FB2019_05, released Oct 15, 2019

Gene: Dmel\jigr1

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General Information
Symbol
Dmel\jigr1
Species
D. melanogaster
Name
jing interacting gene regulatory 1
Annotation Symbol
CG17383
Feature Type
protein_coding_gene
FlyBase ID
FBgn0039350
Gene Model Status
Current
Stock Availability
20 publicly available
Gene Snapshot
jing interacting gene regulatory 1 (jigr1) encodes a nuclear protein that is differentially expressed in the embryonic central nervous system and highly expressed in neurons and glial cells in the larval nervous system. Its expression is downregulated in larval neuroblasts by the miR-92 family to maintain the neuroblast pool. [Date last reviewed: 2018-11-08]
Other Summaries
Key Links
Genomic Location
Cytogenetic map
96E6-96E6
Sequence location
3R:25,637,843..25,651,874 [+]
Recombination map
3-88
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 Group (FlyBase)
Protein Family (UniProt)
-
Protein Signatures (InterPro)
Molecular Function (GO)
[Detailed GO annotations]
Experimental Evidence
-
Predictions / Assertions
transcription regulatory region DNA binding
Summaries
Gene Group (FlyBase)
MADF-BESS DOMAIN TRANSCRIPTION REGULATORS -
The MADF-BESS domain transcription regulators include a variety of activators and corepressors and chromatin modifying proteins. BESS domains are often present in combination with MADF domains. The BESS domain mediates protein-protein interactions. (Adapted from FBrf0155780 and FBrf0224045).
Summary (Interactive Fly)
a putative DNA-binding protein containing a MADF domain - hosts in the intron and in the 3'UTR - miRNA limits expression in neuroblasts and is essential for maintenance of a neuroblast pool
Gene Model and Products
Number of Transcripts
8
Number of Unique Polypeptides
1

Please see the GBrowse view of Dmel\jigr1 or the JBrowse view of Dmel\jigr1 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
Annotated transcripts do not represent all supported alternative splices within 5' UTR.
Low-frequency RNA-Seq exon junction(s) not annotated.
Gene model reviewed during 5.47
Gene model reviewed during 6.08
Sequence Ontology: Class of Gene
nuclear_gene
protein_coding_gene
Transcript Data
Annotated Transcripts
Name
FlyBase ID
RefSeq ID
Length (nt)
Assoc. CDS (aa)
jigr1-RA
FBtr0084886
NM_170233
1836
336
jigr1-RB
FBtr0084887
NM_143152
2293
336
jigr1-RC
FBtr0084889
NM_170234
1767
336
jigr1-RD
FBtr0084888
NM_170235
1573
336
jigr1-RE
FBtr0113287
NM_001104450
1782
336
jigr1-RF
FBtr0113288
NM_001104451
1635
336
jigr1-RG
FBtr0336450
NM_001276033
1607
336
jigr1-RH
FBtr0445401
NM_001347754
3460
336
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
jigr1-PA
FBpp0084260
38.8
336
6.10
NP_733112
AAF56484
jigr1-PB
FBpp0084261
38.8
336
6.10
NP_651409
AAF56485
jigr1-PC
FBpp0084263
38.8
336
6.10
NP_733113
AAN14060
jigr1-PD
FBpp0084262
38.8
336
6.10
NP_733114
AAN14061
jigr1-PE
FBpp0112199
38.8
336
6.10
NP_001097920
ABW08760
jigr1-PF
FBpp0112200
38.8
336
6.10
NP_001097921
ABW08761
jigr1-PG
FBpp0307556
38.8
336
6.10
NP_001262962
AGB96342
jigr1-PH
FBpp0401569
38.8
336
6.10
NP_001334702
API64947
Polypeptides with Identical Sequences

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

336 aa isoforms: jigr1-PA, jigr1-PB, jigr1-PC, jigr1-PD, jigr1-PE, jigr1-PF, jigr1-PG, jigr1-PH
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
Nucleotide / Polypeptide Records
 
UniProt
Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\jigr1 using the Feature Mapper tool.

