Gene detail

Detailed information of XP_068675845.1 in Montipora foliosa

Genomic Location: chr10:18130649...18155699
NR annotation: XP_015776819.1, PREDICTED: nucleoporin NDC1-like isoform X2 [Acropora digitifera]
Species Montipora foliosa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_068819744.1

AGGTTGCATAAGATGTGAAGGTAAAAATGGCGCGTGGTTTGAAGGTTCTGTGGAATTAACTTCCGGTACAGATTTCTTCCAATTTAGTCGCTGAAAAGGTAATTCTTTTGGAGGAAACGTAATATGGTGCCATCCGGCTCTCCTACTCTCCCGCGCTCGGAGTTATCAAAGGTGAAGTGGTTTACCGAAGGGGAATATTCGTGGAGAACTGGTGCCACTTTGGTTTGGATGGTGGTGATCCTTCCATTTGCTGTGCTTGTAAATTCAGTGGCAGCCTCCATCGATATTTTACATCCTGTCAGCTGGTTGAATGgATGCATAACCTTGCTGTTCAGCCTGTCATTTTGGACTtgtgtttgtatttttgtggCTGTTAACTTAGTGACACAGCTATCTTGTGCTAAATTTAACACAGTGAGAGATGTGGTTCATCAGTCTCGCATCTCGGCAATCTTGTTCCCTCTTCACCCAGCAAGGATGTTTCACACCTTGATTTTCATGTTTGGAGGATCTGTCTCAGCTTACAATATTTTTGGAATGAGGTCTGAAGAGGTCTTCTATTTCACAAGATTCAGTGAAAAGTCTGAAACATTTTGCTTAAATGAACAACTGGTGTTTGGTGTCCTGTTTGGAGCTTGGTTGGGATTTTATTCCAGTGTTGATTATTTCCTGAAGAaaggttttcattttacatttccACGAGTCCAGCAACAGAAATTTTTTCTTGTCAAGATGTCTGTGGGACCATGTATAAAACAGAGCATTTTTACCTGTTTAAAGGCAACCAGGTGGTTCTATGTGTTTTATTATCTATTTGGTAACATTCCTAGGGATGCTTTCATCAACATGGCTGAGGTTCCACTTGACAGtgGTGTTCCTGCCCTCAACACAGTCTCAGGCTTGGTGGATCTTTCACTGTTCTGGCTTGTCCTAACAACAGGCTCTTTAATACTGTTTGTGTGGATATTTGGGCACAAGCTCCTTGTTATCTTTCACACACAGCGATACACATTCCCAGTGGAGTCTACATTTAGCCAAGAACAGGATCATCGGCTCTGTGTTGCAATTAAAAACAGAACTGTTCTCCTTTTGAAGTTTCTTGCCATGTTTGATTTATGTCACTTGTCACAGTTCAGCAACATTAGAAGAAAACAGATCTTTAGTCTGAGCCAACCAAGTGGTCGACCTTCAAACTGGACCGATGTGTCGACAGAATGTCTTTATCTCATTGATTCCCTTACAACTAAGCTGTCATCAGAGGTGTCACTGCAAGCGCACCTACAGCAAATAACAATGGACAGCAAGCAGCTTGGCTCGGCAATCAGAAACAATGGACAAAGCAATGGATATGCCAATGGCCATGCAAATGGTCATGTAGTACAAAGTCCTCCTCCCTATCCAAGCCCCTTCGCATCTCCACTGAGCATAACTAAAAGGCATACAATGTCTTCATCTCCTGGAAAAGTTCATCTTTGGTCAGAGACAAGCGATAATGCAGAGAAAGTACCATCCCCTCGGCCTGTTCAACATGCAAATGTATTCATTCGCATGAGAACAAAGGTAATCGATAAGGTGGATAATTTTGTTTGGAGGCTGAACCAAGTCCCGCACAAtATTGCTTGTAGTTTGAAGGAGAGGCCTATTATTGGATTTCTCTTCGATGAGACTCCAGAAGCTCGCACGCAAGCTATTTTTGCCGATTGCCAGCTTCATATTTGGGCAGTCGAAGCCCTCTCAAGACTGGTAGCAGCATCGTATACGGAAGACACGTTTGGAGTCGTGCAGAAGAGTCTTCCAGACATCTTTATTTCCCTTGTGAGTTTACTTCAGGCCTTAGACAAACATTCCAAGCTGACGCTAGCTTTGACGTCAAAGCCCGCCATTCAGGCCAGGCCTCCTCGGCCACAAGGGAAAGATGGTCTGCGTTATCAACTGAGAgcaaCATTGGTGGCTTCCATCTACAGAATAACTAACATTTTTCACGAACATTTACGGAGTATTTCAATGGCTGTTGAACACCAGAAGATACTCCAGTCTTTCTTGGAATTCAAAGAATGACTCTTGACAAAAAACAGTGCCATCGTTTAGAGAGACCGACATTTGCCTGAAGCCATAGACTTAACAAATAAGCTAGTTGTCACTGTGCGTAATATCGTGTTCCAGAAGTGATCTCTTCTCAAGTTAGACTTGTTTGTTACGAAGAACTTGCTTGTATTAAATGCAGCTGTGTTAACAGTGAATAATAGCCAGTGAGGCTGATGTTGTTGGCGCGTTAATAGCAATAGGCGATTTCAACGATACCTTCGTCATAGATAGAGACAGCAAGGAGGTAAGGCACAAAAAGAGACGTTCGTGAAGACGTGTACTGCAAAATGTGAAAAgcgaaaagaaaacaaattacgGTAGACGACGTACAGGAAATTCCTTCTGGGTAGTTTATTTTCCAGACTTAGGGCATGTCAGGTTTAATTTGTTGAACGCGAAATGAAAGTTGAGGCACAAGAACAGACGTTTGTCAGTGAAAAGTCTTTCAATAAAACTTTAGAAAACAGAGGCAAAATGCACACATGTACATTATGTATTGCATGTCAGACATTTATTCGTATCTTCCCTTTGTTACTTTGCGAGCAGAGCTTTCTTTCTGCCAATCATTTTTTTACCAGGTAATAAAATCATTCGCTT

