FlyBase Gene Report: Dmel\Set1

General Information

Symbol

Dmel\Set1

Species

D. melanogaster

Name

SET domain containing 1

Annotation Symbol

CG40351

Feature Type

protein_coding_gene

FlyBase ID

FBgn0040022

Gene Model Status

Current

Stock Availability

11 publicly available

Enzyme Name (EC)

[histone H3]-lysine(4) N-trimethyltransferase (2.1.1.354)

Gene Summary

SET domain containing 1 (Set1) encodes an enzyme that methylates histone H3 on lysine 4 at promoter-proximal regions of most RNA Polymerase II transcribed genes. It is the catalytic subunit of the COMPASS complex. [Date last reviewed: 2019-03-14] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Gene Group
UniProtKB
Interactive Fly

Also Known As

dSet1

Key Links

Genomic Location

Cytogenetic map

80F9-80F9

Sequence location

3L:25,107,594..25,115,180 [+]

Recombination map

3-47

RefSeq locus

NT_037436 REGION:25107594..25115180

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse

Other Genome Views

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

NCBI

UCSC

Ensembl

Function

Gene Ontology (GO) Annotations (7 terms)

Molecular Function (4 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

enables histone H3K4 methyltransferase activity

inferred from mutant phenotype

(Hallson et al., 2012)

enables histone H3K4 trimethyltransferase activity

inferred from direct assay

(Ardehali et al., 2011)

Terms Based on Predictions or Assertions (3 terms)

CV Term

Evidence

References

enables histone H3K4 methyltransferase activity

inferred from electronic annotation with InterPro:IPR037841, InterPro:IPR044570

(InterPro Project Members, 2004-)

inferred from biological aspect of ancestor with PANTHER:PTN002505229

(GO Reference Genome Project, 2011-)

enables nucleic acid binding

inferred from electronic annotation with InterPro:IPR035979

(InterPro Project Members, 2004-)

enables RNA binding

inferred from electronic annotation with InterPro:IPR000504

(InterPro Project Members, 2004-)

inferred from sequence or structural similarity with UniProtKB:P38827

(Gene Ontology Curators, 2002-)

Biological Process (0 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Cellular Component (3 terms)

Terms Based on Experimental Evidence (3 terms)

CV Term

Evidence

References

located_in euchromatin

inferred from direct assay

(Mohan et al., 2011)

located_in polytene chromosome

inferred from direct assay

(Mohan et al., 2011)

part_of Set1C/COMPASS complex

inferred from direct assay

(Hallson et al., 2012, Ardehali et al., 2011, Mohan et al., 2011)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

part_of Set1C/COMPASS complex

inferred from biological aspect of ancestor with PANTHER:PTN002505229

(GO Reference Genome Project, 2011-)

inferred from electronic annotation with InterPro:IPR037841

(InterPro Project Members, 2004-)

Gene Group (FlyBase)

SET DOMAIN LYSINE METHYLTRANSFERASES

COMPASS COMPLEX

Protein Family (UniProt)

Belongs to the class V-like SAM-binding methyltransferase superfamily. (Q5LJZ2)

Protein Signatures (InterPro)

Catalytic Activity (EC/Rhea)

histone H3K4 trimethyltransferase activity

L-lysyl(4)-[histone H3] + 3 S-adenosyl-L-methionine = N(6),N(6),N(6)- trimethyl-L-lysyl(4)-[histone H3] + 3 S-adenosyl-L-homocysteine + 3 H(+) (2.1.1.354)

RHEA 60260:

Summaries

Gene Snapshot

Gene Group (FlyBase)

SET DOMAIN LYSINE METHYLTRANSFERASES -: SET domain lysine methyltransferases (KMTs) catalyze the addition of methyl groups to lysine residues. SET domain KMTs possess a domain that was original characterized in the D.mel KMTs Su(var)3-9, E(z) and trx. (Adapted from FBrf0216343).
COMPASS COMPLEX -: COMPASS is a histone H3K4 methyltransferase complex thought to be responsible for the bulk of the histone H3K4 di- and trimethylation in Drosophila. (Adapted from FBrf0216343).

