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Gene Dmel\Cdk7

General Information
Symbol	Dmel\Cdk7	Species	D. melanogaster
Name	Cyclin-dependent kinase 7	Annotation symbol	CG3319
Feature type	protein_coding_gene	FlyBase ID	FBgn0263237
Gene Model Status	Current	Stock availability	6 publicly available
Also Known As	DmCdk7, DmMO15
Genomic Location
Chromosome (arm)	X	Recombination map
Cytogenetic map	4F4-4F4	Sequence location	X:5,201,498..5,202,970 [-]
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	The gene Cyclin-dependent kinase 7 is referred to in FlyBase by the symbol Dmel\Cdk7 (CG3319, FBgn0263237). It is a protein_coding_gene from Drosophila melanogaster. There is experimental evidence that it has the molecular function: cyclin-dependent protein kinase activity; RNA polymerase II carboxy-terminal domain kinase activity; protein serine/threonine kinase activity. There is experimental evidence that it is involved in the biological process: regulation of cyclin-dependent protein kinase activity; protein phosphorylation; mitosis; transcription from RNA polymerase II promoter; promoter clearance from RNA polymerase II promoter. 21 alleles are reported. The phenotypes of these alleles are annotated with: trichogen cell; cuticle; chaeta; wing; wing vein; embryo. It has one annotated transcript and one annotated polypeptide. Protein features are: Protein kinase, ATP binding site; Protein kinase, catalytic domain; Protein kinase-like domain; Serine/threonine-protein kinase, active site; Serine/threonine-protein kinase, catalytic domain; Serine/threonine-protein kinase-like domain. Gene sequence location is X:5201498..5202970.
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.
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FB2011_10
FB2012_01	References Aguilar-Fuentes et al., 2008, PLoS Genet. 4(11): e1000253 Sequence features BKN51102 BKN20668 HFA18451 BKN50930 Controlled Vocabulary Terms RNA polymerase II carboxy-terminal domain kinase activity nucleus carboxy-terminal domain protein kinase complex cytoplasm promoter clearance from RNA polymerase II promoter transcription from RNA polymerase II promoter
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 4F4-4F4   Limits computationally determined from genome sequence between P{EP}EP425 and P{EP}CG3249EP1400
Experimentally Determined Cytological Location
Cytogenetic map Notes References
Experimentally Determined Recombination Data
Location
Left of (cM)
Right of (cM)
Notes
Gene Model & Products
Please see the GBrowse view of Dmel\Cdk7 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) Associated CDS (aa) Cdk7-RA FBtr0070756  NM_078489   1402   353
Additional Transcript Data & Comments
Reported size (kB)	1.6 (northern blot) (Larochelle et al., 1998)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name FlyBase ID Predicted MW (kDa) Length (aa) Theoretical pI RefSeq ID GenBank protein Cdk7-PA   FBpp0070723   39.7   353   9.98     NP_511044   AAF46016
Additional Polypeptide Data & Comments
Reported size (kDa)	353 (aa); 40 (kD observed); 39 (kD predicted) (Larochelle et al., 1998)
Comments
External Data
Linkouts
Crossreferences	InterPro domains - A database of protein families, domains, and functional sites • Protein kinase, catalytic domain (IPR000719) Serine/threonine-protein kinase, catalytic domain (IPR002290) Serine/threonine-protein kinase, active site (IPR008271) Protein kinase-like domain (IPR011009) Protein kinase, ATP binding site (IPR017441) Serine/threonine-protein kinase-like domain (IPR017442)
