Gene Dmel\stich1

(Szeged Stock Center, 1998-)

86B-86B

(Prokopenko, 1999.8.5)

86A-86A

(determined by in situ hybridisation)

86A-86A

(determined by in situ hybridisation)

(Deak et al., 1997)

86A-86A

(determined by in situ hybridisation)

Experimentally Determined Recombination Data

Location

Left of (cM)

Right of (cM)

Notes

Gene Model & Products

Comments on Gene Model

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Associated CDS (aa)

Additional Transcript Data & Comments

Reported size (kB)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

RefSeq ID

GenBank protein

Additional Polypeptide Data & Comments

Reported size (kDa)

Comments

External Data

Crossreferences

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

•

Orange subgroup (IPR018352)

Orange (IPR003650)

Myc-type, basic helix-loop-helix (bHLH) domain (IPR011598)

Sequences Consistent with the Gene Model

DDBJ /
EMBL /
GenBank

DNA sequence

Protein sequence

Name

Q8MRI9

Mapped Features

Type

Symbol & Location

Additional Notes

References

External Data

Crossreferences

Expression Data

Transcript Expression

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 8

anterior midgut primordium

posterior midgut primordium

embryonic stage 9 -- 17

embryonic/larval gut

embryonic stage 12 -- 16

organism | segmentally repeated

Comment:segmentally repeated pattern in many tissues

embryonic stage 15

amnioserosa

embryonic head

embryonic/larval posterior spiracle

embryonic/larval trachea

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

Additional Descriptive Data

Marker for

Subcellular Localization (GO Cellular Component)

CV term

Evidence

References

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

Reference

See Gelbart and Emmert, 2010.10.13 for analysis details and data files for all genes.

FlyAtlas Anatomy Microarray

modENCODE Anatomy RNA-Seq

modENCODE Development RNA-Seq

modENCODE Cell Lines RNA-Seq

modENCODE Treatments RNA-Seq

Expression Clusters

External Data & Images

(FlyBase Curators et al., 2004-)

Alleles & Phenotypes

Summary of Allele Phenotypes

Lethality

Allele

lethal | recessive

lethal | recessive, with Scer\GAL4[-]:

stich1^EP359

Phenotype manifest in

Allele

chordotonal organ

stich1^D233

neuron | embryonic stage

stich1^S143702

Classical Alleles ( 4 )

For All Classical Alleles Show

Allele of stich1	Mutagen	Stocks	Known lesion
stich1^D233	ethyl methanesulfonate	1	--
stich1⁴⁶³		0	--
stich1^EP359	P-element activity	0	--
stich1^S143702	Delta2-3 P-element activity	0	Yes

Alleles Carried on Transgenic Constructs ( 0 )

For All Alleles Carried on Transgenic Constructs Show

Allele of stich1	Class	Mutagen	Stocks	Known lesion

Aneuploid Aberrations

Disrupted in

Df(3R)hth

(Dubruille et al., 2002)

Df(3R)S143702

(Dubruille et al., 2002)

Not disrupted in

Df(3R)Rfx⁴⁹

(Dubruille et al., 2002)

Transgenic Constructs & Insertions

Transgenic Constructs

Type of construct

Name

Expression data

Insertions

Type of insertions

Name

Expression data

insertion of mobile activating element

P{EP}EP3120

P{EP}EP3532

P{EP}stich1^EP359

insertion of enhancer trap

P{lacW}stich1^S143702

insertion of enhancer trap binary system

P{GawB}stich1⁴⁶³

Gene Ontology: Function, Process & Cellular Component ( 4 unique terms )

Terms Based on Experimental Evidence ( 0 terms )

Terms Based on Predictions or Assertions ( 4 terms )

Molecular Function

CV term

Evidence

References

DNA binding

inferred from electronic annotation with InterPro:IPR003650

protein dimerization activity

inferred from electronic annotation with InterPro:IPR011598

(FlyBase Curators et al., 2004-)

