FB2020_06, released Dec 22, 2020

Gene: Dmel\XNP

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General Information
Symbol
Dmel\XNP
Species
D. melanogaster
Name
XNP
Annotation Symbol
CG4548
Feature Type
protein_coding_gene
FlyBase ID
FBgn0039338
Gene Model Status
Current
Stock Availability
15 publicly available
Gene Snapshot
XNP (XNP) encodes two protein isoforms that participate in the maintenance of heterochromatin and chromosomal stability. They interact with heterochromatin proteins such as those encoded by Su(var)205 and ADD1. [Date last reviewed: 2018-11-08]
Other Summaries
Also Known As

dATRX, dXNP

Key Links
Genomic Location
Cytogenetic map
96E1-96E2
Sequence location
3R:25,477,868..25,482,834 [-]
Recombination map

3-88

RefSeq locus
NT_033777 REGION:25477868..25482834
Sequence
Get Decorated FASTA
Genomic Maps
Other Genome Views
The following external sites may use different assemblies or annotations than FlyBase.
NCBI
UCSC
Ensembl
PopFly
Function
GO Summary Ribbons
Gene Ontology (GO) Annotations (17 terms)
Molecular Function (3 terms)
Terms Based on Experimental Evidence (1 term)
CV Term
Evidence
References
enables ATPase activity
inferred from direct assay
(Emelyanov et al., 2010)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
enables ATP binding
inferred from electronic annotation with InterPro:IPR000330
(assigned by InterPro )
(FlyBase Curators et al., 2004-)
enables DNA translocase activity
inferred from sequence or structural similarity with UniProtKB:P46100
(FlyBase Curators, 2008--)
Biological Process (8 terms)
Terms Based on Experimental Evidence (8 terms)
CV Term
Evidence
References
involved_in axon guidance
inferred from mutant phenotype
(Sun et al., 2006)
involved_in chromosome organization
inferred from mutant phenotype
(Bassett et al., 2008)
involved_in DNA replication-independent nucleosome assembly
inferred from mutant phenotype
(Schneiderman et al., 2012)
involved_in glial cell migration
inferred from mutant phenotype
(Sun et al., 2006)
involved_in heterochromatin organization involved in chromatin silencing
inferred from mutant phenotype
(Emelyanov et al., 2010)
involved_in intrinsic apoptotic signaling pathway
inferred from mutant phenotype
(Lee et al., 2007)
involved_in nervous system development
inferred from mutant phenotype
(Koizumi et al., 2007)
involved_in regulation of JNK cascade
inferred from genetic interaction with FLYBASE:hep; FB:FBgn0010303
(Lee et al., 2007)
Terms Based on Predictions or Assertions (0 terms)
Cellular Component (6 terms)
Terms Based on Experimental Evidence (6 terms)
CV Term
Evidence
References
located_in beta-heterochromatin
inferred from direct assay
(Emelyanov et al., 2010)
located_in chromosome, centromeric region
inferred from direct assay
(Bassett et al., 2008)
located_in germinal vesicle
inferred from direct assay
(Orsi et al., 2013)
located_in heterochromatin
inferred from direct assay
(Swenson et al., 2016)
located_in nucleus
inferred from direct assay
(Orsi et al., 2013)
located_in polytene chromosome
inferred from direct assay
(Valadez-Graham et al., 2012, Bassett et al., 2008)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
located_in nucleus
inferred from biological aspect of ancestor with PANTHER:PTN000847877
(assigned by GO_Central )
(Gaudet et al., 2011)
Gene Group (FlyBase)
Protein Family (UniProt)
Belongs to the SNF2/RAD54 helicase family. (Q9GQN5)
Protein Signatures (InterPro)
Summaries
Gene Group (FlyBase)
SNF2-LIKE CHROMATIN REMODELERS -
Snf2-like chromatin remodelers are a family of helicase-like proteins that direct energy derived from ATP hydrolysis into the mechanical remodelling of chromatin structure. They are so-called due to the presence of a domain homologous to the helicase-like ATPase domain of the S. cerevisiae Snf2 protein. This domain, the Snf2 domain, consists of two tandem RecA-like folds and contains seven conserved helicase-related sequence motifs that classify it as part of the helicase superfamily 2 (SF2). However, Snf2 proteins are not bona fide helicases, lacking the ability to separate nucleic acid strands. Instead, Snf2 proteins are DNA translocases that apply an ATP-dependent torsional strain to DNA, which provides the necessary force to remodel nucleosomes or in some cases other DNA-protein complexes. (Adapted from PMID:21862382.)
Protein Function (UniProtKB)
Global transcriptional regulator. Modifies gene expression by affecting chromatin.
(UniProt, Q9GQN5)
Summary (Interactive Fly)

