Gene detail

Detailed information of OS493_015016-T1 in Lophelia pertusa

Genomic Location: scaffold_43:2058059...2062663
NR annotation: KAJ7392070.1, Peptidyl-prolyl cis-trans isomerase pin4 [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
Q503Y7	Peptidyl-prolyl cis-trans isomerase NIMA-interacting 4 OS=Danio rerio OX=7955 GN=pin4 PE=2 SV=1
Q6P4K8	Peptidyl-prolyl cis-trans isomerase NIMA-interacting 4 OS=Xenopus tropicalis OX=8364 GN=pin4 PE=2 SV=1
B5KFL3	Peptidyl-prolyl cis-trans isomerase NIMA-interacting 4 OS=Taeniopygia guttata OX=59729 GN=PIN4 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007710 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13616 all species →	Rotamase_3	PPIC-type PPIASE domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR043323 all species →	Family	Peptidyl-prolyl cis-trans isomerase PIN4	Interproscan
IPR046357 all species →	Homologous_superfamily	Peptidyl-prolyl cis-trans isomerase domain superfamily	Interproscan
IPR000297 all species →	Domain	Peptidyl-prolyl cis-trans isomerase, PpiC-type	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45995 all species →	-	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0003755 all species →	Molecular Function	peptidyl-prolyl cis-trans isomerase activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006364 all species →	Biological Process	rRNA processing	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
K09579	PIN4; peptidyl-prolyl cis-trans isomerase NIMA-interacting 4	EC:5.2.1.8	Chaperones and folding catalysts	ko03110	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_015016-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

80.8Max TPM

25.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	33.27	49.56
polyp at pH7 6	18	17	32.64	80.77
coral polyp · control treatment	16	16	24.98	35.18
coral polyp · oil and dispersant treatment	16	15	16.97	27.24
coral polyp · oil treatment	16	16	29.10	39.74
coral polyp · dispersant treatment	16	16	12.67	21.47
Polyp	10	10	30.67	43.49

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.56
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	44.86
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	44.66
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	44.54
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.80
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.18
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.24
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.09
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.13
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.08
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.51
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.22
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.71
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.08
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.03
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.51
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.95
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.80
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	80.77
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	66.13
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.72
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.16
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.61
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.57
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.19
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.02
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.92
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.29
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.91
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.33
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.21
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.93
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.22
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.25
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.37
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.18
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.00
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.98
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.89
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.61
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.34
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.06
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	27.77
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.36
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.78
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	25.48
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.94
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.05
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.14
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.78
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.31
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.24
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.92
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.61
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.02
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.13
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	19.49
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.74
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.38
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.33
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.27
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.44
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.29
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.04
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.32
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.34
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.74
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.77
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.84
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	33.97
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.20
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.18
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.29
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.92
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.99
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.66
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.59
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.25
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.08
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.54
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.21
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.31
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.47
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.52
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.36
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.51
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.82
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.58
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.58
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.57
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.16
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.92
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.88
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.98
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.93
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.17
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.96
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.35
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	43.49
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	40.42
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	38.47
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	36.06
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	28.71
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	27.13
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	26.58
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	22.39
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	21.81
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	21.61

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.