Gene detail

Detailed information of OS493_034060-T1 in Lophelia pertusa

Genomic Location: scaffold_280:278756...286725
NR annotation: KAJ7370131.1, hypothetical protein OS493_034060 [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
P08081	Clathrin light chain A OS=Rattus norvegicus OX=10116 GN=Clta PE=1 SV=1
P09496	Clathrin light chain A OS=Homo sapiens OX=9606 GN=CLTA PE=1 SV=1
P04973	Clathrin light chain A OS=Bos taurus OX=9913 GN=CLTA PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007421 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01086 all species →	Clathrin_lg_ch	Clathrin light chain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000996 all species →	Family	Clathrin light chain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10639 all species →	CLATHRIN LIGHT CHAIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005198 all species →	Molecular Function	structural molecule activity	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0006886 all species →	Biological Process	intracellular protein transport	Interproscan
GO:0016192 all species →	Biological Process	vesicle-mediated transport	Interproscan
GO:0030125 all species →	Cellular Component	clathrin vesicle coat	Interproscan
GO:0030130 all species →	Cellular Component	clathrin coat of trans-Golgi network vesicle	Interproscan
GO:0030132 all species →	Cellular Component	clathrin coat of coated pit	Interproscan
GO:0032050 all species →	Molecular Function	clathrin heavy chain binding	Interproscan
GO:0072583 all species →	Biological Process	clathrin-dependent endocytosis	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_034060-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_034060-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

241.5Max TPM

133.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	109.65	149.62
polyp at pH7 6	18	18	118.12	163.63
coral polyp · control treatment	16	16	172.07	241.47
coral polyp · oil and dispersant treatment	16	16	165.73	228.38
coral polyp · oil treatment	16	16	140.22	236.73
coral polyp · dispersant treatment	16	16	125.95	208.96
Polyp	10	10	86.28	149.54

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	-	149.62
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	148.23
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	124.69
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	122.53
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	122.38
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	117.54
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	115.44
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	109.62
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	106.38
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	102.23
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	101.98
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	101.49
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	97.73
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	97.47
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	95.23
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	90.33
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	86.49
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	84.35
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	163.63
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	154.99
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	145.55
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	142.94
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	138.11
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	125.02
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	122.95
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	120.41
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	118.14
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	118.04
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	117.57
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	117.17
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	115.31
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	105.75
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	104.76
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	94.86
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	61.60
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	59.33
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	241.47
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	232.73
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	223.52
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	218.82
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	215.48
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	194.70
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	189.37
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	179.85
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	175.65
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	165.68
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	165.14
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	136.61
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	128.60
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	127.14
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	84.51
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	73.88
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	228.38
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	212.73
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	199.07
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	197.25
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	189.76
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	188.78
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	180.31
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	173.64
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	170.58
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	170.41
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	162.72
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	153.07
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	144.47
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	119.57
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	109.63
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.41
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	236.73
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	192.27
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	190.50
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	181.06
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	177.49
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	163.72
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	158.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	155.72
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	147.94
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	141.15
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	130.08
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	112.96
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	87.83
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	75.86
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	64.04
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.25
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	208.96
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	168.81
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	160.71
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	159.90
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	148.55
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	146.15
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	131.45
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	127.24
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	126.84
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	124.20
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	122.88
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	120.29
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	117.38
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	103.29
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.68
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.82
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	149.54
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	117.51
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	106.92
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	100.26
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	75.18
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	74.00
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	71.59
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	61.46
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	60.66
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	45.69

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.