FlyBase Gene Report: Dmel\Tnpo

General Information

Symbol

Dmel\Tnpo

Species

D. melanogaster

Name

Transportin

Annotation Symbol

CG7398

Feature Type

protein_coding_gene

FlyBase ID

FBgn0024921

Gene Model Status

Current

Stock Availability

10 publicly available

Gene Summary

Transportin (Tnpo) encodes a protein involved in Hh signalling regulation by mediating the import of the transcription factor encoded by ci into the nucleus. [Date last reviewed: 2019-09-12] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Pathway
Gene Group
Interactive Fly

Also Known As

Trn, dTRN, dTnpo

Key Links

Genomic Location

Cytogenetic map

65A8-65A8

Sequence location

3L:6,193,480..6,200,385 [+]

Recombination map

3-16

RefSeq locus

NT_037436 REGION:6193480..6200385

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse

Other Genome Views

The following external sites may use different assemblies or annotations than FlyBase.

Function

Gene Ontology (GO) Annotations (10 terms)

Molecular Function (3 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

enables nuclear import signal receptor activity

inferred from direct assay

(Shi et al., 2014)

Terms Based on Predictions or Assertions (3 terms)

CV Term

Evidence

References

enables nuclear import signal receptor activity

inferred from biological aspect of ancestor with PANTHER:PTN000055427

(GO Reference Genome Project, 2011-)

enables nuclear localization sequence binding

inferred from sequence or structural similarity with SGD:S000000221

(Gene Ontology Curators, 2002-)

inferred from biological aspect of ancestor with PANTHER:PTN000055427

(GO Reference Genome Project, 2011-)

enables small GTPase binding

inferred from electronic annotation with InterPro:IPR001494

(InterPro Project Members, 2004-)

Biological Process (4 terms)

Terms Based on Experimental Evidence (2 terms)

CV Term

Evidence

References

involved_in NLS-bearing protein import into nucleus

inferred from mutant phenotype

(Shi et al., 2014)

involved_in positive regulation of smoothened signaling pathway

inferred from mutant phenotype

(Shi et al., 2014)

inferred from physical interaction with FLYBASE:ci; FB:FBgn0004859

(Han et al., 2019)

Terms Based on Predictions or Assertions (2 terms)

CV Term

Evidence

References

involved_in intracellular protein transport

inferred from electronic annotation with InterPro:IPR001494

(InterPro Project Members, 2004-)

involved_in protein import into nucleus

inferred from sequence or structural similarity with SGD:S000000221

(Gene Ontology Curators, 2002-)

inferred from biological aspect of ancestor with PANTHER:PTN000055427

(GO Reference Genome Project, 2011-)

inferred from electronic annotation with InterPro:IPR040122

(InterPro Project Members, 2004-)

Cellular Component (3 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (3 terms)

CV Term

Evidence

References

is_active_in cytoplasm

inferred from biological aspect of ancestor with PANTHER:PTN000055427

(GO Reference Genome Project, 2011-)

located_in cytosol

inferred from sequence or structural similarity with SGD:S000000221

(Gene Ontology Curators, 2002-)

is_active_in nucleus

inferred from biological aspect of ancestor with PANTHER:PTN000055427

(GO Reference Genome Project, 2011-)

Gene Group (FlyBase)

BETA IMPORTINS

Pathway (FlyBase)

POSITIVE REGULATORS OF HEDGEHOG SIGNALING PATHWAY

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Snapshot

Transportin (Tnpo) encodes a protein involved in Hh signalling regulation by mediating the import of the transcription factor encoded by ci into the nucleus. [Date last reviewed: 2019-09-12]

Gene Group (FlyBase)

BETA IMPORTINS -: Importin-β family proteins are nucleocytoplasmic transport receptors that import and export proteins and RNAs through the nuclear pores. In some import/export pathways, importin-β directly interacts with the cargo. For cargo containing a classical nuclear localization (cNLS) signal, importin-α acts as an adaptor linking the cargo to importin-β. (Adapted from FBrf0235243, FBrf0131350 and PMID:21029754).

