Gene detail

Detailed information of OS493_034029-T1 in Lophelia pertusa

Genomic Location: scaffold_279:487665...492807
NR annotation: KAJ7376573.1, hypothetical protein OS493_034029 [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
Q9WVQ1	Membrane-associated guanylate kinase, WW and PDZ domain-containing protein 2 OS=Mus musculus OX=10090 GN=Magi2 PE=1 SV=2
O88382	Membrane-associated guanylate kinase, WW and PDZ domain-containing protein 2 OS=Rattus norvegicus OX=10116 GN=Magi2 PE=1 SV=1
Q86UL8	Membrane-associated guanylate kinase, WW and PDZ domain-containing protein 2 OS=Homo sapiens OX=9606 GN=MAGI2 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003632 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00595 all species →	PDZ	PDZ domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001478 all species →	Domain	PDZ domain	Interproscan
IPR052082 all species →	Family	Peripheral myelin sheath structural protein	Interproscan
IPR036034 all species →	Homologous_superfamily	PDZ superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23348 all species →	PERIAXIN/AHNAK	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0043484 all species →	Biological Process	regulation of RNA splicing	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_034029-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_034029-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

9.4Max TPM

2.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	1.33	2.78
polyp at pH7 6	18	13	1.11	2.30
coral polyp · control treatment	16	16	2.38	4.00
coral polyp · oil and dispersant treatment	16	15	3.16	5.81
coral polyp · oil treatment	16	16	2.21	4.10
coral polyp · dispersant treatment	16	16	4.35	9.43
Polyp	10	10	0.91	4.10

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.78
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.24
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.03
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.95
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.86
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.79
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.51
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.39
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.30
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.29
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	1.13
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.92
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.87
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.83
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.61
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.55
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.48
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	0.48
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.30
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.20
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.07
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.01
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.92
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.66
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.45
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.43
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.33
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.33
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.29
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.81
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.27
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359516	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	4.00
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.65
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.46
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.45
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.33
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.31
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.90
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.43
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.25
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.07
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.80
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.75
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.60
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.86
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.68
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.62
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.81
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.47
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.73
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.99
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.89
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.88
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.66
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.47
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.27
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.87
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.78
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.45
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.07
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.62
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.63
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.10
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.56
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.01
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.88
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.87
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.59
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.23
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.95
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.95
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.93
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.84
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.63
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.52
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.24
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.18
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.82
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.43
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.25
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.65
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.80
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.55
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.19
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.48
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.05
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.86
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.84
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.32
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.22
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.70
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.68
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.10
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.45
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	4.10
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	1.13
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	0.91
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.65
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.51
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	0.45
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	0.42
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	0.36
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	0.35
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	0.23

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.