Gene detail

Detailed information of OS493_038935-T1 in Lophelia pertusa

Genomic Location: scaffold_807:7544...16391
NR annotation: KAJ7375776.1, 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
Q6PDN3	Myosin light chain kinase, smooth muscle OS=Mus musculus OX=10090 GN=Mylk PE=1 SV=3

Gene family

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

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
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
IPR003599 all species →	Domain	Immunoglobulin subtype	Interproscan
IPR036116 all species →	Homologous_superfamily	Fibronectin type III superfamily	Interproscan
IPR036179 all species →	Homologous_superfamily	Immunoglobulin-like domain superfamily	Interproscan
IPR007110 all species →	Domain	Immunoglobulin-like domain	Interproscan
IPR013783 all species →	Homologous_superfamily	Immunoglobulin-like fold	Interproscan
IPR050964 all species →	Family	Striated Muscle Structural and Regulatory Protein	Interproscan
IPR003598 all species →	Domain	Immunoglobulin subtype 2	Interproscan
IPR013098 all species →	Domain	Immunoglobulin I-set	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_038935-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_038935-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

106TPM > 0

7Conditions

164.8Max TPM

16.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5.63	10.74
polyp at pH7 6	18	15	7.94	15.49
coral polyp · control treatment	16	16	16.90	75.63
coral polyp · oil and dispersant treatment	16	16	31.27	56.92
coral polyp · oil treatment	16	16	12.80	37.32
coral polyp · dispersant treatment	16	16	36.02	164.76
Polyp	10	9	2.37	6.93

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	-	10.74
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.89
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.42
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.74
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.42
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.05
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.02
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.88
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.08
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.07
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.92
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.77
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.58
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.52
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.79
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.72
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.70
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.98
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.49
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.76
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.96
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.63
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.74
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.06
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.28
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.99
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.76
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.57
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.76
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.93
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.85
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.25
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.84
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
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	75.63
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.52
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.25
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.42
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.46
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.01
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.54
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.40
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.41
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.27
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.02
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.77
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.88
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.81
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.98
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.00
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.92
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.53
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.27
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.94
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.42
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.96
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.66
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.89
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.53
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.85
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.86
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.52
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.48
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.96
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.94
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.55
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.32
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.55
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.13
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.78
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.13
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.81
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.15
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.80
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.30
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.12
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.84
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.75
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.49
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.39
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.02
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.22
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	164.76
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	87.27
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	51.59
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.43
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.58
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.69
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.05
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.19
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.22
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.69
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.03
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	17.39
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.86
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.92
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.03
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.60
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	6.93
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.80
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	3.04
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.50
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.05
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	1.96
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.93
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.31
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.20
SRR7746667	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.