Gene detail

Detailed information of OS493_040379-T1 in Lophelia pertusa

Genomic Location: scaffold_2143:72...3128
NR annotation: KAJ7388014.1, Coiled-coil domain-containing protein 22, partial [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)	OG0004681 (this species only) · gene tree & orthology

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
IPR008530 all species →	Family	Coiled-coil domain-containing protein 22	Interproscan
IPR048348 all species →	Domain	CCDC22, coiled-coil domain	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_040379-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_040379-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

86TPM > 0

7Conditions

31.0Max TPM

6.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	15.60	24.16
polyp at pH7 6	18	17	13.62	21.54
coral polyp · control treatment	16	12	1.83	5.86
coral polyp · oil and dispersant treatment	16	8	0.97	4.83
coral polyp · oil treatment	16	10	1.89	8.50
coral polyp · dispersant treatment	16	11	1.05	4.11
Polyp	10	10	14.44	31.01

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.16
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.66
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.61
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.99
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.62
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.95
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.67
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.96
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.93
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.63
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.17
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.81
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.83
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.64
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.24
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.54
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.31
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.08
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.54
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.20
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.40
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.84
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.70
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.13
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.96
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.25
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.41
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.90
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.87
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.75
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.50
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.01
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.65
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.48
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.59
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.86
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.89
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.83
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.62
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.34
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.18
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.01
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.92
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.51
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.66
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.34
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.18
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.83
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.56
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.36
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.20
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.35
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.15
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.74
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.28
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.50
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.36
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.44
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.41
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.07
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.46
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.31
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.48
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.15
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.08
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.11
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.30
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.11
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.95
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.36
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.08
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.06
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.53
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.50
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.49
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.34
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705985	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
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	31.01
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	26.39
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	22.51
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	16.86
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	13.22
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	11.70
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	9.99
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	8.76
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.37
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.57

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.