Pathway (FlyBase)

POSITIVE REGULATORS OF HEDGEHOG SIGNALING PATHWAY -: Positive regulators of hedgehog signaling up-regulate the pathway, resulting in the activation of transcription of hh-responsive genes.

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Tnpo for information on other features

To submit a correction to a gene model please use the Contact FlyBase form

Protein Domains (via Pfam)

Isoform displayed:

Pfam protein domains

InterPro name

classification

start

end

Protein Domains (via SMART)

Isoform displayed:

SMART protein domains

InterPro name

classification

start

end

Structure

Protein 3D structure (Predicted by AlphaFold) (AlphaFold entry Q9VRV8)

If you don't see a structure in the viewer, refresh your browser.

Model Confidence:

Very high (pLDDT > 90)
Confident (90 > pLDDT > 70)
Low (70 > pLDDT > 50)
Very low (pLDDT < 50)

AlphaFold produces a per-residue confidence score (pLDDT) between 0 and 100. Some regions with low pLDDT may be unstructured in isolation.

Experimentally Determined Structures

Crossreferences

Comments on Gene Model

Low-frequency RNA-Seq exon junction(s) not annotated.

Gene model reviewed during 5.46

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Tnpo-RA

FBtr0077000

NM_058020

5496

893

Tnpo-RB

FBtr0077001

NM_168160

4704

893

Tnpo-RC

FBtr0077002

NM_168161

4666

893

Tnpo-RD

FBtr0333059

NM_001274543

5414

893

Additional Transcript Data and Comments

Reported size (kB)

2.788 (longest cDNA)

(Siomi et al., 1998)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

UniProt

RefSeq ID

GenBank

Tnpo-PA

FBpp0076708

101.5

893

4.70

FBpp0076709

101.5

893

4.70

FBpp0076710

101.5

893

4.70

FBpp0305273

101.5

893

4.70

Q9VRV8

NP_001261472

AGB94167

Polypeptides with Identical Sequences

The group(s) of polypeptides indicated below share identical sequence to each other.

893 aa isoforms: Tnpo-PA, Tnpo-PB, Tnpo-PC, Tnpo-PD

Additional Polypeptide Data and Comments

Reported size (kDa)

893 (aa)

(Siomi et al., 1998)

Comments

External Data

Crossreferences

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

Linkouts

Sequences Consistent with the Gene Model

Nucleotide / Polypeptide Records

UniProt

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Tnpo using the Feature Mapper tool.

External Data

Crossreferences

Linkouts

Expression Data

Testis-specificity index

The testis specificity index was calculated from modENCODE tissue expression data by Vedelek et al., 2018 to indicate the degree of testis enrichment compared to other tissues. Scores range from -2.52 (underrepresented) to 5.2 (very high testis bias).

-0.74

Transcript Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

mass spectroscopy

Stage

Tissue/Position (including subcellular localization)

Reference

adult stage

adult head

• membrane

(Aradska et al., 2015)

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\Tnpo in JBrowse

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

View exonic expression by developmental stage for Dmel\Tnpo

View exonic expression by tissue for Dmel\Tnpo

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

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

38721/tissue=All

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

FBgn0024921

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0024921

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

FBgn0024921

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

CG7398

Flygut - An atlas of the Drosophila adult midgut

FBgn0024921

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 6 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 11 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Tnpo

Transgenic constructs containing regulatory region of Tnpo

Aberrations (Deficiencies and Duplications) ( 1 )

Inferred from experimentation ( 1 )

Gene disrupted in

Df(3L)Exel8101

(Ryder, 2004.4.26)

Inferred from location ( 6 )

