Gene detail

Detailed information of OS493_012502-T1 in Lophelia pertusa

Genomic Location: scaffold_32:3323182...3335807
NR annotation: KAJ7386155.1, MAGUK p55 sub member 6 [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
Q9NZW5	Protein PALS2 OS=Homo sapiens OX=9606 GN=PALS2 PE=1 SV=2
Q9JLB0	Protein PALS2 OS=Mus musculus OX=10090 GN=Pals2 PE=1 SV=1
D3ZAA9	MAGUK p55 subfamily member 2 OS=Rattus norvegicus OX=10116 GN=Mpp2 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000787 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00595 all species →	PDZ	PDZ domain	Domain	Interproscan
PF00625 all species →	Guanylate_kin	Guanylate kinase	Domain	Interproscan
PF07653 all species →	SH3_2	Variant SH3 domain	Domain	Interproscan
PF02828 all species →	L27	L27 domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036034 all species →	Homologous_superfamily	PDZ superfamily	Interproscan
IPR001478 all species →	Domain	PDZ domain	Interproscan
IPR036892 all species →	Homologous_superfamily	L27 domain superfamily	Interproscan
IPR008144 all species →	Domain	Guanylate kinase-like domain	Interproscan
IPR001452 all species →	Domain	SH3 domain	Interproscan
IPR050716 all species →	Family	Membrane-associated guanylate kinase	Interproscan
IPR036028 all species →	Homologous_superfamily	SH3-like domain superfamily	Interproscan
IPR008145 all species →	Domain	Guanylate kinase/L-type calcium channel beta subunit	Interproscan
IPR004172 all species →	Domain	L27 domain	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR014775 all species →	Domain	L27 domain, C-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23122 all species →	MEMBRANE-ASSOCIATED GUANYLATE KINASE MAGUK	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0005911 all species →	Cellular Component	cell-cell junction	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_012502-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_012502-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

128.6Max TPM

59.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	65.19	85.50
polyp at pH7 6	18	18	61.31	97.77
coral polyp · control treatment	16	16	70.43	111.11
coral polyp · oil and dispersant treatment	16	16	57.21	128.61
coral polyp · oil treatment	16	16	64.38	117.77
coral polyp · dispersant treatment	16	16	55.75	94.27
Polyp	10	10	33.62	62.72

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	-	85.50
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	82.91
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	82.10
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	80.25
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	75.85
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	71.71
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	68.61
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	64.39
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	64.14
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	63.51
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	62.79
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	59.10
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	58.83
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	57.97
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	51.35
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	51.29
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.53
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	45.53
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	97.77
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	90.42
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	76.93
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	70.13
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	70.11
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	69.54
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	68.44
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	66.84
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	64.02
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	63.90
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	61.90
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	59.73
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	53.51
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.96
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.31
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.40
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.28
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.42
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	111.11
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	105.87
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	101.00
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	96.98
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	92.00
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	90.68
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	80.43
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	75.58
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.84
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	58.49
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	56.78
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.81
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.09
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.50
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.49
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.18
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	128.61
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	112.21
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	96.67
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	80.14
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	65.05
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	63.02
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.18
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.54
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	49.11
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.45
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	47.66
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.47
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.78
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.48
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.47
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.48
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	117.77
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	97.70
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	96.68
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	90.11
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	86.12
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	76.93
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	67.68
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	65.76
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	63.67
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	62.25
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	57.18
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.28
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.81
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.20
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.79
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.13
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	94.27
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	94.18
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	90.22
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	79.52
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	72.80
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	68.91
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	61.67
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	57.62
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.70
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	47.92
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.95
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.35
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.26
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.57
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.93
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.15
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	62.72
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	60.20
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	49.71
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	46.08
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	37.07
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	28.69
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	17.44
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	15.22
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	9.93
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	9.10

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.