FlyBase Gene Report: Dmel\Hcf

(Fisher et al., 2012)

embryonic stage 7 -- 8

(Fisher et al., 2012)

embryonic stage 8 -- 10

primordial germ cell

(Yatsu et al., 2008)

embryonic stage 9 -- 10

(Fisher et al., 2012)

embryonic stage 11 -- 12

(Fisher et al., 2012)

embryonic stage 13 -- 16

View exonic expression by developmental stage for Dmel\Hcf

(Fisher et al., 2012)

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

immunolocalization

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage -- adult stage

organism | ubiquitous

• nucleus

(Rodriguez-Jato et al., 2011)

larval stage

imaginal disc | ubiquitous

• nucleus

(Rodriguez-Jato et al., 2011)

adult stage | female

ovariole

• nucleus

(Rodriguez-Jato et al., 2011)

mass spectroscopy

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage

adult head

• membrane

(Aradska et al., 2015)

Additional Descriptive Data

Hcf protein is broadly expressed throughout development, and is localized to the nucleus.

(Rodriguez-Jato et al., 2011)

Marker for

Subcellular Localization

CV Term

Evidence

References

part_of ATAC complex

inferred from direct assay

(Suganuma et al., 2012, Guelman et al., 2006)

part_of MLL3/4 complex

inferred from direct assay

(Mohan et al., 2011)

located_in nucleus

inferred from direct assay

(Rodriguez-Jato et al., 2011, White et al., 2011, Izeta et al., 2003)

part_of Set1C/COMPASS complex

inferred from direct assay

(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\Hcf in JBrowse

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

View exonic expression by tissue for Dmel\Hcf

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

FBgn0039904

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

43788/tissue=All

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

FBgn0039904

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0039904

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

FBgn0039904

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

CG1710

Flygut - An atlas of the Drosophila adult midgut

FBgn0039904

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 10 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 9 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Hcf

Transgenic constructs containing regulatory region of Hcf

Aberrations (Deficiencies and Duplications) ( 33 )

Inferred from experimentation ( 33 )

Gene not disrupted in

Df(4)B6-4a

(Sousa-Neves et al., 2005)

Gene disrupted in

(Sun et al., 2004)

(Sun et al., 2004)

(Sun et al., 2004)

(Sun et al., 2004)

(Sun et al., 2004)

(Sun et al., 2004)

(Sun et al., 2004)

(Sun et al., 2004)

(Sun et al., 2004)

(Sun et al., 2004)

(Sun et al., 2004)

(Sun et al., 2004)

(Sun et al., 2004)

(Sun et al., 2004)

(Sun et al., 2004)

(Sun et al., 2004)

(Sun et al., 2004)

(Sun et al., 2004)

(Sun et al., 2004)

(Sun et al., 2004)

(Sun et al., 2004)

(Sun et al., 2004)

(Sun et al., 2004)

(Sun et al., 2004)

(Sun et al., 2004)

(Riddle et al., 2008)

Df(4)7-M53

(Riddle et al., 2008)

Df(4)7-M972

(Riddle et al., 2008)

Df(4)7-M973

(Riddle et al., 2008)

Df(4)7-M1067

(Riddle et al., 2008)

Df(4)B2-2d

(Podemski et al., 2004)

Df(4)BH

(Schinaman et al., 2014)

Inferred from location ( 28 )

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

Hcf^C

lethal (with Df(4)4-M529)

Hcf^C

lethal (with Df(4)5-M244)

Hcf^C

lethal (with Df(4)5-M263)

Hcf^C

lethal (with Df(4)ED6369)

Hcf^C

lethal | male, with Scer\GAL4^Act.PU

Hcf^{UAS.Tag:T7,Tag:FLAG}

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

Hcf^{UAS.Tag:T7,Tag:FLAG}

partially lethal - majority die

Hcf^HR1

partially lethal - majority die, with Scer\GAL4^Tub.PU

Hcf^GD4353

viable

Hcf^e02291

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

Hcf^GD4353

viable, with Scer\GAL4^tin.CΔ4

Hcf^GD4353

Sterility

Allele

female fertile (with Df(4)4-M529)

Hcf^A

female fertile (with Df(4)5-M244)

Hcf^A

female fertile (with Df(4)5-M263)

Hcf^A

female fertile (with Df(4)ED6369)

Hcf^A

female sterile

Hcf^HR1

fertile

Hcf^e02291

male semi-sterile

Hcf^HR1

Other Phenotypes

Allele

abnormal developmental rate, with Scer\GAL4^Tub.PU

Hcf^{UAS.Tag:T7,Tag:FLAG}

decreased body size | adult stage

Hcf^HR1

decreased body size | adult stage, with Scer\GAL4^Tub.PU

Hcf^GD4353

decreased body size | pupal stage

Hcf^HR1

decreased cell size

Hcf^HR1

increased cell death | third instar larval stage

Hcf^HR1

majority die during embryonic stage | maternal effect, with Scer\GAL4^{VP16.mat.αTub67C}

