Gene detail

Detailed information of OS493_022255-T1 in Lophelia pertusa

Genomic Location: scaffold_90:1064278...1067351
NR annotation: KAJ7330640.1, Trimeric intracellular cation channel type B [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
Q9NA75	Trimeric intracellular cation channel type 1B.1 OS=Caenorhabditis elegans OX=6239 GN=tric-1B.1 PE=1 SV=2
A5A6S6	Trimeric intracellular cation channel type A OS=Oryctolagus cuniculus OX=9986 GN=TMEM38A PE=1 SV=1
A6ZIQ8	Trimeric intracellular cation channel type A OS=Rattus norvegicus OX=10116 GN=Tmem38a PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007190 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF05197 all species →	TRIC	TRIC channel	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR007866 all species →	Family	TRIC channel	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12454 all species →	TRIMERIC INTRACELLULAR CATION CHANNEL	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005267 all species →	Molecular Function	potassium channel activity	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0042802 all species →	Molecular Function	identical protein binding	Interproscan
GO:0071805 all species →	Biological Process	potassium ion transmembrane transport	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_022255-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_022255-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

46.5Max TPM

18.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	22.72	32.06
polyp at pH7 6	18	18	22.03	38.57
coral polyp · control treatment	16	16	14.76	30.05
coral polyp · oil and dispersant treatment	16	16	12.57	37.55
coral polyp · oil treatment	16	16	17.14	28.31
coral polyp · dispersant treatment	16	16	8.83	15.08
Polyp	10	10	33.68	46.47

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	-	32.06
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.62
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.04
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.15
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.78
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.50
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.16
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.59
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.05
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.69
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.91
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.74
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.47
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.12
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.77
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.26
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.08
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.05
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.57
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.38
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.41
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.34
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.55
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.77
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.29
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.88
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.48
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.42
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.41
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.25
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.38
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.38
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.35
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.89
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.96
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.88
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.05
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.91
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.55
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.57
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.53
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.62
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.36
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.40
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.99
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.65
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.45
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.70
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.43
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.34
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.36
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.25
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.55
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.71
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.69
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.37
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.25
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.73
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.60
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.34
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.69
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.69
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.03
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.50
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.23
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.22
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.84
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.70
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.31
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	28.17
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.09
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.98
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.40
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.21
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.99
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.58
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.69
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.84
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.00
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.71
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.15
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.09
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.42
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.60
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.08
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.37
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.41
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.37
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.19
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.40
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.29
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.66
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.73
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.81
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.77
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.45
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.48
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.89
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.24
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.17
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	46.47
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	45.14
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	42.79
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	36.25
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	35.58
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	35.18
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	29.81
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	26.52
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	23.09
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	15.99

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.