Gene detail

Detailed information of OS493_004762-T1 in Lophelia pertusa

Genomic Location: scaffold_9:4414786...4422831
NR annotation: KAJ7381163.1, DAZ-associated protein 1 [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
Q96DH6	RNA-binding protein Musashi homolog 2 OS=Homo sapiens OX=9606 GN=MSI2 PE=1 SV=1
Q9VVE5	RNA-binding protein Musashi homolog Rbp6 OS=Drosophila melanogaster OX=7227 GN=Rbp6 PE=2 SV=3
Q920Q6	RNA-binding protein Musashi homolog 2 OS=Mus musculus OX=10090 GN=Msi2 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000504 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00076 all species →	RRM_1	RNA recognition motif	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR035979 all species →	Homologous_superfamily	RNA-binding domain superfamily	Interproscan
IPR000504 all species →	Domain	RNA recognition motif domain	Interproscan
IPR012677 all species →	Homologous_superfamily	Nucleotide-binding alpha-beta plait domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR48032 all species →	RNA-BINDING PROTEIN MUSASHI HOMOLOG RBP6	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan
GO:0003729 all species →	Molecular Function	mRNA binding	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0005844 all species →	Cellular Component	obsolete polysome	Interproscan
GO:0006417 all species →	Biological Process	regulation of translation	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	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_004762-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_004762-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

83.3Max TPM

21.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	8.75	14.75
polyp at pH7 6	18	18	9.31	12.28
coral polyp · control treatment	16	16	25.09	43.77
coral polyp · oil and dispersant treatment	16	16	33.73	54.16
coral polyp · oil treatment	16	16	22.48	35.56
coral polyp · dispersant treatment	16	16	36.67	83.32
Polyp	10	10	12.09	19.31

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	-	14.75
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.37
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.34
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.30
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.43
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.11
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.40
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.21
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.18
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	8.72
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.06
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.95
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.79
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.35
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.12
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.86
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.06
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.53
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.28
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.46
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.31
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.27
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.87
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.62
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.47
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.28
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.58
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.38
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.66
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.07
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.00
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.64
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.14
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.11
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.02
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.46
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.77
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	41.12
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.03
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.55
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.37
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	30.07
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	29.41
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	28.85
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	23.99
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	20.25
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	19.79
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	15.39
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.69
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.40
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.12
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.62
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.16
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	52.76
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	48.94
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	44.18
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.33
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.10
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.50
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	34.05
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	30.55
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	28.79
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.65
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	24.52
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	23.98
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.66
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	20.65
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	18.80
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	35.56
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.91
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	27.34
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.00
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.73
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	25.06
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	24.82
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.11
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.03
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	21.05
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.60
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.54
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.24
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	18.13
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	17.83
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.79
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	83.32
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	48.10
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.54
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	44.14
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.38
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	41.71
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.09
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.82
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.52
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.41
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.05
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	33.83
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.05
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.65
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	13.40
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.72
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	19.31
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	17.53
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	16.14
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	12.27
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	10.91
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	10.41
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	10.29
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	9.77
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	8.29
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	5.94

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.