Gene detail

Detailed information of OS493_011683-T1 in Lophelia pertusa

Genomic Location: scaffold_30:139470...144295
NR annotation: KAJ7336482.1, ADP-ribosylation factor 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
B5FYQ0	ADP-ribosylation factor-like protein 3 OS=Taeniopygia guttata OX=59729 GN=ARL3 PE=2 SV=1
Q8QHI3	ADP-ribosylation factor-like protein 3 OS=Xenopus laevis OX=8355 GN=arl3 PE=2 SV=1
P36405	ADP-ribosylation factor-like protein 3 OS=Homo sapiens OX=9606 GN=ARL3 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000273 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00025 all species →	Arf	ADP-ribosylation factor family	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR005225 all species →	Domain	Small GTP-binding protein domain	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR044612 all species →	Family	ADP-ribosylation factor-like protein 2/3	Interproscan
IPR006689 all species →	Family	Small GTPase superfamily, ARF/SAR type	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45697 all species →	ADP-RIBOSYLATION FACTOR-LIKE PROTEIN 2-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005525 all species →	Molecular Function	GTP binding	Interproscan
GO:0003924 all species →	Molecular Function	GTPase activity	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0015630 all species →	Cellular Component	microtubule cytoskeleton	Interproscan
GO:0060271 all species →	Biological Process	cilium assembly	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
K07944	ARL3; ADP-ribosylation factor-like protein 3	-	GTP-binding proteins	ko04031	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_011683-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

153.6Max TPM

54.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	34.26	51.94
polyp at pH7 6	18	18	39.92	55.08
coral polyp · control treatment	16	16	66.82	153.57
coral polyp · oil and dispersant treatment	16	16	77.60	118.09
coral polyp · oil treatment	16	16	60.24	95.40
coral polyp · dispersant treatment	16	16	64.01	106.04
Polyp	10	10	35.41	65.97

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	51.94
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	51.39
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	50.97
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	48.22
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	47.95
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	44.70
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	41.22
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	38.07
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.09
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.14
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.96
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.68
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.75
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.97
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.99
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.64
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.45
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.53
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	55.08
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	54.05
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	53.07
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	50.36
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	48.00
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	47.11
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	46.63
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	44.57
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.39
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.66
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.55
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	36.86
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.49
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.43
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	25.04
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	24.41
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.41
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.38
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	153.57
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	110.04
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	73.89
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	65.34
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	65.13
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	63.30
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	62.01
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	60.72
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	58.62
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.94
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	57.07
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	55.66
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	54.80
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.68
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.60
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.77
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	118.09
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	97.68
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	95.80
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	94.71
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	89.37
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	85.61
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	82.19
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	80.03
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	77.94
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	77.12
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	68.35
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	65.55
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	65.35
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	63.27
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.93
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	31.66
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	95.40
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	86.91
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	85.31
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	79.54
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	73.44
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	70.15
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	69.69
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	63.37
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	60.04
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	54.18
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.19
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.04
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.91
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.17
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.45
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.12
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	106.04
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	105.79
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	94.85
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	92.64
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	89.78
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	80.80
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	63.61
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	61.84
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	61.72
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.03
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	55.45
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.84
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	47.59
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.05
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.81
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.24
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	65.97
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	56.59
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	49.62
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	35.38
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	32.61
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	30.24
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	29.84
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	23.95
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	18.55
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	11.33

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.