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Gene Dmel\snoRNA:Ψ18S-1820

General Information
Symbol	Dmel\snoRNA:Ψ18S-1820	Species	D. melanogaster
Name		Annotation symbol	CR32884
Feature type	snoRNA_gene	FlyBase ID	FBgn0026169
Gene Model Status	Current	Stock availability	None publicly available
Also Known As	snoH1, snoRNA H1
Genomic Location
Chromosome (arm)	2R	Recombination map
Cytogenetic map	60C2-60C2	Sequence location	2R:20,063,751..20,063,890 [+]
Genomic Maps Select View:Gene Models/EvidenceExpression/RegulationMegaViewGene Disruptions, Stocks and Reagents modENCODE GBrowse	Decorated FastA GenBankGFF Gene region Extended Gene region CDSIntronsExonsTranslationsTranscripts3' UTR5' UTR
Summary Information
Automatically generated summary See sections below for more information	This gene is referred to in FlyBase by the symbol Dmel\snoRNA:Ψ18S-1820 (CR32884, FBgn0026169). It is a snoRNA_gene from Drosophila melanogaster. Its molecular function is unknown. The biological processes in which it is involved are not known. No alleles are reported. It has one annotated transcript. Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderate expression to a trough of extremely low expression. Peak expression observed within 06-24 hour embryonic stages, during early larval stages. CAVEAT: These RNA-Seq temporal profiles depend upon RNA-Seq reads that are uniquely placed in the genome. For this reason, genes such as histones, Stellates and many classes of RNA genes that are present in multiple exact or near exact copies in the genome, expression levels may be reported as much lower than their true values. Summary of FlyAtlas Anatomical Expression Data: No FlyAtlas data available because no Affy2 ProbeSet aligns to an exon of snoRNA:Psi18S-1820. Comments on Affy2 ProbeSet: No relevant information because no Affy2 ProbeSet aligns to an exon of snoRNA:Psi18S-1820. Gene sequence location is 2R:20063751..20063890.
Recent Updates
Description	What does this section display? This section contains items that were added to this record for each release. It currently only tracks new links between this FlyBase report and other FlyBase data classes (e.g. genes, references, stocks) or controlled vocabulary terms (e.g. GO, anatomy terms). What does this section not display? This section does not currently display links that were removed or gene model changes.
Update Feed	Click the icon below to subscribe to this FlyBase record and receive updates automatically through your feed reader.
FB2011_10
FB2012_01	Sequence features BKN41505
All updates	Click here to see a list of all updates to this record from FB2010_08 and on.
Detailed Mapping Data
FlyBase Computed Cytological Location
Cytogenetic map Evidence for location 60C2-60C2   Limits computationally determined from genome sequence between P{lacW}Nop60Bk05318 and P{PZ}bs03267&P{lacW}l(2)k10502k10502
Experimentally Determined Cytological Location
Cytogenetic map Notes References 60B12-60C1     (Giordano, 1998.9.2)
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\snoRNA:Ψ18S-1820 for information on other features To submit a correction to a gene model please use the Contact FlyBase form
Comments on Gene Model
Transcript Data
Annotated Transcripts
Name FlyBase ID RefSeq ID Length (nt)   snoRNA:Ψ18S-1820-RA FBtr0072259  NR_001911   140
Additional Transcript Data & Comments
Reported size (kB)	0.14, 0.139 (sequence analysis) (Giordano et al., 1999)
Comments
External Data
Crossreferences	Rfam - RNA families database of alignments and covariance models • RF00291
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence   Name AF089836   AJ544019   AJ809561
Mapped Features
Mapped Features have been reorganized, please see this article for details. Additional mapped features and mutations can be found on GBrowse or related reports. Type Symbol & Location Additional Notes References
External Data
Linkouts
Crossreferences
Expression Data
Transcript Expression
northern blot Stage Tissue/Position (including subcellular localization) Reference embryonic stage -- adult stage     (Giordano et al., 1999)
