Gene detail

Detailed information of OS493_028588-T1 in Lophelia pertusa

Genomic Location: scaffold_166:437851...443876
NR annotation: KAJ7370973.1, Protein lin-7 C [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
Q0P5F3	Protein lin-7 homolog C OS=Bos taurus OX=9913 GN=LIN7C PE=2 SV=1
Q5F425	Protein lin-7 homolog C OS=Gallus gallus OX=9031 GN=LIN7C PE=1 SV=1
Q9NUP9	Protein lin-7 homolog C OS=Homo sapiens OX=9606 GN=LIN7C PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004232 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00595 all species →	PDZ	PDZ domain	Domain	Interproscan
PF02828 all species →	L27	L27 domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR017365 all species →	Family	Protein lin-7	Interproscan
IPR051109 all species →	Family	Membrane-associated multiprotein complex regulator	Interproscan
IPR004172 all species →	Domain	L27 domain	Interproscan
IPR001478 all species →	Domain	PDZ domain	Interproscan
IPR036034 all species →	Homologous_superfamily	PDZ superfamily	Interproscan
IPR036892 all species →	Homologous_superfamily	L27 domain superfamily	Interproscan
IPR014775 all species →	Domain	L27 domain, C-terminal	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR14063 all species →	PROTEIN LIN-7 HOMOLOG	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005911 all species →	Cellular Component	cell-cell junction	Interproscan
GO:0007269 all species →	Biological Process	neurotransmitter secretion	Interproscan
GO:0016323 all species →	Cellular Component	basolateral plasma membrane	Interproscan
GO:0045199 all species →	Biological Process	maintenance of epithelial cell apical/basal polarity	Interproscan
GO:0045202 all species →	Cellular Component	synapse	Interproscan
GO:1903361 all species →	Biological Process	protein localization to basolateral plasma membrane	Interproscan
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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K19931	LIN7; protein lin-7	-	Membrane trafficking	ko04131	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_028588-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

329.6Max TPM

178.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	169.29	226.17
polyp at pH7 6	18	18	155.42	186.44
coral polyp · control treatment	16	16	203.10	253.51
coral polyp · oil and dispersant treatment	16	16	171.82	329.61
coral polyp · oil treatment	16	16	201.86	301.03
coral polyp · dispersant treatment	16	16	152.89	229.74
Polyp	10	10	207.83	277.22

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	226.17
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	221.88
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	196.46
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	190.38
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	189.36
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	182.09
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	179.55
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	174.51
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	170.95
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	170.36
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	163.87
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	157.96
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	155.21
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	148.56
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	143.04
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	130.06
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	127.38
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	119.50
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	186.44
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	175.92
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	174.80
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	173.04
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	172.92
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	170.62
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	170.09
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	169.93
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	168.26
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	164.40
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	162.47
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	158.82
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	149.57
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	144.02
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	142.50
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	139.19
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	92.36
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	82.12
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	253.51
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	252.86
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	248.56
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	247.67
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	244.19
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	242.64
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	242.28
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	237.11
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	208.47
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	191.72
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	189.05
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	165.71
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	140.92
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	140.34
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	124.19
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	120.40
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	329.61
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	271.13
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	218.16
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	213.86
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	198.29
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	194.54
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	191.42
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	191.29
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	148.01
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	145.12
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	118.87
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	116.89
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	114.39
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	111.69
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	101.29
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	84.61
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	301.03
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	288.61
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	275.22
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	251.91
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	247.90
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	217.23
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	215.69
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	210.54
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	196.31
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	195.90
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	177.03
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	172.17
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	163.80
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	123.02
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	120.89
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	72.53
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	229.74
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	224.86
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	214.88
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	212.57
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	212.01
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	176.85
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	162.35
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	144.83
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	143.88
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	143.30
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	125.07
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	122.46
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	118.45
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	74.90
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	71.61
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	68.52
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	277.22
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	238.86
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	229.51
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	223.86
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	196.40
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	194.02
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	191.59
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	187.16
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	170.55
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	169.15

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.