Gene Dmel\ush

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General Information

Symbol

Dmel\ush

Species

D. melanogaster

Name

u-shaped

Annotation symbol

CG2762

Feature type

protein_coding_gene

FlyBase ID

FBgn0003963

Created / Updated

2003-12-01/2003-12-01

Genomic Location

Chromosome (arm)

Recombination map

2-0.1

Cytogenetic map

21E1-21E2

Sequence location

2L:523,467..540,541 [+]

Map ( GBrowse )

Summary Information

Automatically generated summary

See sections below for more information

The gene u-shaped is referred to in FlyBase by the symbol ush (CG2762, FBgn0003963). It has the cytological map location 21E1-21E2. Its sequence location is 2L:523467..540541. Its molecular function is described as: transcription factor binding; ligand-dependent nuclear receptor activity; transcription factor activity; protein binding; zinc ion binding. It is involved in the biological processes described with 16 unique terms, many of which group under: anatomical structure development; organ development; embryonic development via the syncytial blastoderm; regulation of developmental process; regulation of biological process; pigment metabolic process; transmembrane receptor protein tyrosine kinase signaling pathway; anterior/posterior axis specification; epithelial cell differentiation; embryonic development ending in birth or egg hatching; tissue homeostasis; regulation of metabolic process. 29 alleles are reported. The phenotypes of these alleles are annotated with 28 unique terms, many of which group under: organ system; adult segment; peripheral nervous system; adult mesothoracic segment; cephalopharyngeal skeleton; nervous system; embryonic head; pharyngeal sclerite; extended germ band embryo; portion of tissue. It has one annotated transcript and one annotated polypeptide.

External Summaries

Phenotypic Description from the Red Book (Lindsley & Zimm 1992)

Gene/Allele symbols may differ from current usage

ush: u-shaped

Embryonic lethal. No shortening of the germ band. Lateral fusion of anterior and posterior hypoderm.

Detailed Mapping Data

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

21E1-21E2

Limits computationally determined from genome sequence between P{lacW}l(2)k09610^k09610&P{lacW}S^k09538a and P{PZ}l(2)10685¹⁰⁶⁸⁵&P{lacW}Tango14^k00619

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

2-0.1

2-0

(Tearle and Nusslein-Volhard, 1987)

Left of (cM)

Right of (cM)

Notes

Molecular Map Data

Gene Order (in direction of increasing cytology)

References

Gene Order (overall orientation not stated)

References

Overall orientation not stated: lwr+ ush-

(Epps and Tanda, 1998)

Overall orientation not stated: ex? crq? ush?

(Franc et al., 1999)

Gene Model & Products

Please see the GBrowse view of Dmel\ush for information on other features

Comments on Gene Model

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Associated CDS (aa)

ush-RA

FBtr0078063

NM_057432

4732

1191

Additional Transcript Data & Comments

Reported size (kB)

4.7 (northern blot)

(Cubadda et al., 1997)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kD)

Length (aa)

Theoretical pI

RefSeq ID

GenBank protein

ush-PA

FBpp0077723

124.5

1191

6.35

NP_476780

AAF51488

Additional Polypeptide Data & Comments

Reported size (kD)

1191 (aa); 123 (kD predicted)

(Cubadda et al., 1997)

Comments

External Data

Linkouts

PANTHER - Protein classification by function, families, and pathways

•

FBgn0003963

Crossreferences

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

•

Zinc finger, C2H2-like (IPR015880)

Zinc finger, C2H2-type (IPR007087)

PDB - Protein Data Bank. An information portal to biological macromolecular structures

•

Sequences Consistent with the Gene Model

DDBJ /
EMBL /
GenBank

DNA sequence

Protein sequence

Name

Q9VPQ6

UniProtKB/TrEMBL

Maps to

(FlyBase, 1992-)

Does NOT map to

Identified with

LD12631

(BDGP Project Members, 2000-)

Mapped Features & Mutations

Please see GBrowse or insertion reports for information on insertions of transgenic constructs and features not listed here

Type

Symbol & Location

Additional Notes

References

aberration junction

Df(2L)ush[rev18].bk1
2L:501,010..503,751

comment=Deficiency breakpoint mapped to a BamHI-EcoRI restriction fragment; position of restriction fragment on reference sequence inferred by FlyBase curator
evidence=experimental
linked_to=BamHI-EcoRI_rfrag

(Cubadda et al., 1997)

aberration junction

In(2L)Tg[R+1].bk
2L:530,817..534,845

comment=Inversion breakpoint mapped to an EcoRI restriction fragment; position of restriction fragment on reference sequence inferred by FlyBase curator.
evidence=experimental
linked_to=EcoRI-EcoRI_rfrag

(Cubadda et al., 1997)

External Data

Linkouts

DEDB - Drosophila exon database: splicing graphs

•

5817

Crossreferences

Expression Data

FlyBase-Curated Data

Transcript and
Protein data

Please see the FlyBase Gene Expression Report for details of gene expression from the literature.

