Gene detail

Detailed information of OS493_030425-T1 in Lophelia pertusa

Genomic Location: scaffold_195:658655...661557
NR annotation: KAJ7377223.1, hypothetical protein OS493_030425 [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
Q6DJK9	Probable splicing factor YJU2B OS=Xenopus laevis OX=8355 GN=yju2b PE=2 SV=1
Q66I85	Probable splicing factor YJU2B OS=Danio rerio OX=7955 GN=yju2b PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005463 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04502 all species →	Saf4_Yju2	Saf4/Yju2 protein	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR007590 all species →	Family	Saf4/Yju2 protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12111 all species →	SPLICING FACTOR YJU2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000398 all species →	Biological Process	mRNA splicing, via spliceosome	Interproscan
GO:0005684 all species →	Cellular Component	U2-type spliceosomal complex	Interproscan
GO:0008380 all species →	Biological Process	RNA splicing	Interproscan
GO:0071014 all species →	Cellular Component	post-mRNA release spliceosomal complex	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

No KEGG orthology assignment for OS493_030425-T1.

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_030425-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

109TPM > 0

7Conditions

39.6Max TPM

9.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	11.65	18.07
polyp at pH7 6	18	18	11.83	22.24
coral polyp · control treatment	16	16	10.37	39.59
coral polyp · oil and dispersant treatment	16	16	6.66	14.11
coral polyp · oil treatment	16	16	11.00	35.81
coral polyp · dispersant treatment	16	16	4.80	14.73
Polyp	10	9	12.06	21.02

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.07
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.46
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	14.55
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.90
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	13.22
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.67
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.66
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.24
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.15
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.89
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.84
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.10
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.42
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.69
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.68
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.23
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.49
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.39
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	22.24
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.14
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.91
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.90
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.86
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.84
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.37
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.95
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.44
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.86
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.85
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.41
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.37
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.23
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.25
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.82
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.57
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.01
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.59
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	18.40
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.96
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.89
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.39
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.18
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.12
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.94
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.80
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.70
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.38
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.81
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.04
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.86
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.51
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.35
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.11
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	11.13
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.50
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.09
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.78
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.41
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.90
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.55
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.14
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.05
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.54
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.50
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.02
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.80
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.77
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.31
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.81
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.47
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	16.74
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.53
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.02
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.78
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.41
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.68
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.63
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.45
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.25
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.26
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.05
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.73
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.09
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.04
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.73
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.99
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.94
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.34
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.44
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.11
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.85
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.08
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.65
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.54
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.82
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.64
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.61
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.55
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.94
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.66
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	21.02
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	20.54
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	19.71
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	19.00
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	10.08
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	9.42
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	8.03
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	7.83
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	4.96
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.