Gene detail

Detailed information of OS493_004406-T1 in Lophelia pertusa

Genomic Location: scaffold_8:6219883...6230278
NR annotation: KAJ7387411.1, hypothetical protein OS493_004406 [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)	OG0008222 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF14940 all species →	TMEM219	Transmembrane 219	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR039587 all species →	Domain	TMEM248/TMEM219 domain	Interproscan
IPR039493 all species →	Family	TMEM248/TMEM219	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR16002 all species →	TRANSMEMBRANE PROTEIN 248-LIKE	Interproscan

Gene Ontology

No Gene Ontology signature was detected for OS493_004406-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_004406-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_004406-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

90.9Max TPM

31.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	29.48	43.80
polyp at pH7 6	18	17	30.33	56.51
coral polyp · control treatment	16	16	39.49	90.94
coral polyp · oil and dispersant treatment	16	16	32.84	54.75
coral polyp · oil treatment	16	16	36.45	63.72
coral polyp · dispersant treatment	16	16	21.95	34.77
Polyp	10	10	32.10	71.52

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.80
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.42
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.29
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.43
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.61
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.59
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.16
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.67
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.56
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.48
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.47
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.49
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.46
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.90
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.72
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.16
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.03
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.38
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	56.51
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.70
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	45.32
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.66
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.75
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.59
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.80
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.05
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.65
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.87
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.75
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.36
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.13
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.47
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.54
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.13
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.61
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	90.94
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.70
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	53.26
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.94
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.09
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.01
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.72
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.33
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.72
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.02
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.39
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.03
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.71
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.25
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.63
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.06
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.75
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.79
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.11
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.03
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.72
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.30
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.41
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.15
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.02
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.52
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.08
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.09
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.42
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.24
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.13
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.61
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	63.72
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.18
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	50.53
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.28
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.07
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.42
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.48
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.24
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.25
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.40
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.95
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.64
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.84
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.00
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.62
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.53
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.77
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.55
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.79
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.15
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.07
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.73
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.42
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.81
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.33
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.33
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.80
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.68
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.78
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.51
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.09
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.33
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	71.52
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	43.34
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	37.72
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	37.43
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	26.92
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	26.40
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	24.62
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	22.40
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	18.28
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	12.42

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.