Protein Function (UniProtKB)

Catalytic component of the COMPASS (Set1C) complex that specifically mono-, di- and trimethylates histone H3 to form H3K4me1/2/3 (PubMed:21694722, PubMed:21875999, PubMed:22048023). Binds RNAs which might negatively affect its histone methyltransferase activity (By similarity). COMPASS recognizes ubiquitinated H2B on one face of the nucleosome which stimulates the methylation of H3 on the opposing face (By similarity). Set1-dependent trimethylation regulates chromatin changes at active promoters that ensure optimal RNA polymerase II release into productive elongation, thereby contributing to optimal transcription (PubMed:21694722).

(UniProt, Q5LJZ2)

Summary (Interactive Fly)

Histone-3 K4 methyltransferase - responsible for the generation of a chromatin structure at active promoters that ensures optimal Pol II release into productive elongation

Interactive Fly

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Set1 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 Q5LJZ2)

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 5.46

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Set1-RA

FBtr0113869

NM_001015221

5303

1641

Set1-RB

FBtr0113871

NM_001015222

5486

1641

Set1-RC

FBtr0113870

NM_001110936

5495

1641

Set1-RD

FBtr0302243

NM_001170375

5311

1641

Set1-RE

FBtr0302244

NM_001170376

5326

1641

Set1-RF

FBtr0302245

NM_001170377

5290

1641

Set1-RG

FBtr0302246

NM_001170378

5279

1641

Set1-RH

FBtr0302247

NM_001170379

5276

1641

Set1-RI

FBtr0302248

NM_001170380

5317

1641

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

Set1-PA

FBpp0112592

188.4

1641

8.21

FBpp0112594

188.4

1641

8.21

FBpp0112593

188.4

1641

8.21

FBpp0291452

188.4

1641

8.21

FBpp0291453

188.4

1641

8.21

FBpp0291454

188.4

1641

8.21

FBpp0291455

188.4

1641

8.21

FBpp0291456

188.4

1641

8.21

FBpp0291457

188.4

1641

8.21

Q5LJZ2

NP_001163851

EFA98699

Polypeptides with Identical Sequences

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

1641 aa isoforms: Set1-PA, Set1-PB, Set1-PC, Set1-PD, Set1-PE, Set1-PF, Set1-PG, Set1-PH, Set1-PI

Additional Polypeptide Data and Comments

Reported size (kDa)

Comments

External Data

Subunit Structure (UniProtKB)

Component of the Set1C/COMPASS complex, composed at least of the catalytic subunit Set1, wds/WDR5, Wdr82, Rbbp5, ash2, Cfp1/CXXC1, hcf and Dpy-30L1 (PubMed:21694722, PubMed:21875999, PubMed:22048023).

(UniProt, Q5LJZ2)

Crossreferences

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

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

Q5LJZ2

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Set1 using the Feature Mapper tool.

External Data

Crossreferences

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).

-1.58

Transcript Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

mass spectroscopy

Stage

Tissue/Position (including subcellular localization)

Reference

day 5 of adulthood | male -- day 7 of adulthood | male

spermatozoon

(Wasbrough et al., 2010)

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

located_in euchromatin

inferred from direct assay

(Mohan et al., 2011)

located_in polytene chromosome

inferred from direct assay

(Mohan et al., 2011)

part_of Set1C/COMPASS complex

inferred from direct assay

(Hallson et al., 2012, Ardehali et al., 2011, Mohan et al., 2011)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\Set1 in JBrowse

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

View exonic expression by developmental stage for Dmel\Set1

View exonic expression by tissue for Dmel\Set1

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

3354971/tissue=All

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

FBgn0040022

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0040022

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

FBgn0040022

Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns

CG17395

Flygut - An atlas of the Drosophila adult midgut

FBgn0040022

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 6 )

