Gene detail

Detailed information of OS493_014904-T1 in Lophelia pertusa

Genomic Location: scaffold_42:2664904...2667025
NR annotation: KAJ7334580.1, Adenylosuccinate synthetase [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
P14568	Argininosuccinate synthase OS=Bos taurus OX=9913 GN=ASS1 PE=2 SV=1
Q66I24	Argininosuccinate synthase OS=Danio rerio OX=7955 GN=ass1 PE=2 SV=1
Q5M8Z6	Argininosuccinate synthase OS=Xenopus tropicalis OX=8364 GN=ass1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003969 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00764 all species →	Arginosuc_synth	Arginosuccinate synthase N-terminal HUP domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR018223 all species →	Conserved_site	Argininosuccinate synthase, conserved site	Interproscan
IPR048267 all species →	Domain	Arginosuccinate synthase-like, N-terminal domain	Interproscan
IPR014729 all species →	Homologous_superfamily	Rossmann-like alpha/beta/alpha sandwich fold	Interproscan
IPR001518 all species →	Family	Argininosuccinate synthase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11587 all species →	ARGININOSUCCINATE SYNTHASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004055 all species →	Molecular Function	argininosuccinate synthase activity	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0006526 all species →	Biological Process	L-arginine biosynthetic process	Interproscan
GO:0000050 all species →	Biological Process	urea cycle	Interproscan
GO:0000053 all species →	Biological Process	argininosuccinate metabolic process	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	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_014904-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_014904-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

312.6Max TPM

109.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	119.70	184.31
polyp at pH7 6	18	18	90.19	114.78
coral polyp · control treatment	16	16	147.57	312.61
coral polyp · oil and dispersant treatment	16	16	91.27	157.19
coral polyp · oil treatment	16	16	124.97	250.57
coral polyp · dispersant treatment	16	16	106.41	246.88
Polyp	10	10	76.05	191.45

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	184.31
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	171.62
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	151.21
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	147.89
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	142.87
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	140.55
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	124.64
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	123.83
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	115.89
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	113.71
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	107.00
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	104.71
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	101.79
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	99.78
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	89.79
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	80.17
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	78.01
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	76.82
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	114.78
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	114.77
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	111.22
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	106.67
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	105.79
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	105.20
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	104.80
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	103.07
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	94.38
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	90.98
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	87.31
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	86.54
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	81.08
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	74.46
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	67.13
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	61.89
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	57.31
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	56.12
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	312.61
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	205.91
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	179.10
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	166.71
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	161.94
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	156.50
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	154.13
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	144.28
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	140.52
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	130.63
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	126.74
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	111.89
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	111.55
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	109.70
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	80.55
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	68.37
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	157.19
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	155.31
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	107.93
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	106.05
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	105.44
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	98.33
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	96.96
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	84.53
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	84.22
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	76.45
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	75.82
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	72.81
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	65.99
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	65.69
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	55.39
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	52.16
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	250.57
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	177.15
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	169.57
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	162.22
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	155.07
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	129.00
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	126.94
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	104.64
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	104.44
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	96.94
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	96.67
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	93.29
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	92.25
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	83.08
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	80.56
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	77.10
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	246.88
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	165.96
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	135.35
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	119.07
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	117.41
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	116.09
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	115.88
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	101.57
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	97.27
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	93.36
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	84.78
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	84.66
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	80.72
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	69.97
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	42.85
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.80
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	191.45
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	119.93
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	92.14
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	73.79
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	69.59
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	55.58
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	45.04
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	43.19
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	41.59
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	28.20

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.