Gene detail

Detailed information of OS493_033820-T1 in Lophelia pertusa

Genomic Location: scaffold_274:338164...345725
NR annotation: KAJ7370195.1, hypothetical protein OS493_033820 [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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008303 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01391 all species →	Collagen	Collagen triple helix repeat (20 copies)	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR008160 all species →	Repeat	Collagen triple helix repeat	Interproscan
IPR050392 all species →	Family	Collagen/C1q domain-containing	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15427 all species →	EMILIN ELASTIN MICROFIBRIL INTERFACE-LOCATED PROTEIN ELASTIN MICROFIBRIL INTERFACER	Interproscan

Gene Ontology

No Gene Ontology signature was detected for OS493_033820-T1. This gene does have a gene model — the search simply returned no hit.

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_033820-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_033820-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

109TPM > 0

7Conditions

31.5Max TPM

9.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.92	15.11
polyp at pH7 6	18	18	6.24	10.57
coral polyp · control treatment	16	16	11.67	21.45
coral polyp · oil and dispersant treatment	16	16	9.29	21.33
coral polyp · oil treatment	16	16	14.17	31.47
coral polyp · dispersant treatment	16	15	6.30	21.19
Polyp	10	10	10.76	21.73

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.11
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.18
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.77
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.67
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.52
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.22
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.19
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.18
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.79
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.77
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.55
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.31
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.26
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.72
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.41
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.22
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.34
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.28
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.57
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.02
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.60
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.57
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.33
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.31
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.24
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.15
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.05
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.56
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.40
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.86
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.85
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.03
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.26
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.07
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.93
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.52
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.45
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.38
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.08
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.27
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.25
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.98
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.97
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.96
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.90
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.42
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.15
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.13
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.22
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.55
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.18
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.88
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.33
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.50
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.60
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.27
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.51
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.83
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.77
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.34
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.86
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.93
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.73
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.97
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.51
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.84
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.55
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.05
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.47
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.57
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.67
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.32
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.98
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.81
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.43
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.94
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.92
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.30
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.36
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.01
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.77
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.47
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.82
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.94
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.19
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.41
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.41
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.47
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.35
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.40
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.94
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.02
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.76
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.33
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.24
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.71
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.57
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.49
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.48
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	21.73
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	21.49
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	20.10
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	11.42
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	8.29
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	8.22
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6.05
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.88
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.70
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.67

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.