Gene detail

Detailed information of XP_068746567.1 in Montipora capricornis

Genomic Location: chr3:72153154...72157626
NR annotation: XP_029201212.2, exosome complex component CSL4-like [Acropora millepora]
Species Montipora capricornis · 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
Q9DAA6	Exosome complex component CSL4 OS=Mus musculus OX=10090 GN=Exosc1 PE=1 SV=1
Q9Y3B2	Exosome complex component CSL4 OS=Homo sapiens OX=9606 GN=EXOSC1 PE=1 SV=1
O59821	Exosome complex component csl4 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) OX=284812 GN=csl4 PE=3 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006120 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF14382 all species →	ECR1_N	Exosome complex exonuclease RRP4 N-terminal region	Domain	Interproscan
PF10447 all species →	EXOSC1	Exosome component EXOSC1/CSL4	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR025721 all species →	Domain	Exosome complex component, N-terminal domain	Interproscan
IPR039771 all species →	Family	Exosome complex component Csl4	Interproscan
IPR019495 all species →	Domain	Exosome complex component CSL4, C-terminal	Interproscan
IPR012340 all species →	Homologous_superfamily	Nucleic acid-binding, OB-fold	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12686 all species →	3'-5' EXORIBONUCLEASE CSL4-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000176 all species →	Cellular Component	nuclear exosome (RNase complex)	Interproscan
GO:0000178 all species →	Cellular Component	exosome (RNase complex)	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0006396 all species →	Biological Process	RNA processing	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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K07573	CSL4, EXOSC1; exosome complex component CSL4	-	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 XP_068746567.1 across 36 RNA-seq samples of Montipora capricornis. 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.

36Samples

28TPM > 0

1Conditions

76.4Max TPM

36.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Polyps	36	28	36.68	76.44

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR12959214	Polyps	Polyps	E3 day9	not recorded	SRP199550	76.44
SRR12959216	Polyps	Polyps	E3 day9	not recorded	SRP199550	71.96
SRR12959215	Polyps	Polyps	E3 day9	not recorded	SRP199550	71.77
SRR12904782	Polyps	Polyps	not recorded	not recorded	SRP199550	59.49
SRR27940192	Polyps	Polyps	not recorded	not recorded	SRP199550	54.50
SRR12710857	Polyps	Polyps	OA3 day9	not recorded	SRP199550	50.71
SRR27940191	Polyps	Polyps	not recorded	not recorded	SRP199550	50.20
SRR27940193	Polyps	Polyps	not recorded	not recorded	SRP199550	49.87
SRR12904783	Polyps	Polyps	not recorded	not recorded	SRP199550	49.86
SRR12959184	Polyps	Polyps	E3 day0	not recorded	SRP199550	49.44
SRR12959183	Polyps	Polyps	E3 day0	not recorded	SRP199550	49.21
SRR12959190	Polyps	Polyps	E3 day21	not recorded	SRP199550	48.02
SRR12786896	Polyps	Polyps	OA3 day0	not recorded	SRP199550	47.42
SRR12710858	Polyps	Polyps	OA3 day9	not recorded	SRP199550	46.78
SRR12959188	Polyps	Polyps	E3 day21	not recorded	SRP199550	44.20
SRR12959182	Polyps	Polyps	E3 day0	not recorded	SRP199550	43.72
SRR12710855	Polyps	Polyps	OA3 day9	not recorded	SRP199550	43.53
SRR12786898	Polyps	Polyps	OA3 day0	not recorded	SRP199550	42.91
SRR12959201	Polyps	Polyps	E3 day15	not recorded	SRP199550	42.82
SRR12786897	Polyps	Polyps	OA3 day0	not recorded	SRP199550	42.76
SRR12959189	Polyps	Polyps	E3 day21	not recorded	SRP199550	42.65
SRR12959202	Polyps	Polyps	E3 day15	not recorded	SRP199550	42.54
SRR12959203	Polyps	Polyps	E3 day15	not recorded	SRP199550	40.62
SRR12904781	Polyps	Polyps	not recorded	not recorded	SRP199550	39.70
SRR12959227	Polyps	Polyps	E3 day3	not recorded	SRP199550	38.88
SRR12710848	Polyps	Polyps	OA3 day3	not recorded	SRP199550	28.36
SRR12710847	Polyps	Polyps	OA3 day3	not recorded	SRP199550	27.48
SRR12710846	Polyps	Polyps	OA3 day3	not recorded	SRP199550	24.78
SRR12807381	Polyps	Polyps	OA3 day0	not recorded	SRP199550	0.00
SRR12849113	Polyps	Polyps	OA3 day0	not recorded	SRP199550	0.00
SRR12927880	Polyps	Polyps	E3 day0	not recorded	SRP199550	0.00
SRR12959229	Polyps	Polyps	E3 day3	not recorded	SRP199550	0.00
SRR12959230	Polyps	Polyps	E3 day3	not recorded	SRP199550	0.00
SRR12963484	Polyps	Polyps	E3 day0	not recorded	SRP199550	0.00
SRR9129316	Polyps	Polyps	not recorded	not recorded	SRP199550	0.00
SRR9613519	Polyps	Polyps	not recorded	not recorded	SRP199550	0.00

Source: CnidoSite RNA-seq expression matrices (MCAPR_TPM, StringTie quantification over 36 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.