Gene detail

Detailed information of OS493_013004-T1 in Lophelia pertusa

Genomic Location: scaffold_34:2151613...2157627
NR annotation: KAJ7373411.1, DNA polymerase alpha subunit B [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
Q14181	DNA polymerase alpha subunit B OS=Homo sapiens OX=9606 GN=POLA2 PE=1 SV=2
P33611	DNA polymerase alpha subunit B OS=Mus musculus OX=10090 GN=Pola2 PE=1 SV=2
O89043	DNA polymerase alpha subunit B OS=Rattus norvegicus OX=10116 GN=Pola2 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005301 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04042 all species →	DNA_pol_E_B	DNA polymerase alpha/epsilon subunit B	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR016722 all species →	Family	DNA polymerase alpha, subunit B	Interproscan
IPR007185 all species →	Domain	DNA polymerase alpha/delta/epsilon, subunit B	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23061 all species →	DNA POLYMERASE 2 ALPHA 70 KDA SUBUNIT	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005658 all species →	Cellular Component	alpha DNA polymerase:primase complex	Interproscan
GO:0006270 all species →	Biological Process	DNA replication initiation	Interproscan
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0006260 all species →	Biological Process	DNA replication	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
K02321	POLA2; DNA polymerase alpha subunit B	-	DNA replication proteins	ko03032	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_013004-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

66.5Max TPM

4.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	3.73	7.41
polyp at pH7 6	18	15	3.06	6.77
coral polyp · control treatment	16	16	6.49	66.53
coral polyp · oil and dispersant treatment	16	16	5.26	49.81
coral polyp · oil treatment	16	16	3.40	9.32
coral polyp · dispersant treatment	16	14	3.64	6.82
Polyp	10	8	2.64	10.81

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	-	7.41
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.06
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.59
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.41
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.20
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.15
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.02
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.93
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.73
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.37
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.37
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.85
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.59
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.55
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.45
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.09
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.86
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.53
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.77
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.17
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.14
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.82
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.41
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.18
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.41
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.28
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.86
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.52
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.50
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.38
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.32
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.24
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.09
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	66.53
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.90
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.70
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.50
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.49
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.39
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.21
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.96
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.27
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.18
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.01
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.55
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.29
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.16
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.39
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.28
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	49.81
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.83
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.83
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.07
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.00
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.47
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.13
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.77
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.19
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.16
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.99
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.99
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.98
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.76
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.66
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.52
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.32
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.49
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.63
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.07
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.97
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.52
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.43
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.28
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.23
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.63
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.44
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.41
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.26
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.74
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.73
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.22
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.82
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.64
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.81
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.38
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.83
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.51
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.28
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.70
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.08
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.97
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.77
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.71
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.53
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.15
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	10.81
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.10
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.65
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	2.15
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.99
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.84
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.47
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.40
SRR7746667	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.