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

cell lethal | adult stage | somatic clone - tissue specific

Tnpo^Δ11

lethal

Tnpo^{CR92235-TG4.2}

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

Tnpo^GD33

lethal, with Scer\GAL4^ey.PH

Tnpo^HMJ23009

lethal, with Scer\GAL4^insc-Mz1407

lethal | pupal stage, with Scer\GAL4^pnr-MD237

Tnpo^GD33

lethal - all die before end of larval stage

Tnpo^G736D

lethal - all die before end of larval stage, with Scer\GAL4^da.G32

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

Tnpo^HMJ23009

lethal - all die before end of larval stage (with Df(3L)Exel8101)

lethal - all die before end of larval stage (with Tnpo^{CR92235-TG4.2})

lethal - all die before end of larval stage (with Tnpo^G736D)

lethal - all die before end of larval stage (with Tnpo^Δ11)

lethal - all die before end of pupal stage, with Scer\GAL4^da.G32

Tnpo^GS11030

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

Tnpo^HMJ23009

lethal - all die before end of pupal stage, with Scer\GAL4^ey.PH

Tnpo^HMJ23009

lethal - all die before end of pupal stage, with Scer\GAL4^nub.PK

Tnpo^HMJ23009

lethal - all die before end of pupal stage, with Scer\GAL4^pnr-MD237

Tnpo^GD14426

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

Tnpo^KK108990

lethal - all die before end of second instar larval stage

Tnpo^Δ11

lethal - all die before end of second instar larval stage (with Df(3L)Exel8101)

Tnpo^Δ11

lethal - all die during P-stage, with Scer\GAL4^Mef2.PR

partially lethal - majority die | pupal stage, with Scer\GAL4^pnr-MD237

Tnpo^GD33

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

Tnpo^GD14426

viable, with Scer\GAL4^Mef2.PR

Tnpo^GD2529

viable, with Scer\GAL4^pnr-MD237

Tnpo^GD2529

viable, with Scer\GAL4^tin.CΔ4

Sterility

Allele

female sterile, with Scer\GAL4^nanos.PG

Other Phenotypes

Allele

abnormal neuroanatomy | larval stage, with Scer\GAL4^insc-Mz1407

Tnpo^GD33

abnormal neurophysiology | adult stage, with Scer\GAL4^ninaE.PU

decreased size | adult stage, with Scer\GAL4^ey.PH

decreased size | adult stage, with Scer\GAL4^GMR.PF

Tnpo^GS11030

decreased size | adult stage, with Scer\GAL4^nub.PK

Tnpo^KK108990

decreased size | adult stage | somatic clone - tissue specific

Tnpo^G736D

short lived | heat sensitive, with Scer\GAL4^tin.CΔ4

Tnpo^GD14426

short lived | RU486 conditional, with Scer\GAL4^da.Switch.PT

Tnpo^HMJ23009

short lived | RU486 conditional, with Scer\GAL4^{elav.Switch.PO}

Tnpo^HMJ23009

some die during pupal stage, with Scer\GAL4^pnr-MD237

Tnpo^GD14426

some die during second instar larval stage (with Df(3L)Exel8101)

Tnpo^{CR92235-TG4.2}

some die during third instar larval stage (with Df(3L)Exel8101)

Tnpo^{CR92235-TG4.2}

visible, with Scer\GAL4^pnr-MD237

Tnpo^GD33

visible | adult stage, with Scer\GAL4^ey.PH

Tnpo^GS11030

visible | adult stage, with Scer\GAL4^GMR.PF

Tnpo^GS11030

visible | adult stage, with Scer\GAL4^nub.PK

visible | adult stage | somatic clone - tissue specific

Tnpo^G736D

Phenotype manifest in

Allele

embryonic/larval lymph gland, with Scer\GAL4^dome-PG14

Tnpo^GD33

embryonic/larval lymph gland, with Scer\GAL4^HCH.Hand, Scer\GAL4^Hml.Δ

Tnpo^GD33

embryonic/larval lymph gland, with Scer\GAL4^Hml.Δ

Tnpo^GD33

eye, with Scer\GAL4^ey.PH

eye, with Scer\GAL4^GMR.PF

eye | somatic clone - tissue specific

ganglion mother cell | larval stage, with Scer\GAL4^insc-Mz1407

Tnpo^GD33

haltere, with Scer\GAL4^nub.PK

Tnpo^KK108990

larval brain | larval stage, with Scer\GAL4^insc-Mz1407

Tnpo^GD2529

larval neuroblast | larval stage, with Scer\GAL4^insc-Mz1407

Tnpo^GD33

mesonotum, with Scer\GAL4^pnr-MD237

Tnpo^GD33

ommatidium, with Scer\GAL4^GMR.PF

ommatidium | somatic clone - tissue specific

Tnpo^G736D

retina, with Scer\GAL4^ninaE.PU

wing, with Scer\GAL4^nub.PK

wing | somatic clone - tissue specific

Tnpo^G736D

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) (8)