Sequences Consistent with the Gene Model
DDBJ / EMBL / GenBank	DNA sequence Protein sequence Name AE014298 AAF46016   BT022155   CO278456   CO316520   CO317733   CO330307   EC055438   EC072644   EC204198   EC216263   EC226856   U56661 AAC47856
UniProtKB/Swiss-Prot
UniProtKB/TrEMBL	Q24216
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
in situ Stage Tissue/Position (including subcellular localization) Reference embryonic stage 1 -- 2   organism | faint & ubiquitous & uniform   (Leclerc et al., 2000) Comment:maternally deposited embryonic cycle 9 -- embryonic cycle 11   organism | ubiquitous & uniform   (Leclerc et al., 2000) embryonic stage 11   organism | faint   (Leclerc et al., 2000) northern blot Stage Tissue/Position (including subcellular localization) Reference embryonic stage -- adult stage     (Larochelle et al., 1998) adult stage | female   ovary   (Larochelle et al., 1998)
Additional Descriptive Data
	Cdk7 transcripts are present throughout development with the highest levels in early embryos and ovaries. (Larochelle et al., 1998)
Marker for
Subcellular Localization
CV Term
Notes
Polypeptide Expression
western blot Stage Tissue/Position (including subcellular localization) Reference embryonic stage 1 -- 11   organism   (Leclerc et al., 2000)
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. [an error occurred while processing this directive] modENCODE Temporal Expression Data (Graveley et al., 2011) FlyAtlas Anatomical Expression Data (Chintapalli et al., 2007)
Expression Clusters
	A cluster of genes with similar mRNA expression dynamics across development. (The modENCODE Consortium, 2010) mE2_34_mRNA_expression_cluster_06
External Data & Images
Linkouts
Alleles & Phenotypes
Summary of Allele Phenotypes
Lethality Allele semi-lethal | pupal stage, with Scer\GAL4pnr-MD237 Cdk7GD4167 Other Phenotypes Allele mitotic cell cycle defective | germline clone | heat sensitive Cdk7ts mitotic cell cycle defective | somatic clone | heat sensitive Cdk7ts visible Cdk7P140S visible, with Scer\GAL4Bx-MS1096 Cdk7D137R.Scer\UAS.T:Ivir\HA1 Cdk7T170A.Scer\UAS.T:Ivir\HA1 visible, with Scer\GAL4pnr-MD237 Cdk7GD4167 wild-type Cdk7+tLa Cdk7S164A Cdk7S180A Cdk7T170A wild-type, with Scer\GAL4Bx-MS1096 Cdk7Scer\UAS.T:Ivir\HA1 Phenotype manifest in Allele chaeta Cdk7P140S cuticle Cdk7P140S embryo Cdk7nos-D137R.bcd3'UTR embryo, with Scer\GAL4Kr.PM Cdk7D137R.Scer\UAS.T:Ivir\HA1 Cdk7T170A.Scer\UAS.T:Ivir\HA1 mitotic cell cycle | anterior | embryonic stage Cdk7nos-D137R.bcd3'UTR mitotic cell cycle | embryonic cycle 14 Cdk7nos-D137R.bcd3'UTR mitotic cell cycle | embryonic stage 1, with Scer\GAL4Kr.PM Cdk7D137R.Scer\UAS.T:Ivir\HA1 Cdk7T170A.Scer\UAS.T:Ivir\HA1 trichogen cell, with Scer\GAL4pnr-MD237 Cdk7GD4167 wing Cdk7P140S wing, with Scer\GAL4Bx-MS1096 Cdk7D137R.Scer\UAS.T:Ivir\HA1 Cdk7T170A.Scer\UAS.T:Ivir\HA1 wing vein, with Scer\GAL4Bx-MS1096 Cdk7D137R.Scer\UAS.T:Ivir\HA1 Cdk7T170A.Scer\UAS.T:Ivir\HA1
Classical Alleles ( 2 )
For All Classical Alleles Show
Allele of Cdk7 Class Mutagen Stocks Known lesion Cdk7null3 0 -- Cdk7ts 0 --
Alleles Carried on Transgenic Constructs ( 19 )
For All Alleles Carried on Transgenic Constructs Show