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 Set1

Transgenic constructs containing regulatory region of Set1

Aberrations (Deficiencies and Duplications) ( 18 )

Inferred from experimentation ( 18 )

Gene not disrupted in

Df(3L)1-166

(Syrzycka et al., 2019)

Df(3L)2A-54

(Syrzycka et al., 2019)

Df(3L)10A-301

(Syrzycka et al., 2019)

Inferred from location ( 15 )

Variants

Variant Molecular Consequences

Alleles Representing Disease-Implicated Variants

Phenotypes

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

Lethality

Allele

lethal

lethal, with Scer\GAL4^Tub.PU

lethal (with Df(3L)6B-29+Df(3R)6B-29)

lethal (with Df(3L)FX53)

lethal - all die before end of pupal stage, with Scer\GAL4^Tub.PU

viable, with Scer\GAL4^Mef2.PR

viable, with Scer\GAL4^pnr-MD237

viable, with Scer\GAL4^tin.CΔ4

Set1^GD12893

viable (with Df(3L)Δ1AK)

viable (with Df(3R)XM3)

Other Phenotypes

Allele

abnormal cell cycle | oogenesis, with Scer\GAL4^nanos.PG

Set1^HMS02179

abnormal cell number | embryonic stage

abnormal cell number | spermatogenesis, with Scer\GAL4^{VP16.nanos.UTR}

Set1^HMS00581

abnormal stress response | oogenesis, with Scer\GAL4^nanos.PG

Set1^HMS02179

decreased cell number | spermatogenesis, with Scer\GAL4^nanos.PI, Scer\GAL80^bam.PM

Set1^HMS00581

decreased efficacy of long-term memory | adult stage, with Scer\GAL4^GMR14H06

decreased efficacy of short-term memory | adult stage, with Scer\GAL4^GMR14H06

increased cell number | spermatogenesis, with Scer\GAL4^NP1624

Set1^HMS00581

increased cell number | spermatogenesis, with Scer\GAL4^VP16.bam

Set1^HMS00581

increased size | spermatogenesis, with Scer\GAL4^{VP16.nanos.UTR}

Set1^HMS00581

some die during pupal stage, with Scer\GAL4^Tub.PU

visible, with Scer\GAL4^pnr-MD237

Set1^GD4398

visible | adult stage, with Scer\GAL4^en.PU

Set1^GD12893

visible | adult stage, with Scer\GAL4^nub.PK

Set1^GD12893

Phenotype manifest in

Allele

cyst cell of testis, with Scer\GAL4^{VP16.nanos.UTR}

Set1^HMS00581

cyst cell of testis | increased number, with Scer\GAL4^NP1624

Set1^HMS00581

cyst cell of testis | increased number, with Scer\GAL4^VP16.bam

Set1^HMS00581

female germline stem cell, with Scer\GAL4^nanos.PG

Set1^HMS02179

germinal proliferation center hub, with Scer\GAL4^{VP16.nanos.UTR}

Set1^HMS00581

larval cardial cell | embryonic stage

male germline stem cell, with Scer\GAL4^{VP16.nanos.UTR}

Set1^HMS00581

male germline stem cell | decreased number, with Scer\GAL4^nanos.PI, Scer\GAL80^bam.PM

Set1^HMS00581

male germline stem cell | increased number, with Scer\GAL4^NP1624

Set1^HMS00581

posterior crossvein, with Scer\GAL4^en.PU

Set1^GD12893

posterior crossvein, with Scer\GAL4^nub.PK

Set1^GD12893

trichogen cell, with Scer\GAL4^pnr-MD237

Set1^GD4398

wing, with Scer\GAL4^en.PU

Set1^GD12893

wing, with Scer\GAL4^nub.PK

Set1^GD12893

wing vein, with Scer\GAL4^nub.PK

Set1^GD12893

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) (24)

