Gene detail

Detailed information of OS493_011802-T1 in Lophelia pertusa

Genomic Location: scaffold_30:1809597...1820696
NR annotation: KAJ7336586.1, hypothetical protein OS493_011802 [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
Q96RW7	Hemicentin-1 OS=Homo sapiens OX=9606 GN=HMCN1 PE=1 SV=2
D3YXG0	Hemicentin-1 OS=Mus musculus OX=10090 GN=Hmcn1 PE=1 SV=1
Q05793	Basement membrane-specific heparan sulfate proteoglycan core protein OS=Mus musculus OX=10090 GN=Hspg2 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003660 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13927 all species →	Ig_3	Immunoglobulin domain	Domain	Interproscan
PF00047 all species →	ig	Immunoglobulin domain	Domain	Interproscan
PF07679 all species →	I-set	Immunoglobulin I-set domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036179 all species →	Homologous_superfamily	Immunoglobulin-like domain superfamily	Interproscan
IPR007110 all species →	Domain	Immunoglobulin-like domain	Interproscan
IPR013106 all species →	Domain	Immunoglobulin V-set domain	Interproscan
IPR003599 all species →	Domain	Immunoglobulin subtype	Interproscan
IPR013783 all species →	Homologous_superfamily	Immunoglobulin-like fold	Interproscan
IPR003598 all species →	Domain	Immunoglobulin subtype 2	Interproscan
IPR013151 all species →	Domain	Immunoglobulin	Interproscan
IPR052615 all species →	Family	Fibroblast growth factor receptor-like	Interproscan
IPR013098 all species →	Domain	Immunoglobulin I-set	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR19890 all species →	FIBROBLAST GROWTH FACTOR RECEPTOR	Interproscan

Gene Ontology

No Gene Ontology signature was detected for OS493_011802-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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K26107	FGFRL1, FGFR5; fibroblast growth factor receptor-like 1	-	Signaling proteins	-	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_011802-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

59.8Max TPM

19.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	30.98	45.79
polyp at pH7 6	18	18	26.71	39.23
coral polyp · control treatment	16	16	19.34	34.61
coral polyp · oil and dispersant treatment	16	16	8.92	17.20
coral polyp · oil treatment	16	16	22.87	59.77
coral polyp · dispersant treatment	16	16	13.34	33.70
Polyp	10	10	11.27	20.39

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.79
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	43.90
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.62
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.09
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.87
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.61
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.06
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.97
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.31
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.53
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.39
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.39
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.38
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.08
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.24
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.47
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.54
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.35
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.23
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.59
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.43
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.08
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.90
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.92
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.57
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.19
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.40
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.73
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.39
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.75
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.59
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.31
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.91
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.89
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.42
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.47
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.61
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.15
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.89
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.77
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.21
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.29
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.39
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.61
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.10
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.27
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.62
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.12
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.93
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.81
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.55
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.13
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.20
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.24
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.14
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.06
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.29
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.22
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.03
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.83
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.37
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.20
SRR16705944	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	5.87
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.67
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.44
SRR16705977	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	3.38
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.77
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.77
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.85
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.46
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.98
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.87
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.80
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.34
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.02
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.60
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.67
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.50
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.01
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.47
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.84
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.03
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.70
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.06
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.37
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.98
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.63
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.79
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.02
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.54
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.23
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.94
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.77
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.21
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.00
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.76
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.74
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.70
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	20.39
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	18.70
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	17.54
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	12.03
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	10.22
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	7.80
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	7.77
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	7.34
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	5.78
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.12

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.