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)

visceral muscle primordium

(Fisher et al., 2012)

embryonic/larval fat body

(Fisher et al., 2012)

embryonic stage 13 -- 16

crystal cell

(Fisher et al., 2012)

(Fisher et al., 2012)

embryonic/larval garland cell

(Fisher et al., 2012)

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)

macrophage

(Kobayashi et al., 1998)

larval stage

embryonic/larval salivary gland | anterior

(Kobayashi et al., 1998)

macrophage

(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)

trachea

(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

scf protein is detected in blastoderm embryos. It is observed in interphase chromatin but not in metaphase chromosomes. In late embryos, it is observed in macrophages and in larvae it is observed in macrophages, fat body, trachea, intestine, and the posterior part of the salivary gland. Strong staining is observed in oocytes in females.

(Kobayashi et al., 1998)

:scf protein is detected in blastoderm embryos. In late embryos, it is observed in fat body and macrophages. In larvae, staining is observed in macrophages, garland cells, pericardial cells, and the anterior part of the salivary gland. Strong staining is observed in oocytes in females.

(Kobayashi et al., 1998)

Marker for

Subcellular Localization

CV Term

Evidence

References

cytoplasm

inferred from direct assay

(Kobayashi et al., 1998)

endomembrane system

inferred from high throughput direct assay

(Tan et al., 2009)

nucleus

inferred from direct assay

(Kobayashi et al., 1998)

polytene chromosome

inferred from direct assay

(Furuhashi et al., 2006)

polytene chromosome puff

inferred from direct assay

(Kobayashi et al., 1998)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\scf 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\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

FLIGHT - Cell culture data for RNAi and other high-throughput technologies

FBgn0025682

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

CG9148-RA

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, and Transgenic Constructs

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

Deletions and Duplications ( 0 )

Phenotypes

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

Lethality

Allele

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

scf^dsRNA.UAS

lethal - all die before end of larval stage | recessive

scf¹

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

scf^dsRNA.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^dsRNA.UAS

Other Phenotypes

Allele

some die during third instar larval stage | recessive

scf¹

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

scf^dsRNA.UAS

Phenotype manifest in

Allele

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

scf^dsRNA.UAS

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

scf^dsRNA.UAS

polytene chromosome | male

scf^{Hsp83.Tag:FLAG}

Orthologs

Downloads

Download All DIOPT Orthologs

Download All OrthoDB Orthologs

Human Orthologs (via DIOPT v7.1)

Homo sapiens (Human) (4)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Hsap\CALU

14 of 15

Yes

Hsap\RCN1

9 of 15

Yes

Hsap\RCN3

8 of 15

Yes

Hsap\RCN2

2 of 15

Model Organism Orthologs (via DIOPT v7.1)

Mus musculus (laboratory mouse) (4)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Mmus\Calu

14 of 15

Yes

Mmus\Rcn1

10 of 15

Yes

Mmus\Rcn3

8 of 15

Yes

Mmus\Rcn2

2 of 15

Rattus norvegicus (Norway rat) (4)

Rnor\Calu

12 of 13

Yes

Rnor\Rcn1

10 of 13

Yes

Rnor\Rcn3

7 of 13

Yes

Rnor\Rcn2

2 of 13

Xenopus tropicalis (Western clawed frog) (4)

Xtro\calu

11 of 12

Yes

Xtro\rcn1

8 of 12

Yes

Xtro\rcn3

5 of 12

Yes

Xtro\rcn2

1 of 12

Danio rerio (Zebrafish) (5)

Drer\calua

13 of 15

Yes

Drer\calub

11 of 15

Yes

Drer\rcn1

10 of 15

Yes

Drer\rcn3

8 of 15

Yes

Drer\rcn2

2 of 15

Caenorhabditis elegans (Nematode, roundworm) (2)

Cele\calu-1

11 of 15

Yes

Cele\calu-2

2 of 15

Arabidopsis thaliana (thale-cress) (2)

Atha\AT4G27790

7 of 9

Yes

Atha\AT5G08580

6 of 9

Yes

Saccharomyces cerevisiae (Brewer's yeast) (0)

No records found.

Schizosaccharomyces pombe (Fission yeast) (0)

No records found.