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q7SZC5	Nucleoporin NDC1 OS=Danio rerio OX=7955 GN=ndc1 PE=2 SV=1
Q6AX31	Nucleoporin NDC1 OS=Xenopus laevis OX=8355 GN=ndc1 PE=1 SV=1
Q8VCB1	Nucleoporin NDC1 OS=Mus musculus OX=10090 GN=Ndc1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004883 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF09531 all species →	Ndc1_Nup	Nucleoporin protein Ndc1-Nup	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR019049 all species →	Family	Nucleoporin protein Ndc1-Nup	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13269 all species →	UNCHARACTERIZED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006999 all species →	Biological Process	nuclear pore organization	Interproscan
GO:0030674 all species →	Molecular Function	protein-macromolecule adaptor activity	Interproscan
GO:0070762 all species →	Cellular Component	nuclear pore transmembrane ring	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
K14315	NDC1, TMEM48; nucleoporin NDC1	-	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_068675845.1 across 36 RNA-seq samples of Montipora foliosa. 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

26TPM > 0

1Conditions

11.0Max TPM

5.4Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Polyps	36	26	5.39	10.99

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR12786895	Polyps	Polyps	OA4 day0	not recorded	SRP199550	10.99
SRR27940180	Polyps	Polyps	not recorded	not recorded	SRP199550	10.82
SRR12904780	Polyps	Polyps	not recorded	not recorded	SRP199550	10.82
SRR12959238	Polyps	Polyps	E4 day0	not recorded	SRP199550	10.62
SRR12786904	Polyps	Polyps	OA4 day0	not recorded	SRP199550	9.99
SRR27940177	Polyps	Polyps	not recorded	not recorded	SRP199550	9.70
SRR27940179	Polyps	Polyps	not recorded	not recorded	SRP199550	9.66
SRR12904792	Polyps	Polyps	not recorded	not recorded	SRP199550	9.64
SRR12904791	Polyps	Polyps	not recorded	not recorded	SRP199550	9.50
SRR12959237	Polyps	Polyps	E4 day0	not recorded	SRP199550	8.99
SRR12959181	Polyps	Polyps	E4 day0	not recorded	SRP199550	8.75
SRR12959199	Polyps	Polyps	E4 day15	not recorded	SRP199550	7.93
SRR12959224	Polyps	Polyps	E4 day3	not recorded	SRP199550	7.75
SRR12959200	Polyps	Polyps	E4 day15	not recorded	SRP199550	7.63
SRR12959198	Polyps	Polyps	E4 day15	not recorded	SRP199550	7.43
SRR12959225	Polyps	Polyps	E4 day3	not recorded	SRP199550	6.92
SRR12959212	Polyps	Polyps	E4 day9	not recorded	SRP199550	6.25
SRR12710853	Polyps	Polyps	OA4 day9	not recorded	SRP199550	6.05
SRR12710852	Polyps	Polyps	OA4 day9	not recorded	SRP199550	5.99
SRR12710865	Polyps	Polyps	OA4 day3	not recorded	SRP199550	5.79
SRR12959213	Polyps	Polyps	E4 day9	not recorded	SRP199550	5.37
SRR12710866	Polyps	Polyps	OA4 day3	not recorded	SRP199550	4.47
SRR12959226	Polyps	Polyps	E4 day3	not recorded	SRP199550	4.36
SRR12959187	Polyps	Polyps	E4 day21	not recorded	SRP199550	3.74
SRR12959185	Polyps	Polyps	E4 day21	not recorded	SRP199550	3.34
SRR12959186	Polyps	Polyps	E4 day21	not recorded	SRP199550	1.54
SRR12710845	Polyps	Polyps	OA4 day3	not recorded	SRP199550	0.00
SRR12710854	Polyps	Polyps	OA4 day9	not recorded	SRP199550	0.00
SRR12786903	Polyps	Polyps	OA4 day0	not recorded	SRP199550	0.00
SRR12807380	Polyps	Polyps	OA4 day0	not recorded	SRP199550	0.00
SRR12849112	Polyps	Polyps	OA4 day0	not recorded	SRP199550	0.00
SRR12927879	Polyps	Polyps	E4 day0	not recorded	SRP199550	0.00
SRR12959211	Polyps	Polyps	E4 day9	not recorded	SRP199550	0.00
SRR12963483	Polyps	Polyps	E4 day0	not recorded	SRP199550	0.00
SRR9129315	Polyps	Polyps	not recorded	not recorded	SRP199550	0.00
SRR9613518	Polyps	Polyps	not recorded	not recorded	SRP199550	0.00

Source: CnidoSite RNA-seq expression matrices (MFOLI_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.