Gene detail

Detailed information of OS493_032019-T1 in Lophelia pertusa

Genomic Location: scaffold_231:501814...513006
NR annotation: KAJ7376868.1, Coiled-coil domain-containing protein 22 [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
A7RNG8	Coiled-coil domain-containing protein 22 homolog OS=Nematostella vectensis OX=45351 GN=v1g180167 PE=3 SV=1
Q4V909	Coiled-coil domain-containing protein 22 OS=Danio rerio OX=7955 GN=ccdc22 PE=2 SV=1
Q9JIG7	Coiled-coil domain-containing protein 22 OS=Mus musculus OX=10090 GN=Ccdc22 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004755 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF05667 all species →	CCDC22_CC	CCDC22 protein coiled-coil region	Coiled-coil	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR048348 all species →	Domain	CCDC22, coiled-coil domain	Interproscan
IPR008530 all species →	Family	Coiled-coil domain-containing protein 22	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15668 all species →	JM1 PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0097602 all species →	Molecular Function	cullin family protein binding	Interproscan
GO:2000060 all species →	Biological Process	positive regulation of ubiquitin-dependent protein catabolic process	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_032019-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_032019-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

80TPM > 0

7Conditions

16.1Max TPM

2.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	5	1.05	5.01
polyp at pH7 6	18	5	1.05	5.71
coral polyp · control treatment	16	16	2.93	6.58
coral polyp · oil and dispersant treatment	16	15	2.62	7.70
coral polyp · oil treatment	16	16	3.23	8.33
coral polyp · dispersant treatment	16	14	1.66	2.96
Polyp	10	9	7.67	16.05

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.01
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.97
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.20
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.42
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.29
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359506	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
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.00
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.71
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.93
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.61
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.37
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.31
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	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
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359517	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
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.58
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.51
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.08
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.97
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.42
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.19
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.70
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.43
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.22
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.05
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.89
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.78
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.34
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.22
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.86
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.64
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.70
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.69
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.87
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.35
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.75
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.63
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.91
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.56
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.47
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.31
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.24
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.09
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.90
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.77
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.63
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.33
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.69
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.39
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.88
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.46
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.35
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.21
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.14
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.76
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.68
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.16
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.91
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.73
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.64
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.47
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.98
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.96
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.93
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.82
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.75
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.37
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.34
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.23
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.01
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.53
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.47
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.38
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.69
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.68
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.46
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	16.05
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	11.67
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	11.06
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	9.92
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	7.74
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.51
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.27
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.03
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.44
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.