Hsap\SETD1A

9 of 14

Yes

Hsap\SETD1B

8 of 14

Yes

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (16)

Rnor\Setd1a

8 of 14

Yes

Rnor\Setd1b

8 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Mus musculus (laboratory mouse) (15)

Mmus\Setd1a

8 of 14

Yes

Mmus\Setd1b

8 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Xenopus tropicalis (Western clawed frog) (18)

Xtro\setd1b

8 of 13

Yes

Xtro\setd1a

6 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Danio rerio (Zebrafish) (15)

Drer\setd1a

10 of 14

Yes

Drer\setd1ba

7 of 14

Yes

Drer\setd1bb

4 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Caenorhabditis elegans (Nematode, roundworm) (17)

Cele\set-2

10 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Anopheles gambiae (African malaria mosquito) (15)

Agam\AgaP_AGAP002246

11 of 12

Yes

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

Arabidopsis thaliana (thale-cress) (32)

Atha\SDG25

7 of 13

Yes

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Atha\AT2G40650

1 of 13

Atha\AT3G61723

1 of 13

Yes

Atha\AT3G62500

1 of 13

Yes

Atha\AT5G17440

1 of 13

Atha\AT5G28340

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Saccharomyces cerevisiae (Brewer's yeast) (3)

Scer\SET1

10 of 13

Yes

Scer\LUC7

1 of 13

Scer\SET2

1 of 13

Schizosaccharomyces pombe (Fission yeast) (4)

Spom\set1

9 of 12

Yes

Spom\prp38

1 of 12

Spom\set2

1 of 12

Spom\usp106

1 of 12

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:Set1. 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) (15)

ash1

2 of 13

CG4565

2 of 13

G9a

2 of 13

Set2

2 of 13

Set8

2 of 13

Su(var)3-9

2 of 13

trr

2 of 13

trx

2 of 13

CG3198

1 of 13

CG7564

1 of 13

E(z)

1 of 13

egg

1 of 13

l(3)psg2

1 of 13

NSD

1 of 13

Prp38

1 of 13

Human Disease Associations

FlyBase Human Disease Model Reports

neurodevelopmental disorder with speech impairment and dysmorphic facies

Disease Ontology (DO) Annotations

Models Based on Experimental Evidence ( 2 )

Allele

Disease

Evidence

References

Set1^HMS00581

model of neurodevelopmental disorder with speech impairment and dysmorphic facies

CEC

(Kummeling et al., 2021)

CEA

(Kummeling et al., 2021)

Set1^HMS01837

model of neurodevelopmental disorder with speech impairment and dysmorphic facies

CEC

(Kummeling et al., 2021)

CEA

(Kummeling et al., 2021)

Potential Models Based on Orthology ( 2 )

Human Ortholog

Disease

Evidence

References

SETD1A; SET domain containing 1A, histone lysine methyltransferase

model of early-onset epilepsy 2

IEA

(FlyBase, 2019-)

model of neurodevelopmental disorder with speech impairment and dysmorphic facies

IEA

(FlyBase, 2019-)

Modifiers Based on Experimental Evidence ( 1 )

Allele

Disease

Interaction

References

Set1^HMS00581

ameliorates brain cancer

modeled by pros^JF02308

(Gaultier et al., 2022)

exacerbates amyotrophic lateral sclerosis type 10

modeled by Hsap\TARDBP^UAS.cEa

(Berson et al., 2017)

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?