DEAD-like helicases superfamily - complements HIRA in recognizing exposed DNA and serving as a binding platform for the efficient recruitment of H3.3 predeposition complexes to chromatin gaps

Gene Model and Products
Number of Transcripts
4
Number of Unique Polypeptides
2

Please see the JBrowse view of Dmel\XNP for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Protein Domains (via Pfam)
Isoform displayed:
Pfam protein domains
InterPro name
classification
start
end
Protein Domains (via SMART)
Isoform displayed:
SMART protein domains
InterPro name
classification
start
end
Comments on Gene Model

Gene model reviewed during 5.48

Gene model reviewed during 5.43

Gene model reviewed during 5.55

Sequence Ontology: Class of Gene
gene_with_edited_transcript
(Graveley et al., 2011)
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
XNP-RA
FBtr0084837
NM_170228
4493
1311
XNP-RB
FBtr0084838
NM_143141
4557
1311
XNP-RC
FBtr0344718
NM_001300598
4493
1046
XNP-RD
FBtr0344719
NM_001300599
4557
1046
Additional Transcript Data and Comments
Reported size (kB)
Comments
External Data
Crossreferences
Polypeptide Data
Annotated Polypeptides
Name
FlyBase ID
Predicted MW (kDa)
Length (aa)
Theoretical pI
RefSeq ID
GenBank
XNP-PA
FBpp0084212
148.2
1311
8.66
NP_733107
AAF56471
XNP-PB
FBpp0084213
148.2
1311
8.66
NP_651398
AAN14055
XNP-PC
FBpp0311051
119.5
1046
6.87
NP_001287527
AHN57526
XNP-PD
FBpp0311052
119.5
1046
6.87
NP_001287528
AHN57527
Polypeptides with Identical Sequences

The group(s) of polypeptides indicated below share identical sequence to each other.

1311 aa isoforms: XNP-PA, XNP-PB
1046 aa isoforms: XNP-PC, XNP-PD
Additional Polypeptide Data and Comments
Reported size (kDa)
Comments
External Data
Crossreferences
InterPro - A database of protein families, domains and functional sites
Linkouts
Sequences Consistent with the Gene Model
Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\XNP using the Feature Mapper tool.

External Data
Crossreferences
Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
Linkouts
Expression Data
Expression Summary Ribbons
Colored tiles in ribbon indicate that expression data has been curated by FlyBase for that anatomical location. Colorless tiles indicate that there is no curated data for that location.
For complete stage-specific expression data, view the modENCODE Development RNA-Seq section under High-Throughput Expression below.
Transcript Expression
in situ
Stage
Tissue/Position (including subcellular localization)
Reference
embryonic stage 1 -- 3
organism | ubiquitous

Comment: maternally deposited

(Fisher et al., 2012)
embryonic stage 4 -- 6
organism | ubiquitous
(Fisher et al., 2012)
embryonic stage 7 -- 8
antennal anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
central brain anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
dorsal head epidermis anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
visual anlage

Comment: reported as procephalic ectoderm anlage

(Fisher et al., 2012)
organism | ubiquitous
(Fisher et al., 2012)
posterior endoderm
(Fisher et al., 2012)
ventral ectoderm
(Fisher et al., 2012)
embryonic stage 9 -- 10
antennal primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
central brain primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
visual primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
dorsal head epidermis primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
lateral head epidermis primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
ventral head epidermis primordium