Additional Descriptive Data
Marker for
Subcellular Localization
CV Term
Notes
High-Throughput Expression Data
or
See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes. modENCODE Temporal Expression Data for FBgn0026169    Styles Linear Logarithmic Heatmap    Scales max expr for FBgn0026169 Very low expression bin max Moderate expression bin max High expression bin max Extremely high expression bin max Summary of modENCODE Temporal Expression Profile: Temporal profile ranges from a peak of moderate expression to a trough of extremely low expression. Peak expression observed within 06-24 hour embryonic stages, during early larval stages. CAVEAT: These RNA-Seq temporal profiles depend upon RNA-Seq reads that are uniquely placed in the genome. For this reason, genes such as histones, Stellates and many classes of RNA genes that are present in multiple exact or near exact copies in the genome, expression levels may be reported as much lower than their true values. [download data (TSV)] Guide to modENCODE expression level colors   No expression (0 - 0)   Extremely low expression (1 - 10)   Very low expression (11 - 100)   Low expression (101 - 400)   Moderate expression (401 - 1400)   Moderately high expression (1401 - 4000)   High expression (4001 - 10000)   Very high expression (10001 - 100000)   Extremely high expression (100001 - 2000000) Linear, scaled to maximum FBgn0026169 expression level Developmental Stage   Expression Level embryo 00-02hr    6 embryo 02-04hr    177 embryo 04-06hr    237 embryo 06-08hr    414 embryo 08-10hr    460 embryo 10-12hr    531 embryo 12-14hr    443 embryo 14-16hr    176 embryo 16-18hr    186 embryo 18-20hr    158 embryo 20-22hr    449 embryo 22-24hr    345 larva L1    655 larva L2    297 larva L3 12hr old    180 larva L3 puffstage 1-2    27 larva L3 puffstage 3-6    63 larva L3 puffstage 7-9    65 white prepupae new    62 white prepupae 12hr    36 white prepupae 24hr    45 pupae 2d postWPP    14 pupae 3d postWPP    24 pupae 4d postWPP    85 adult male 01day    5 adult male 05day    8 adult male 30day    8 adult female 01day    201 adult female 05day    190 adult female 30day    196 Expression Level Scale  None   Extremely low   Very low   Low   Moderate  Linear, scaled to Very low expression Developmental Stage   Expression Level embryo 00-02hr    6 embryo 02-04hr  (177) embryo 04-06hr  (237) embryo 06-08hr  (414) embryo 08-10hr  (460) embryo 10-12hr  (531) embryo 12-14hr  (443) embryo 14-16hr  (176) embryo 16-18hr  (186) embryo 18-20hr  (158) embryo 20-22hr  (449) embryo 22-24hr  (345) larva L1  (655) larva L2  (297) larva L3 12hr old  (180) larva L3 puffstage 1-2    27 larva L3 puffstage 3-6    63 larva L3 puffstage 7-9    65 white prepupae new    62 white prepupae 12hr    36 white prepupae 24hr    45 pupae 2d postWPP    14 pupae 3d postWPP    24 pupae 4d postWPP    85 adult male 01day    5 adult male 05day    8 adult male 30day    8 adult female 01day  (201) adult female 05day  (190) adult female 30day  (196) Expression Level Scale  None   Extremely low   Very low   Low  Linear, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    6 embryo 02-04hr    177 embryo 04-06hr    237 embryo 06-08hr    414 embryo 08-10hr    460 embryo 10-12hr    531 embryo 12-14hr    443 embryo 14-16hr    176 embryo 16-18hr    186 embryo 18-20hr    158 embryo 20-22hr    449 embryo 22-24hr    345 larva L1    655 larva L2    297 larva L3 12hr old    180 larva L3 puffstage 1-2    27 larva L3 puffstage 3-6    63 larva L3 puffstage 7-9    65 white prepupae new    62 white prepupae 12hr    36 white prepupae 24hr    45 pupae 2d postWPP    14 pupae 3d postWPP    24 pupae 4d postWPP    85 adult male 01day    5 adult male 05day    8 adult male 30day    8 adult female 01day    201 adult female 05day    190 adult female 30day    196 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  Linear, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    6 embryo 02-04hr    177 embryo 04-06hr    237 embryo 06-08hr    414 embryo 08-10hr    460 embryo 10-12hr    531 embryo 12-14hr    443 embryo 14-16hr    176 