Gene detail

Detailed information of OS493_020913-T1 in Lophelia pertusa

Genomic Location: scaffold_79:53550...56810
NR annotation: KAJ7390893.1, hypothetical protein OS493_020913 [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
P49709	Transcriptional regulator Myc OS=Carassius auratus OX=7957 GN=myc PE=3 SV=1
Q90342	Transcriptional regulator Myc-2 OS=Cyprinus carpio OX=7962 GN=mycb PE=3 SV=1
P01110	Viral myc transforming protein OS=Avian myelocytomatosis virus 29 OX=11868 GN=MYC PE=3 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003718 (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
IPR002418 all species →	Family	Transcription regulator Myc	Interproscan
IPR036638 all species →	Homologous_superfamily	Helix-loop-helix DNA-binding domain superfamily	Interproscan
IPR050433 all species →	Family	Myc family transcription factors	Interproscan
IPR011598 all species →	Domain	Myc-type, basic helix-loop-helix (bHLH) domain	Interproscan

PANTHER

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

Gene Ontology

GO term	Category	Description	Source
GO:0003700 all species →	Molecular Function	DNA-binding transcription factor activity	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K09112	SMYC, MYCS; myc-like oncogene	-	Transcription factors	ko03000	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_020913-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

108TPM > 0

7Conditions

24.8Max TPM

7.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	8.88	13.42
polyp at pH7 6	18	18	9.59	19.44
coral polyp · control treatment	16	16	8.17	15.83
coral polyp · oil and dispersant treatment	16	15	2.92	4.74
coral polyp · oil treatment	16	16	6.21	9.59
coral polyp · dispersant treatment	16	16	6.56	24.84
Polyp	10	9	6.96	23.73

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.42
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.87
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.09
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.81
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.69
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.64
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.56
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.26
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.01
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.70
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.64
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.23
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.62
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.44
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.25
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.23
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.72
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.62
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.44
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.14
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.47
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.80
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.60
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.91
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.86
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.26
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.64
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.59
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.16
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.39
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.35
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.17
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.01
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.94
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.52
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.45
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.83
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.95
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.90
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.66
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.87
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.67
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.30
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.59
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.27
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.23
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.47
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.73
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.47
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.22
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.52
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.12
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.74
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.55
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.45
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.41
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.71
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.42
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.26
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.00
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.85
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.78
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.33
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.15
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.85
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.72
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.54
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	0.00
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.59
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.00
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.93
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.61
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.08
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.15
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.98
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.88
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.78
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.54
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.34
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.96
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.33
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.10
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.36
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.78
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	24.84
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.07
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.47
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.49
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.25
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.94
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.68
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.18
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.04
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.61
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.58
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.35
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.29
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.24
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.71
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.17
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	23.73
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	10.74
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	9.39
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	7.54
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	5.95
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.28
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.72
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	1.92
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	1.35
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.