Gene detail

Detailed information of OS493_004770-T1 in Lophelia pertusa

Genomic Location: scaffold_9:4479602...4497453
NR annotation: KAJ7381171.1, 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
IPR012677 all species →	Homologous_superfamily	Nucleotide-binding alpha-beta plait domain superfamily	Interproscan
IPR000504 all species →	Domain	RNA recognition motif domain	Interproscan
IPR035979 all species →	Homologous_superfamily	RNA-binding 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: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
GO:0003676 all species →	Molecular Function	nucleic acid 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K14411	MSI; RNA-binding protein Musashi	-	Messenger RNA biogenesis	ko03019	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_004770-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

119.7Max TPM

51.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	26.98	46.06
polyp at pH7 6	18	18	28.98	40.88
coral polyp · control treatment	16	16	69.18	108.71
coral polyp · oil and dispersant treatment	16	16	70.71	100.11
coral polyp · oil treatment	16	16	62.58	119.70
coral polyp · dispersant treatment	16	16	57.32	91.95
Polyp	10	10	44.96	67.36

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	-	46.06
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	40.73
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.94
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	33.42
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	32.63
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.79
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.00
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	25.88
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	24.07
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.58
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.51
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	22.47
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.72
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.69
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.26
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.81
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.51
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	17.58
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.88
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.62
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.45
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.09
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.20
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	35.07
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	34.62
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	33.25
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	31.99
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.83
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.98
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	23.04
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	21.75
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.55
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.53
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	19.13
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	17.09
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	16.56
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	108.71
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	94.09
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	85.14
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	81.46
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	79.44
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	70.93
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	68.23
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	68.16
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	66.76
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	66.28
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	64.17
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.28
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	61.25
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	49.51
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.20
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	37.26
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	100.11
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	93.79
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	87.84
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	87.83
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	86.30
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	79.47
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	77.58
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	74.08
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	69.08
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	67.86
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	61.60
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	58.58
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.97
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	49.36
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	46.50
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	39.44
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	119.70
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	90.03
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	86.85
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	76.49
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	65.68
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	64.38
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	63.64
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	63.00
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	62.78
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	52.82
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	49.12
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.96
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.56
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.62
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	37.99
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	34.70
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	91.95
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	80.25
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	66.87
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	63.00
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	62.85
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	62.57
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	62.55
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	58.26
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	56.71
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.51
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	51.38
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	50.12
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.43
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	43.89
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.52
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.22
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	67.36
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	65.40
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	56.95
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	55.78
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	45.42
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	38.69
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	36.81
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	32.35
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	30.55
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	20.28

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.