Comment: reported as procephalic ectoderm primordium

(Fisher et al., 2012)
organism | ubiquitous
(Fisher et al., 2012)
posterior endoderm
(Fisher et al., 2012)
ventral nerve cord primordium
(Fisher et al., 2012)
embryonic stage 11 -- 12
central brain primordium
(Fisher et al., 2012)
embryonic central brain neuron
(Fisher et al., 2012)
lateral cord neuron
(Fisher et al., 2012)
organism | ubiquitous
(Fisher et al., 2012)
ventral nerve cord primordium
(Fisher et al., 2012)
embryonic stage 13 -- 16
embryonic brain
(Fisher et al., 2012)
embryonic central brain neuron
(Fisher et al., 2012)
embryonic/larval nervous system
(Fisher et al., 2012)
ventral nerve cord
(Fisher et al., 2012)
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
immunolocalization
Stage
Tissue/Position (including subcellular localization)
Reference
oogenesis stage S10 & adult stage | female
oocyte
(Orsi et al., 2013)
blastoderm stage
organism
(Orsi et al., 2013)
mass spectroscopy
Stage
Tissue/Position (including subcellular localization)
Reference
day 5 of adulthood & male -- day 7 of adulthood & male
spermatozoon
(Dorus et al., 2006)
western blot
Stage
Tissue/Position (including subcellular localization)
Reference
embryonic stage -- adult stage
organism
(Emelyanov et al., 2010)
Additional Descriptive Data

Both XNP isoforms are detected at all stages of development on western blots with the highest levels in embryos and pupae.

