Gene detail

Detailed information of OS493_036457-T1 in Lophelia pertusa

Genomic Location: scaffold_365:194655...202306
NR annotation: KAJ7351122.1, minichromosome maintenance- 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
Q28E45	Protein MCM10 homolog OS=Xenopus tropicalis OX=8364 GN=mcm10 PE=2 SV=1
Q5EAW4	Protein MCM10 homolog OS=Xenopus laevis OX=8355 GN=mcm10 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004931 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF09332 all species →	Mcm10	Mcm10 replication factor	Domain	Interproscan
PF09329 all species →	zf-primase	Primase zinc finger	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR015411 all species →	Domain	Replication factor Mcm10, C-terminal	Interproscan
IPR012340 all species →	Homologous_superfamily	Nucleic acid-binding, OB-fold	Interproscan
IPR015408 all species →	Domain	Zinc finger, Mcm10/DnaG-type	Interproscan
IPR040184 all species →	Family	Minichromosome maintenance protein 10	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13454 all species →	PROTEIN MCM10 HOMOLOG	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006260 all species →	Biological Process	DNA replication	Interproscan
GO:0003688 all species →	Molecular Function	DNA replication origin binding	Interproscan
GO:0003690 all species →	Molecular Function	double-stranded DNA binding	Interproscan
GO:0003697 all species →	Molecular Function	single-stranded DNA binding	Interproscan
GO:0006270 all species →	Biological Process	DNA replication initiation	Interproscan
GO:0043596 all species →	Cellular Component	nuclear replication fork	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_036457-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_036457-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

98TPM > 0

7Conditions

16.2Max TPM

1.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	17	1.29	4.48
polyp at pH7 6	18	15	1.26	5.30
coral polyp · control treatment	16	16	1.83	16.24
coral polyp · oil and dispersant treatment	16	13	1.33	13.80
coral polyp · oil treatment	16	14	0.86	3.14
coral polyp · dispersant treatment	16	16	0.84	2.38
Polyp	10	7	1.35	3.67

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.48
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.67
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.17
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.09
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.73
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.63
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.61
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.33
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.95
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.78
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.74
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.57
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.53
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.51
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.49
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.46
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.43
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.30
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.94
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.32
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.11
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.02
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.17
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.08
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.99
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.89
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.87
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.83
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.75
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.50
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.49
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.48
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.24
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.00
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.61
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.44
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.39
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.94
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.91
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.85
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.84
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.72
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.71
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.68
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.36
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.31
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.22
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.12
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.80
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.51
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.69
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.58
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.57
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.41
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.39
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.36
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.32
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.24
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.15
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.11
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.11
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.14
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.45
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.84
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.43
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.16
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.16
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.81
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.68
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.29
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.28
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.21
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.17
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.16
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.05
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.38
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.45
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.22
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.20
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.92
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.91
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.91
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.80
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.63
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.56
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.56
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.55
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.54
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.52
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.19
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.14
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	3.67
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.52
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.85
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.81
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.75
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.23
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.73
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.00
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.