embryo 16-18hr    186 embryo 18-20hr    158 embryo 20-22hr    449 embryo 22-24hr    345 larva L1    655 larva L2    297 larva L3 12hr old    180 larva L3 puffstage 1-2    27 larva L3 puffstage 3-6    63 larva L3 puffstage 7-9    65 white prepupae new    62 white prepupae 12hr    36 white prepupae 24hr    45 pupae 2d postWPP    14 pupae 3d postWPP    24 pupae 4d postWPP    85 adult male 01day    5 adult male 05day    8 adult male 30day    8 adult female 01day    201 adult female 05day    190 adult female 30day    196 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high  Linear, scaled to Extremely high expression Developmental Stage   Expression Level embryo 00-02hr    6 embryo 02-04hr    177 embryo 04-06hr    237 embryo 06-08hr    414 embryo 08-10hr    460 embryo 10-12hr    531 embryo 12-14hr    443 embryo 14-16hr    176 embryo 16-18hr    186 embryo 18-20hr    158 embryo 20-22hr    449 embryo 22-24hr    345 larva L1    655 larva L2    297 larva L3 12hr old    180 larva L3 puffstage 1-2    27 larva L3 puffstage 3-6    63 larva L3 puffstage 7-9    65 white prepupae new    62 white prepupae 12hr    36 white prepupae 24hr    45 pupae 2d postWPP    14 pupae 3d postWPP    24 pupae 4d postWPP    85 adult male 01day    5 adult male 05day    8 adult male 30day    8 adult female 01day    201 adult female 05day    190 adult female 30day    196 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  log, scaled to maximum FBgn0026169 expression level Developmental Stage   Expression Level embryo 00-02hr    6 embryo 02-04hr    177 embryo 04-06hr    237 embryo 06-08hr    414 embryo 08-10hr    460 embryo 10-12hr    531 embryo 12-14hr    443 embryo 14-16hr    176 embryo 16-18hr    186 embryo 18-20hr    158 embryo 20-22hr    449 embryo 22-24hr    345 larva L1    655 larva L2    297 larva L3 12hr old    180 larva L3 puffstage 1-2    27 larva L3 puffstage 3-6    63 larva L3 puffstage 7-9    65 white prepupae new    62 white prepupae 12hr    36 white prepupae 24hr    45 pupae 2d postWPP    14 pupae 3d postWPP    24 pupae 4d postWPP    85 adult male 01day    5 adult male 05day    8 adult male 30day    8 adult female 01day    201 adult female 05day    190 adult female 30day    196 Expression Level Scale  None   Extremely low   Very low   Low   Moderate  log, scaled to Very low expression Developmental Stage   Expression Level embryo 00-02hr    6 embryo 02-04hr  (177) embryo 04-06hr  (237) embryo 06-08hr  (414) embryo 08-10hr  (460) embryo 10-12hr  (531) embryo 12-14hr  (443) embryo 14-16hr  (176) embryo 16-18hr  (186) embryo 18-20hr  (158) embryo 20-22hr  (449) embryo 22-24hr  (345) larva L1  (655) larva L2  (297) larva L3 12hr old  (180) larva L3 puffstage 1-2    27 larva L3 puffstage 3-6    63 larva L3 puffstage 7-9    65 white prepupae new    62 white prepupae 12hr    36 white prepupae 24hr    45 pupae 2d postWPP    14 pupae 3d postWPP    24 pupae 4d postWPP    85 adult male 01day    5 adult male 05day    8 adult male 30day    8 adult female 01day  (201) adult female 05day  (190) adult female 30day  (196) Expression Level Scale  None   Extremely low   Very low   Low  log, scaled to Moderate expression Developmental Stage   Expression Level embryo 00-02hr    6 embryo 02-04hr    177 embryo 04-06hr    237 embryo 06-08hr    414 embryo 08-10hr    460 embryo 10-12hr    531 embryo 12-14hr    443 embryo 14-16hr    176 embryo 16-18hr    186 embryo 18-20hr    158 embryo 20-22hr    449 embryo 22-24hr    345 larva L1    655 larva L2    297 larva L3 12hr old    180 larva L3 puffstage 1-2    27 larva L3 puffstage 3-6    63 larva L3 puffstage 7-9    65 white prepupae new    62 white prepupae 12hr    36 white prepupae 24hr    45 pupae 2d postWPP    14 pupae 3d postWPP    24 pupae 4d postWPP    85 adult male 01day    5 adult male 05day    8 adult male 30day    8 adult female 01day    201 adult female 05day    190 adult female 30day    196 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high  log, scaled to High expression Developmental Stage   Expression Level embryo 00-02hr    6 embryo 02-04hr    177 embryo 04-06hr    237 embryo 06-08hr    