(Emelyanov et al., 2010)
Marker for
 
Subcellular Localization
CV Term
Evidence
References
located_in beta-heterochromatin
inferred from direct assay
(Emelyanov et al., 2010)
located_in chromosome, centromeric region
inferred from direct assay
(Bassett et al., 2008)
located_in germinal vesicle
inferred from direct assay
(Orsi et al., 2013)
located_in heterochromatin
inferred from direct assay
(Swenson et al., 2016)
located_in nucleus
inferred from direct assay
(Orsi et al., 2013)
located_in polytene chromosome
inferred from direct assay
(Valadez-Graham et al., 2012, Bassett et al., 2008)
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\XNP in GBrowse 2
RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region
Bulk Downloads
RNA-Seq RPKM values for all genes
Reference
See Gelbart and Emmert, 2013 for analysis details and data files for all genes.
Developmental Proteome: Life Cycle
Developmental Proteome: Embryogenesis
External Data and Images
Linkouts
BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
FLIGHT - Cell culture data for RNAi and other high-throughput technologies
FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
Flygut - An atlas of the Drosophila adult midgut
Images
FlyExpress - Embryonic expression images (BDGP data)
  • Stages(s) 1-3
  • Stages(s) 4-6
  • Stages(s) 7-8
  • Stages(s) 11-12
  • Stages(s) 13-16
FlyBase Wiki
Image Based Resources
Alleles, Insertions, and Transgenic Constructs
Classical and Insertion Alleles ( 17 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 11 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of XNP
Transgenic constructs containing regulatory region of XNP
Deletions and Duplications ( 2 )
Phenotypes
For more details about a specific phenotype click on the relevant allele symbol.
Lethality
Allele
lethal, with Scer\GAL4Act5C.PI
partially lethal - majority die
partially lethal - majority die, with Scer\GAL4Act5C.PU
partially lethal - majority die (with XNP1)
partially lethal - majority die (with XNP2)
partially lethal - majority die (with XNP3)
partially lethal - majority die | recessive
partially lethal - majority live (with XNP2)
partially lethal - majority live (with XNP3)
viable
viable, with Dcr-2UAS.cDa, Scer\GAL4elav.PLu
viable, with Scer\GAL4Mef2.PR
viable, with Scer\GAL4pnr-MD237
viable, with Scer\GAL4tin.CΔ4
Sterility
Allele
fertile
Other Phenotypes
Allele
neuroanatomy defective
neuroanatomy defective, with Scer\GAL47B
neuroanatomy defective, with Scer\GAL4elav.PLu
suppressor of variegation, with Dp(?;2)bwD, Scer\GAL4GMR.PF
suppressor of variegation, with In(3L)BL1
suppressor of variegation, with P{hsp26-pt-T}39C-12
suppressor of variegation (with XNP403), with Dp(?;2)bwD
suppressor of variegation (with XNP403), with In(1)wm4
suppressor of variegation (with XNP406), with Dp(?;2)bwD
suppressor of variegation (with XNP406), with In(1)wm4
suppressor of variegation | dominant, with Dp(?;2)bwD
suppressor of variegation | dominant, with In(1)wm4
suppressor of variegation | dominant, with In(1)wm4h
suppressor of variegation | dominant, with P{hsp26-pt-T}39C-12
suppressor of variegation | recessive
visible, with Scer\GAL4ap-md544
Phenotype manifest in
Allele
adult mushroom body, with Scer\GAL47B
adult thorax, with Scer\GAL4ap-md544
anterior commissure, with Scer\GAL4elav.PLu
embryonic/larval glial cell
interface glial cell
Kenyon cell, with Scer\GAL47B
longitudinal connective, with Scer\GAL4elav.PLu
microchaeta, with Scer\GAL4ap-md544
posterior commissure, with Scer\GAL4elav.PLu
scutellum, with Scer\GAL4ap-md544
Orthologs
Downloads
Download All DIOPT Orthologs
Download All OrthoDB Orthologs
Human Orthologs (via DIOPT v8.0)
Homo sapiens (Human) (4)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Hsap\ATRX
10 of 15
Yes
Yes
Hsap\DNMT3B
1 of 15
No
No
Hsap\RAD54L2
1 of 15
No
No
Hsap\SCGB1A1
1 of 15
No
Yes
Model Organism Orthologs (via DIOPT v8.0)
Mus musculus (laboratory mouse) (1)
Species\Gene Symbol
Score
Best Score
Best Reverse Score
Source
Compara
eggNOG
Hieranoid
Homologene
Inparanoid
Isobase
OMA
OrthoDB
OrthoFinder
OrthoInspector
orthoMCL
Panther
Phylome
RoundUp
TreeFam
ZFIN
Alignment
Complementation?
Transgene?
Mmus\Atrx
10 of 15
Yes
Yes
Rattus norvegicus (Norway rat) (4)
Rnor\Atrx
3 of 13
Yes
Yes
Rnor\LOC102552166
2 of 13
No
No
Rnor\LOC103690008
2 of 13
No
Yes
Rnor\Rad54l2
1 of 13
No
No
Xenopus tropicalis (Western clawed frog) (2)
Xtro\atrx
5 of 12
Yes
Yes
Xtro\rad54l2
2 of 12
No
No
Danio rerio (Zebrafish) (3)
Drer\atrx
8 of 15
Yes
Yes
Drer\rad54l2
2 of 15
No
No
Drer\atrxl
1 of 15
No
Yes
Caenorhabditis elegans (Nematode, roundworm) (2)
Cele\xnp-1
15 of 15
Yes
Yes
Cele\rad-26
1 of 15
No
No
Arabidopsis thaliana (thale-cress) (1)
Atha\ATRX
4 of 9
Yes
Yes
Saccharomyces cerevisiae (Brewer's yeast) (0)
No records found.
Schizosaccharomyces pombe (Fission yeast) (0)
No records found.
Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( EOG091901YQ )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila suzukii
Spotted wing Drosophila
Dsuz\DS10_00013148
Drosophila simulans
Dsim\GD18194
Drosophila sechellia
Dsec\GM10241
Drosophila erecta
Dere\GG12244
Drosophila yakuba
Dyak\GE10693
Drosophila ananassae
Dana\GF18082
Drosophila pseudoobscura pseudoobscura
Dpse\GA18248
Drosophila persimilis
Dper\GL12501
Drosophila willistoni
Dwil\GK12000
Drosophila virilis
Dvir\GJ10883
Drosophila mojavensis
Dmoj\GI10182
Drosophila grimshawi
Dgri\GH18228
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG091500GI )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Musca domestica
House fly
Mdoa\17012761
Glossina morsitans
Tsetse fly
Gmor\GMOY010542
Lucilia cuprina
Australian sheep blowfly
Lcup\FF38_01191
Mayetiola destructor
