Gene detail

Detailed information of OS493_020673-T1 in Lophelia pertusa

Genomic Location: scaffold_77:245957...247134
NR annotation: KAJ7358837.1, hypothetical protein OS493_020673 [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
E1C760	UV-stimulated scaffold protein A OS=Gallus gallus OX=9031 GN=UVSSA PE=3 SV=1
Q2YD98	UV-stimulated scaffold protein A OS=Homo sapiens OX=9606 GN=UVSSA PE=1 SV=2
E7EXT2	UV-stimulated scaffold protein A OS=Danio rerio OX=7955 GN=uvssa PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007473 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF09740 all species →	DUF2043	Uncharacterized conserved protein (DUF2043)	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR018610 all species →	Family	UV-stimulated scaffold protein A	Interproscan
IPR049431 all species →	Domain	UV-stimulated scaffold protein A, C-terminal domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR28670 all species →	UV-STIMULATED SCAFFOLD PROTEIN A	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000993 all species →	Molecular Function	RNA polymerase II complex binding	Interproscan
GO:0005694 all species →	Cellular Component	chromosome	Interproscan
GO:0006283 all species →	Biological Process	transcription-coupled nucleotide-excision repair	Interproscan
GO:0009411 all species →	Biological Process	response to UV	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_020673-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_020673-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

107TPM > 0

7Conditions

5.9Max TPM

2.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	1.45	2.33
polyp at pH7 6	18	18	1.94	4.60
coral polyp · control treatment	16	16	2.73	5.34
coral polyp · oil and dispersant treatment	16	15	3.36	5.60
coral polyp · oil treatment	16	16	2.81	4.60
coral polyp · dispersant treatment	16	15	2.31	5.86
Polyp	10	9	1.80	3.27

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.33
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.21
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.12
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.10
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.09
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.99
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.74
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.35
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.35
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.33
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.27
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.22
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.05
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.04
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.93
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.90
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.56
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.45
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.60
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.80
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.72
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.53
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.35
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.35
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.30
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.05
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.92
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.88
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.59
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.57
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.34
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.28
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.21
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.98
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.77
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.68
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.34
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.53
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.91
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.47
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.95
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.93
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.91
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.67
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.56
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.30
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.30
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.26
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.57
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.51
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.36
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.05
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.60
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.60
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.24
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.13
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.05
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.89
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.84
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.81
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.61
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.61
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.24
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.89
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.63
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.90
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.66
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.60
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.45
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.52
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.44
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.34
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.12
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.01
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.75
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.67
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.66
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.29
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.20
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.11
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.84
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.72
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.21
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.86
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.93
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.21
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.13
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.01
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.86
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.57
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.56
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.41
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.76
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.52
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.34
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.31
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.24
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.20
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.27
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.12
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.88
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.95
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.92
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.82
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.16
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.01
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.87
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.