Biological Process

CV term

Evidence

References

peripheral nervous system development

traceable author statement

(Salzberg et al., 1994, Prokopenko et al., 2000)

regulation of transcription, DNA-dependent

inferred from electronic annotation with InterPro:IPR003650

(FlyBase Curators et al., 2004-)

Cellular Component ( 0 terms)

Sequence Ontology: Class of Gene

gene

Interactions & Pathways

Summary of Physical Interactions

Summary of Genetic Interactions

Interacts with

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

stich1 allele

Gene

References

External Data

Orthologs

OrthoDB Orthologs (0) - based on analysis using Dmel annotation version 5.41

OrthoDB Ortholog Groups

OrthoDB orthology group searches

(Waterhouse et al., 2011, Nucleic Acids Res. 39(Database issue): D283--D288)

Drosophila inclusive ortholog search

No orthologs identified

Dipteran inclusive ortholog search

No orthologs identified

Insect inclusive ortholog search

No orthologs identified

Arthropod inclusive ortholog search

No orthologs identified

Metazoa inclusive ortholog search

No orthologs identified

Orthologs in Drosophila Species (None identified)

No orthologies identified

Orthologs in non-Drosophila Dipterans (None identified)

No non-Drosophilid orthologies identified

Orthologs in non-Dipteran Insects (None identified)

No non-Dipteran orthologies identified

Orthologs in non-Insect Arthropods (None identified)

No non-Insect Arthropod orthologies identified

Orthologs in non-Arthropod Metazoa (None identified)

No non-Arthropod Metazoa orthologies identified

Human Orthologs (0)

Gene

OMIM

HGNC

AAA Orthologs (0) based on analysis using Dmel annotation version 4.3

No orthologs identified

Stocks & Reagents

Stocks Listed in FlyBase ( 1 )

Bloomington

4391

y¹ w¹; stich1^D233, P{lacW}64A th¹ st¹ cu¹ sr¹ e^s ca¹/TM6B, P{iab-2(1.7)lacZ}6B, Tb¹

Genomic Clones ( 0 )

cDNA Clones ( 0 )

cDNA Clones, Fully Sequenced

BDGP DGC clones

Other clones

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi & Array Information

Antibody Information

Other Information

Discoverer

Etymology

Identification

Relationship to Other Genes

Source for database identity of

Source for database merge of

Additional comments

The relationship between "stich1" and "jumu" is unclear. They may be allelic. "stich1^EP359" fails to complement "stich1^S143702" and "stich1^D233" but the P{EP} insertion in "stich1^EP359" maps to the first intron of "jumu". Flanking sequence recovered from either side of the P{lacW} insertion in "stich1^S143702" are located at least 28kb apart on the genomic sequence. This suggests that there may be 2 different P{lacW} elements that map 28kb apart in the "l(3)S143702" line, or the P{lacW}stich1^S143702 insertion may be associated with a 28kb deletion. One set of flanking sequence indicates that the P{lacW} element is inserted approximately 90bp upstream of the 5' end of the GM05287 cDNA. The other set of flanking sequence maps within the first intron of "jumu", suggesting that both GM05287 and "jumu" may be affected in the "l(3)S143702" line. The molecular nature of the "stich1^D233" mutation is not known.

It is not clear which gene is affected in "stich1" mutants, since the lesion in the "l(3)S143702""stich1" mutant allele contains a deficiency which removes both "jumu" and "Rfx" sequences, associated with a P{lacW} insertion which is within the "jumu" gene and maps only approximately 90bp upstream of the 5' end of the "CG17100" GM05287 cDNA. "stich1" mutants complement "Rfx" mutants, so "stich1" likely corresponds to one of "jumu" and "CG17100" (see FBrf0151940 and FBrf0131381).

(FlyBase, 1992-)

Other Comments

Mutation affects neuronal cell morphology, alters the shape of chordotonal neurons.

stich1 is required for PNS development in the embryo.