Gene detail

Detailed information of OS493_008483-T1 in Lophelia pertusa

Genomic Location: scaffold_20:346849...350212
NR annotation: KAJ7386362.1, hypothetical protein OS493_008483 [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
Q1LU93	Protein Abitram OS=Danio rerio OX=7955 GN=abitram PE=2 SV=1
Q29S16	Protein Abitram OS=Bos taurus OX=9913 GN=ABITRAM PE=2 SV=1
Q6GR35	Protein Abitram OS=Xenopus laevis OX=8355 GN=abitram PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009408 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01597 all species →	GCV_H	Glycine cleavage H-protein	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR033753 all species →	Family	Glycine cleavage system H-protein/Simiate	Interproscan
IPR039169 all species →	Family	Protein Abitram	Interproscan
IPR011053 all species →	Homologous_superfamily	Single hybrid motif	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13651 all species →	UNCHARACTERIZED	Interproscan

Gene Ontology

GO term	Category	Description	Source
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

No KEGG orthology assignment for OS493_008483-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_008483-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

105TPM > 0

7Conditions

32.1Max TPM

5.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	4.44	7.01
polyp at pH7 6	18	15	3.66	6.73
coral polyp · control treatment	16	16	7.21	20.62
coral polyp · oil and dispersant treatment	16	16	6.35	32.15
coral polyp · oil treatment	16	16	5.59	10.74
coral polyp · dispersant treatment	16	15	3.88	8.46
Polyp	10	9	4.40	10.07

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.01
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.94
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.66
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.45
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.34
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.94
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.88
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.60
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.44
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.25
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.18
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.11
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.60
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.45
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.38
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.30
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.91
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.55
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.73
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.67
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.31
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.10
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.83
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.58
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.46
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.40
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.19
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.06
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.76
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.35
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.31
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.94
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	2.22
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	0.00
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.62
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.60
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.06
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.04
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.92
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	8.72
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	7.43
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.85
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.23
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.21
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.02
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.46
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.11
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.01
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.97
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.12
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	32.15
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.51
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.35
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	6.28
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.81
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.46
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.05
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.02
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.81
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.38
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.12
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.68
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.56
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.88
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.76
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.77
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.74
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.62
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.52
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.88
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.30
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.17
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.04
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.93
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.81
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.63
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.29
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.68
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.65
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.28
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.26
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.61
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.46
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.14
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.47
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.84
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.78
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.47
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.75
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.06
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.09
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.53
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.32
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.05
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.84
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.45
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.84
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.00
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	10.07
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	6.94
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.59
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.13
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	4.97
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.28
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	3.25
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	2.65
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.14
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.