Gene detail

Detailed information of OS493_033513-T1 in Lophelia pertusa

Genomic Location: scaffold_267:165945...168418
NR annotation: KAJ7376633.1, Protein LSM14 A [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
Q8K2F8	Protein LSM14 homolog A OS=Mus musculus OX=10090 GN=Lsm14a PE=1 SV=1
Q68FI1	Protein LSM14 homolog B-A OS=Xenopus laevis OX=8355 GN=lsm14b-a PE=1 SV=1
A0A8M2	Protein LSM14 homolog A-A OS=Xenopus laevis OX=8355 GN=lsm14a-a PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007671 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF09532 all species →	FDF	FDF domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR025762 all species →	Domain	DFDF domain	Interproscan
IPR025761 all species →	Domain	FFD box	Interproscan
IPR019050 all species →	Domain	FDF domain	Interproscan
IPR025768 all species →	Domain	TFG box	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13586 all species →	SCD6 PROTEIN-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000932 all species →	Cellular Component	P-body	Interproscan
GO:0003729 all species →	Molecular Function	mRNA binding	Interproscan
GO:0033962 all species →	Biological Process	P-body assembly	Interproscan
GO:0034063 all species →	Biological Process	stress granule 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

No KEGG orthology assignment for OS493_033513-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_033513-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

322.4Max TPM

194.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	200.86	255.33
polyp at pH7 6	18	18	198.35	235.96
coral polyp · control treatment	16	16	236.27	322.40
coral polyp · oil and dispersant treatment	16	16	232.10	307.42
coral polyp · oil treatment	16	16	204.69	270.96
coral polyp · dispersant treatment	16	16	140.15	198.84
Polyp	10	10	123.02	210.85

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	255.33
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	248.85
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	239.80
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	236.01
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	231.43
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	219.92
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	219.03
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	218.72
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	203.39
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	196.58
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	190.88
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	187.30
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	180.67
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	179.45
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	161.19
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	154.02
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	153.55
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	139.33
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	235.96
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	231.68
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	228.43
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	224.67
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	220.78
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	219.90
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	212.77
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	209.84
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	207.97
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	203.11
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	197.98
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	194.35
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	182.02
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	177.28
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	168.57
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	166.67
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	148.73
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	139.54
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	322.40
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	319.39
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	274.57
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	267.36
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	266.01
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	240.48
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	239.39
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	233.07
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	229.73
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	228.30
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	222.27
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	216.50
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	197.28
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	196.61
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	190.58
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	136.44
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	307.42
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	262.57
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	261.58
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	260.46
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	260.06
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	258.51
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	226.44
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	226.24
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	224.67
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	219.63
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	212.48
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	209.50
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	204.49
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	200.79
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	197.95
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	180.79
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	270.96
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	264.95
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	256.81
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	249.77
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	235.47
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	213.91
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	208.51
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	204.09
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	192.05
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	189.52
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	186.13
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	184.66
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	184.16
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	170.59
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	136.19
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	127.23
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	198.84
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	180.53
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	176.02
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	172.79
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	160.95
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	153.04
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	150.86
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	149.09
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	147.16
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	145.56
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	136.93
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	129.53
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	127.63
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	101.35
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	80.24
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	31.88
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	210.85
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	154.37
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	148.89
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	141.71
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	135.27
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	119.99
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	91.96
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	88.07
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	78.03
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	61.04

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.