SETD1A; SET domain containing 1A, histone lysine methyltransferase

9 of 14

611052

SETD1B; SET domain containing 1B, histone lysine methyltransferase

8 of 14

611055

INTELLECTUAL DEVELOPMENTAL DISORDER WITH SEIZURES AND LANGUAGE DELAY; IDDSELD

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

Interaction Browsers

View in FlyBase Interactions Browser View in MIST tool (external link)

Please see the Physical Interaction reports below for full details

protein-protein

Physical Interaction

Assay

References

Set1 - Clk

anti tag coimmunoprecipitation, anti tag western blot

(Liu et al., 2025)

Set1 - H15

anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based

(Rhee et al., 2014)

Set1 - His3

methyltransferase assay, western blot

(Ardehali et al., 2011)

Set1 - Wdr82

anti tag coimmunoprecipitation, peptide massfingerprinting

(Mohan et al., 2011)

Set1 - ash2

pull down, anti tag western blot, anti tag coimmunoprecipitation, peptide massfingerprinting, cosedimentation

(Hallson et al., 2012, Mohan et al., 2011)

Set1 - wds

pull down, anti tag western blot

(Hallson et al., 2012)

Summary of Genetic Interactions

Interaction Browsers

View in FlyBase Interactions Browser View in MIST tool (external link)

Please look at the allele data for full details of the genetic interactions

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Set1

enhanceable

htt

(Dietz et al., 2015)

Set1

suppressible

Mad

(Vidaurre et al., 2024)

Set1

suppressible

Stat92E

(Vidaurre et al., 2024)

Set1

suppressible

tkv

(Vidaurre et al., 2024)

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

External Data

Subunit Structure (UniProtKB)

(UniProt, Q5LJZ2 )

Linkouts

DroID - A comprehensive database of gene and protein interactions.

FBgn0040022

MIST (protein-protein) - An integrated Molecular Interaction Database

3354971

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

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.

Class of Gene

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-47

Cytogenetic map

80F9-80F9

Sequence location

3L:25,107,594..25,115,180 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

80F9-80F9

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Heterochromatic, cytological location not yet determined.

(FlyBase Genome Annotators, 2002-2003)

Experimentally Determined Recombination Data

Location

3-47

(FlyBase, 2016)

3-44.1

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (11)

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

Bloomington

83366

w^*; P{UAS-Set1.H}2/CyO

83365

w^*; P{UAS-Set1.H}3/TM3, Sb¹

81870

Set1^G5 red¹ e¹/TM3, Sb¹

33704

y¹ sc^* v¹ sev²¹; P{TRiP.HMS00581}attP2

81871

w^*; Set1^G12 red¹ e¹/TM6B, Tb¹

40931

y¹ sc^* v¹ sev²¹; P{TRiP.HMS02179}attP40

605472

y¹ w^*; TI{CRIMIC.TG4.2}Set1^{CR71342-KO-TG4.2}/TM3, Sb¹ Ser¹

NIG-Fly

HMS00581

y¹ sc^* v¹ sev²¹; P{TRiP.HMS00581}attP2

VDRC

v40682

w¹¹¹⁸; P{GD12893}v40682

v40683

w¹¹¹⁸; P{GD12893}v40683

v10833

w¹¹¹⁸; P{GD4398}v10833/TM3

Genomic Clones (5)

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

cDNA Clones (32)

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.

FBgn0040022

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0040022

Antibody Information

Laboratory Generated Antibodies

polyclonal

(Mazina et al., 2018, Ardehali et al., 2011, Mohan et al., 2011)

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

Source for merge of: CG17395 CG17396

(FlyBase Genome Annotators, 2002-2003)

Additional comments

Annotations CG17395 and CG17396 merged as CG40351 in release 3.1 of the genome annotation.

