Gene detail

Detailed information of OS493_023909-T1 in Lophelia pertusa

Genomic Location: scaffold_108:628455...636001
NR annotation: KAJ7328639.1, hypothetical protein OS493_023909 [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
Q92917	G-patch domain and KOW motifs-containing protein OS=Homo sapiens OX=9606 GN=GPKOW PE=1 SV=2
Q5B4R9	Pre-mRNA-splicing factor spp2 OS=Emericella nidulans (strain FGSC A4 / ATCC 38163 / CBS 112.46 / NRRL 194 / M139) OX=227321 GN=spp2 PE=3 SV=1
Q52E73	Pre-mRNA-splicing factor SPP2 OS=Pyricularia oryzae (strain 70-15 / ATCC MYA-4617 / FGSC 8958) OX=242507 GN=SPP2 PE=3 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006241 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12656 all species →	G-patch_2	G-patch domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000467 all species →	Domain	G-patch domain	Interproscan
IPR008991 all species →	Homologous_superfamily	Translation protein SH3-like domain superfamily	Interproscan
IPR026822 all species →	Domain	Spp2/MOS2, G-patch domain	Interproscan
IPR045166 all species →	Family	Pre-mRNA-splicing factor Spp2-like	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15818 all species →	G PATCH AND KOW-CONTAINING	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0000398 all species →	Biological Process	mRNA splicing, via spliceosome	Interproscan
GO:0005681 all species →	Cellular Component	spliceosomal complex	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_023909-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_023909-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

25.6Max TPM

9.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	7.59	12.96
polyp at pH7 6	18	18	7.89	13.61
coral polyp · control treatment	16	16	11.64	19.41
coral polyp · oil and dispersant treatment	16	16	13.94	25.55
coral polyp · oil treatment	16	16	9.94	20.29
coral polyp · dispersant treatment	16	16	6.09	13.13
Polyp	10	10	8.70	22.89

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.96
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.20
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.85
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.27
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.88
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.08
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.44
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.30
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.60
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.85
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.61
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.56
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.60
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.39
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.32
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.14
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.24
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.36
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.61
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.07
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.44
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.12
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.20
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.06
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.46
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.93
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.71
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.40
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.37
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.27
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.09
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.04
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.15
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.95
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.80
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.35
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.41
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.76
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.70
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.02
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.37
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.36
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.29
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.87
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.25
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.70
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.95
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.27
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.03
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.93
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.46
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.91
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	25.55
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.40
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.39
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.60
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.65
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.34
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.12
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.99
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.33
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.54
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.91
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.14
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.71
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.46
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.25
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.66
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.29
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.06
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.02
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.81
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.46
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.27
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.08
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.20
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.79
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.35
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.34
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.61
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.62
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.43
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.43
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.29
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.13
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.43
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.08
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.24
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.10
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.96
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.91
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.78
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.35
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.25
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.63
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.34
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.29
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.23
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.30
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.34
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	22.89
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	20.21
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	16.37
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.24
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5.88
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3.85
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	3.59
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	3.34
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	2.99
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.61

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.