Gene detail

Detailed information of XP_068683092.1 in Montipora foliosa

Genomic Location: chr12:23512337...23538398
NR annotation: XP_020632890.1, rRNA-processing protein FCF1 homolog [Orbicella faveolata]
Species Montipora foliosa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_068826991.1

CCCAGGTCTCCTAGACTTGACATGCACGTTGCGTGGCCATTTTGTCGCTGTGTTTTGTCATCGAGCTCACCGATTTCAACATGGGTAAAGACAAAAGGGCGAGGAAGTTCGCTGCTGTGAAGCGGATGATATCGCCGAAGGATATGAGAATtcaaaaaaaccaagaaaaggagaaggaaaaaaggaagaaagaggaagaaaaagcaaCCCGCCGCATAGAGCAAGCCTCATCTGCACTGTTCTTTCAATACAACACTCAGCTTGGGCCACCATTCTATGTCCTGGTTGACACCAATTTCATTAACTTCTCCATTAGGAATAAGCTAGATATTGTGCAGTCCATGATGGACTGCCTATATGCTAAATGTATTCCTTGCATTACAGACTGTGTAATGGCTGAGCTAGAAAAGCTTGGACGGAAGTTTTGGGTGGCCCTCAAGATGGCAAAAGATCCTCGCTTTGATCGTCTTCCATGCATGCACAAGGGAACCTATGCTGACGACTGTATTGTTAACAGAATACAGCAGcaCAAGTGTTACATTGTAGCCACATGTGACAGGGACTTGAAAAGGAGAATTCGCAAGGTTCCTGGTGTGCCCATCATGTACATTTCACATCACAGGTACACCATTGAAAGAATGCCGGATGCGTATGGAGCTCCAAGGGTGTAACTGGTTTGAAGCAAAGCCCACCAGGCTATAAGCGGACAAGAGAAACGATCTGGTCGAGCCTGCTGCAGGATTGAACAGCGGTGTAGTTCCGTGGGAAACAACTTCGCAACgtaaatgaaaaagaaatacgAGGCAACCTGTCGTCCTTTCGGCGTCTCCCTTCGGCTTCTTTTCCGCCTTCGGTTGTCTTCGGTGGTGCCCAATTTAACTCCATCGTAGTGTGAAAACAGCTTACTGGTTGGCTACGTCCAGTTCACTTCAATAGACCCTTATCCAAAATGGTggccgaaaattcaaattcgttaaaattaaaaacgtatACGAGCACTAGAAAgaacacctttactttagtaaccctgcaaattTTGAGCATTTCAGgtgtaatatcagctgagaaaatgtaaattttgagaaatgaaaaatttacaaaccTTTGTATGACTTGAGGGTTACGGTATGGTGTATACCCCcagtcatacaaacgtctgtaaatttgtcaaatttttaGCTGATGtatcacttaaggacggtgcctactataaattcaaaggtatttttgccccggtttatgattgtgcaggaaatgtacatgtagatcttaaaaacgtgttattgaaatccaaaaagacaattgggggtaacaacgcatttttcaaaaatatcactgtattggtaagcatcaccgatagaaaacccgagtatctcgagatgcgcagaacgtaggcgcaataacaatagtaggcaccgtccttaatacgcTGGAACTCttcagggttactaaagtaaagttgctctttctatttctggtatcagtttttcattcagttcaattttaaggacggtgcctacgaattaacgatatttttgccccggtgtgtgattatgcaggaaatgtagatcttaacaagtgttattgaaatccaaaaagaaaattagggggtaaccacgcatttttcaaagataattcatgaataatatttgtaaaaagctttaaaatacaaagcaatgtatggcgttctttctcaaattaaagcttaattatctctcaaaaatgcttggttacccccagttttctttttggataccgagagtacttactgagatctactttctccagctagttttaaaccgcgcaaaaatatcctcaTATTTGAAAGCataaccgataggaaatccgagtatctcgagatgcgcagaacgtatgcgcaataacaatagtaggcaccgtccttaactcattcaaatccgttgccgccattttggagaagggtctatcgCTACTTTCCGTGCACGCCCTAGGAAGCTGCAATCTTCAAATGTTATCGCCTATGAATAGAAGCCCCTCACAAAGAATCGGGAGCGCACAGGGTCGACTGCTGCTGGTAGCAGTCTGATTTGCCTCATAGATGCCAGTGTCATTAACTGATAAATTCTCGTTTCCGTTCACATACCGAATTAAAAACTACCACTGCATATATGTATCATTGCCGTAAGACAGTAATAGACCTGAACCTAATTTCCGATTGGTGCCTCGAGAGACGAAAAAGAGCcttaataaaaaaaggaaaattga