(FlyBase Genome Annotators, 2002-2003)

Nomenclature History

Source for database identify of

Source for identity of: Set1 CG40351

(Ardehali et al., 2011)

Nomenclature comments

Etymology

Synonyms and Secondary IDs (19)

Reported As

Symbol Synonym

CG17395

CG17396

CG40351

(Syrzycka et al., 2019, Meadows, 2014.12.12, Kwon et al., 2013, Hallson et al., 2012, Ardehali et al., 2011, Mohan et al., 2011, Pek and Kai, 2011, Baig et al., 2010, Furrer et al., 2010, Ni et al., 2010.12.1, Wasbrough et al., 2010, Drosophila Heterochromatin Genome Project, 2007, Hoskins et al., 2005, Muller et al., 2005)

SET1

(Greer and Shi, 2012, Schuettengruber et al., 2011)

SETD1

(L Black et al., 2016)

Set1

(Cabrita et al., 2025, Dyson et al., 2025, Farmer et al., 2025, Farmer et al., 2025, Kagemann et al., 2025, Liu et al., 2025, Martinez, 2025, Lee et al., 2024, Owings and Chow, 2024, Peng et al., 2024, Yu and Lesch, 2024, Cabrita and Martinho, 2023, Escobedo et al., 2023, Gaultier et al., 2022, Cenik and Shilatifard, 2021, Kummeling et al., 2021, Pang et al., 2021, Yamaguchi et al., 2021, Zhou et al., 2021, Zykova et al., 2021, Chetverina et al., 2020, Gulati et al., 2020, Kranz and Anastassiadis, 2020, Foley et al., 2019, Jiang et al., 2019, Syrzycka et al., 2019, Baranski et al., 2018, Gene Disruption Project members, 2018-, Sadasivam and Huang, 2018, Song et al., 2018, Berson et al., 2017, Mazina et al., 2017, Monribot-Villanueva et al., 2017, Brewer-Jensen et al., 2016, Piunti and Shilatifard, 2016, Dietz et al., 2015, Herz et al., 2014, Smith and Shilatifard, 2014, Yan et al., 2014, Petruk et al., 2013, Shilatifard, 2012)

SetD1

(Raun et al., 2021)

aaf45425 Dm

(Alvarez-Venegas and Avramova, 2002)

dSET1

(Lee and Spradling, 2014, Oh et al., 2014)

dSet-1

(Sun et al., 2023)

dSet1

(Krasnov et al., 2023, Vidaurre and Chen, 2021, Liu et al., 2020, Syrzycka et al., 2019, Rickels et al., 2017, Czech et al., 2013, Hallson et al., 2012, Herz et al., 2012, Ardehali et al., 2011, Mohan et al., 2011, Yokoyama et al., 2007)

dset1

(Komori et al., 2014)

l(3)h5

(Hallson et al., 2012)

(Syrzycka et al., 2019)

set1

(Gervais et al., 2019, Liu et al., 2017)

Name Synonyms

SET domain containing 1

SET domain-containing 1

(Piunti and Shilatifard, 2016)

lethal 5

(Hallson et al., 2012)

lethal5

(Syrzycka et al., 2019)

Secondary FlyBase IDs

FBgn0040021
FBan0040351

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 67 )

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.

3354971

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/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.

Q5LJZ2

UniProt/Swiss-Prot - Manually annotated and reviewed records of protein sequence and functional information

Q5LJZ2

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.

Q5LJZ2

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

3354971/tissue=All

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

FBgn0040022

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

FBgn0040022

FlyMine - An integrated database for Drosophila genomics

FBgn0040022

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

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

dme:Dmel_CG40351

MARRVEL_MODEL - MARRVEL (model organism gene)

3354971

Linkouts

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

FBgn0040022

DroID - A comprehensive database of gene and protein interactions.

FBgn0040022

DRSC - Results frm RNAi screens

FBgn0040022

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0040022

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0040022

Fly-FISH - A database of Drosophila embryo and larvae mRNA localization patterns

CG17395

Flygut - An atlas of the Drosophila adult midgut

FBgn0040022

FlyMet - A comprehensive tissue-specific metabolomics resource for Drosophila.

FBgn0040022

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

TC015826

Interactive Fly - A cyberspace guide to Drosophila development and metazoan evolution

Interactive Fly

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.

MIST (protein-protein) - An integrated Molecular Interaction Database

3354971

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

References (111)

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

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