Hessian fly
Mdes\Mdes006491
Aedes aegypti
Yellow fever mosquito
Aaeg\AAEL001141
Anopheles darlingi
American malaria mosquito
Adar\ADAC004772
Anopheles gambiae
Malaria mosquito
Agam\AGAP002490
Culex quinquefasciatus
Southern house mosquito
Cqui\CPIJ009998
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W00D6 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Bombyx mori
Silkmoth
Bmor\BGIBMGA008314
Danaus plexippus
Monarch butterfly
Dple\DPOGS202629-PA
Apis florea
Little honeybee
Aflo\4583331316
Apis florea
Little honeybee
Aflo\2147758099
Apis mellifera
Western honey bee
Amel\GB43562
Bombus impatiens
Common eastern bumble bee
Bimp\BIMP17970
Bombus terrestris
Buff-tailed bumblebee
Bter\15209342
Linepithema humile
Argentine ant
Lhum\LH19247
Linepithema humile
Argentine ant
Lhum\LH25762
Megachile rotundata
Alfalfa leafcutting bee
Mrot\MROTU:002600
Nasonia vitripennis
Parasitic wasp
Nvit\Nasvi2EG010833
Nasonia vitripennis
Parasitic wasp
Nvit\Nasvi2EG010834
Dendroctonus ponderosae
Mountain pine beetle
Dpod\YQE_10587
Tribolium castaneum
Red flour beetle
Tcas\TC009794
Pediculus humanus
Human body louse
Phum\PHUM456670
Rhodnius prolixus
Kissing bug
Rpro\RPRC009731
Cimex lectularius
Bed bug
Clec\CLEC011668
Acyrthosiphon pisum
Pea aphid
Apim\ACYPI005035
Acyrthosiphon pisum
Pea aphid
Apim\ACYPI000690
Zootermopsis nevadensis
Nevada dampwood termite
Znev\Znev_15331
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X00CE )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strigamia maritima
European centipede
Smar\SMAR005694
Ixodes scapularis
Black-legged tick
Isca\ISCW009437
Ixodes scapularis
Black-legged tick
Isca\ISCW007361
Stegodyphus mimosarum
African social velvet spider
Smim\KFM57756.1
Tetranychus urticae
Two-spotted spider mite
Turt\tetur07g03670
Tetranychus urticae
Two-spotted spider mite
Turt\tetur10g01600
Tetranychus urticae
Two-spotted spider mite
Turt\tetur80g00040
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_188325
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_101480
Daphnia pulex
Water flea
Dpux\DAPPUDRAFT_319936
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G01G9 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Atrx
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-Snf2
Strongylocentrotus purpuratus
Purple sea urchin
Spur\Sp-AtrxL_2
Ciona intestinalis
Vase tunicate
Cint\ENSCING00000009208
Ciona intestinalis
Vase tunicate
Cint\ENSCING00000003076
Gallus gallus
Domestic chicken
Ggal\RAD54L2
Gallus gallus
Domestic chicken
Ggal\ATRX
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v8.0)
Drosophila melanogaster (Fruit fly) (17)
Gene Symbol
Score
Source
Compara
eggNOG
Homologene
Inparanoid
Isobase
OrthoDB
OrthoFinder
orthoMCL
Panther
RoundUp
Alignment
ADD1
3 of 10
CG4049
3 of 10
brm
1 of 10
CG7376
1 of 10
CG10445
1 of 10
Chd1
1 of 10
Chd3
1 of 10
dom
1 of 10
Etl1
1 of 10
Hel89B
1 of 10
Ino80
1 of 10
Iswi
1 of 10
kis
1 of 10
lds
1 of 10
Marcal1
1 of 10
Mi-2
1 of 10
okr
1 of 10
Human Disease Associations
FlyBase Human Disease Model Reports
    Disease Model Summary Ribbon
    Disease Ontology (DO) Annotations
    Models Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Evidence
    References
    Potential Models Based on Orthology ( 1 )
    Modifiers Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Interaction
    References
    Disease Associations of Human Orthologs (via DIOPT v8.0 and OMIM)
    Note that ortholog calls supported by only 1 or 2 algorithms (DIOPT score < 3) are not shown.
    Homo sapiens (Human)
    Gene name
    Score
    OMIM
    OMIM Phenotype
    DO term
    Complementation?
    Transgene?
    ATRX; ATRX chromatin remodeler
    10 of 15
    300032
    Functional Complementation Data
    Functional complementation data is computed by FlyBase using a combination of the orthology data obtained from DIOPT and OrthoDB and the allele-level genetic interaction data curated from the literature.
    Interactions
    Summary of Physical Interactions
    Summary of Genetic Interactions
    esyN Network Diagram
    esyN Network Key:
    Suppression
    Enhancement
    View in Interactions Browser
    Please look at the allele data for full details of the genetic interactions
    Starting gene(s)
    Interaction type
    Interacting gene(s)
    Reference
    XNP
    enhanceable
    ADD1
    (López-Falcón et al., 2014)
    XNP
    enhanceable
    jing
    (Sun et al., 2006)
    Starting gene(s)
    Interaction type
    Interacting gene(s)
    Reference
    ADD1
    enhanceable
    XNP
    (López-Falcón et al., 2014)
    BRWD3
    suppressible
    XNP
    (Chen et al., 2015)
    bw
    suppressible
    XNP
    (Schneiderman et al., 2010)
    dom
    enhanceable
    XNP
    (Ellis et al., 2015)
    Dref
    suppressible
    XNP
    (Valadez-Graham et al., 2012)
    jing
    enhanceable
    XNP
    (Sun et al., 2006)
    kay
    enhanceable
    XNP
    (Sun et al., 2006)
    lap
    enhanceable
    XNP
    (Sun et al., 2006)
    pnr
    enhanceable
    XNP
    (Valadez-Graham et al., 2012, Pena-Rangel et al., 2002)
    pnr
    suppressible
    XNP
    (Valadez-Graham et al., 2012)
    External Data
    Linkouts
    BioGRID - A database of protein and genetic interactions.
    DroID - A comprehensive database of gene and protein interactions.
    InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
    MIST (genetic) - An integrated Molecular Interaction Database
    MIST (protein-protein) - An integrated Molecular Interaction Database
    Pathways
    Signaling Pathways (FlyBase)
    Metabolic Pathways
    External Data
    Linkouts
    Genomic Location and Detailed Mapping Data
    Chromosome (arm)
    3R
    Recombination map