Summary of Transcript Expression

Stage

Tissue/Position

Reference

larval stage | third instar

(Cubadda et al., 1997)

embryonic stage | 4-8 hr

(Cubadda et al., 1997)

embryonic stage | stage 6

dorsal ectoderm anlage in statu nascendi

(Podos et al., 2001)

larval stage | third instar stage 2

imaginal disc | restricted

(Cubadda et al., 1997)

pupal stage,adult stage

(Cubadda et al., 1997)

Marker for

Subcellular Localization

CV Term

Summary of Polypeptide Expression

Stage

Tissue/Position

Reference

Marker for

Subcellular Localization

CV Term

nucleus

(Cubadda et al., 1997)

External Data & Images

Linkouts

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

•

FBgn0003963

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

•

FBgn0003963

GEO (NCBI) - Gene expression data: microarray and other high-throughput technologies

•

FBgn0003963

BDGP expression data

•

Show all BDGP original images, annotations and embryonic microarray data for ush

FlyExpress - Embryonic expression images (BDGP data)

•

Show all FlyExpress processed images for ush

Alleles & Phenotypes

Summary of Allele Phenotypes

Lethality

Allele

viable

viable, with Scer\GAL4^twi.PB

ush^Scer\UAS.cFa

lethal | recessive

lethal | embryonic stage | recessive

semi-lethal | pupal stage, with Scer\GAL4^ey.PH

ush^Scer\UAS.cFa

Other Phenotypes

Allele

visible | recessive

visible | conditional - heat sensitive

ush^hs.PC

visible | conditional - heat sensitive, with Scer\GAL4^ey.PH

ush^Scer\UAS.cFa

visible, with Scer\GAL4^pnr-MD237

ush^Scer\UAS.cCa

visible, with Scer\GAL4^ey.PH

ush^Scer\UAS.cFa

tissue polarity defective, with Scer\GAL4^ey.PH

ush^Scer\UAS.cFa

Phenotype manifest in

Allele

cardioblast | ectopic

pericardial cell | ectopic

mesoderm

ush¹

crystal cell | ectopic

ush¹

direct flight muscle

ush¹⁵¹³

dorsal medial muscle

ush¹⁵¹³

extended germ band embryo

dorsal closure embryo

ush²

embryonic head

ush²

cephalopharyngeal skeleton

ush²

latticed process

ush²

vertical bridge

ush²

cuticle

ush²

filzkorper

ush²

amnioserosa

ush²

cardioblast

ush²

scutellum | somatic clone

adult thorax | dorsal | somatic clone

dorsocentral bristle | cell non-autonomous | somatic clone

adult external thorax

ush^Q41

dorsocentral bristle

postvertical bristle

scutellar bristle

crystal cell & embryo, with Scer\GAL4^lz-gal4

ush^Scer\UAS.cCa

dorsocentral bristle, with Scer\GAL4^pnr-MD237

ush^Scer\UAS.cCa

dorsocentral bristle | precursor, with Scer\GAL4^pnr-MD237

ush^Scer\UAS.cCa

eye disc | conditional - heat sensitive, with Scer\GAL4^ey.PH

ush^Scer\UAS.cFa

eye, with Scer\GAL4^ey.PH

ush^Scer\UAS.cFa

antenna, with Scer\GAL4^ey.PH

ush^Scer\UAS.cFa

antenna | ectopic, with Scer\GAL4^ey.PH

ush^Scer\UAS.cFa

ommatidium, with Scer\GAL4^ey.PH

ush^Scer\UAS.cFa

cardioblast, with Scer\GAL4^twi.PB

ush^Scer\UAS.cFa

embryonic heart, with Scer\GAL4^twi.PB

ush^Scer\UAS.cFa

crystal cell, with Scer\GAL4^twi.PB

ush^Scer\UAS.cFa

lymph gland, with Scer\GAL4^twi.PB

ush^Scer\UAS.cFa

crystal cell, with Scer\GAL4^lz-gal4

ush^Scer\UAS.cFa

lymph gland, with Scer\GAL4^Mef2.PR

ush^Scer\UAS.cFa

dorsocentral bristle | conditional - heat sensitive

ush^hs.PC

dorsocentral bristle & axon

ush^rev24

direct flight muscle (with Df(2L)ush^rev18)

ush^rev5

epidermis | anterior

ush^unspecified

epidermis | posterior

ush^unspecified

Classical Alleles ( 23 )

