FlyBase Gene Report: Dmel\α4GT2

General Information

Symbol

Dmel\α4GT2

Species

D. melanogaster

Name

α1,4-galactosyltransferase 2

Annotation Symbol

CG5878

Feature Type

protein_coding_gene

FlyBase ID

FBgn0039378

Gene Model Status

Current

Stock Availability

3 publicly available

Gene Summary

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Gene Group
Interactive Fly

Key Links

Genomic Location

Cytogenetic map

96F3-96F3

Sequence location

3R:25,832,230..25,842,878 [+]

Recombination map

3-89

RefSeq locus

NT_033777 REGION:25832230..25842878

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse

Other Genome Views

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

Function

Gene Ontology (GO) Annotations (3 terms)

Molecular Function (1 term)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

enables alpha-1,4-N-acetylgalactosaminyltransferase activity

inferred from direct assay

(Chen et al., 2007)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

enables alpha-1,4-N-acetylgalactosaminyltransferase activity

inferred from biological aspect of ancestor with PANTHER:PTN000247986

(GO Reference Genome Project, 2011-)

Biological Process (1 term)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

involved_in glycosphingolipid biosynthetic process

inferred from direct assay

(Chen et al., 2007)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

involved_in glycosphingolipid biosynthetic process

inferred from biological aspect of ancestor with PANTHER:PTN004333570

(GO Reference Genome Project, 2011-)

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 membrane

inferred from sequence or structural similarity with HGNC:18149

(Gene Ontology Curators, 2002-)

Gene Group (FlyBase)

ALPHA-1,4-N-ACETYLGALACTOSAMINYLTRANSFERASES

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Group (FlyBase)

ALPHA-1,4-N-ACETYLGALACTOSAMINYLTRANSFERASES -: Alpha 1,4-N-acetylgalactosaminyltransferases catalyze the addition of N-acetyl-α-D-galactosamine residue from the donor substrate, UDP-N-acetyl-α-D-galactosamine to acceptor glycolipids in an α-1,4 linkage. (Adapted from FBrf0179897).

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\α4GT2 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

Protein 3D structure (Predicted by AlphaFold) (AlphaFold entry Q9VBL5)

If you don't see a structure in the viewer, 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.

Experimentally Determined Structures

Crossreferences

Comments on Gene Model

Gene model reviewed during 5.49

Mutation in sequenced strain: insertion of transposon; see allele report alpha4GT2[1]. .

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)

α4GT2-RB

FBtr0300129

NM_143177

1520

395

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

UniProt

RefSeq ID

GenBank

α4GT2-PB

FBpp0289406

44.3

395

10.84

Q9VBL5

NP_651434

AAF56516

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

Q9VBL5

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\α4GT2 using the Feature Mapper tool.

External Data

Crossreferences

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

alpha4GT2_1

Linkouts

Expression Data

Testis-specificity index

The testis specificity index was calculated from modENCODE tissue expression data by Vedelek et al., 2018 to indicate the degree of testis enrichment compared to other tissues. Scores range from -2.52 (underrepresented) to 5.2 (very high testis bias).

0.00

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

JBrowse - Visual display of RNA-Seq signals

View Dmel\α4GT2 in JBrowse

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

View exonic expression by developmental stage for Dmel\α4GT2

View exonic expression by tissue for Dmel\α4GT2

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

43124/tissue=All

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

FBgn0039378

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0039378

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

FBgn0039378

Flygut - An atlas of the Drosophila adult midgut

FBgn0039378

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 2 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 4 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of α4GT2

Transgenic constructs containing regulatory region of α4GT2

Aberrations (Deficiencies and Duplications) ( 0 )

Inferred from experimentation ( 0 )

Inferred from location ( 0 )

Variants

Variant Molecular Consequences

Alleles Representing Disease-Implicated Variants

Phenotypes

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

Phenotype manifest in

Allele

Orthologs

Downloads

Download All DIOPT Orthologs

Human Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Homo sapiens (Human) (2)

Hsap\A4GALT

14 of 14

Yes

Hsap\A4GNT

13 of 14

Yes

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (2)

Rnor\A4galt

14 of 14

Yes

Rnor\A4gnt

11 of 14

Yes

Mus musculus (laboratory mouse) (2)

Mmus\A4galt

14 of 14

Yes

Mmus\A4gnt

12 of 14

Yes

Xenopus tropicalis (Western clawed frog) (25)

Xtro\LOC100490508

10 of 13

Yes

Xtro\LOC100493232

10 of 13

Yes

Xtro\LOC100497034

10 of 13

Yes

Xtro\LOC100497191

10 of 13

Yes

Xtro\LOC101733668

10 of 13

Yes

Xtro\LOC100490678

9 of 13

Yes

Xtro\LOC100495967

9 of 13

Yes

Xtro\XB991164

9 of 13

Yes

Xtro\ndufaf2

8 of 13

Yes

Xtro\a4gnt

7 of 13

Yes

Xtro\LOC100492379

6 of 13

Yes

Xtro\LOC100493218

6 of 13

Yes

Xtro\LOC100493555

6 of 13

Yes

Xtro\LOC100494225

6 of 13

Yes

Xtro\LOC101733382

6 of 13

Yes

Xtro\LOC100497665

3 of 13

Yes

Xtro\a4galt

2 of 13

Yes

2 of 13

2 of 13

1 of 13

1 of 13

1 of 13

Yes

Xtro\LOC100493872

1 of 13

Yes

Xtro\LOC100494545

1 of 13

Yes

Xtro\LOC101733902

1 of 13

Yes

Danio rerio (Zebrafish) (0)

