FlyBase Gene Report: Dmel\scf

(Fisher et al., 2012)

embryonic stage 7 -- 8

head mesoderm

(Fisher et al., 2012)

trunk mesoderm

(Fisher et al., 2012)

(Fisher et al., 2012)

embryonic stage 9 -- 10

crystal cell primordium

Comment: reported as crystal cell specific anlage

(Fisher et al., 2012)

head mesoderm

(Fisher et al., 2012)

plasmatocyte primordium

(Fisher et al., 2012)

trunk mesoderm

(Fisher et al., 2012)

fat body/gonad primordium

(Fisher et al., 2012)

embryonic stage 11 -- 12

(Fisher et al., 2012)

garland cell primordium

(Fisher et al., 2012)

plasmatocyte primordium

Comment: reported as plasmatocytes anlage

(Fisher et al., 2012)

procrystal cell

(Fisher et al., 2012)

trunk mesoderm

(Fisher et al., 2012)

trunk visceral muscle primordium

(Fisher et al., 2012)

embryonic/larval crystal cell

(Fisher et al., 2012)

embryonic stage 13 -- 16

(Fisher et al., 2012)

embryonic/larval fat body

(Fisher et al., 2012)

embryonic/larval garland cell

(Fisher et al., 2012)

embryonic/larval plasmatocyte

(Fisher et al., 2012)

embryonic/larval fat body

(Fisher et al., 2012)

northern blot

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage -- adult stage

(Kobayashi et al., 1998)

Additional Descriptive Data

scf transcripts are detected in RNA from embryos, larvae, prepupae, pupae and adults on northern blots.

(Kobayashi et al., 1998)

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

immunolocalization

Stage

Tissue/Position (including subcellular localization)

Reference

blastoderm stage

(Kobayashi et al., 1998)

late embryonic stage

(Kobayashi et al., 1998)

embryonic/larval plasmatocyte

(Kobayashi et al., 1998)

larval stage

embryonic/larval salivary gland | anterior

(Kobayashi et al., 1998)

embryonic/larval plasmatocyte

(Kobayashi et al., 1998)

garland cell

(Kobayashi et al., 1998)

embryonic/larval hindgut

(Kobayashi et al., 1998)

embryonic/larval fat body

(Kobayashi et al., 1998)

embryonic/larval salivary gland | posterior

(Kobayashi et al., 1998)

pericardial cell

(Kobayashi et al., 1998)

tracheal section

(Kobayashi et al., 1998)

oogenesis & adult stage | female

oocyte

(Kobayashi et al., 1998)

mass spectroscopy

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage

adult head

• membrane

(Aradska et al., 2015)

day 7 of adulthood -- day 49 of adulthood

adult heart

(Cammarato et al., 2011)

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

located_in cytoplasm

inferred from direct assay

(Kobayashi et al., 1998)

located_in endomembrane system

inferred from high throughput direct assay

(Tan et al., 2009)

located_in nucleus

inferred from direct assay

(Kobayashi et al., 1998)

located_in polytene chromosome puff

inferred from direct assay

(Kobayashi et al., 1998)

located_in polytene chromosome

inferred from direct assay

(Furuhashi et al., 2006)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\scf in JBrowse

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

View exonic expression by developmental stage for Dmel\scf

View exonic expression by tissue for Dmel\scf

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

FBgn0025682

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

38145/tissue=All

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

FBgn0025682

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0025682

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

FBgn0025682

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

CG9148

Flygut - An atlas of the Drosophila adult midgut

FBgn0025682

Images

FlyExpress - Embryonic expression images (BDGP data)

Show all FlyExpress processed images for Dmel\scf

Stages(s) 1-3
Stages(s) 4-6
Stages(s) 7-8
Stages(s) 9-10
Stages(s) 11-12
Stages(s) 13-16

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 ( 8 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of scf

Transgenic constructs containing regulatory region of scf

Aberrations (Deficiencies and Duplications) ( 0 )

Inferred from experimentation ( 0 )

Inferred from location ( 9 )

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 | male, with Scer\GAL4^Act5C.PI

scf^RNAi.UAS

lethal - all die before end of larval stage | recessive

scf¹

partially lethal | male, with Scer\GAL4^Act5C.PI

scf^RNAi.UAS

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

scf^GD4569

viable, with Scer\GAL4^pnr-MD237

scf^GD4569

viable | female, with Scer\GAL4^Act5C.PI

scf^RNAi.UAS

Other Phenotypes

Allele

some die during third instar larval stage | recessive

scf¹

visible | dominant | homeotic | male, with Scer\GAL4^Act5C.PI

scf^RNAi.UAS

Phenotype manifest in

Allele

adult abdominal segment 5 | ectopic | male, with Scer\GAL4^Act5C.PI

scf^RNAi.UAS

adult abdominal segment 6 | male, with Scer\GAL4^Act5C.PI

scf^RNAi.UAS

polytene chromosome | male

scf^{Hsp83.Tag:FLAG}

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\CALU

13 of 14

Yes

Hsap\RCN1

10 of 14

Yes

Hsap\RCN3

7 of 14

Yes

5 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

Hsap\LOC118142757

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) (21)

Rnor\Calu

13 of 14

Yes

Rnor\Rcn1

10 of 14

Yes

Rnor\Rcn3

8 of 14

Yes

5 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

Mus musculus (laboratory mouse) (24)

Mmus\Calu

13 of 14

Yes

Mmus\Rcn1

9 of 14

Yes

Mmus\Rcn3

8 of 14

Yes

5 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

Xenopus tropicalis (Western clawed frog) (14)

