Gene detail

Detailed information of OS493_033999-T1 in Lophelia pertusa

Genomic Location: scaffold_279:83559...90263
NR annotation: KAJ7376543.1, hypothetical protein OS493_033999 [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
P24707	Superoxide dismutase [Cu-Zn], chloroplastic (Fragment) OS=Pinus sylvestris OX=3349 GN=SODCP PE=2 SV=1
P07505	Superoxide dismutase [Cu-Zn], chloroplastic OS=Spinacia oleracea OX=3562 GN=SODCP PE=1 SV=2
P14831	Superoxide dismutase [Cu-Zn], chloroplastic OS=Solanum lycopersicum OX=4081 GN=SODCP.2 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000995 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00080 all species →	Sod_Cu	Copper/zinc superoxide dismutase (SODC)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR024134 all species →	Family	Superoxide dismutase (Cu/Zn) / superoxide dismutase copper chaperone	Interproscan
IPR036423 all species →	Homologous_superfamily	Superoxide dismutase-like, copper/zinc binding domain superfamily	Interproscan
IPR001424 all species →	Domain	Superoxide dismutase, copper/zinc binding domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10003 all species →	SUPEROXIDE DISMUTASE CU-ZN -RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005507 all species →	Molecular Function	copper ion binding	Interproscan
GO:0006801 all species →	Biological Process	superoxide metabolic process	Interproscan
GO:0046872 all species →	Molecular Function	metal ion binding	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_033999-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_033999-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

359.1Max TPM

170.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	198.63	273.86
polyp at pH7 6	18	18	178.08	298.85
coral polyp · control treatment	16	16	182.91	359.06
coral polyp · oil and dispersant treatment	16	16	150.43	331.02
coral polyp · oil treatment	16	16	198.69	354.34
coral polyp · dispersant treatment	16	16	147.79	273.67
Polyp	10	10	114.31	265.63

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	273.86
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	260.87
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	242.83
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	235.92
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	214.94
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	214.18
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	207.50
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	207.24
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	203.86
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	203.02
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	195.76
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	189.74
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	165.91
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	161.22
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	160.94
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	159.06
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	143.35
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	135.18
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	298.85
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	295.81
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	224.58
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	224.40
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	197.76
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	173.03
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	170.06
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	165.11
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	163.01
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	161.23
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	156.79
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	156.16
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	154.14
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	153.86
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	135.08
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	130.20
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	128.70
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	116.74
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	359.06
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	346.69
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	342.43
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	222.61
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	213.36
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	189.77
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	189.02
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	178.42
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	154.07
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	147.32
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	126.47
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	106.53
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	97.16
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	90.19
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	84.28
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	79.25
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	331.02
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	259.92
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	224.16
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	194.52
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	174.49
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	172.55
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	170.34
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	135.36
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	116.86
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	116.65
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	104.41
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	103.13
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	96.05
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	80.83
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	71.09
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	55.44
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	354.34
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	292.85
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	278.36
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	239.37
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	217.84
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	211.29
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	209.69
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	202.93
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	190.96
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	165.62
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	157.37
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	146.95
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	145.20
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	141.53
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	131.79
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	92.94
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	273.67
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	273.35
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	257.40
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	241.19
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	181.09
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	174.66
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	136.65
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	136.21
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	134.29
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	124.37
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	104.86
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	73.75
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	72.62
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	69.41
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	64.57
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.48
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	265.63
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	260.42
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	164.22
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	122.01
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	121.98
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	81.61
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	47.29
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	46.45
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	21.40
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	12.07

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.