Gene detail

Detailed information of OS493_009827-T1 in Lophelia pertusa

Genomic Location: scaffold_23:3062808...3073813
NR annotation: KAJ7363665.1, Peptidyl-prolyl cis-trans isomerase-like 4 [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
Q9CXG3	Peptidyl-prolyl cis-trans isomerase-like 4 OS=Mus musculus OX=10090 GN=Ppil4 PE=1 SV=2
Q8WUA2	Peptidyl-prolyl cis-trans isomerase-like 4 OS=Homo sapiens OX=9606 GN=PPIL4 PE=1 SV=1
G5EEW6	Peptidyl-prolyl cis-trans isomerase sig-7 OS=Caenorhabditis elegans OX=6239 GN=sig-7 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004998 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00076 all species →	RRM_1	RNA recognition motif	Domain	Interproscan
PF00160 all species →	Pro_isomerase	Cyclophilin type peptidyl-prolyl cis-trans isomerase/CLD	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR012677 all species →	Homologous_superfamily	Nucleotide-binding alpha-beta plait domain superfamily	Interproscan
IPR029000 all species →	Homologous_superfamily	Cyclophilin-like domain superfamily	Interproscan
IPR000504 all species →	Domain	RNA recognition motif domain	Interproscan
IPR002130 all species →	Domain	Cyclophilin-type peptidyl-prolyl cis-trans isomerase domain	Interproscan
IPR035538 all species →	Domain	PPIL4-like, cyclophilin domain	Interproscan
IPR035979 all species →	Homologous_superfamily	RNA-binding domain superfamily	Interproscan
IPR035542 all species →	Family	Cyclophilin-RNA interacting protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45843 all species →	PEPTIDYL-PROLYL CIS-TRANS ISOMERASE-LIKE 4	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0000413 all species →	Biological Process	protein peptidyl-prolyl isomerization	Interproscan
GO:0003755 all species →	Molecular Function	peptidyl-prolyl cis-trans isomerase activity	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0005634 all species →	Cellular Component	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K12735	PPIL4; peptidyl-prolyl cis-trans isomerase-like 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_009827-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

22.2Max TPM

7.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	9.15	15.21
polyp at pH7 6	18	18	10.83	16.52
coral polyp · control treatment	16	16	8.60	22.17
coral polyp · oil and dispersant treatment	16	16	5.68	9.34
coral polyp · oil treatment	16	16	7.62	11.38
coral polyp · dispersant treatment	16	16	4.52	9.83
Polyp	10	10	6.03	14.58

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.21
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.61
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.49
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.75
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.01
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.83
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.46
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.19
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.11
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.08
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.44
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.34
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.77
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.06
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.70
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.72
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.13
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.87
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.52
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.13
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.03
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.74
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.74
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.66
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.64
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.62
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.14
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.83
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.64
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.58
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.52
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.19
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.58
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.71
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.99
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.57
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.17
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.87
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.30
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.07
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.04
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.50
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.41
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.33
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.48
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.68
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.95
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.41
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.92
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.79
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.39
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.23
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.34
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.45
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.83
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.80
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.73
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.45
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.00
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.91
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.55
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.83
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.58
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.56
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.12
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.90
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.58
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.20
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.38
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.79
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.64
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.62
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.53
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.51
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.14
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.06
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.95
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.54
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.17
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.55
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.03
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.49
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.07
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.40
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.83
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.70
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.68
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.91
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.49
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.33
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.87
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.65
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.34
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.86
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.77
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.22
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.03
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.63
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.61
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.46
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	14.58
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	8.92
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	7.72
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	6.85
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	6.01
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5.90
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.42
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	2.50
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.44
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	1.92

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.