Gene detail

Detailed information of OS493_027975-T1 in Lophelia pertusa

Genomic Location: scaffold_156:569628...576161
NR annotation: KAJ7326124.1, hypothetical protein OS493_027975 [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
O95149	Snurportin-1 OS=Homo sapiens OX=9606 GN=SNUPN PE=1 SV=1
Q80W37	Snurportin-1 OS=Mus musculus OX=10090 GN=Snupn PE=2 SV=1
Q5ZI43	Snurportin-1 OS=Gallus gallus OX=9031 GN=SNUPN PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003152 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_027975-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR047857 all species →	Domain	Snurportin-1, m3G cap-binding domain	Interproscan
IPR017336 all species →	Family	Snurportin-1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13403 all species →	SNURPORTIN1 RNUT1 PROTEIN RNA, U TRANSPORTER 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0061015 all species →	Biological Process	snRNA import into nucleus	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_027975-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_027975-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

27.3Max TPM

6.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.00	12.93
polyp at pH7 6	18	17	6.24	11.16
coral polyp · control treatment	16	16	7.43	20.95
coral polyp · oil and dispersant treatment	16	16	5.10	16.82
coral polyp · oil treatment	16	16	6.27	7.19
coral polyp · dispersant treatment	16	16	5.06	9.37
Polyp	10	9	11.42	27.33

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.93
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.14
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.13
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.70
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.33
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.50
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.89
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.76
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.71
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.16
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.98
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.56
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.91
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.87
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.59
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.34
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.51
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.04
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.16
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.05
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.43
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.32
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.09
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.07
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.86
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.72
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.50
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.30
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.03
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.71
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.68
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.62
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.05
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.46
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.21
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.95
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.48
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.40
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.14
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.07
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.76
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.16
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.11
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.00
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.39
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.39
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.06
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.88
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.76
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.70
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.63
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.82
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.62
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.33
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.12
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.65
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.60
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.26
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.38
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.28
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.94
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.53
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.04
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.94
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.94
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.97
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.24
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.19
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.14
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.03
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.89
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.77
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.56
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.52
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.51
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.41
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.25
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.08
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.07
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.81
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.56
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.77
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.72
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.37
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.59
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.29
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.36
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.59
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.49
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.22
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.90
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.49
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.13
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.12
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.96
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.89
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.25
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.19
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.06
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	27.33
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	16.79
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	15.83
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	14.61
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	13.83
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	8.42
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	8.37
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	6.29
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.75
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.