Gene detail

Detailed information of OS493_034043-T1 in Lophelia pertusa

Genomic Location: scaffold_280:104017...120880
NR annotation: KAJ7370114.1, Far upstream element-binding protein 3 [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
Q91WJ8	Far upstream element-binding protein 1 OS=Mus musculus OX=10090 GN=Fubp1 PE=1 SV=1
Q32PX7	Far upstream element-binding protein 1 OS=Rattus norvegicus OX=10116 GN=Fubp1 PE=1 SV=1
Q96AE4	Far upstream element-binding protein 1 OS=Homo sapiens OX=9606 GN=FUBP1 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003191 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF09005 all species →	DUF1897	Domain of unknown function (DUF1897)	Domain	Interproscan
PF00013 all species →	KH_1	KH domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR004087 all species →	Domain	K Homology domain	Interproscan
IPR036612 all species →	Homologous_superfamily	K Homology domain, type 1 superfamily	Interproscan
IPR015096 all species →	Domain	Far upstream element-binding protein, C-terminal	Interproscan
IPR004088 all species →	Domain	K Homology domain, type 1	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10288 all species →	KH DOMAIN CONTAINING RNA BINDING PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0003729 all species →	Molecular Function	mRNA binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0010468 all species →	Biological Process	regulation of gene expression	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	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
K13210	FUBP; far upstream element-binding protein	-	Spliceosome	ko03041	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_034043-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

255.0Max TPM

140.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	153.45	203.07
polyp at pH7 6	18	18	147.30	214.33
coral polyp · control treatment	16	16	143.48	188.57
coral polyp · oil and dispersant treatment	16	16	145.18	255.02
coral polyp · oil treatment	16	16	137.53	169.64
coral polyp · dispersant treatment	16	16	131.09	165.81
Polyp	10	10	112.46	152.58

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	203.07
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	197.98
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	183.18
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	180.55
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	179.68
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	179.65
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	165.71
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	163.63
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	155.10
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	154.58
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	152.40
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	152.33
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	146.03
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	137.40
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	111.28
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	101.88
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	100.44
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	97.16
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	214.33
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	211.73
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	167.83
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	164.15
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	153.94
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	152.35
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	151.44
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	150.70
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	143.88
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	139.49
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	133.88
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	133.83
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	133.20
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	132.92
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	132.09
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	132.02
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	109.75
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	93.81
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	188.57
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	168.79
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	167.80
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	162.13
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	156.78
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	155.47
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	153.29
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	145.91
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	140.05
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	133.57
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	133.25
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	130.38
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	130.03
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	127.14
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	125.77
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	76.82
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	255.02
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	183.91
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	155.59
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	155.40
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	154.60
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	152.91
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	150.34
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	143.90
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	142.15
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	129.36
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	128.12
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	128.11
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	127.51
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	114.19
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	103.45
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	98.29
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	169.64
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	169.01
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	159.26
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	155.66
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	155.49
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	153.97
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	140.83
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	138.71
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	136.49
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	134.78
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	133.94
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	131.21
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	120.57
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	114.13
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	108.31
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	78.46
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	165.81
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	158.07
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	157.38
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	154.91
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	153.09
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	150.66
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	145.30
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	143.95
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	133.38
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	127.66
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	122.75
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	121.18
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	121.02
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	120.47
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	66.08
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	55.74
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	152.58
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	137.70
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	127.27
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	123.71
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	107.13
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	102.61
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	102.02
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	99.08
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	97.58
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	74.88

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.