Gene detail

Detailed information of OS493_018531-T1 in Lophelia pertusa

Genomic Location: scaffold_61:1700910...1708320
NR annotation: KAJ7391484.1, Runt- transcription factor [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
Q01196	Runt-related transcription factor 1 OS=Homo sapiens OX=9606 GN=RUNX1 PE=1 SV=3
Q03347	Runt-related transcription factor 1 OS=Mus musculus OX=10090 GN=Runx1 PE=1 SV=1
Q63046	Runt-related transcription factor 1 OS=Rattus norvegicus OX=10116 GN=Runx1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005959 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00853 all species →	Runt	Runt domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000040 all species →	Family	Acute myeloid leukemia 1 protein (AML1)/Runt	Interproscan
IPR013524 all species →	Domain	Runt domain	Interproscan
IPR008967 all species →	Homologous_superfamily	p53-like transcription factor, DNA-binding domain superfamily	Interproscan
IPR012346 all species →	Homologous_superfamily	p53/RUNT-type transcription factor, DNA-binding domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11950 all species →	RUNT RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0003700 all species →	Molecular Function	DNA-binding transcription factor 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

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
K08367	RUNX1, AML1; runt-related transcription factor 1	-	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_018531-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

507.6Max TPM

84.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	36.35	57.16
polyp at pH7 6	18	18	47.95	103.57
coral polyp · control treatment	16	16	73.64	127.20
coral polyp · oil and dispersant treatment	16	16	85.21	185.66
coral polyp · oil treatment	16	16	60.24	127.89
coral polyp · dispersant treatment	16	16	227.51	507.60
Polyp	10	10	59.73	87.75

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	-	57.16
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	54.81
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	53.71
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	51.23
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.15
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	42.01
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.78
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.51
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	37.13
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	36.63
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.59
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.16
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.97
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.98
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.81
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.15
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.35
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.19
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	103.57
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	100.94
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	72.83
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	71.58
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	62.87
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	60.10
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	49.92
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.62
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.43
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.53
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.63
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.29
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.09
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.03
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.26
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.45
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.76
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.29
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	127.20
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	116.58
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	92.62
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	86.78
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	80.63
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	73.65
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	70.25
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	68.97
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	68.26
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	65.86
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	64.59
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.64
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.80
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.83
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.27
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.34
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	185.66
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	151.72
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	116.43
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	112.54
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	93.74
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	91.95
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	91.88
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	71.61
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	70.17
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	69.01
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	66.74
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	53.98
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.82
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.60
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	43.00
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	41.47
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	127.89
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	91.26
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	82.45
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	79.79
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	73.07
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	70.16
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	68.01
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	62.29
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	58.78
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.83
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.77
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	40.71
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.54
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	30.22
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.68
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	20.40
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	507.60
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	346.24
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	285.86
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	279.18
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	278.17
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	275.85
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	255.84
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	243.74
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	225.32
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	198.82
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	184.40
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	168.97
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	145.11
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	96.02
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	92.81
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.17
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	87.75
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	85.95
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	78.63
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	64.03
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	61.29
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	60.97
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	58.12
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	42.11
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	38.95
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	19.53

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.