414 embryo 08-10hr    460 embryo 10-12hr    531 embryo 12-14hr    443 embryo 14-16hr    176 embryo 16-18hr    186 embryo 18-20hr    158 embryo 20-22hr    449 embryo 22-24hr    345 larva L1    655 larva L2    297 larva L3 12hr old    180 larva L3 puffstage 1-2    27 larva L3 puffstage 3-6    63 larva L3 puffstage 7-9    65 white prepupae new    62 white prepupae 12hr    36 white prepupae 24hr    45 pupae 2d postWPP    14 pupae 3d postWPP    24 pupae 4d postWPP    85 adult male 01day    5 adult male 05day    8 adult male 30day    8 adult female 01day    201 adult female 05day    190 adult female 30day    196 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high  log, scaled to Extremely high expression Developmental Stage   Expression Level embryo 00-02hr    6 embryo 02-04hr    177 embryo 04-06hr    237 embryo 06-08hr    414 embryo 08-10hr    460 embryo 10-12hr    531 embryo 12-14hr    443 embryo 14-16hr    176 embryo 16-18hr    186 embryo 18-20hr    158 embryo 20-22hr    449 embryo 22-24hr    345 larva L1    655 larva L2    297 larva L3 12hr old    180 larva L3 puffstage 1-2    27 larva L3 puffstage 3-6    63 larva L3 puffstage 7-9    65 white prepupae new    62 white prepupae 12hr    36 white prepupae 24hr    45 pupae 2d postWPP    14 pupae 3d postWPP    24 pupae 4d postWPP    85 adult male 01day    5 adult male 05day    8 adult male 30day    8 adult female 01day    201 adult female 05day    190 adult female 30day    196 Expression Level Scale  None   Extremely low   Very low   Low   Moderate   Moderately high   High   Very high   Extremely high  Heatmap Developmental Stage   Expression Level embryo 00-02hr     embryo 02-04hr     embryo 04-06hr     embryo 06-08hr     embryo 08-10hr     embryo 10-12hr     embryo 12-14hr     embryo 14-16hr     embryo 16-18hr     embryo 18-20hr     embryo 20-22hr     embryo 22-24hr     larva L1     larva L2     larva L3 12hr old     larva L3 puffstage 1-2     larva L3 puffstage 3-6     larva L3 puffstage 7-9     white prepupae new     white prepupae 12hr     white prepupae 24hr     pupae 2d postWPP     pupae 3d postWPP     pupae 4d postWPP     adult male 01day     adult male 05day     adult male 30day     adult female 01day     adult female 05day     adult female 30day     modENCODE Temporal Expression Data (Graveley et al., 2011) FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)
Expression Clusters
External Data & Images
Linkouts
Alleles & Phenotypes
Summary of Allele Phenotypes
Phenotype manifest in Allele
Classical Alleles ( 0 )
For All Classical Alleles Show
Allele of snoRNA:Ψ18S-1820 Class Mutagen Stocks Known lesion
Alleles Carried on Transgenic Constructs ( 0 )
For All Alleles Carried on Transgenic Constructs Show
Allele of snoRNA:Ψ18S-1820 Class Mutagen Stocks Known lesion
Aneuploid Aberrations
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data
Insertions
	Type of insertions Name Expression data
Gene Ontology: Function, Process & Cellular Component ( 1 unique term )
Terms Based on Experimental Evidence ( 0 terms )
Terms Based on Predictions or Assertions ( 1 term )
Molecular Function ( 0 terms)
Biological Process ( 0 terms)
Cellular Component
CV term Evidence References
nucleolus non-traceable author statement (Giordano, 1998.9.2, Huttenhofer, 2003.2.4)
Sequence Ontology: Class of Gene
	nuclear_gene (Giordano, 1998.9.2, Huttenhofer, 2003.2.4, Yuan et al., 2003) snoRNA_gene (Giordano, 1998.9.2, Huttenhofer, 2003.2.4, Yuan et al., 2003)
Interactions & Pathways
Summary of Physical Interactions
Protein-protein
Interacting group Assay References
Summary of Genetic Interactions
Interacts with	Please look at the allele data for full details of the genetic interactions snoRNA:Ψ18S-1820 allele Gene References
External Data
Linkouts
Orthologs
Genome-wide drosophilid orthologs
Curated drosophilid orthologs
Linkouts
Stocks & Reagents
Stocks Listed in FlyBase ( 0 )
Genomic Clones ( 1 )
	BACR27M17 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 0 )
	Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see GBrowse for alignment of the cDNAs and ESTs to the gene model.