Hcf^GL01004

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

Hcf^{UAS.Tag:T7,Tag:FLAG}

some die during pupal stage

Hcf^HR1

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

Hcf^GD4353

visible, with Scer\GAL4^Tub.PU

Hcf^GD4353

visible | female limited, with Scer\GAL4^sca-109-68

Phenotype manifest in

Allele

abdominal tergite, with Scer\GAL4^Tub.PU

Hcf^GD4353

dorsal appendage

Hcf^HR1

egg

Hcf^HR1

egg chamber

Hcf^HR1

humeral bristle

Hcf^HR1

ovary

Hcf^HR1

posterior scutellar bristle | female, with Scer\GAL4^sca-109-68

scutellar bristle | ectopic

Hcf^HR1

sex comb tooth

Hcf^HR1

wing

Hcf^HR1

wing, with Scer\GAL4^Act.PU

Hcf^{UAS.Tag:T7,Tag:FLAG}

wing, with Scer\GAL4^Tub.PU

Hcf^GD4353

wing blade anterior compartment, with Scer\GAL4^ci.PC

Hcf^GD4353

wing blade posterior compartment, with Scer\GAL4^en-e16E

Hcf^GD4353

wing disc

Hcf^HR1

wing vein, with Scer\GAL4^Tub.PU

Hcf^GD4353

wing vein | ectopic

Hcf^HR1

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) (19)

Hsap\HCFC1

7 of 14

Yes

Hsap\HCFC2

7 of 14

Yes

Hsap\KLHDC1

2 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

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

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (15)

Rnor\Hcfc1

8 of 14

Yes

Rnor\Hcfc2

8 of 14

Yes

Rnor\Klhdc1

2 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Mus musculus (laboratory mouse) (16)

Mmus\Hcfc1

8 of 14

Yes

Mmus\Hcfc2

7 of 14

Yes

Mmus\Klhdc1

2 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Xenopus tropicalis (Western clawed frog) (15)

Xtro\hcfc1

7 of 13

Yes

Xtro\hcfc2

7 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

Danio rerio (Zebrafish) (16)

Drer\hcfc1a

9 of 14

Yes

Drer\hcfc1b

8 of 14

Yes

Drer\hcfc2

7 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

Caenorhabditis elegans (Nematode, roundworm) (15)

Cele\hcf-1

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

Anopheles gambiae (African malaria mosquito) (13)

Agam\AgaP_AGAP004774

10 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

Arabidopsis thaliana (thale-cress) (66)

Atha\AT2G36360

2 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Atha\AT1G33790

1 of 13

Yes

Atha\AT1G51550

1 of 13

Atha\AT1G52000

1 of 13

Yes

Atha\AT1G52050

1 of 13

Yes

Atha\AT1G52060

1 of 13

Yes

Atha\AT1G52070

1 of 13

Yes

Atha\AT1G52100

1 of 13

Yes

Atha\AT1G52110

1 of 13

Atha\AT1G52120

1 of 13

Yes

Atha\AT1G52130

1 of 13

Yes

Atha\AT1G57570

1 of 13

Yes

Atha\AT1G60095

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

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Atha\AT5G35950

1 of 13

Atha\AT5G38540

1 of 13

Yes

Atha\AT5G38550

1 of 13

Yes

Atha\AT5G46000

1 of 13

Yes

Atha\AT5G49850

1 of 13

Yes

Atha\AT5G49870

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

Yes

Atha\JAL22

1 of 13

Atha\JAL23

1 of 13

Yes

Atha\JAL31

1 of 13

Yes

Atha\JAL33

1 of 13

Yes

Atha\JAL34

1 of 13

Yes

Atha\JR1

1 of 13

Atha\LKP2

1 of 13

Yes

Atha\MBP1

1 of 13

Atha\MBP2

1 of 13

Yes

Atha\MLP-300B

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

Yes

Saccharomyces cerevisiae (Brewer's yeast) (9)

Scer\KEL1

3 of 13

Yes

Scer\KEL2

3 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Scer\PMD1

1 of 13

Scer\PPQ1

1 of 13

Scer\SIT4

1 of 13

Schizosaccharomyces pombe (Fission yeast) (2)

Spom\tea1

2 of 12

Yes

Spom\tea3

2 of 12

Yes

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:Hcf. 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) (13)

3 of 13

2 of 13

2 of 13

2 of 13

2 of 13

dbo

1 of 13

dsd

1 of 13

flw

1 of 13

mts

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Human Disease Associations

FlyBase Human Disease Model Reports

Disease Ontology (DO) Annotations

Models Based on Experimental Evidence ( 2 )

Allele

Disease

Evidence

References

Hcf^GL01004

model of congenital heart disease

CEA

(Huang et al., 2022)

Hcf^KK101927

model of congenital heart disease

CEA

(Huang et al., 2022)

Potential Models Based on Orthology ( 1 )

Human Ortholog

Disease

Evidence

References

HCFC1; host cell factor C1

model of methylmalonic acidemia and homocysteinemia cblX type

IEA

(FlyBase, 2019-)

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?