Hsap\TNPO1

13 of 14

Yes

Hsap\TNPO2

12 of 14

Yes

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) (7)

Rnor\Tnpo1

13 of 14

Yes

Rnor\Tnpo2

13 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Mus musculus (laboratory mouse) (7)

Mmus\Tnpo1

13 of 14

Yes

Mmus\Tnpo2

12 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Xenopus tropicalis (Western clawed frog) (6)

Xtro\tnpo2

10 of 13

Yes

Xtro\tnpo1

8 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

Danio rerio (Zebrafish) (11)

Drer\tnpo1

13 of 14

Yes

Drer\tnpo2

13 of 14

Yes

Drer\LOC100005536

5 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

Caenorhabditis elegans (Nematode, roundworm) (3)

Cele\imb-2

13 of 14

Yes

Cele\imb-1

1 of 14

Cele\imb-3

1 of 14

Anopheles gambiae (African malaria mosquito) (5)

Agam\AgaP_AGAP005892

12 of 12

Yes

1 of 12

1 of 12

1 of 12

1 of 12

Arabidopsis thaliana (thale-cress) (11)

Atha\TRN1

12 of 13

Yes

Atha\AT2G16960

6 of 13

Yes

Atha\AT1G27210

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

Saccharomyces cerevisiae (Brewer's yeast) (5)

Scer\KAP104

12 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

Schizosaccharomyces pombe (Fission yeast) (4)

Spom\kap104

12 of 12

Yes

Spom\kap95

1 of 12

Spom\kap123

1 of 12

Spom\sal3

1 of 12

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:Tnpo. 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) (6)

CG8219

11 of 13

Apl

3 of 13

3 of 13

3 of 13

3 of 13

1 of 13

Human Disease Associations

FlyBase Human Disease Model Reports

neurodevelopmental disorder with intellectual disability, hypotonia, impaired speech, and dysmorphic facies

Disease Ontology (DO) Annotations

Models Based on Experimental Evidence ( 6 )

Allele

Disease

Evidence

References

Tnpo^GS11030

model of intellectual developmental disorder with hypotonia, impaired speech, and dysmorphic facies

CEC

(Goodman et al., 2021)

CEA

(Goodman et al., 2021)

Tnpo^KK108990

model of intellectual developmental disorder with hypotonia, impaired speech, and dysmorphic facies

CEC

(Goodman et al., 2021)

Tnpo^HMJ23009

model of intellectual developmental disorder with hypotonia, impaired speech, and dysmorphic facies

CEC

(Goodman et al., 2021)

CEA

(Goodman et al., 2021)

Tnpo^{CR92235-TG4.2}

model of intellectual developmental disorder with hypotonia, impaired speech, and dysmorphic facies

CEC

(Goodman et al., 2021)

Tnpo^G736D

model of intellectual developmental disorder with hypotonia, impaired speech, and dysmorphic facies

CEC

(Goodman et al., 2021)

Tnpo^Δ11

model of intellectual developmental disorder with hypotonia, impaired speech, and dysmorphic facies

CEC

(Goodman et al., 2021)

Potential Models Based on Orthology ( 1 )

Human Ortholog

Disease

Evidence

References

TNPO2; transportin 2

model of intellectual developmental disorder with hypotonia, impaired speech, and dysmorphic facies

IEA

(FlyBase, 2019-)

Modifiers Based on Experimental Evidence ( 3 )

