Gene detail

Detailed information of OS493_018413-T1 in Lophelia pertusa

Genomic Location: scaffold_61:471192...474607
NR annotation: KAJ7391370.1, regulator of calcineurin 2 [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
P53806	Calcipressin-like protein OS=Caenorhabditis elegans OX=6239 GN=rcan-1 PE=1 SV=2
Q5ZJV6	Calcipressin-3 OS=Gallus gallus OX=9031 GN=RCAN3 PE=2 SV=2
Q3ZBP4	Calcipressin-1 OS=Bos taurus OX=9913 GN=RCAN1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008690 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04847 all species →	Calcipressin	Calcipressin	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR012677 all species →	Homologous_superfamily	Nucleotide-binding alpha-beta plait domain superfamily	Interproscan
IPR006931 all species →	Family	Calcipressin	Interproscan
IPR000504 all species →	Domain	RNA recognition motif domain	Interproscan
IPR035979 all species →	Homologous_superfamily	RNA-binding domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10300 all species →	CALCIPRESSIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0019722 all species →	Biological Process	calcium-mediated signaling	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0008597 all species →	Molecular Function	calcium-dependent protein serine/threonine phosphatase regulator activity	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	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
K17903	RCAN2, ZAKI4; calcipressin-2	-	Thyroid hormone signaling pathway	ko04919	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_018413-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

61.8Max TPM

29.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	26.44	41.72
polyp at pH7 6	18	18	28.74	40.98
coral polyp · control treatment	16	16	35.76	61.79
coral polyp · oil and dispersant treatment	16	16	36.27	50.87
coral polyp · oil treatment	16	16	29.69	48.92
coral polyp · dispersant treatment	16	16	30.78	49.38
Polyp	10	10	18.00	35.71

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.72
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	39.05
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.07
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.98
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.76
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.43
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.17
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.10
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.29
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.74
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.93
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.49
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.48
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.04
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.83
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.90
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.77
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.15
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.98
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.62
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.06
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.98
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.85
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.79
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.68
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.27
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.90
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.57
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.12
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.12
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.76
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.70
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.38
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.71
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.81
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.99
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.79
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	51.34
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.34
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	45.61
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.23
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.57
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.10
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	36.73
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.52
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.38
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	32.52
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.39
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.09
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	21.75
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.16
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.64
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.87
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	50.60
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.57
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.75
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.85
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.58
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.87
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.67
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.83
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.48
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.74
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.70
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.92
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.98
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.03
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.84
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.92
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.29
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.84
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.77
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.87
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.29
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	32.23
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.14
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.64
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.68
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.26
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.72
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.53
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.51
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.82
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.57
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.38
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.65
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.38
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	39.00
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.61
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.61
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.43
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.63
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.72
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.32
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.66
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.70
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	25.17
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.11
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.00
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.05
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	35.71
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	28.33
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	27.76
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	17.53
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	17.45
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	13.02
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	12.42
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	10.91
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	8.95
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	7.94

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.