Gene detail

Detailed information of OS493_012700-T1 in Lophelia pertusa

Genomic Location: scaffold_33:2130604...2142521
NR annotation: KAJ7379938.1, Son of sevenless 1 [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
Q07889	Son of sevenless homolog 1 OS=Homo sapiens OX=9606 GN=SOS1 PE=1 SV=1
Q62245	Son of sevenless homolog 1 OS=Mus musculus OX=10090 GN=Sos1 PE=1 SV=2
Q07890	Son of sevenless homolog 2 OS=Homo sapiens OX=9606 GN=SOS2 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003123 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00169 all species →	PH	PH domain	Domain	Interproscan
PF00621 all species →	RhoGEF	RhoGEF domain	Domain	Interproscan
PF00618 all species →	RasGEF_N	RasGEF N-terminal motif	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR009072 all species →	Homologous_superfamily	Histone-fold	Interproscan
IPR035899 all species →	Homologous_superfamily	Dbl homology (DH) domain superfamily	Interproscan
IPR001849 all species →	Domain	Pleckstrin homology domain	Interproscan
IPR000219 all species →	Domain	Dbl homology (DH) domain	Interproscan
IPR023578 all species →	Homologous_superfamily	Ras guanine nucleotide exchange factor domain superfamily	Interproscan
IPR000651 all species →	Domain	Ras-like guanine nucleotide exchange factor, N-terminal	Interproscan
IPR053086 all species →	Family	RhoGEF domain-containing protein	Interproscan
IPR011993 all species →	Homologous_superfamily	PH-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45834 all species →	RHO GUANINE NUCLEOTIDE EXCHANGE FACTOR 9-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0046982 all species →	Molecular Function	protein heterodimerization activity	Interproscan
GO:0005085 all species →	Molecular Function	guanyl-nucleotide exchange factor activity	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	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_012700-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_012700-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

36.7Max TPM

15.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	15.63	22.48
polyp at pH7 6	18	18	16.17	24.59
coral polyp · control treatment	16	16	21.67	36.71
coral polyp · oil and dispersant treatment	16	16	16.95	30.48
coral polyp · oil treatment	16	16	15.79	34.36
coral polyp · dispersant treatment	16	16	13.66	20.24
Polyp	10	10	8.51	13.71

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.48
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.64
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.30
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.97
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.80
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.46
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.39
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.17
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.62
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.28
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.78
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.14
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.15
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.93
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.44
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.52
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.20
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.12
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.59
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.30
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.15
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.52
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.37
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.48
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.15
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.71
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.65
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.04
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.56
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.30
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.83
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.83
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.61
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.31
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.78
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.89
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.71
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.61
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.74
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.67
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.42
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.90
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.73
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.70
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.22
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.14
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.72
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.52
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.46
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.02
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.81
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.42
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.48
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.36
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.26
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.43
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.87
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.61
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.22
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.36
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.52
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.12
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.54
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.15
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.01
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.83
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.19
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.24
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.36
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.02
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.38
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.64
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.95
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.84
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.85
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.15
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.36
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.38
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.68
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.90
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.53
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.18
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.77
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.73
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	20.24
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.56
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.23
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.88
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.67
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.09
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.94
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.79
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.17
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.43
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.53
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.07
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.97
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.85
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.75
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.32
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	13.71
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	12.86
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	12.45
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	9.45
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	7.70
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	6.37
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	6.24
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	6.05
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.66
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	4.61

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.