Xtro\calu

11 of 13

Yes

Xtro\rcn1

6 of 13

Yes

Xtro\rcn3

6 of 13

Yes

Xtro\rcn2

3 of 13

Xtro\cap2

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

Danio rerio (Zebrafish) (23)

Drer\calua

13 of 14

Yes

Drer\calub

12 of 14

Yes

Drer\rcn3

10 of 14

Yes

Drer\rcn1

9 of 14

Yes

5 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

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Caenorhabditis elegans (Nematode, roundworm) (17)

Cele\calu-1

13 of 14

Yes

Cele\calu-2

4 of 14

Cele\C50C3.5

1 of 14

Yes

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

Yes

Cele\H10E21.4

1 of 14

Yes

Cele\K03A1.4

1 of 14

Cele\tnc-2

1 of 14

Anopheles gambiae (African malaria mosquito) (9)

Agam\AgaP_AGAP010392

12 of 12

Yes

4 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) (56)

Atha\AT5G08580

9 of 13

Yes

Atha\AT4G27790

8 of 13

Yes

Atha\AGD11

1 of 13

Yes

Atha\AT1G05990

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

Atha\AT3G25600

1 of 13

Atha\AT3G59440

1 of 13

Yes

Atha\AT4G03290

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

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

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

Yes

Atha\TCH2

1 of 13

Atha\TCH3

1 of 13

Saccharomyces cerevisiae (Brewer's yeast) (2)

Scer\CNB1

1 of 13

Yes

Scer\FRQ1

1 of 13

Yes

Schizosaccharomyces pombe (Fission yeast) (0)

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:scf. 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) (10)

CG31650

8 of 13

myd

3 of 13

Scp1

2 of 13

Scp2

2 of 13

azot

1 of 13

Cam

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 ( 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?

CALU; calumenin

13 of 14

603420

RCN1; reticulocalbin 1

10 of 14

602735

RCN3; reticulocalbin 3

7 of 14

619032

RCN2; reticulocalbin 2

5 of 14

602584

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:

Off

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

Select Layout:

Force Directed

Circle

Concentric

Legend:

Protein

RNA

Selected Interactor(s)

Other 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

scf - Acaa

(Guruharsha et al., 2011)

scf - Akap200

(Guruharsha et al., 2011)

scf - AnxB10

(Guruharsha et al., 2011)

scf - Ar1

(Guruharsha et al., 2011)

scf - Ar2

(Guruharsha et al., 2011)

scf - CG11267

(Guruharsha et al., 2011)

scf - CG14715

(Guruharsha et al., 2011)

scf - CG3008

(Guruharsha et al., 2011)

scf - Calr

(Guruharsha et al., 2011)

scf - Chd64

(Guruharsha et al., 2011)

scf - Cnx99A

(Guruharsha et al., 2011)

scf - Cyp12d1-p

(Guruharsha et al., 2011)

scf - Df31

(Guruharsha et al., 2011)

scf - EndoGI

(Guruharsha et al., 2011)

scf - Eno

(Guruharsha et al., 2011)

scf - Fim

(Guruharsha et al., 2011)

scf - Fkbp14

(Guruharsha et al., 2011)

scf - Glt

(Guruharsha et al., 2011)

scf - Gp93

(Guruharsha et al., 2011)

scf - Gtpx

(Guruharsha et al., 2011)

scf - HINT1

(Guruharsha et al., 2011)

scf - HmgD

(Guruharsha et al., 2011)

scf - Idh3a

(Guruharsha et al., 2011)

scf - Inos

(Guruharsha et al., 2011)

scf - MRP

(Guruharsha et al., 2011)

scf - Moe

(Guruharsha et al., 2011)

scf - Mpcp2

(Guruharsha et al., 2011)

scf - Nacα

(Guruharsha et al., 2011)

scf - Nlp

(Guruharsha et al., 2011)

scf - OstΔ

(Guruharsha et al., 2011)

scf - Pdi

(Guruharsha et al., 2011)

scf - Pi3K68D

(Guruharsha et al., 2011)

scf - Prx6c

(Guruharsha et al., 2011)

scf - Rdh1

(Guruharsha et al., 2011)

scf - RpLP0

(Guruharsha et al., 2011)

scf - RpS10b

(Guruharsha et al., 2011)

scf - Sec63

(Guruharsha et al., 2011)

scf - Sh3β

(Guruharsha et al., 2011)

scf - Stip1

(Guruharsha et al., 2011)

scf - Sumo

(Guruharsha et al., 2011)

scf - TER94

anti bait coimmunoprecipitation, western blot

(Guruharsha et al., 2011)

scf - Top2

(Kobayashi et al., 1998)

scf - Uch

(Guruharsha et al., 2011)

scf - awd

(Guruharsha et al., 2011)

scf - boca

(Guruharsha et al., 2011)

scf - cPges

(Guruharsha et al., 2011)

scf - capt

(Guruharsha et al., 2011)

scf - chic

(Guruharsha et al., 2011)

scf - cib

(Guruharsha et al., 2011)

scf - eEF1δ

(Guruharsha et al., 2011)

scf - eEF5

(Guruharsha et al., 2011)

scf - fabp

(Guruharsha et al., 2011)

scf - fax

anti tag coimmunoprecipitation, peptide massfingerprinting

(Guruharsha et al., 2011)

scf - ksr

(Friedman et al., 2011)

scf - regucalcin

(Guruharsha et al., 2011)

Summary of Genetic Interactions

esyN Network Diagram

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

esyN Network Key:

Suppression

Enhancement

Other 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

Iswi

(Furuhashi et al., 2006)

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

suppressible

(Ogasawara et al., 2007)

Polr2B

enhanceable

(Ogasawara et al., 2007)

trx

enhanceable