Allele

Disease

Interaction

References

Tnpo^GD33

exacerbates amyotrophic lateral sclerosis type 6

modeled by Hsap\FUS^{UAS.cJa.Tag:HA}

(Jäckel et al., 2015)

modeled by Hsap\FUS^{P525L.UAS.cJa.Tag:HA}

(Jäckel et al., 2015)

ameliorates amyotrophic lateral sclerosis type 6

modeled by Hsap\FUS^UAS.Tag:HA

(Guo et al., 2018)

modeled by Hsap\FUS^{R518K.UAS.Tag:HA}

(Guo et al., 2018)

modeled by Hsap\FUS^{R521H.UAS.Tag:HA}

(Guo et al., 2018)

exacerbates frontotemporal dementia

modeled by Hsap\FUS^{UAS.cJa.Tag:HA}

(Jäckel et al., 2015)

modeled by Hsap\FUS^{P525L.UAS.cJa.Tag:HA}

(Jäckel et al., 2015)

ameliorates inclusion body myopathy with early-onset Paget disease of bone with or without frontotemporal dementia 2

modeled by Hsap\HNRNPA2B1^D290V.UAS

(Guo et al., 2018)

Tnpo^KK108990

exacerbates amyotrophic lateral sclerosis

modeled by Zzzz\GGGGCC^58.UAS.EGFP

(Freibaum et al., 2015)

exacerbates frontotemporal dementia

modeled by Zzzz\GGGGCC^58.UAS.EGFP

(Freibaum et al., 2015)

ameliorates frontotemporal dementia and/or amyotrophic lateral sclerosis 1

modeled by Zzzz\poly-PR^{25.UAS.Tag:FLAG}

(Boeynaems et al., 2016)

Tnpo^GD14426

exacerbates amyotrophic lateral sclerosis type 6

modeled by Hsap\FUS^{UAS.cJa.Tag:HA}

(Jäckel et al., 2015)

modeled by Hsap\FUS^{P525L.UAS.cJa.Tag:HA}

(Jäckel et al., 2015)

exacerbates frontotemporal dementia

modeled by Hsap\FUS^{UAS.cJa.Tag:HA}

(Jäckel et al., 2015)

modeled by Hsap\FUS^{P525L.UAS.cJa.Tag:HA}

(Jäckel et al., 2015)

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?

13 of 14

12 of 14

INTELLECTUAL DEVELOPMENTAL DISORDER WITH HYPOTONIA, IMPAIRED SPEECH, AND DYSMORPHIC FACIES; IDDHISD

intellectual developmental disorder with hypotonia, impaired speech, and dysmorphic facies

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.

Dmel gene

Ortholog showing functional complementation

Supporting References

Tnpo

Hsap\TNPO1

(Jäckel et al., 2015)

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

Tnpo - Act5C

pull down, autoradiography

(Borkúti et al., 2022)

Tnpo - ci

pull down, anti tag western blot, anti tag coimmunoprecipitation

(Han et al., 2019, Shi et al., 2014)

Tnpo - sqd

pull down, autoradiography

(Norvell et al., 1999)

Summary of Genetic Interactions

Interaction Browsers

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

External Data

Linkouts

BioGRID - A database of protein and genetic interactions.

64174

DroID - A comprehensive database of gene and protein interactions.

FBgn0024921

MIST (protein-protein) - An integrated Molecular Interaction Database

38721

Pathways

Signaling Pathways (FlyBase)

POSITIVE REGULATORS OF HEDGEHOG SIGNALING PATHWAY

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.

Nucleocytoplasmic transport

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

Class of Gene

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-16

Cytogenetic map

65A8-65A8

Sequence location

3L:6,193,480..6,200,385 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

65A8-65A8

Limits computationally determined from genome sequence between P{PZ}l(3)02094⁰²⁰⁹⁴ and P{lacW}l(3)L4060^L4060

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

3-16

(FlyBase, 2016)

3-14.4

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (10)

Aberrations including deletions of this gene Aberrations including duplications of this gene

