Gene detail

Detailed information of OS493_005338-T1 in Lophelia pertusa

Genomic Location: scaffold_11:393940...401895
NR annotation: KAJ7365241.1, translation elongation factor EF1B gamma [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
P02597	Calmodulin, striated muscle OS=Gallus gallus OX=9031 GN=CCM1 PE=3 SV=2
Q71UH5	Calmodulin OS=Globisporangium splendens OX=82926 PE=2 SV=1
Q40302	Calmodulin OS=Macrocystis pyrifera OX=35122 PE=2 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000122 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13499 all species →	EF-hand_7	EF-hand domain pair	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR018247 all species →	Binding_site	EF-Hand 1, calcium-binding site	Interproscan
IPR002048 all species →	Domain	EF-hand domain	Interproscan
IPR011992 all species →	Homologous_superfamily	EF-hand domain pair	Interproscan
IPR051111 all species →	Family	Calcium-binding regulatory protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46311 all species →	CALCIUM-BINDING PROTEIN 8-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0032588 all species →	Cellular Component	trans-Golgi network membrane	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
K02183	CALM; calmodulin	-	Exosome	ko04147	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_005338-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

357.7Max TPM

113.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	203.30	321.27
polyp at pH7 6	18	18	176.55	244.51
coral polyp · control treatment	16	16	67.63	149.22
coral polyp · oil and dispersant treatment	16	16	47.63	109.24
coral polyp · oil treatment	16	16	72.86	136.31
coral polyp · dispersant treatment	16	16	58.77	134.07
Polyp	10	10	168.38	357.67

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	321.27
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	312.22
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	301.55
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	270.32
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	238.70
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	233.38
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	200.32
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	199.39
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	182.02
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	175.05
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	172.21
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	168.86
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	166.61
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	158.06
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	144.11
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	140.93
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	137.75
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	136.60
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	244.51
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	226.44
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	225.32
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	222.42
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	216.71
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	214.78
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	197.08
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	189.95
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	188.99
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	186.57
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	156.71
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	155.18
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	153.72
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	127.77
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	125.17
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	121.40
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	113.03
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	112.19
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	149.22
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	110.54
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	108.01
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	106.31
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	72.05
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	67.72
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	67.51
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	67.16
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	62.98
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.62
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.93
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.82
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.41
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	33.96
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.92
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.84
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	109.24
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	82.87
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	75.10
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	66.41
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	59.75
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.78
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	42.84
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.72
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.76
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.85
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	35.05
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.08
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	29.01
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	22.81
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.41
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.37
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	136.31
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	108.19
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	90.75
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	88.14
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	87.22
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	80.28
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	73.24
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	65.59
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	65.40
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	62.19
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	61.84
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	55.13
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.60
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.90
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	45.33
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.58
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	134.07
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	118.11
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	110.44
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	107.78
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	76.18
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.85
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.05
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.62
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.75
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.03
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.35
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.42
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.92
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.42
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.58
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.82
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	357.67
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	271.05
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	255.82
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	171.64
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	131.29
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	121.45
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	112.58
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	109.64
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	92.08
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	60.59

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.