Gene detail

Detailed information of OS493_012775-T1 in Lophelia pertusa

Genomic Location: scaffold_33:2874616...2879626
NR annotation: KAJ7380013.1, hypothetical protein OS493_012775 [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
Q9H307	Pinin OS=Homo sapiens OX=9606 GN=PNN PE=1 SV=5
Q5R5X0	Pinin OS=Pongo abelii OX=9601 GN=PNN PE=2 SV=1
P79149	Pinin OS=Canis lupus familiaris OX=9615 GN=PNN PE=2 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006944 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04696 all species →	Pinin_SDK_memA	pinin/SDK/memA/ protein conserved region	Family	Interproscan
PF04697 all species →	Pinin_SDK_N	pinin/SDK conserved region	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR039853 all species →	Family	Pinin	Interproscan
IPR006786 all species →	Domain	Pinin/SDK/MemA protein	Interproscan
IPR006787 all species →	Domain	Pinin/SDK	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12707 all species →	PINN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0071013 all species →	Cellular Component	catalytic step 2 spliceosome	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
K13114	PNN; pinin	-	Spliceosome	ko03041	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_012775-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

179.7Max TPM

78.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	97.61	139.09
polyp at pH7 6	18	18	94.01	128.87
coral polyp · control treatment	16	16	87.63	155.21
coral polyp · oil and dispersant treatment	16	16	60.06	82.52
coral polyp · oil treatment	16	16	90.90	128.24
coral polyp · dispersant treatment	16	16	33.51	66.58
Polyp	10	10	84.07	179.70

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	139.09
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	137.25
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	129.65
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	121.85
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	120.30
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	119.49
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	113.70
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	109.34
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	108.36
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	106.62
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	77.43
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	77.20
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	74.90
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	73.58
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	65.55
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	63.85
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	60.46
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	58.35
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	128.87
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	123.41
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	116.75
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	116.27
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	115.45
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	115.12
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	112.37
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	111.60
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	111.15
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	110.70
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	78.58
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	77.84
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	76.98
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	76.93
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	68.85
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	67.60
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.47
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.19
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	155.21
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	117.37
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	114.34
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	104.03
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	97.87
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	88.78
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	87.66
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	87.63
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	86.01
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	82.39
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	72.01
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	71.02
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	69.57
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.23
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.72
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.26
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	82.52
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	76.75
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	73.65
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	73.30
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	72.91
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	69.07
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	66.91
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	65.79
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	58.02
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.32
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.55
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.27
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	46.10
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.61
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.21
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	40.94
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	128.24
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	121.15
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	107.67
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	107.47
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	107.27
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	106.75
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	98.62
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	86.71
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	84.14
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	83.39
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	82.36
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	78.50
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	77.15
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	64.29
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	61.08
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	59.63
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	66.58
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	54.10
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.73
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.50
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.72
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.11
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.07
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.07
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.38
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.96
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.13
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.79
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.39
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.49
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.43
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.76
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	179.70
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	167.38
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	107.76
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	82.87
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	71.23
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	53.92
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	51.58
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	49.06
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	45.76
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	31.49

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.