Gene detail

Detailed information of OS493_016218-T1 in Lophelia pertusa

Genomic Location: scaffold_49:1904998...1905414
NR annotation: KAJ7391918.1, Twist- protein 2 [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
P13903	Twist-related protein OS=Xenopus laevis OX=8355 GN=twist1 PE=2 SV=1
Q8WVJ9	Twist-related protein 2 OS=Homo sapiens OX=9606 GN=TWIST2 PE=1 SV=1
P97831	Twist-related protein 2 OS=Rattus norvegicus OX=10116 GN=Twist2 PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009411 (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
IPR015789 all species →	Domain	Twist-related, basic helix-loop-helix domain	Interproscan
IPR050283 all species →	Family	E-box Binding Transcriptional Regulators	Interproscan
IPR036638 all species →	Homologous_superfamily	Helix-loop-helix DNA-binding domain superfamily	Interproscan
IPR011598 all species →	Domain	Myc-type, basic helix-loop-helix (bHLH) domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23349 all species →	BASIC HELIX-LOOP-HELIX TRANSCRIPTION FACTOR, TWIST	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000977 all species →	Molecular Function	RNA polymerase II transcription 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
GO:0032502 all species →	Biological Process	developmental process	Interproscan
GO:0046983 all species →	Molecular Function	protein dimerization activity	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
K09069	TWIST; twist	-	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_016218-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

102.9Max TPM

33.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	47.90	91.65
polyp at pH7 6	18	18	43.24	66.64
coral polyp · control treatment	16	16	40.88	102.90
coral polyp · oil and dispersant treatment	16	16	19.18	41.78
coral polyp · oil treatment	16	16	24.28	73.13
coral polyp · dispersant treatment	16	16	30.99	67.23
Polyp	10	10	18.01	28.86

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	-	91.65
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	86.62
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	71.38
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	56.15
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	56.02
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	54.68
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	52.02
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	51.23
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.81
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	46.23
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	44.21
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.84
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.61
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.81
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.89
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.53
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.33
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.23
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	66.64
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	66.42
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	62.81
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	62.76
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	55.70
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	54.04
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	53.35
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	51.75
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.01
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.53
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.98
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.75
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.37
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.85
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.21
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	27.30
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.27
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.61
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	102.90
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	89.37
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	66.02
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.84
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	56.53
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	42.15
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	40.33
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	35.21
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.28
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.84
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.23
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.48
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	17.03
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.73
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.44
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.74
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.78
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.81
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.45
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	27.89
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	26.30
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	21.83
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.60
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.39
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.36
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.15
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.04
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.30
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.06
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.15
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.25
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.50
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	73.13
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.20
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.34
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	36.89
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	31.69
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.18
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	19.32
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.48
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.18
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.03
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.20
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.77
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.97
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.49
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.25
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.45
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	67.23
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	64.57
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	64.39
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	60.95
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	37.41
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.51
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.85
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.89
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.06
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	23.05
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.96
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.41
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.88
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.31
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.55
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.74
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	28.86
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	28.43
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	26.89
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	21.82
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	19.13
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	18.30
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	12.30
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	11.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	10.97
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.45

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.