Orthologs in Drosophila Species (via OrthoDB v9.1) ( EOG09190BKV )

Organism

Common Name

Gene

AAA Syntenic Ortholog

Multiple Dmel Genes in this Orthologous Group

Drosophila melanogaster

fruit fly

Drosophila simulans

Drosophila sechellia

Drosophila sechellia

Drosophila erecta

Drosophila yakuba

Drosophila ananassae

Drosophila pseudoobscura pseudoobscura

Dpse\GA21575

Drosophila persimilis

Dper\GL16174

Drosophila willistoni

Dwil\GK20385

Drosophila virilis

Dvir\GJ12145

Drosophila mojavensis

Dmoj\GI13049

Drosophila grimshawi

Dgri\GH15448

Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( EOG091507ZV )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Musca domestica

House fly

Mdoa\17020468

Glossina morsitans

Tsetse fly

Gmor\GMOY007248

Lucilia cuprina

Australian sheep blowfly

Lcup\FF38_05260

Mayetiola destructor

Hessian fly

Mdes\Mdes011121

Aedes aegypti

Yellow fever mosquito

Aaeg\AAEL007725

Anopheles darlingi

American malaria mosquito

Adar\ADAC006494

Anopheles gambiae

Malaria mosquito

Agam\AGAP010392

Culex quinquefasciatus

Southern house mosquito

Cqui\CPIJ002187

Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( EOG090W08HW )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Bombyx mori

Silkmoth

Bmor\BGIBMGA001107

Danaus plexippus

Monarch butterfly

Dple\DPOGS211911-PA

Heliconius melpomene

Postman butterfly

Hmel\HMEL017704

Apis florea

Little honeybee

Aflo\4090509028

Apis mellifera

Western honey bee

Amel\scf

Bombus impatiens

Common eastern bumble bee

Bimp\BIMP13094

Bombus terrestris

Buff-tailed bumblebee

Bter\15207720

Linepithema humile

Argentine ant

Lhum\LH24362

Megachile rotundata

Alfalfa leafcutting bee

Mrot\MROTU:00191d

Nasonia vitripennis

Parasitic wasp

Nvit\Nasvi2EG012266

Dendroctonus ponderosae

Mountain pine beetle

Dpod\YQE_04797

Tribolium castaneum

Red flour beetle

Tcas\GLEAN_08343

Pediculus humanus

Human body louse

Phum\PHUM061080

Rhodnius prolixus

Kissing bug

Rpro\RPRC004571

Cimex lectularius

Bed bug

Clec\CLEC001055

Acyrthosiphon pisum

Pea aphid

Apim\ACYPI000413

Zootermopsis nevadensis

Nevada dampwood termite

Znev\Znev_07922

Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( EOG090X08DA )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Strigamia maritima

European centipede

Smar\SMAR014744

Ixodes scapularis

Black-legged tick

Isca\ISCW002354

Stegodyphus mimosarum

African social velvet spider

Smim\KFM74065.1

Stegodyphus mimosarum

African social velvet spider

Smim\KFM77593.1

Tetranychus urticae

Two-spotted spider mite

Turt\tetur08g03740

Daphnia pulex

Water flea

Dpux\DAPPUDRAFT_189509

Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( EOG091G0GUL )

Organism

Common Name

Gene

Multiple Dmel Genes in this Orthologous Group

Strongylocentrotus purpuratus

Purple sea urchin

Spur\SPU_018461gn

Strongylocentrotus purpuratus

Purple sea urchin

Spur\Sp-Calu

Strongylocentrotus purpuratus

Purple sea urchin

Spur\SPU_012317gn

Ciona intestinalis

Vase tunicate

Cint\ENSCING00000003878

Ciona intestinalis

Vase tunicate

Cint\ENSCING00000004385

Ciona intestinalis

Vase tunicate

Cint\ENSCING00000013787

Gallus gallus

Domestic chicken

Ggal\RCN2

Gallus gallus

Domestic chicken

Ggal\RCN1

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v7.1)

Drosophila melanogaster (Fruit fly) (3)

Gene Symbol

Score

Source

Alignment

5 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

Comments on Models/Modifiers Based on Experimental Evidence ( 0 )

Disease Associations of Human Orthologs (via DIOPT v7.1 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

14 of 15

603420

RCN1; reticulocalbin 1

9 of 15

602735

RCN3; reticulocalbin 3

8 of 15

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

View in Interactions Browser

Please see the Physical Interaction reports below for full details

protein-protein

Physical Interaction

Assay

References

scf - Akap200

(Guruharsha et al., 2011)

scf - AnxB10

(Guruharsha et al., 2011)

scf - CG10638

(Guruharsha et al., 2011)

scf - CG11267

(Guruharsha et al., 2011)

scf - CG14715

(Guruharsha et al., 2011)

scf - CG2064

(Guruharsha et al., 2011)

scf - CG3008

(Guruharsha et al., 2011)

scf - CG6084

(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 - 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 - PHGPx

(Guruharsha et al., 2011)

scf - Pdi

(Guruharsha et al., 2011)

scf - Pi3K68D

(Guruharsha et al., 2011)

scf - Prx2540-2

(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 - 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 - 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 - p23

(Guruharsha et al., 2011)

scf - regucalcin

(Guruharsha et al., 2011)

scf - smt3

(Guruharsha et al., 2011)

scf - yip2

View in Interactions Browser

(Guruharsha et al., 2011)

Summary of Genetic Interactions

esyN Network Diagram

esyN Network Key:

Suppression

Enhancement

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)

RpII140

enhanceable

(Ogasawara et al., 2007)

trx

enhanceable