Gene detail

Detailed information of OS493_022728-T1 in Lophelia pertusa

Genomic Location: scaffold_96:752296...763991
NR annotation: KAJ7330206.1, Nucleoporin Nup37 [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
Q9CWU9	Nucleoporin Nup37 OS=Mus musculus OX=10090 GN=Nup37 PE=1 SV=2
Q8NFH4	Nucleoporin Nup37 OS=Homo sapiens OX=9606 GN=NUP37 PE=1 SV=1
Q9VBU8	Nucleoporin Nup37 OS=Drosophila melanogaster OX=7227 GN=Nup37 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008640 (this species only)
Ubiquitin family	UBD\|Other\|Beta-prp · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|CDC20 · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00400 all species →	WD40	WD domain, G-beta repeat	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan
IPR001680 all species →	Repeat	WD40 repeat	Interproscan
IPR019775 all species →	Conserved_site	WD40 repeat, conserved site	Interproscan
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR037626 all species →	Family	Nucleoporin Nup37	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR22806 all species →	NUCLEOPORIN NUP37 P37 -RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0031080 all species →	Cellular Component	nuclear pore outer ring	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
K14302	NUP37; nuclear pore complex protein Nup37	-	Chromosome and associated proteins	ko03036	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_022728-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

108TPM > 0

7Conditions

22.2Max TPM

6.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.30	11.91
polyp at pH7 6	18	17	7.76	13.47
coral polyp · control treatment	16	16	8.97	22.18
coral polyp · oil and dispersant treatment	16	16	5.06	9.74
coral polyp · oil treatment	16	16	8.51	16.60
coral polyp · dispersant treatment	16	16	5.95	21.76
Polyp	10	9	3.51	7.87

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.91
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.99
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.79
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.64
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.67
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.07
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.43
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.97
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.84
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.56
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.48
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.47
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.40
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.65
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.36
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.35
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.62
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.13
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.47
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.43
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.60
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.21
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.15
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.65
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.63
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.47
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.44
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.43
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.34
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.04
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.35
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.35
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.24
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.01
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.89
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.18
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.38
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.06
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.03
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.65
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.83
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.03
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.73
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.26
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.22
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.72
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.90
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.70
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.25
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.18
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.35
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.74
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.98
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.77
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.28
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.24
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.14
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.43
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.34
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.34
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.20
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.89
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.58
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.15
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.07
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.91
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.90
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.60
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.64
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.66
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.07
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.83
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.48
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.78
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.04
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.05
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.74
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.51
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.99
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.88
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.36
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.38
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.19
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.76
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.80
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.32
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.07
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.85
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.50
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.08
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.59
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.38
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.81
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.78
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.52
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.93
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.66
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.92
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.20
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	7.87
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.56
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.05
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	3.79
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.66
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	3.01
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.30
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.91
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.94
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.