Gene detail

Detailed information of OS493_024825-T1 in Lophelia pertusa

Genomic Location: scaffold_117:1100525...1107593
NR annotation: KAJ7378160.1, Endothelial differentiation- factor 1 [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
Q5ZMC0	Endothelial differentiation-related factor 1 homolog OS=Gallus gallus OX=9031 GN=EDF1 PE=2 SV=1
Q3T0V7	Endothelial differentiation-related factor 1 OS=Bos taurus OX=9913 GN=EDF1 PE=2 SV=1
O60869	Endothelial differentiation-related factor 1 OS=Homo sapiens OX=9606 GN=EDF1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008061 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF08523 all species →	MBF1	Multiprotein bridging factor 1	Family	Interproscan
PF01381 all species →	HTH_3	Helix-turn-helix	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001387 all species →	Domain	Cro/C1-type helix-turn-helix domain	Interproscan
IPR013729 all species →	Domain	Multiprotein bridging factor 1, N-terminal	Interproscan
IPR010982 all species →	Homologous_superfamily	Lambda repressor-like, DNA-binding domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10245 all species →	ENDOTHELIAL DIFFERENTIATION-RELATED FACTOR 1 MULTIPROTEIN BRIDGING FACTOR 1	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	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
K03627	MBF1; putative transcription factor	-	Transcription	-	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_024825-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

131.4Max TPM

64.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	69.71	124.48
polyp at pH7 6	18	18	88.07	131.42
coral polyp · control treatment	16	16	67.42	97.83
coral polyp · oil and dispersant treatment	16	16	57.48	74.21
coral polyp · oil treatment	16	16	58.46	76.12
coral polyp · dispersant treatment	16	16	43.73	65.01
Polyp	10	10	65.50	115.32

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	124.48
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	123.01
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	96.36
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	90.88
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	78.85
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	69.06
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	64.16
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	61.59
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	61.41
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	58.44
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	56.87
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	56.83
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	56.47
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	54.83
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	52.35
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	50.41
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.51
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	49.26
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	131.42
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	125.02
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	116.22
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	111.81
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	105.73
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	94.62
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	93.74
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	85.85
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	84.02
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	82.55
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	78.04
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	77.53
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	75.96
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	70.53
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	67.64
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	66.54
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	65.96
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	52.07
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	97.83
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	81.48
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	77.91
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	76.68
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	76.61
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	74.66
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	69.05
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	68.20
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	64.83
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	62.22
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.49
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.62
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.23
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.74
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	50.69
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.53
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	74.21
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	69.48
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	65.74
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	65.31
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	64.72
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	62.00
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	59.82
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	56.98
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	55.96
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	55.17
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	53.89
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	52.58
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.88
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	49.07
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.85
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	38.05
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	76.12
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	74.26
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	72.45
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	66.68
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	63.45
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	62.31
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	61.81
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	61.47
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	58.74
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.39
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.16
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.70
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.17
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.35
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.53
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	39.69
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	65.01
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.71
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	54.51
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.17
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	52.23
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	51.05
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.18
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.24
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.15
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.71
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.18
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.36
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.34
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.88
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	27.62
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.33
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	115.32
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	85.12
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	77.44
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	77.15
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	72.68
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	67.03
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	52.30
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	52.00
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	40.34
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	15.62

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.