Gene detail

Detailed information of OS493_007187-T1 in Lophelia pertusa

Genomic Location: scaffold_15:2892633...2895657
NR annotation: KAJ7380805.1, hypothetical protein OS493_007187 [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
P12004	Proliferating cell nuclear antigen OS=Homo sapiens OX=9606 GN=PCNA PE=1 SV=1
P61258	Proliferating cell nuclear antigen OS=Macaca fascicularis OX=9541 GN=PCNA PE=2 SV=1
Q3ZBW4	Proliferating cell nuclear antigen OS=Bos taurus OX=9913 GN=PCNA PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008115 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00705 all species →	PCNA_N	Proliferating cell nuclear antigen, N-terminal domain	Domain	Interproscan
PF02747 all species →	PCNA_C	Proliferating cell nuclear antigen, C-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR022648 all species →	Domain	Proliferating cell nuclear antigen, PCNA, N-terminal	Interproscan
IPR046938 all species →	Homologous_superfamily	DNA clamp superfamily	Interproscan
IPR000730 all species →	Family	Proliferating cell nuclear antigen, PCNA	Interproscan
IPR022659 all species →	Conserved_site	Proliferating cell nuclear antigen, PCNA, conserved site	Interproscan
IPR022649 all species →	Domain	Proliferating cell nuclear antigen, PCNA, C-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11352 all species →	PROLIFERATING CELL NUCLEAR ANTIGEN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0006275 all species →	Biological Process	regulation of DNA replication	Interproscan
GO:0030337 all species →	Molecular Function	DNA polymerase processivity factor activity	Interproscan
GO:0006272 all species →	Biological Process	leading strand elongation	Interproscan
GO:0006298 all species →	Biological Process	mismatch repair	Interproscan
GO:0019985 all species →	Biological Process	translesion synthesis	Interproscan
GO:0043626 all species →	Cellular Component	PCNA 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
K04802	PCNA; proliferating cell nuclear antigen	-	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_007187-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

344.0Max TPM

37.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	46.26	97.61
polyp at pH7 6	18	18	38.60	74.26
coral polyp · control treatment	16	16	47.34	344.03
coral polyp · oil and dispersant treatment	16	16	34.94	253.19
coral polyp · oil treatment	16	16	28.80	72.72
coral polyp · dispersant treatment	16	16	27.04	71.49
Polyp	10	10	34.95	106.79

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	97.61
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	96.08
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	95.52
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	83.97
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	59.53
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	58.48
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.05
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.69
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.52
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.14
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.09
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.23
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.72
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.43
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.65
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.06
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.14
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.79
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	74.26
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	72.13
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	66.11
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	59.66
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.56
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.98
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.12
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.16
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.22
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.72
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.31
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.52
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.22
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.79
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.33
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.79
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.61
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.22
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	344.03
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.71
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.81
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.43
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.66
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.58
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.78
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.19
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.51
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.43
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.43
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.33
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.09
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.92
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.26
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.25
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	253.19
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.29
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.77
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.14
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.18
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.36
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.19
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.20
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.10
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.35
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.86
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.52
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.81
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.47
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.09
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.57
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	72.72
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	60.17
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.94
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.81
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.47
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.69
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.02
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.24
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.06
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.91
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.80
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.26
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.40
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.58
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.84
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.89
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	71.49
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.50
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.90
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.39
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.25
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.16
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.99
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	28.44
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.79
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.93
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.63
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.03
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.76
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.89
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.08
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.38
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	106.79
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	49.86
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	39.66
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	31.76
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	29.44
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	26.40
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	26.35
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	16.39
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	14.37
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	8.44

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.