Allele of Cdk7 Class Mutagen Stocks Known lesion Cdk7t5.5 in vitro construct - genomic fragment 2 Yes Cdk7GD4167 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Cdk7GL00073 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Cdk7KK100572 in vitro construct - RNAi in vitro construct - regulatory fusion 1 Yes Cdk7P140S in vitro construct - amino acid replacement 1 Yes Cdk7+tLa in vitro construct - genomic fragment 0 Yes Cdk7D137R.Scer\UAS.T:Ivir\HA1 in vitro construct - regulatory fusion in vitro construct - coding region fusion in vitro construct - amino acid replacement 0 Yes Cdk7dsRNA.cCa in vitro construct - RNAi 0 Yes Cdk7nos-D137R.bcd3'UTR in vitro construct - regulatory fusion in vitro construct - coding region fusion in vitro construct - amino acid replacement 0 Yes Cdk7nos-T170A.bcd3'UTR in vitro construct - regulatory fusion in vitro construct - coding region fusion in vitro construct - amino acid replacement 0 Yes Cdk7S164A.T170A in vitro construct - site directed mutagenesis 0 Yes Cdk7S164A in vitro construct - site directed mutagenesis 0 Yes Cdk7S180A in vitro construct - site directed mutagenesis 0 Yes Cdk7Scer\UAS.cIa in vitro construct - regulatory fusion 0 Yes Cdk7Scer\UAS.T:Ivir\HA1 in vitro construct - regulatory fusion in vitro construct - coding region fusion 0 Yes Cdk7T170A.Scer\UAS.T:Ivir\HA1 in vitro construct - regulatory fusion in vitro construct - coding region fusion in vitro construct - amino acid replacement 0 Yes Cdk7T170A loss of function allele in vitro construct - site directed mutagenesis 0 Yes Cdk7T:Scer\GAL4 in vitro construct - coding region fusion 0 Yes Cdk7tSa in vitro construct - genomic fragment 0 Yes
Aneuploid Aberrations
Transgenic Constructs & Insertions
Transgenic Constructs
	Type of construct Name Expression data UAS construct P{GD4167} NA P{KK100572} NA P{TRiP.GL00073} NA P{UAS-Cdk7.D137R} NA P{UAS-Cdk7.HA} NA P{UAS-Cdk7.T170A} NA characterization construct P{Cdk7.S164A.T170A} NA P{Cdk7.S164A} NA P{Cdk7.S180A} NA P{Cdk7.T170A} NA P{Cdk7+4.0} NA P{Cdk7P140S} NA P{nos-Cdk7.D137R.bcd3'UTR} NA P{nos-Cdk7.T170A.bcd3'UTR} NA
Insertions
	Type of insertions Name Expression data
Gene Ontology: Function, Process & Cellular Component ( 15 unique terms )
Terms Based on Experimental Evidence ( 12 terms )
Molecular Function
CV term Evidence References
contributes_to cyclin-dependent protein kinase activity inferred from direct assay (Larochelle et al., 2001) protein serine/threonine kinase activity inferred from direct assay (Larochelle et al., 1998) contributes_to RNA polymerase II carboxy-terminal domain kinase activity inferred from direct assay (Larochelle et al., 2001, Schwartz et al., 2003)
Biological Process
CV term Evidence References
mitosis inferred from mutant phenotype (Larochelle et al., 1998) promoter clearance from RNA polymerase II promoter inferred from direct assay (Schwartz et al., 2003) protein phosphorylation inferred from direct assay (Larochelle et al., 1998) regulation of cyclin-dependent protein kinase activity inferred from direct assay (Larochelle et al., 1998) transcription from RNA polymerase II promoter inferred from direct assay (Schwartz et al., 2003)
Cellular Component
CV term Evidence References
carboxy-terminal domain protein kinase complex inferred from direct assay (Larochelle et al., 2001) cytoplasm inferred from direct assay (Chen et al., 2003) holo TFIIH complex inferred from direct assay (Fregoso et al., 2007, Aguilar-Fuentes et al., 2008) nucleus inferred from direct assay (Chen et al., 2003)
Terms Based on Predictions or Assertions ( 7 terms )
Molecular Function
CV term Evidence References
