Gene detail

Detailed information of OS493_035116-T1 in Lophelia pertusa

Genomic Location: scaffold_309:390167...399771
NR annotation: KAJ7376370.1, Signal transducing adapter molecule 2 [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
P70297	Signal transducing adapter molecule 1 OS=Mus musculus OX=10090 GN=Stam PE=1 SV=3
Q92783	Signal transducing adapter molecule 1 OS=Homo sapiens OX=9606 GN=STAM PE=1 SV=3
O88811	Signal transducing adapter molecule 2 OS=Mus musculus OX=10090 GN=Stam2 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005113 (this species only) · gene tree & orthology
Ubiquitin family	UBD\|Other\|SH3 · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00018 all species →	SH3_1	SH3 domain	Domain	Interproscan
PF02809 all species →	UIM	Ubiquitin interaction motif	Motif	Interproscan
PF00790 all species →	VHS	VHS domain	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR008942 all species →	Homologous_superfamily	ENTH/VHS	Interproscan
IPR001452 all species →	Domain	SH3 domain	Interproscan
IPR003903 all species →	Conserved_site	Ubiquitin interacting motif	Interproscan
IPR002014 all species →	Domain	VHS domain	Interproscan
IPR036028 all species →	Homologous_superfamily	SH3-like domain superfamily	Interproscan
IPR050670 all species →	Family	Signal Transducing Adapter Molecule	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45929 all species →	JAK PATHWAY SIGNAL TRANSDUCTION ADAPTOR MOLECULE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0035091 all species →	Molecular Function	phosphatidylinositol binding	Interproscan
GO:0043130 all species →	Molecular Function	ubiquitin binding	Interproscan
GO:0033565 all species →	Cellular Component	ESCRT-0 complex	Interproscan
GO:0043328 all species →	Biological Process	protein transport to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K14649	TAF8; transcription initiation factor TFIID subunit 8	-	Transcription machinery	ko03021	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_035116-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

107TPM > 0

7Conditions

136.5Max TPM

19.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.67	12.93
polyp at pH7 6	18	16	8.76	15.61
coral polyp · control treatment	16	16	19.77	44.32
coral polyp · oil and dispersant treatment	16	16	40.33	70.54
coral polyp · oil treatment	16	16	16.34	30.22
coral polyp · dispersant treatment	16	16	39.10	136.45
Polyp	10	9	4.91	7.47

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.93
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.35
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.67
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.65
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.57
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.50
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.35
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.64
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.41
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.17
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.75
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.43
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.90
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.84
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.60
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.66
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.89
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.69
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.61
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.49
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.63
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.18
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.88
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.24
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.64
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.37
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.08
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.78
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.04
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.19
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.10
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.96
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.90
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.65
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	44.32
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.08
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.40
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	24.32
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.51
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.01
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.27
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.76
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.17
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.44
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.94
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.26
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.03
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.79
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.57
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.42
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	70.54
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	64.07
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	53.14
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.99
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.48
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	46.38
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.30
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.48
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.41
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.36
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	33.87
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.04
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.56
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.29
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.77
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.68
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.22
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	23.29
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.88
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.27
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.60
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.87
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.55
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.64
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.28
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.68
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.05
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.15
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.67
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.67
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.46
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.16
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	136.45
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	67.60
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	61.49
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	51.63
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.44
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.79
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.79
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.59
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.30
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.37
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.05
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.02
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.21
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.66
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.36
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.88
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	7.47
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	7.19
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	6.45
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.62
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.52
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	5.38
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	5.24
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.86
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.37
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.