclin-like subunit Ssn8	Interproscan
IPR027081 all species →	Family	CyclinH/Ccl1	Interproscan
IPR036915 all species →	Homologous_superfamily	Cyclin-like superfamily	Interproscan
IPR013763 all species →	Domain	Cyclin-like domain	Interproscan
IPR031658 all species →	Domain	Cyclin, C-terminal domain 2	Interproscan
IPR006671 all species →	Domain	Cyclin, N-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10026 all species →	CYCLIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000079 all species →	Biological Process	regulation of cyclin-dependent protein serine/threonine kinase activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	Interproscan
GO:0016538 all species →	Molecular Function	cyclin-dependent protein serine/threonine kinase regulator activity	Interproscan
GO:0070816 all species →	Biological Process	obsolete phosphorylation of RNA polymerase II C-terminal domain	Interproscan
GO:0070985 all species →	Cellular Component	transcription factor TFIIK complex	Interproscan
GO:0006351 all species →	Biological Process	DNA-templated transcription	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
K06634	CCNH; cyclin H	-	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 OS493_003362-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

22.5Max TPM

4.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	4.75	7.80
polyp at pH7 6	18	18	5.54	9.09
coral polyp · control treatment	16	16	6.26	22.49
coral polyp · oil and dispersant treatment	16	16	4.69	6.88
coral polyp · oil treatment	16	16	5.31	7.80
coral polyp · dispersant treatment	16	16	1.94	3.48
Polyp	10	10	6.29	8.93

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	-	7.80
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.04
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.56
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.94
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.70
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.19
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.77
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.62
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.48
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.28
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.15
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.07
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.01
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.98
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.52
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.50
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.95
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.90
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.09
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.48
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.80
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.68
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.36
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.12
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.91
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.40
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.26
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.09
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.79
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.76
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.63
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.93
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.90
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.88
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.82
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.79
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.49
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.17
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.02
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.43
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.01
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.61
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.29
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.95
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.81
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.75
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.71
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.55
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.52
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.35
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.27
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.31
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.88
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.75
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.18
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.11
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.77
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.72
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.49
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.27
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.77
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.47
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.90
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.81
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.35
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.76
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.20
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.62
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.80
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.67
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.96
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.65
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.51
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.88
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.18
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.16
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.07
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.79
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.70
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.54
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.00
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.85
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.48
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.65
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.48
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.98
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.83
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.55
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.51
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.24
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.92
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.86
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.81
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.70
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.66
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.61
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.46
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.15
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.69
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.53
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	8.93
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	8.65
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	8.24
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	8.11
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	6.14
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.56
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.47
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.28
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.38
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	3.10

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.