Gene detail

Detailed information of OS493_020674-T1 in Lophelia pertusa

Genomic Location: scaffold_77:251111...252394
NR annotation: KAJ7358838.1, hypothetical protein OS493_020674 [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
F7AEX0	UV-stimulated scaffold protein A OS=Xenopus tropicalis OX=8364 GN=uvssa PE=2 SV=1
E7EXT2	UV-stimulated scaffold protein A OS=Danio rerio OX=7955 GN=uvssa PE=2 SV=2
E1C760	UV-stimulated scaffold protein A OS=Gallus gallus OX=9031 GN=UVSSA PE=3 SV=1

Gene family

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

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF20867 all species →	UVSSA_N	UVSSA N-terminal domain	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR049408 all species →	Repeat	UV-stimulated scaffold protein A, N-terminal alpha-solenoid repeats	Interproscan
IPR018610 all species →	Family	UV-stimulated scaffold protein A	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_020674-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_020674-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

100TPM > 0

7Conditions

7.3Max TPM

1.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	15	1.26	3.77
polyp at pH7 6	18	14	1.24	3.18
coral polyp · control treatment	16	16	1.94	3.61
coral polyp · oil and dispersant treatment	16	16	2.91	7.26
coral polyp · oil treatment	16	15	1.81	5.07
coral polyp · dispersant treatment	16	15	1.73	3.64
Polyp	10	9	0.70	1.12

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.77
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.00
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.07
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.89
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.84
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.79
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.63
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.99
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.97
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.92
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.91
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.84
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.84
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.77
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.49
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.18
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.98
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.35
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.23
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.03
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.01
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.38
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.25
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.20
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.18
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.11
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.04
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.21
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.13
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359513	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	3.61
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.50
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.91
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.91
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.63
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.39
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.88
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.81
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.62
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.61
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.60
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.38
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.08
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.01
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.87
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.18
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.26
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.50
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.15
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.45
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.50
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.61
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.55
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.36
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.23
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.12
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.96
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.88
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.49
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.37
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.35
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.83
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.07
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.06
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.71
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.47
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.11
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.75
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.73
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.64
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.48
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.47
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.37
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.18
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.06
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.77
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.64
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.81
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.77
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.57
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.19
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.06
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.99
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.91
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.85
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.32
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.21
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.13
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.04
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.95
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.19
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	1.12
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	1.05
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	0.97
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.81
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.78
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.71
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.65
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.46
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.42
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.