FlyBase Gene Report: Dmel\GNBP-like3

General Information

Symbol

Dmel\GNBP-like3

Species

D. melanogaster

Name

GNBP-like 3

Annotation Symbol

CG13422

Feature Type

protein_coding_gene

FlyBase ID

FBgn0034511

Gene Model Status

Current

Stock Availability

4 publicly available

Gene Summary

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Interactive Fly

Also Known As

GNBP-like

Key Links

Genomic Location

Cytogenetic map

57A4-57A4

Sequence location

2R:20,526,311..20,526,825 [+]

Recombination map

2-91

RefSeq locus

NT_033778 REGION:20526311..20526825

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse GBrowse

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Other Genome Views

The following external sites may use different assemblies or annotations than FlyBase.

Function

GO Summary Ribbons

Gene Ontology (GO) Annotations (5 terms)

Molecular Function (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

enables carbohydrate binding

inferred from sequence or structural similarity with FLYBASE:GNBP3; FB:FBgn0040321

(FlyBase Curators, 2008-)

Biological Process (3 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

involved_in defense response to other organism

inferred from mutant phenotype

(Arefin et al., 2014)

involved_in response to fungus

inferred from high throughput expression pattern

(Levy et al., 2004)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

involved_in detection of biotic stimulus

inferred from sequence or structural similarity with FLYBASE:GNBP3; FB:FBgn0040321

(FlyBase Curators, 2008-)

Cellular Component (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

located_in cell surface

inferred from sequence or structural similarity with FLYBASE:GNBP3; FB:FBgn0040321

(FlyBase Curators, 2008-)

Gene Group (FlyBase)

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\GNBP-like3 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

Structure New Section

Protein 3D structure (Predicted by AlphaFold) (AlphaFold entry A1ZBU5)

If you don't see the viewer to the right, refresh your browser.

Model Confidence:

Very high (pLDDT > 90)
Confident (90 > pLDDT > 70)
Low (70 > pLDDT > 50)
Very low (pLDDT < 50)

AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Some regions with low pLDDT may be unstructured in isolation.

Comments on Gene Model

Gene model reviewed during 5.51

Gene model reviewed during 5.56

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

GNBP-like3-RA

FBtr0086214

NM_137639

515

152

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

GNBP-like3-PA

FBpp0085532

17.1

152

7.85

NP_611483

AAF57465

Polypeptides with Identical Sequences

There is only one protein coding transcript and one polypeptide associated with this gene

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

A1ZBU5

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\GNBP-like3 using the Feature Mapper tool.

External Data

Crossreferences

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

GNBP-like3_1

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

Additional Descriptive Data

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\GNBP-like3 in GBrowse 2

RNA-Seq by Region - Search RNA-Seq expression levels by exon or genomic region

View exonic expression by developmental stage for Dmel\GNBP-like3

View exonic expression by tissue for Dmel\GNBP-like3

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

DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species

37313/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0034511

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0034511

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0034511

Flygut - An atlas of the Drosophila adult midgut

FBgn0034511

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 3 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 5 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of GNBP-like3

Transgenic constructs containing regulatory region of GNBP-like3

Aberrations (Deficiencies and Duplications) ( 1 )

Inferred from experimentation ( 1 )

Gene disrupted in

Df(2R)Exel7163

(Ryder, 2004.4.26)

Inferred from location ( 0 )

Alleles Representing Disease-Implicated Variants

Phenotypes

For more details about a specific phenotype click on the relevant allele symbol.

Lethality

Allele

viable, with Dcr-2^UAS.cDa, Scer\GAL4^elav.PLu

GNBP-like3^GD503

viable, with Scer\GAL4^Mef2.PR

GNBP-like3^GD503

viable, with Scer\GAL4^pnr-MD237

GNBP-like3^GD503

Other Phenotypes

Allele

abnormal immune response, with Scer\GAL4^ppl.PP

short lived | conditional, with Scer\GAL4^ppl.PP

Phenotype manifest in

Allele

Orthologs

Downloads

Download All DIOPT Orthologs

Human Orthologs (via DIOPT v8.0)

Homo sapiens (Human) (0)

No records found.

Model Organism Orthologs (via DIOPT v8.0)

Mus musculus (laboratory mouse) (0)

No records found.

Rattus norvegicus (Norway rat) (0)

No records found.

Xenopus tropicalis (Western clawed frog) (0)

No records found.

Danio rerio (Zebrafish) (0)

No records found.

Caenorhabditis elegans (Nematode, roundworm) (2)

Cele\C08F1.12

1 of 15

Yes

Cele\C40A11.8

1 of 15

Yes

Arabidopsis thaliana (thale-cress) (29)

Atha\EXGT-A3

1 of 9

Yes

Atha\TCH4

1 of 9

Yes

Atha\XTH1

1 of 9

Yes

Atha\XTH2

1 of 9

Yes

Atha\XTH3

1 of 9

Yes

Atha\XTH4

1 of 9

Yes

Atha\XTH5

1 of 9

Yes

Atha\XTH6

1 of 9

Yes

Atha\XTH7

1 of 9

Yes

Atha\XTH8

1 of 9

Yes

Atha\XTH9

1 of 9

Yes

Atha\XTH10

1 of 9

Yes

Atha\XTH12

1 of 9

Yes

Atha\XTH13

1 of 9

Yes

Atha\XTH14

1 of 9

Yes

Atha\XTH15

1 of 9

Yes

Atha\XTH16

1 of 9

Yes

Atha\XTH18

1 of 9

Yes

Atha\XTH19

1 of 9

Yes

Atha\XTH21

1 of 9

Yes

Atha\XTH24

1 of 9

Yes

Atha\XTH25

1 of 9

Yes

Atha\XTH26

1 of 9

Yes

Atha\XTH28

1 of 9

Yes

Atha\XTH29

1 of 9

Yes

Atha\XTH31

1 of 9

Yes

Atha\XTH32

1 of 9

Yes

Atha\XTH33

1 of 9

Yes

Atha\XTR6

1 of 9

Yes

Saccharomyces cerevisiae (Brewer's yeast) (5)

Scer\CRR1

2 of 15

Yes

Scer\UTR2

2 of 15

Yes

Scer\CRH1

1 of 15

Yes

Scer\KRE6

1 of 15

Yes

Scer\SKN1

1 of 15

Yes

Schizosaccharomyces pombe (Fission yeast) (0)

No records found.