ATP binding inferred from electronic annotation with InterPro:IPR000719, InterPro:IPR002290, InterPro:IPR017441 (FlyBase Curators et al., 2004-) calcium ion binding inferred from sequence or structural similarity with mouse Cab39 (FlyBase, 1992-) cyclin-dependent protein kinase activity inferred from sequence or structural similarity (Larochelle et al., 1998) inferred from sequence or structural similarity with mouse Cdk7 (FlyBase, 1992-) protein serine/threonine kinase activity non-traceable author statement (Morrison et al., 2000)
Biological Process
CV term Evidence References
protein phosphorylation non-traceable author statement (Morrison et al., 2000) transcription initiation from RNA polymerase II promoter inferred from sequence or structural similarity with human CDK7 AND inferred from sequence or structural similarity with Saccharomyces KIN28 AND inferred from sequence or structural similarity with worm cdk-7 (Aoyagi and Wassarman, 2000)
Cellular Component
CV term Evidence References
holo TFIIH complex inferred from sequence or structural similarity with human CDK7 AND inferred from sequence or structural similarity with Saccharomyces KIN28 AND inferred from sequence or structural similarity with worm cdk-7 (Aoyagi and Wassarman, 2000)
Sequence Ontology: Class of Gene
	gene   nuclear_gene   protein_coding_gene
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 Cdk7 allele Gene References Cdk7D137R.Scer\UAS.T:Ivir\HA1 twe (Leclerc et al., 2000) Cdk7P140S hay (Merino et al., 2002) Cdk7T170A.Scer\UAS.T:Ivir\HA1 twe (Leclerc et al., 2000)
External Data
Linkouts	DroID - A comprehensive database of gene and protein interactions. • FBgn0263237
Orthologs
Genome-wide drosophilid orthologs	Dana\GF20951 Dere\GG18504 Dgri\GH24366 Dmoj\GI15304 Dper\GL14332 Dpse\GA17354 Dsec\GM12652 Dsim\GD24595 Dvir\GJ16576 Dwil\GK10332 Dyak\GE16821
Curated drosophilid orthologs	Dmau\Cdk7 (Moehring et al., 2004) Dpse\GA17354   Dsim\Cdk7 (Moehring et al., 2004)
Linkouts
Stocks & Reagents
Stocks Listed in FlyBase ( 6 )
Bloomington	35199 y1 sc* v1; P{TRiP.GL00073}attP2 4557 Df(1)JB254, P{snf+,dhd+}SL2, w*/FM7c
Kyoto	107796 Df(1)JB254, P{snf+,dhd+}SL2, w*/FM7c 107810 w*; P{Cdk7P140S}SL1 Sb1/TM3, Ser1
VDRC	v103413 P{KK100572}VIE-260B v10442 w1118; P{GD4167}v10442
Genomic Clones ( 1 )
	BACR01M22 Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete
cDNA Clones ( 11 )
	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	IP01401
Other clones	DPiM_IP01401
cDNA Clones, End Sequenced (ESTs)
BDGP DGC clones
Other clones	17936 161280 164737 191769 EC055438 EK130120 EK265149 EK268928 EK294935
RNAi & Array Information
Linkouts	GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 31441
Antibody Information
	monoclonal (Larochelle et al., 1998) polyclonal (Leclerc et al., 2000)
Other Information
Discoverer
Etymology
Identification
Relationship to Other Genes
Source for database identity of	Source for identity of: Cdk7 CG3319 (Li, 1999.11)
Source for database merge of
Additional comments
Other Comments
	DNA-protein interactions: genome-wide binding profile assayed for Cdk7 protein in Kc167 cells; see Chromatin_types_NKI collection report. Individual protein-binding experiments listed under "Samples" at GEO_GSE22069 (http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE22069). (Filion et al., 2010) dsRNA made from templates generated with primers directed against this gene tested in RNAi screen for effects on Kc167 and S2R+ cell morphology. (Kiger et al., 2003) Cdk7 probably has a role in the control of the transcriptional machinery. (Leclerc et al., 2000) Cdk7 is required for mitosis and for the activation of cdc2 protein in vivo. (Larochelle et al., 1998) Cdk7 is involved in transcriptional control in the embryo and in the larvae. (Leopold and Leclerc, 1997)
