Gene detail

Detailed information of OS493_017024-T1 in Lophelia pertusa

Genomic Location: scaffold_53:2195305...2199406
NR annotation: KAJ7360391.1, hypothetical protein OS493_017024 [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
Q6P7N4	Abasic site processing protein HMCES OS=Xenopus tropicalis OX=8364 GN=hmces PE=2 SV=1
Q5ZJT1	Abasic site processing protein HMCES OS=Gallus gallus OX=9031 GN=HMCES PE=2 SV=1
Q5XIJ1	Abasic site processing protein HMCES OS=Rattus norvegicus OX=10116 GN=Hmces PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007145 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02586 all species →	SRAP	SOS response associated peptidase (SRAP)	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR003738 all species →	Family	SOS response associated peptidase (SRAP)	Interproscan
IPR036590 all species →	Homologous_superfamily	SOS response associated peptidase-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13604 all species →	DC12-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003697 all species →	Molecular Function	single-stranded DNA binding	Interproscan
GO:0006974 all species →	Biological Process	DNA damage response	Interproscan
GO:0106300 all species →	Biological Process	protein-DNA covalent cross-linking repair	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_017024-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_017024-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

37.6Max TPM

11.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	12.32	21.38
polyp at pH7 6	18	18	11.52	19.12
coral polyp · control treatment	16	16	15.08	34.83
coral polyp · oil and dispersant treatment	16	16	11.37	37.64
coral polyp · oil treatment	16	16	14.01	26.38
coral polyp · dispersant treatment	16	16	6.57	12.92
Polyp	10	10	9.60	16.81

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.38
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.64
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.70
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.24
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.03
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.99
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.95
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.82
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.81
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.69
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.64
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.61
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.44
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.21
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.71
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.69
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.55
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.67
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.12
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.83
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.64
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.24
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.20
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.69
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.85
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.60
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.35
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.71
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.26
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.22
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.95
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.35
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.27
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.84
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.72
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.51
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.83
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.64
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.44
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.06
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.02
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.94
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.45
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.82
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.50
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.57
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.01
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.76
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.80
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.53
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.74
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.19
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.64
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.07
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.82
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.03
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.55
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.46
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.99
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.67
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.33
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.52
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.73
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.38
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.89
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.74
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.40
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.70
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.38
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.02
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.56
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.44
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.03
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.25
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.73
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.44
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.42
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.09
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.20
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.84
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.80
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.70
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.13
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.12
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.92
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.00
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.68
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.24
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.98
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.82
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.39
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.16
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.95
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.70
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.33
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.15
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.04
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.34
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.89
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.58
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	16.81
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	14.50
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	12.25
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	11.55
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	9.03
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	8.10
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	6.92
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6.69
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.16
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.01

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.