Other Organism Orthologs (via OrthoDB)

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v8.0)

Drosophila melanogaster (Fruit fly) (6)

Gene Symbol

Score

Source

Alignment

3 of 10

3 of 10

3 of 10

2 of 10

2 of 10

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

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?

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

Interactions Browser

Summary of Genetic Interactions

esyN Network Diagram

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

External Data

Linkouts

DroID - A comprehensive database of gene and protein interactions.

FBgn0034511

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

External Data

Linkouts

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

2-91

Cytogenetic map

57A4-57A4

Sequence location

2R:20,526,311..20,526,825 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

57A4-57A4

Limits computationally determined from genome sequence between P{EP}l(2)05510^EP2587&P{lacW}rig^k07917 and P{lacW}l(2)k02206^k02206

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

2-91

(FlyBase, 2016)

2-97.4

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (4)

Aberrations including deletions of this gene Aberrations including duplications of this gene

Bloomington

80026

y¹ sc^* v¹ sev²¹; P{TOE.GS02969}attP40

60114

y¹ sc^* v¹ sev²¹; P{TRiP.HMC05108}attP40

VDRC

v107358

P{KK106085}VIE-260B

v7545

w¹¹¹⁸; P{GD503}v7545

Genomic Clones (18)

Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete

cDNA Clones (2)

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

GM24483

Other clones

MIP32353

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.

FBgn0034511

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0034511

GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents

37313

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Other Information

Relationship to Other Genes

Source for database identify of

Source for identity of: GNBP-like3 CG13422

(Arefin et al., 2014)

Source for database merge of

Additional comments

FlyBase curator comment: Correspondence with author Quintin confirmed that 'GNBPlike 3' = 'CG13422'.

(Quintin et al., 2007)

Other Comments

Identified as a gene with significant level of mRNA cycling as assessed by expression analysis using high density oligonucleotide arrays with probe generated from adult heads harvested over six time points over the course of a day. Shows alteration in expression in a Clk mutant background.

(McDonald and Rosbash, 2001)

Identified with: GM24483 (BDGP-DGC) <up>FlyBase curator comment: EST subsequently found to be chimeric</up>.

(BDGP Project Members, 2000-)

Origin and Etymology

Discoverer

Etymology

Identification

External Crossreferences and Linkouts ( 26 )

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.

37313

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.

AAF57465

RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.

UniProt/GCRP - The gene-centric reference proteome (GCRP) provides a 1:1 mapping between genes and UniProt accessions in which a single 'canonical' isoform represents the product(s) of each protein-coding gene.

A1ZBU5

UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information

A1ZBU5

Other crossreferences

AlphaFold DB - AlphaFold provides open access to protein structure predictions for the human proteome and other key proteins of interest, to accelerate scientific research.

A1ZBU5

Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones

FBgn0034511

DRscDB - A single-cell RNA-seq resource for data mining and data comparison across species

37313/tissue=All

EMBL-EBI Single Cell Expression Atlas - Single cell expression across species

FBgn0034511

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

GNBP-like3_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0034511

FlyAtlas2 - A Drosophila melanogaster expression atlas with RNA-Seq, miRNA-Seq and sex-specific data

FBgn0034511

Flygut - An atlas of the Drosophila adult midgut

FBgn0034511

GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents

37313

InterPro - A database of protein families, domains and functional sites

KEGG Genes - Molecular building blocks of life in the genomic space.

Dmel_CG13422

MARRVEL_MODEL - MARRVEL (model organism gene)

37313

modMine - A data warehouse for the modENCODE project

FBgn0034511

Linkouts

DroID - A comprehensive database of gene and protein interactions.

FBgn0034511

DRSC - Results frm RNAi screens

FBgn0034511

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0034511

FlyMine - An integrated database for Drosophila genomics

FBgn0034511

Synonyms and Secondary IDs (6)

Reported As

Symbol Synonym

GNBP-like

(De Gregorio et al., 2002, De Gregorio et al., 2001)

GNBP-like 3

(Eleftherianos and Heryanto, 2021)

GNBP-like3

(Ahmed-Braimah et al., 2021, Guzman et al., 2021, Wang et al., 2021, Zarubin et al., 2021, Dziedziech et al., 2020, Barajas-Azpeleta et al., 2018, Duneau et al., 2017, Transgenic RNAi Project members, 2017-)

GNBPlike 3

(Quintin et al., 2007)

Name Synonyms

GNBP-like

(Arefin et al., 2014, Petersen et al., 2012)

GNBP-like 3

(Arefin et al., 2014)

Gram-negative binding protein-like protein

(Arefin et al., 2014)

Secondary FlyBase IDs

Datasets (2)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (2)

Result

Result Type

Title

scRNAseq_2020_Cho_NI72LG_seq_clustering

cell clustering analysis

Clustering analysis of lymph gland cells from non-infested larvae at 72 h after egg-laying

scRNAseq_2020_Cho_NI120HL_seq_clustering

cell clustering analysis

Clustering analysis of circulating hemocytes from non-infested larvae at 120 h after egg-laying

References (54)

The following external sites may use different assemblies or annotations than FlyBase.

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