Gene detail

Detailed information of OS493_004326-T1 in Lophelia pertusa

Genomic Location: scaffold_8:5105906...5115612
NR annotation: KAJ7387338.1, hypothetical protein OS493_004326 [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
Q9Y6J0	Calcineurin-binding protein cabin-1 OS=Homo sapiens OX=9606 GN=CABIN1 PE=1 SV=1
O88480	Calcineurin-binding protein cabin-1 OS=Rattus norvegicus OX=10116 GN=Cabin1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002204 (this species only)

Pfam domain

No Pfam domain signature was detected for OS493_004326-T1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR033053 all species →	Family	Histone transcription regulator 3/CABIN1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15502 all species →	CALCINEURIN-BINDING PROTEIN CABIN 1-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006325 all species →	Biological Process	chromatin organization	Interproscan
GO:0031491 all species →	Molecular Function	nucleosome 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

No KEGG orthology assignment for OS493_004326-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_004326-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

37.9Max TPM

10.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	10.44	17.26
polyp at pH7 6	18	18	11.58	22.72
coral polyp · control treatment	16	16	12.68	26.72
coral polyp · oil and dispersant treatment	16	16	10.58	37.94
coral polyp · oil treatment	16	16	11.18	21.80
coral polyp · dispersant treatment	16	16	9.87	19.08
Polyp	10	10	7.44	15.34

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	-	17.26
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.52
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.47
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.30
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.34
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.38
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.03
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.82
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.68
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.55
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.28
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.24
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.20
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.09
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.35
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.08
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.16
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.23
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.72
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.52
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.12
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.53
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.62
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.00
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.49
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.46
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.16
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.78
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.62
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.12
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.74
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.44
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.98
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.43
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.09
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.60
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	26.72
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	22.31
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.97
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.40
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.87
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.35
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.27
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.08
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.14
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.93
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.70
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.17
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.09
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.48
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.16
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.20
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	37.94
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.58
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.35
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.44
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.99
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.95
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.75
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.75
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.16
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.01
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.70
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.18
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.60
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.57
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.83
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.55
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.80
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.51
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.39
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	15.23
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.36
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.54
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.47
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.09
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.90
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.63
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.42
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.15
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.08
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.71
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.42
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.16
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.08
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.90
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.05
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.09
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.65
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.54
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.48
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.16
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.81
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.20
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.93
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.92
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.90
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.35
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.37
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.48
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	15.34
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	8.53
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	7.58
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	7.44
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	7.02
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6.69
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	6.16
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.67
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	5.36
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	4.57

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.