Gene detail

Detailed information of OS493_038936-T1 in Lophelia pertusa

Genomic Location: scaffold_807:18524...28973
NR annotation: KAJ7375777.1, axonal fasciculation [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
O35136	Neural cell adhesion molecule 2 OS=Mus musculus OX=10090 GN=Ncam2 PE=1 SV=1
O15394	Neural cell adhesion molecule 2 OS=Homo sapiens OX=9606 GN=NCAM2 PE=1 SV=2
A2ASS6	Titin OS=Mus musculus OX=10090 GN=Ttn PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000948 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00041 all species →	fn3	Fibronectin type III domain	Domain	Interproscan
PF07679 all species →	I-set	Immunoglobulin I-set domain	Domain	Interproscan
PF13927 all species →	Ig_3	Immunoglobulin domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR013783 all species →	Homologous_superfamily	Immunoglobulin-like fold	Interproscan
IPR003961 all species →	Domain	Fibronectin type III	Interproscan
IPR036179 all species →	Homologous_superfamily	Immunoglobulin-like domain superfamily	Interproscan
IPR007110 all species →	Domain	Immunoglobulin-like domain	Interproscan
IPR013098 all species →	Domain	Immunoglobulin I-set	Interproscan
IPR003599 all species →	Domain	Immunoglobulin subtype	Interproscan
IPR036116 all species →	Homologous_superfamily	Fibronectin type III superfamily	Interproscan
IPR050964 all species →	Family	Striated Muscle Structural and Regulatory Protein	Interproscan
IPR003598 all species →	Domain	Immunoglobulin subtype 2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13817 all species →	TITIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	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_038936-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_038936-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

104TPM > 0

7Conditions

212.7Max TPM

15.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	1.09	3.10
polyp at pH7 6	18	16	3.07	8.19
coral polyp · control treatment	16	16	14.91	59.85
coral polyp · oil and dispersant treatment	16	16	37.96	113.81
coral polyp · oil treatment	16	16	12.85	44.26
coral polyp · dispersant treatment	16	15	36.65	212.74
Polyp	10	7	0.70	3.32

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	-	3.10
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.72
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.53
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.50
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.46
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.32
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.18
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.98
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.93
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.86
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.83
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.82
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.82
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.78
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.78
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.52
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.31
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.22
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.19
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.94
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.24
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.10
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.23
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.08
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.97
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.83
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.55
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.64
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.41
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.39
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.26
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.12
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.74
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.62
SRR11359500	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
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.85
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.43
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.63
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.67
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.04
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.68
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.20
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.90
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.88
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.16
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.78
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.75
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.57
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.81
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.41
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.83
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	113.81
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	84.66
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	64.62
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.69
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.83
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.55
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.12
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.23
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.04
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.55
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.77
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.66
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.41
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.25
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.92
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.27
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	44.26
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.24
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	29.95
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.77
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.61
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.47
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.69
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.35
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.69
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.87
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.26
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.36
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.24
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.07
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.92
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.89
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	212.74
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	110.45
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	64.24
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.76
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.96
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.54
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.66
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.78
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.46
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.74
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.66
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.45
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.62
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.99
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.28
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	3.32
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	1.00
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.78
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.70
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.67
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.42
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.14
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.00
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.