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9CTH6	rRNA-processing protein FCF1 homolog OS=Mus musculus OX=10090 GN=Fcf1 PE=2 SV=2
Q32PD0	rRNA-processing protein FCF1 homolog OS=Bos taurus OX=9913 GN=FCF1 PE=2 SV=1
Q9Y324	rRNA-processing protein FCF1 homolog OS=Homo sapiens OX=9606 GN=FCF1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006493 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04900 all species →	Fcf1	Fcf1	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006984 all species →	Family	rRNA-processing protein Fcf1/Utp23	Interproscan
IPR037503 all species →	Domain	rRNA-processing protein Fcf1, PIN domain	Interproscan
IPR029060 all species →	Homologous_superfamily	PIN-like domain superfamily	Interproscan
IPR002716 all species →	Domain	PIN domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12416 all species →	UNCHARACTERIZED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0032040 all species →	Cellular Component	small-subunit processome	Interproscan
GO:0005730 all species →	Cellular Component	nucleolus	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
K14566	UTP24, FCF1; U3 small nucleolar RNA-associated protein 24	-	Ribosome biogenesis	ko03009	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_068683092.1 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

28TPM > 0

1Conditions

24.2Max TPM

14.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Polyps	36	28	14.89	24.19

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR12786904	Polyps	Polyps	OA4 day0	not recorded	SRP199550	24.19
SRR12904791	Polyps	Polyps	not recorded	not recorded	SRP199550	23.65
SRR27940177	Polyps	Polyps	not recorded	not recorded	SRP199550	23.28
SRR12959198	Polyps	Polyps	E4 day15	not recorded	SRP199550	23.05
SRR12959199	Polyps	Polyps	E4 day15	not recorded	SRP199550	22.26
SRR12959181	Polyps	Polyps	E4 day0	not recorded	SRP199550	22.19
SRR12710865	Polyps	Polyps	OA4 day3	not recorded	SRP199550	21.93
SRR12959238	Polyps	Polyps	E4 day0	not recorded	SRP199550	21.02
SRR27940180	Polyps	Polyps	not recorded	not recorded	SRP199550	20.84
SRR12904780	Polyps	Polyps	not recorded	not recorded	SRP199550	20.71
SRR12959200	Polyps	Polyps	E4 day15	not recorded	SRP199550	20.55
SRR12959237	Polyps	Polyps	E4 day0	not recorded	SRP199550	20.50
SRR12959224	Polyps	Polyps	E4 day3	not recorded	SRP199550	20.21
SRR12959226	Polyps	Polyps	E4 day3	not recorded	SRP199550	19.89
SRR12959225	Polyps	Polyps	E4 day3	not recorded	SRP199550	19.53
SRR12959212	Polyps	Polyps	E4 day9	not recorded	SRP199550	19.49
SRR12786895	Polyps	Polyps	OA4 day0	not recorded	SRP199550	19.43
SRR12959213	Polyps	Polyps	E4 day9	not recorded	SRP199550	19.08
SRR12904792	Polyps	Polyps	not recorded	not recorded	SRP199550	18.86
SRR12710866	Polyps	Polyps	OA4 day3	not recorded	SRP199550	18.50
SRR27940179	Polyps	Polyps	not recorded	not recorded	SRP199550	18.35
SRR12710852	Polyps	Polyps	OA4 day9	not recorded	SRP199550	18.21
SRR12710853	Polyps	Polyps	OA4 day9	not recorded	SRP199550	18.17
SRR12959186	Polyps	Polyps	E4 day21	not recorded	SRP199550	16.13
SRR12786903	Polyps	Polyps	OA4 day0	not recorded	SRP199550	12.48
SRR12959187	Polyps	Polyps	E4 day21	not recorded	SRP199550	11.79
SRR12959185	Polyps	Polyps	E4 day21	not recorded	SRP199550	11.70
SRR12959211	Polyps	Polyps	E4 day9	not recorded	SRP199550	9.89
SRR12710845	Polyps	Polyps	OA4 day3	not recorded	SRP199550	0.00
SRR12710854	Polyps	Polyps	OA4 day9	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
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.