Gene detail

Detailed information of OS493_020911-T1 in Lophelia pertusa

Genomic Location: scaffold_79:36507...37658
NR annotation: KAJ7390891.1, hypothetical protein OS493_020911 [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)

No Swiss-Prot hit above the reporting threshold for this gene.

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009435 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00010 all species →	HLH	Helix-loop-helix DNA-binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR011598 all species →	Domain	Myc-type, basic helix-loop-helix (bHLH) domain	Interproscan
IPR050433 all species →	Family	Myc family transcription factors	Interproscan
IPR036638 all species →	Homologous_superfamily	Helix-loop-helix DNA-binding domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45851 all species →	MYC PROTO-ONCOGENE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0046983 all species →	Molecular Function	protein dimerization activity	Interproscan
GO:0000978 all species →	Molecular Function	RNA polymerase II cis-regulatory region sequence-specific DNA binding	Interproscan
GO:0000981 all species →	Molecular Function	DNA-binding transcription factor activity, RNA polymerase II-specific	Interproscan
GO:0006357 all species →	Biological Process	regulation of transcription by RNA polymerase II	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_020911-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_020911-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

159.3Max TPM

14.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	9.59	19.01
polyp at pH7 6	18	18	8.46	20.37
coral polyp · control treatment	16	16	8.86	19.85
coral polyp · oil and dispersant treatment	16	16	8.30	15.97
coral polyp · oil treatment	16	16	7.72	14.94
coral polyp · dispersant treatment	16	16	18.49	37.15
Polyp	10	10	61.74	159.33

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.01
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.83
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.25
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.41
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.11
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.84
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.10
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.20
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.02
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.26
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.10
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.68
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.26
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.23
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.55
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.36
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.25
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.22
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.37
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.51
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.48
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.24
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.91
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.46
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.46
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.60
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.23
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.90
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.78
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.71
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.94
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.91
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.57
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.52
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.32
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.43
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.85
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.18
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.81
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.36
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.74
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.58
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.24
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.51
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.18
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.89
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.18
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.97
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.72
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.66
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.82
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.04
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.97
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.53
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.60
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.51
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.68
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.46
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.31
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.31
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.75
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.35
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.67
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.91
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.75
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.72
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.63
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.59
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	14.94
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.02
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.05
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.22
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.20
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.60
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.52
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.18
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.00
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.72
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.49
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.19
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.07
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.65
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.43
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.23
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.15
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.43
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.83
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	26.56
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.89
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.12
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	16.48
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	15.58
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.04
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.91
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.82
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.67
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.47
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.50
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.02
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.43
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	159.33
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	154.45
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	153.42
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	28.29
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	28.03
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	25.30
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	24.65
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	18.57
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	14.68
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	10.64

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.