Gene detail

Detailed information of OS493_040093-T1 in Lophelia pertusa

Genomic Location: scaffold_1723:7066...8573
NR annotation: KAJ7388059.1, Calcium uptake protein 3, mitochondrial, partial [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
Q9CTY5	Calcium uptake protein 3, mitochondrial OS=Mus musculus OX=10090 GN=Micu3 PE=1 SV=2
A0A8I6A2H6	Calcium uptake protein 3, mitochondrial OS=Rattus norvegicus OX=10116 GN=Micu3 PE=3 SV=1
Q86XE3	Calcium uptake protein 3, mitochondrial OS=Homo sapiens OX=9606 GN=MICU3 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004678 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_040093-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR039800 all species →	Family	Calcium uptake protein 1/2/3	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12294 all species →	EF HAND DOMAIN FAMILY A1,A2-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0006851 all species →	Biological Process	mitochondrial calcium ion transmembrane transport	Interproscan
GO:0036444 all species →	Biological Process	calcium import into the mitochondrion	Interproscan
GO:0051560 all species →	Biological Process	mitochondrial calcium ion homeostasis	Interproscan
GO:1990246 all species →	Cellular Component	uniplex complex	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

No KEGG orthology assignment for OS493_040093-T1.

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_040093-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

91TPM > 0

7Conditions

11.0Max TPM

2.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	5.35	10.97
polyp at pH7 6	18	14	4.23	10.55
coral polyp · control treatment	16	14	1.45	5.16
coral polyp · oil and dispersant treatment	16	10	0.91	3.00
coral polyp · oil treatment	16	15	1.92	4.43
coral polyp · dispersant treatment	16	13	1.43	3.97
Polyp	10	7	2.68	7.68

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	-	10.97
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.73
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.49
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.62
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.59
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.66
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.73
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.39
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.01
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.31
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.24
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.06
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.71
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.15
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.86
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.85
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.74
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.18
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.55
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.97
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.06
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.02
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.49
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.39
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.88
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.33
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.08
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.83
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.14
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.92
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.43
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	1.99
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.16
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.36
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.44
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.32
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.06
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.78
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.50
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.19
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.03
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.76
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.64
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.48
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.38
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.15
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	0.00
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.00
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.51
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.98
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.51
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.29
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.26
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.22
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.80
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.78
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.21
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.43
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.00
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.63
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.40
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.98
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.68
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.26
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.21
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.69
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.17
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.77
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.58
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.43
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.27
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.20
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	0.00
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.97
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.01
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.83
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.56
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.35
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.19
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.73
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.60
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.91
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.74
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.44
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.37
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.24
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	7.68
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	4.85
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	4.34
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.16
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	2.53
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	1.63
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	1.59
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	0.00
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.00

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.