Caenorhabditis elegans (Nematode, roundworm) (1)

Cele\C01G5.7

1 of 14

Yes

Anopheles gambiae (African malaria mosquito) (4)

Agam\AgaP_AGAP008258

10 of 12

Yes

Agam\AgaP_AGAP008259

10 of 12

Yes

Agam\AgaP_AGAP008260

10 of 12

Yes

Agam\AgaP_AGAP008261

7 of 12

Yes

Arabidopsis thaliana (thale-cress) (6)

Atha\AT1G61050

10 of 13

Yes

Atha\AT2G38150

10 of 13

Yes

Atha\AT2G38152

10 of 13

Yes

Atha\AT3G09020

10 of 13

Yes

Atha\AT5G01250

10 of 13

Yes

Atha\AT4G19900

5 of 13

Yes

Saccharomyces cerevisiae (Brewer's yeast) (1)

Scer\CSH1

1 of 13

Yes

Schizosaccharomyces pombe (Fission yeast) (0)

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:α4GT2. Refer to their site for version information.

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v9.1)

Gene Symbol

Score

Source

Alignment

Drosophila melanogaster (Fruit fly) (1)

α4GT1

12 of 13

Human Disease Associations

FlyBase Human Disease Model Reports

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 v9.1 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?

A4GALT; alpha 1,4-galactosyltransferase (P1PK blood group)

14 of 14

607922

BLOOD GROUP, P1PK SYSTEM

A4GNT; alpha-1,4-N-acetylglucosaminyltransferase

13 of 14

616709

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

Show/hide secondary interactors
(data from AllianceMine provided by esyN)

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

mib1

suppressible

α4GT2

(Hamel et al., 2010)

External Data

Linkouts

DroID - A comprehensive database of gene and protein interactions.

FBgn0039378

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

KEGG Metabolic Pathways - A collection of manually drawn metabolic pathway maps representing knowledge of molecular interaction, reaction and relation networks.

External Data

Linkouts

KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

O-linked glycosylation of mucins

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-89

Cytogenetic map

96F3-96F3

Sequence location

3R:25,832,230..25,842,878 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

96F3-96F3

Limits computationally determined from genome sequence between P{PZ}l(3)rQ197^rQ197 and P{lacW}scrib^j7B3

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

3-89

(FlyBase, 2016)

3-86.9

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (3)

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

Bloomington

59590

y¹ w^*; Mi{MIC}α4GT2^MI15015

NIG-Fly

HMJ23330

y¹ v¹; P{TRiP.HMJ23330}attP40/CyO

VDRC

v330688

P{VSH330688}attP40

Genomic Clones (16)

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

cDNA Clones (231)

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 JBrowse 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.

FBgn0039378

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0039378

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

Relationship to Other Genes

Source for database merge of

Additional comments

Nomenclature History

Source for database identify of

Source for identity of: α4GT2 CG5878

(Mucha et al., 2004)

Nomenclature comments

Etymology

Synonyms and Secondary IDs (4)

Reported As

Symbol Synonym

CG5878

(National Institute of Genetics Fly Stocks, 2023-, Meadows, 2018.10.31, Yamamoto-Hino et al., 2015, Chen et al., 2012, Zhang et al., 2010, Chen et al., 2007, Mucha et al., 2004)

alpha4GT2

(Japanese National Institute of Genetics, 2012.5.21)

α4GT2

(Yamamoto-Hino et al., 2015, Kraut, 2011, Schrider et al., 2011, Hamel et al., 2010)

Name Synonyms

α1,4-galactosyltransferase 2

α4GT2

Secondary FlyBase IDs

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 33 )

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.

43124

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/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.

Q9VBL5

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

Q9VBL5

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.

Q9VBL5

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

43124/tissue=All

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

FBgn0039378

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

FBgn0039378

FlyMine - An integrated database for Drosophila genomics

FBgn0039378

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

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

dme:Dmel_CG5878

MARRVEL_MODEL - MARRVEL (model organism gene)

43124

Linkouts

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

FBgn0039378

DroID - A comprehensive database of gene and protein interactions.

FBgn0039378

DRSC - Results frm RNAi screens

FBgn0039378

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

alpha4GT2_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0039378

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0039378

Flygut - An atlas of the Drosophila adult midgut

FBgn0039378

iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)

TC034831

KEGG Metabolic Pathways - A collection of manually drawn metabolic pathway maps representing knowledge of molecular interaction, reaction and relation networks.

KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

O-linked glycosylation of mucins

References (26)

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

0.00

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