For All Classical Alleles Show

Allele of ush	Class	Mutagen	Stocks	Known lesion
ush¹⁵¹³	hypomorph	P-element activity	0	Yes
ush¹	amorph	ethyl methanesulfonate	0	--
ush²	amorph, loss of function, hypomorph	ethyl methanesulfonate	2	--
ush^DV1		X ray	0	--
ush^E6	amorph		0	--
ush^MB02155			1	--
ush^MD751		P-element activity	0	--
ush^Q41			0	--
ush^SW42		spontaneous	0	--
ush^TE99Z	hypomorph	spontaneous	0	Yes
ush^Tg		X ray	2	--
ush^TgR+1	amorph		0	Yes
ush^VX22	amorph		0	--
ush^XR93		X ray	0	--
ush^XW88-DV2	loss of function	ethyl methanesulfonate	0	--
ush^XW88-DV3	loss of function	ethyl methanesulfonate	0	--
ush^XW88		X ray	0	Yes
ush^f06555		piggyBac transposase	2	--
ush^rev24	hypomorph	P-element activity	0	Yes
ush^rev3	loss of function	P-element activity	0	--
ush^rev4			0	--
ush^rev5			0	--
ush^unspecified			0	--

Alleles Carried on Transgenic Constructs ( 6 )

For All Alleles Carried on Transgenic Constructs Show

Allele of ush	Mutagen	Stocks	Known lesion
ush^GD1262	in vitro construct \| RNAi in vitro construct \| regulatory fusion	1	Yes
ush^Scer\UAS.cCa	in vitro construct \| regulatory fusion	0	Yes
ush^Scer\UAS.cFa	in vitro construct \| regulatory fusion	0	Yes
ush^fl.cFa	in vitro construct \| other	0	Yes
ush^hs.PC	in vitro construct \| regulatory fusion	0	Yes
ush^tCa	in vitro construct \| genomic fragment	0	Yes

Aneuploid Aberrations

Useful deficiency

Df(2L)al

Useful duplication

Dp(2;2)M24F⁺14

Disrupted in

Df(2L)BSC107

(Deal and Cook, 2005.3.10)

Df(2L)BSC16

(Deal and Cook, 2002.7.14)

Df(2L)TE99(Z)XW88

(Franc et al., 1999)

Df(2L)al

(Franc et al., 1999, Tearle and Nusslein-Volhard, 1987, Harbecke and Lengyel, 1995, Goldman-Levi et al., 1996)

Df(2L)ush^rev18

(Cubadda et al., 1997)

In(2L)TE99(Z)XR93

(Brentrup et al., 2000)

In(2L)Tg^R+1

(Cubadda et al., 1997)

Tp(1;2)TE21Ca

(Heitzler, 1999.7.20, Cubadda et al., 1997)

Partially disrupted in

Df(2L)TE99(Z)XW88

(Heitzler, 1999.7.20)

In(2L)TE99(Z)XW88-DV1

(Heitzler, 1999.7.20)

Transgenic Constructs & Insertions

Transgenic Constructs

Type of construct

Name

Expression data

reporter construct

P{ush-lacZ.-1014.-352}

P{ush-lacZ.-1243.-956}

P{ush-lacZ.-12475.-6925}

P{ush-lacZ.-1421.-1215}

P{ush-lacZ.-1421.-25}

P{ush-lacZ.-1421.-956}

P{ush-lacZ.-174.-25}

P{ush-lacZ.-174.-85}

P{ush-lacZ.-2190.-1421}

P{ush-lacZ.-2190.-25}

P{ush-lacZ.-237.-25}

P{ush-lacZ.-420.-172}

P{ush-lacZ.-420.-25}

P{ush-lacZ.-7462.-25}

P{ush-lacZ.1809.7908}

P{ush-lacZ.6640.12678}

UAS construct

P{GD1262}

P{UAS-ush.C}

P{UAS-ush.F}

characterization construct

P{ush^tCa}

heat-shock construct

P{hs-ush.C}

Insertions

Type of insertions

Name

Expression data

miscellaneous insertions

PBac{WH}ush^f06555

P{lacZ}ush^rev5

insertion of enhancer trap binary system

Mi{ET1}ush^MB02155

P{GawB}NP5133

P{GawB}ush^MD751

Yes

insertion of enhancer trap

P{lacZ}ush¹⁵¹³

Related Comments

Please look at the allele reports for the complete phenotype data

Mutations in zygotic gene ush do not interact with RpII140^wimp.

(Parkhurst and Ish-Horowicz, 1991)

Zygotically active locus involved in the terminal developmental program in the embryo.

(Strecker et al., 1991)

A member of the ush-group of genes which are required for maintenance of the amnioserosa once it has differentiated.

(Frank and Rushlow, 1996)

S2-derived S2-NP cells are treated with dsRNA made from templates generated with primers directed against ush to assess the role of this gene in Stat92E tyrosine phosphorylation.

(Baeg et al., 2005)

Gene Ontology: Function, Process & Cellular Component ( 22 )

Molecular Function

CV term

Evidence

References

ligand-dependent nuclear receptor activity

non-traceable author statement

(FlyBase, 1992-)

protein binding

inferred from physical interaction with FLYBASE:srp; FB:FBgn0003507

(Waltzer et al., 2002)