HCFC1; host cell factor C1

7 of 14

300019

METHYLMALONIC ACIDURIA AND HOMOCYSTINURIA, cblX TYPE; MAHCX

methylmalonic acidemia and homocysteinemia cblX type

HCFC2; host cell factor C2

7 of 14

607926

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

Hcf - Ada2a

anti tag coimmunoprecipitation, peptide massfingerprinting, western blot, ion exchange chromatography, molecular sieving, anti bait coimmunoprecipitation

(Suganuma et al., 2012, Suganuma et al., 2010, Suganuma et al., 2008, Guelman et al., 2006)

Hcf - Ada2b

anti tag coimmunoprecipitation, peptide massfingerprinting

(Weake et al., 2011)

Hcf - Ada3

anti bait coimmunoprecipitation, western blot, experimental knowledge based

(Guruharsha et al., 2011, Guelman et al., 2006)

Hcf - Atac1

anti bait coimmunoprecipitation, western blot, experimental knowledge based, ion exchange chromatography, molecular sieving, anti tag coimmunoprecipitation, peptide massfingerprinting

(Guruharsha et al., 2011, Guelman et al., 2006)

Hcf - Atac2

anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based, molecular sieving

(Suganuma et al., 2012, Guruharsha et al., 2011, Suganuma et al., 2010, Suganuma et al., 2008)

Hcf - Chrac-14

anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based

(Guruharsha et al., 2011, Suganuma et al., 2010, Suganuma et al., 2008)

Hcf - D12

experimental knowledge based, anti tag coimmunoprecipitation, peptide massfingerprinting

(Guruharsha et al., 2011, Suganuma et al., 2010)

Hcf - Gcn5

experimental knowledge based, anti bait coimmunoprecipitation, western blot, anti tag coimmunoprecipitation, peptide massfingerprinting

(Guruharsha et al., 2011, Guelman et al., 2006)

Hcf - MBD-R2

anti tag coimmunoprecipitation, western blot, peptide massfingerprinting, experimental knowledge based

(Guruharsha et al., 2011)

Hcf - Mocs2B

(Guruharsha et al., 2011, Suganuma et al., 2010, Suganuma et al., 2008)

Hcf - Myc

anti tag coimmunoprecipitation, anti tag western blot, pull down, autoradiography, anti bait coimmunoprecipitation

(Furrer et al., 2010)

Hcf - NC2β

anti tag coimmunoprecipitation, peptide massfingerprinting

(Guruharsha et al., 2011)

Hcf - Pa1

(Mohan et al., 2011)

Hcf - ReepA

(Guruharsha et al., 2011)

Hcf - Sgf29

anti tag coimmunoprecipitation, western blot, anti tag western blot

(Guruharsha et al., 2011)

Hcf - Sin3A

(Beltran et al., 2007)

Hcf - Utx

anti tag coimmunoprecipitation, peptide massfingerprinting

(Mohan et al., 2011)

Hcf - Wdr82

anti tag coimmunoprecipitation, peptide massfingerprinting

(Mohan et al., 2011)

Hcf - ash2

anti tag coimmunoprecipitation, western blot, anti tag western blot, peptide massfingerprinting

(Mohan et al., 2011, Beltran et al., 2007)

Hcf - msl-3

anti tag coimmunoprecipitation, peptide massfingerprinting

(Alekseyenko et al., 2014)

Hcf - trr

anti tag coimmunoprecipitation, anti tag western blot

(Nan et al., 2019)

Hcf - wds

anti tag coimmunoprecipitation, peptide massfingerprinting, experimental knowledge based

(Guruharsha et al., 2011, Suganuma et al., 2010, Suganuma et al., 2008)

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

suppressible

(Rodriguez-Jato et al., 2011)

enhanceable

skd

(Rodriguez-Jato et al., 2011)

enhanceable

sxc

(Mariappa et al., 2018)

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Myc

enhanceable

(Furrer et al., 2010)

Myc

suppressible

(Furrer et al., 2010)

enhanceable

(Rodriguez-Jato et al., 2011)

sxc

enhanceable