External Data
Crossreferences
Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.
Linkouts
Gene Ontology (4 terms)
Molecular Function (1 term)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
transcription regulatory region DNA binding
inferred from sequence model with InterPro:IPR006578
(Sun et al., 2006)
Biological Process (1 term)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (1 term)
CV Term
Evidence
References
regulation of gene expression
inferred from sequence model with InterPro:IPR006578
(Sun et al., 2006)
Cellular Component (2 terms)
Terms Based on Experimental Evidence (0 terms)
Terms Based on Predictions or Assertions (2 terms)
CV Term
Evidence
References
nucleus
inferred from sequence model with InterPro:IPR006578
(Sun et al., 2006)
inferred from biological aspect of ancestor with PANTHER:PTN000956409
(assigned by GO_Central )
(Gaudet et al., 2011)
transcription factor complex
inferred from biological aspect of ancestor with PANTHER:PTN000956409
(assigned by GO_Central )
(Gaudet et al., 2011)
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

Comment: maternally deposited

(Fisher et al., 2012)
embryonic stage 4 -- 6
organism | faint | 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 | faint | ubiquitous
(Fisher et al., 2012)
organism | ubiquitous
(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 | faint | ubiquitous
(Fisher et al., 2012)
organism | ubiquitous
(Fisher et al., 2012)
ventral nerve cord primordium
(Fisher et al., 2012)
embryonic stage 11 -- 12
central brain primordium
(Fisher et al., 2012)
organism | faint | ubiquitous
(Fisher et al., 2012)
ventral nerve cord primordium
(Fisher et al., 2012)
embryonic stage 13 -- 16
embryonic brain
(Fisher et al., 2012)
organism | faint | ubiquitous
(Fisher et al., 2012)
ventral nerve cord
(Fisher et al., 2012)
third instar larval stage
eye-antennal disc | restricted
(Park et al., 2007)
wing disc | restricted
(Park et al., 2007)
Additional Descriptive Data
jigr1 expression is observed in third instar larval wing and eye-antennal discs.
(Park et al., 2007)
Marker for
 
Subcellular Localization
CV Term
Polypeptide Expression
Additional Descriptive Data
Marker for
 
Subcellular Localization
CV Term
Evidence
References
Expression Deduced from Reporters
High-Throughput Expression Data
Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\jigr1 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
FlyBase Wiki
Image Based Resources
Alleles, Insertions, and Transgenic Constructs
Classical and Insertion Alleles ( 27 )
For All Classical and Insertion Alleles Show
 