    3-88

    Cytogenetic map
    96E1-96E2
    Sequence location
    3R:25,477,868..25,482,834 [-]
    FlyBase Computed Cytological Location
    Cytogenetic map
    Evidence for location
    96E1-96E2
    Limits computationally determined from genome sequence between P{PZ}Aats-gln05461 and P{EP}EP3354
    Experimentally Determined Cytological Location
    Cytogenetic map
    Notes
    References
    96C-96D
    (Cardoso, 1999.12.20)
    Experimentally Determined Recombination Data
    Location

    3-88

    (FlyBase, 2016)

    3-86.3

    (Comeron et al., 2012)
    Left of (cM)
    Right of (cM)
    Notes
    Stocks and Reagents
    Stocks (15)
    Genomic Clones (20)
    cDNA Clones (107)
     

    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
    Drosophila Genomics Resource Center cDNA clones

    For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

    cDNA Clones, End Sequenced (ESTs)
    BDGP DGC clones
    Other clones
    RNAi and Array Information
    Linkouts
    DRSC - Results frm RNAi screens
    GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
    Antibody Information
    Laboratory Generated Antibodies
     

    monoclonal

    (Fromental-Ramain et al., 2017)

    polyclonal

    (Valadez-Graham et al., 2012, Emelyanov et al., 2010, Schneiderman et al., 2009, Bassett et al., 2008)
    Commercially Available Antibodies
     
    Other Information
    Relationship to Other Genes
    Source for database identify of

    Source for identity of: XNP CG4548

    (FlyBase, 1996-)
    Source for database merge of

    Source for merge of: XNP EP635

    (FlyBase, 1996-)
    Additional comments

    Source for merge of XNP EP635 was that EP635 insertion is within XNP (and in the right orientation) ( date:040519 ).

    (FlyBase, 1996-)

    Source for identity of XNP CG4548 was sequence comparison ( date:001220 ).

    (FlyBase, 1996-)
    Other Comments

    One of 42 Drosophila genes identified as being most likely to reveal molecular and cellular mechanisms of nervous system development or plasticity relevant to human Mental Retardation disorders.

    (Inlow and Restifo, 2004)
    Origin and Etymology
    Discoverer
    Etymology
    Identification
    External Crossreferences and Linkouts ( 54 )
    Sequence Crossreferences
    NCBI Gene - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.
    GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.
    GenBank Protein - A collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB.
    RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.
    UniProt/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information
    UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information
    Other crossreferences
    BDGP expression data - Patterns of gene expression in Drosophila embryogenesis
    Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones
    Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
    Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns
    Flygut - An atlas of the Drosophila adult midgut
    GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents
    iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)
    InterPro - A database of protein families, domains and functional sites
    KEGG Genes - Molecular building blocks of life in the genomic space.
    modMine - A data warehouse for the modENCODE project
    Linkouts
    BioGRID - A database of protein and genetic interactions.
    DPiM - Drosophila Protein interaction map
    DroID - A comprehensive database of gene and protein interactions.
    DRSC - Results frm RNAi screens
    FLIGHT - Cell culture data for RNAi and other high-throughput technologies
    FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array
    FlyCyc Genes - Genes from a BioCyc PGDB for Dmel
    FlyMine - An integrated database for Drosophila genomics
    Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution
    InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.
    MIST (genetic) - An integrated Molecular Interaction Database
    MIST (protein-protein) - An integrated Molecular Interaction Database
    Synonyms and Secondary IDs (14)
    Datasets (0)
    Study focus (0)
    Experimental Role
    Project
    Project Type
    Title
    References (73)