External Crossreferences & Linkouts
Sequence Crossreferences
	RefSeq (Transcripts) • NM_078489 RefSeq (Proteins) • NP_511044 DDBJ / EMBL / GenBank • AAC47856 AAF46016 U56661 Entrez Gene - A searchable database of RefSeq genes. • 31441 UniProtKB/TrEMBL • Q24216
Other Crossreferences
	InterPro domains - A database of protein families, domains, and functional sites • Protein kinase, catalytic domain (IPR000719) Serine/threonine-protein kinase, catalytic domain (IPR002290) Serine/threonine-protein kinase, active site (IPR008271) Protein kinase-like domain (IPR011009) Protein kinase, ATP binding site (IPR017441) Serine/threonine-protein kinase-like domain (IPR017442)
Linkouts
	DroID - A comprehensive database of gene and protein interactions. • FBgn0263237 GenomeRNAi - GenomeRNAi – A database for cell-based and in vivo RNAi phenotypes and reagents • 31441
Synonyms & Secondary IDs ( 16 )
Reported As
Symbol Synonym	CD 7 (Santoso and Kadonaga, 2006) Cdk7 (Blanco et al., 2010, Hoskins et al., 2005, Hanyu-Nakamura et al., 2008, Li et al., 2010) cdk7 (Merino et al., 2002, Larochelle et al., 2001, Merino et al., 2001, Leclerc et al., 2000, Ito et al., 2004, Matsuno et al., 2007, Schwartz et al., 2003, Fisher, 2005, Emberly et al., 2008, Fregoso et al., 2007, Johnson et al., 2010) CDK7 (Larochelle et al., 2001, Filion et al., 2010) cdk-7 (Deshpande et al., 2007) CG3319 (Morrison et al., 2000, Aoyagi and Wassarman, 2000, Keleman et al., 2009.8.5, Johnson et al., 2010, Ni et al., 2011.7.19) dCdk7 (Ito et al., 2004) DmCdk7 (Harper and Elledge, 1998, Leclerc et al., 1996) Dmcdk7 (Larochelle et al., 1998) DmCDK7 (Leopold and Leclerc, 1997, Aguilar-Fuentes et al., 2006) DmMO15 (Larochelle, 1996.4.24, ) DmMo15 (Hager and Cline, 1997) Mo15   p40MO15 (Kaldis, 1999)
Name Synonym	Cyclin-dependent kinase 7   cyclin-dependent kinase 7 (Fisher, 2005) Mo15
Secondary FlyBase IDs
	FBgn0015617 FBgn0024324
References ( 53 )
Generate a list of	All references relating to this gene ( 53 )
List References by type	Research paper  ( 27 ) Supplementary material  ( 5 ) Review  ( 3 ) Personal communication to FlyBase  ( 4 ) Abstract  ( 8 ) FlyBase analysis  ( 1 ) DNA/RNA sequence record  ( 1 ) Curated genome annotation  ( 2 ) Automatic genome annotation  ( 1 )
Recent research papers ( 4 )
	Blanco et al., 2010, BMC Dev. Biol. 10: 94 Gene expression following induction of regeneration in Drosophila wing imaginal discs. Expression profile of regenerating wing discs. [FBrf0211812] Filion et al., 2010, Cell 143(2): 212--224 Systematic protein location mapping reveals five principal chromatin types in Drosophila cells. [FBrf0212051] Johnson et al., 2010, PLoS Genet. 6(3): e1000872 PPS, a Large Multidomain Protein, Functions with Sex-Lethal to Regulate Alternative Splicing in Drosophila. [FBrf0210202] Li et al., 2010, PLoS Genet. 6(3): e1000876 Drosophila xpd regulates cdk7 localization, mitotic kinase activity, spindle dynamics, and chromosome segregation. [FBrf0210295] Show all research papers ...
Recent reviews (0)
	All reviews listed in FlyBase were published before 2010 Show reviews ...