cDNA Clones, Fully Sequenced
BDGP DGC clones
Other clones
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones
Other clones
RNAi & Array Information
Linkouts	GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 47731
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of	Source for identity of: snoRNA:Ψ18S-1820 snoRNA:H1 (Huang et al., 2005)
Source for database merge of
Additional comments
Other Comments
	New annotation (CR32884) in release 3 of the genome annotation. (FlyBase Genome Annotators, 2002-2003) Nop60B hosts the snoRNA:H1 gene in its fourth intron. Overall orientation not stated: Nop60B+ snoRNA:H1+ Nop60B+ (Giordano et al., 1999)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NR_001911 DDBJ / EMBL / GenBank • AF089836 AF097634 AJ544019 AJ809561 Entrez Gene - A searchable database of RefSeq genes. • 3772141
Other Crossreferences
	Rfam - RNA families database of alignments and covariance models • RF00291
Linkouts
	FlyMine - Integrated genomics database for Drosophila, Anopheles, and C.elegans • FBgn0026169 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 47731 modMine - Data generated by the modENCODE project. • FBgn0026169
Synonyms & Secondary IDs ( 12 )
Reported As
Symbol Synonym	CR32884   Dm-639 (Yuan et al., 2003) H1 (Tycowski and Steitz, 2001) psi18s-1820 snoRNA (Qu, 2004.8.3) snoH1 (Giordano et al., 1999, Riccardo et al., 2007) Sno H1 (Riccardo et al., 2007) snoR639 (Huttenhofer, 2003.2.4) snoRNA:H1   snoRNA:Ψ18S-1820   snoRNA H1 (Bergman et al., 2006.8.16, Riccardo et al., 2007) unnamed (Giordano, 1998.10.6) Ψ 18S-1820(SnoR639) (Huang et al., 2005)
Name Synonym	snoRNA:H1
Secondary FlyBase IDs
References ( 12 )
Research paper	Riccardo et al., 2007, BMC Molec. Biol. 8: 15 The coding/non-coding overlapping architecture of the gene encoding the Drosophila pseudouridine synthase. [FBrf0202262] Huang et al., 2005, RNA, N.Y. 11(8): 1303--1316 Genome-wide analyses of two families of snoRNA genes from Drosophila melanogaster, demonstrating the extensive utilization of introns for coding of snoRNAs. [FBrf0188305] Yuan et al., 2003, Nucleic Acids Res. 31(10): 2495--2507 RNomics in Drosophila melanogaster: identification of 66 candidates for novel non-messenger RNAs. [FBrf0159270] Giordano et al., 1999, J. Cell Biol. 144(6): 1123--1133 minifly, A Drosophila gene required for ribosome biogenesis. [FBrf0108186]
Review	Tycowski and Steitz, 2001, Europ. J. Cell Biol. 80(2): 119--125 Non-coding snoRNA host genes in Drosophila: expression strategies for modification guide snoRNAs. [FBrf0135755]
Personal communication to FlyBase	Bergman et al., 2006.8.16, Annotation of snoRNAs in CAF1 genome assemblies. Annotation of snoRNAs in CAF1 genome assemblies. [FBrf0199239]
FlyBase analysis	FlyBase Genome Annotators, 2002-2003, Changes affecting gene model number or type in releases 3.0 and 3.1 of the annotated D.melanogaster genome. Changes affecting gene model number or type in releases 3.0 and 3.1 of the annotated D.melanogaster genome. [FBrf0148886] FlyBase, 1996-, FlyBase inference based on genome sequence analysis. FlyBase inference based on genome sequence analysis. [FBrf0104946]
DNA/RNA sequence record	Qu, 2004.8.3, GenBank/EMBL/DDBJ: AJ809561 Drosophila melanogaster psi18s-1820 snoRNA gene. [FBrf0199022] Huttenhofer, 2003.2.4, GenBank/EMBL/DDBJ: AJ544019 Drosophila melanogaster partial snoR639 gene for small nucleolar RNA snoR639, clone Dm-639. [FBrf0157737] Giordano, 1998.10.6, GenBank/EMBL/DDBJ: AF097634 Drosophila melanogaster minifly protein (mfl) gene, complete cds; and snoRNA H1, complete sequence. [FBrf0115258] Giordano, 1998.9.2, GenBank/EMBL/DDBJ: AF089836 Drosophila melanogaster snoRNA H1, complete sequence. [FBrf0115260]