Other relevant insertions
Transgenic Constructs ( 7 )
For All Alleles Carried on Transgenic Constructs Show
Transgenic constructs containing/affecting coding region of jigr1
Transgenic constructs containing regulatory region of jigr1
Deletions and Duplications ( 1 )
Partially disrupted in
Df(3R)mir-92bΔ
(Chen et al., 2012)
Phenotypes
Orthologs
Downloads
Download All DIOPT Orthologs
Download All OrthoDB Orthologs
Human Orthologs (via DIOPT v7.1)
Homo sapiens (Human) (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?
Hsap\MSANTD2
1 of 15
Yes
Yes
Model Organism Orthologs (via DIOPT v7.1)
Mus musculus (laboratory mouse) (0)
No records found.
Rattus norvegicus (Norway rat) (0)
No records found.
Xenopus tropicalis (Western clawed frog) (1)
Xtro\LOC101734176
1 of 12
Yes
Yes
Danio rerio (Zebrafish) (7)
Drer\LOC100330838
3 of 15
Yes
No
Drer\si:ch211-207i20.3
3 of 15
Yes
No
Drer\si:zfos-128g4.1
3 of 15
Yes
Yes
Drer\zgc:152938
3 of 15
Yes
No
Drer\si:ch73-59f11.3
2 of 15
No
Yes
Drer\si:dkey-66i24.7
1 of 15
No
No
Drer\si:dkey-261j15.2
1 of 15
No
Yes
Caenorhabditis elegans (Nematode, roundworm) (8)
Cele\madf-4
3 of 15
Yes
No
Cele\madf-2
2 of 15
No
Yes
Cele\madf-3
2 of 15
No
No
Cele\madf-9
2 of 15
No
No
Cele\madf-10
2 of 15
No
Yes
Cele\irld-64
1 of 15
No
Yes
Cele\madf-5
1 of 15
No
No
Cele\nspb-10
1 of 15
No
Yes
Arabidopsis thaliana (thale-cress) (10)
Atha\AT1G76880
1 of 9
Yes
No
Atha\AT2G38250
1 of 9
Yes
Yes
Atha\AT3G25990
1 of 9
Yes
Yes
Atha\AT5G01380
1 of 9
Yes
Yes
Atha\AT5G28300
1 of 9
Yes
No
Atha\AT5G47660
1 of 9
Yes
No
Atha\EDA31
1 of 9
Yes
No
Atha\GT-1
1 of 9
Yes
Yes
Atha\GT2
1 of 9
Yes
No
Atha\PTL
1 of 9
Yes
No
Saccharomyces cerevisiae (Brewer's yeast) (0)
No records found.
Schizosaccharomyces pombe (Fission yeast) (0)
No records found.
Orthologs in Drosophila Species (via OrthoDB v9.1) ( EOG09190GIO )
Organism
Common Name
Gene
AAA Syntenic Ortholog
Multiple Dmel Genes in this Orthologous Group
Drosophila melanogaster
fruit fly
Dmel\jigr1
Drosophila suzukii
Spotted wing Drosophila
Dsuz\DS10_00008316
Drosophila simulans
Dsim\GD21228
Drosophila sechellia
Dsec\GM10256
Drosophila erecta
Dere\GG11417
Drosophila yakuba
Dyak\GE23612
Drosophila ananassae
Dana\GF17699
Drosophila pseudoobscura pseudoobscura
Dpse\GA14496
Drosophila persimilis
Dper\GL21524
Drosophila willistoni
Dwil\GK12852
Drosophila virilis
Dvir\GJ10970
Drosophila mojavensis
Dmoj\GI22411
Drosophila grimshawi
Dgri\GH18984
Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG091509B7 )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Musca domestica
House fly
Mdoa\17016183
Glossina morsitans
Tsetse fly
Gmor\GMOY009028
Lucilia cuprina
Australian sheep blowfly
Lcup\FF38_04748
Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( None identified )
No non-Dipteran orthologies identified
Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X0A7S )
Organism
Common Name
Gene
Multiple Dmel Genes in this Orthologous Group
Tetranychus urticae
Two-spotted spider mite
Turt\tetur10g00110
Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( None identified )
No non-Arthropod Metazoa orthologies identified
Paralogs
Downloads
Download All DIOPT Paralogs
Paralogs (via DIOPT v7.1)
Drosophila melanogaster (Fruit fly) (29)
Gene Symbol
Score
Source
Compara
eggNOG
Homologene
Inparanoid
Isobase
OrthoDB
OrthoFinder
orthoMCL
Panther
RoundUp
Alignment
Adf1
4 of 10
CG8765
3 of 10
hng2
3 of 10
CG8119
2 of 10
CG10949
2 of 10
CG12768
2 of 10
hng1
2 of 10
hng3
2 of 10
Mes2
2 of 10
stwl
2 of 10
brwl
1 of 10
CG3919
1 of 10
CG4404
1 of 10
CG6163
1 of 10
CG6276
1 of 10
CG6683
1 of 10
CG7745
1 of 10
CG9948
1 of 10
CG11504
1 of 10
CG11723
1 of 10
CG12155
1 of 10
CG13148
1 of 10
CG13204
1 of 10
CG42526
1 of 10
CG45071
1 of 10
Coop
1 of 10
Dlip3
1 of 10
Hmr
1 of 10
meso18E
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 ( 0 )
    Human Ortholog
    Disease
    Evidence
    References
    Modifiers Based on Experimental Evidence ( 0 )
    Allele
    Disease
    Interaction
    References
    Comments on Models/Modifiers Based on Experimental Evidence ( 0 )
     
    Disease Associations of Human Orthologs (via DIOPT v7.1 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?
    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
    esyN Network Diagram
    Show neighbor-neighbor interactions:
    Select Layout:
    Legend:
    Protein
    RNA
    Selected Interactor(s)
    Interactions Browser
    View in Interactions Browser
    Please see the Physical Interaction reports below for full details
    RNA-RNA
    Physical Interaction
    Assay
    References
    jigr1 - mir-92a
    immunohistochemistry, western blot, luminiscence technology, necessary binding region, quantitative reverse transcription pcr
    (Yuva-Aydemir et al., 2015)
    jigr1 - mir-92b
    western blot, luminiscence technology, quantitative reverse transcription pcr, immunohistochemistry
    (Yuva-Aydemir et al., 2015)
    protein-protein
    Physical Interaction
    Assay
    References
    jigr1
    two hybrid
    (Park et al., 2007)
    jigr1 - CG14074
    two hybrid
    (Hu et al., 2017.6.13)
    jigr1 - Cenp-C
    anti tag coimmunoprecipitation, peptide massfingerprinting
    (Lipinszki et al., 2015)
    jigr1 - Chro
    anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based
    (Rhee et al., 2014)
    jigr1 - Map60
    anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based
    (Rhee et al., 2014)
    jigr1 - Rcd-1r
    two hybrid
    (Hu et al., 2017.6.13)
    jigr1 - RpL22
    anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based
    (Rhee et al., 2014)
    jigr1 - Vta1
    two hybrid
    (Hu et al., 2017.6.13)
    jigr1 - drongo
    anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based
    (Rhee et al., 2014)
    jigr1 - lwr
    two hybrid
    (Hu et al., 2017.6.13)
    jigr1 - mei-217
    two hybrid
    (Hu et al., 2017.6.13)
    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
    Starting gene(s)
    Interaction type
    Interacting gene(s)
    Reference
    dom
    enhanceable
    jigr1
    (Ellis et al., 2015)
    Imp
    enhanceable
    jigr1
    (Geng and MacDonald, 2007)
    kay
    enhanceable
    jigr1
    (Sun et al., 2006)
    lap
    enhanceable
    jigr1
    (Sun et al., 2006)
    N
    enhanceable
    jigr1
    (Park et al., 2007)
    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 (protein-protein) - An integrated Molecular Interaction Database
    Pathways
    Gene Group - Pathway Membership (FlyBase)
    External Data
    Linkouts
    Genomic Location and Detailed Mapping Data
    Chromosome (arm)
    3R
    Recombination map
    3-88
    Cytogenetic map
    96E6-96E6
    Sequence location
    3R:25,637,843..25,651,874 [+]
    FlyBase Computed Cytological Location
    Cytogenetic map
    Evidence for location
    96E6-96E6
    Limits computationally determined from genome sequence between P{EP}EP3354 and P{PZ}l(3)rQ197rQ197
    Experimentally Determined Cytological Location
    Cytogenetic map
    Notes
    References
    Experimentally Determined Recombination Data
    Location
    3-88
    (FlyBase, 2016)
    3-86.6
    (Comeron et al., 2012)
    Left of (cM)
    Right of (cM)
    Notes
    Stocks and Reagents
    Stocks (20)
    Genomic Clones (23)
    cDNA Clones (194)
     

    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 sequences
    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
     
    Commercially Available Antibodies
     
    Other Information
    Relationship to Other Genes
    Source for database identify of
    Source for database merge of
    Additional comments
    Other Comments
    Origin and Etymology
    Discoverer
    Etymology
    The gene is named 'son of Notch' (son) based on evidence that it functions downstream of Notch in dorsal-ventral boundary formation in the developing wing.
    (Park et al., 2007)
    Identification
    External Crossreferences and Linkouts ( 77 )
    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/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
    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 (protein-protein) - An integrated Molecular Interaction Database
    Synonyms and Secondary IDs (8)
    Datasets (0)
    Study focus (0)
    Experimental Role
    Project
    Project Type
    Title
    References (54)