Bloomington

27546

y¹ v¹; P{TRiP.JF02697}attP2

61230

y¹ v¹; P{TRiP.HMJ23009}attP40

50732

y¹ sc^* v¹ sev²¹; P{TRiP.HMS02968}attP2

91480

y¹ w^*; TI{CRIMIC.TG4.2}Tnpo^{CR92235-TG4.2}/TM3, Sb¹ Ser¹

Kyoto

205260

y¹ w^67c23; P{GSV6}Tnpo^GS11030/TM3, Sb¹ Ser¹

NIG-Fly

7398R-1

P{NIG.7398R}1

HMJ23009

y¹ v¹; P{TRiP.HMJ23009}attP40/CyO

HMS02968

y¹ sc^* v¹ sev²¹; P{TRiP.HMS02968}attP2

VDRC

v105181

P{KK108990}VIE-260B

v6543

w¹¹¹⁸; P{GD33}v6543

Genomic Clones (18)

Please Note FlyBase no longer curates genomic clone accessions so this list may not be complete

cDNA Clones (149)

Please Note This section lists cDNAs and ESTs that fall within the genomic extent of the gene model, which may include cDNAs and ESTs of genes within introns, or of overlapping genes. Please see JBrowse for alignment of the cDNAs and ESTs to the gene model.

cDNA clones, fully sequenced

BDGP DGC clones

Other clones

FI21453

Drosophila Genomics Resource Center cDNA clones

For each fully sequenced cDNA the DGRC maintains various forms of the cDNA (e.g tagged or untagged) in several different host vectors for subsequent cloning and expression in Drosophila and Drosophila cell lines.

FBgn0024921

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0024921

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

S2 cells treated with dsRNA generated against this gene show reduced phagocytosis of Candida albicans compared to untreated cells.

(Stroschein-Stevenson et al., 2006)

Trn has been cloned and sequenced.

(Siomi et al., 1998)

Relationship to Other Genes

Source for database merge of

Additional comments

Nomenclature History

Source for database identify of

Source for identity of: Trn CG7398

(Gabrielian, 1999.11)

Source for identity of: Tnpo Trn

(FlyBase, 2009-)

Nomenclature comments

Symbol changed from 'Trn' to 'Tnpo' (as of FB2017_04) to reduce confusion with the different gene 'trn' (tartan, FBgn0010452). The symbol of 'Trn' (Transportin) was changed because: (i) it has a smaller associated literature than 'trn' (tartan); (ii) it was named/characterized subsequently to 'trn' (tartan) (1998/FBrf0103092 vs 1993/FBrf0064397); (iii) it was originally named (FBrf0103092) based on its homology to the human 'transportin 1' gene, which now has the symbol 'TNPO1' and is also the symbol used for the orthologous gene in other vertebrates.

(FlyBase, 2009-)

Etymology

Synonyms and Secondary IDs (17)

Reported As

Symbol Synonym

CG7398

(Hosono et al., 2015, Chen et al., 2012, Ni et al., 2010.12.1, Zhang et al., 2010, Keleman et al., 2009.8.5, Perkins et al., 2009, Haussmann et al., 2008, Huang et al., 2007, Kang et al., 2002, Lippai et al., 2000)

IMPβ2

(Hogarth et al., 2005)

Kapβ2

(Guo et al., 2018)

TRN

(Siomi, 1998.4.15)

(Anholt and Mackay, 2001)

Tnpo

(Borkúti et al., 2022, Kim et al., 2021, Park et al., 2020, Gene Disruption Project members, 2018-)

Trn

(Lassetter et al., 2023, Han et al., 2019, Boeynaems et al., 2016, Lee et al., 2016, Freibaum et al., 2015, Hsiao et al., 2014, Mondal et al., 2014, Shi et al., 2014, Czech et al., 2013, Twyffels et al., 2013, Hazelett et al., 2012, Japanese National Institute of Genetics, 2012.5.21, Nose, 2012, Lindquist et al., 2011, Neumüller et al., 2011, Doheny et al., 2008, Baeg et al., 2007, Bandyopadhyay et al., 2006, Stroschein-Stevenson et al., 2006)

Trn1

(Tekotte et al., 2002)

dTNPO

(Jäckel et al., 2015)

dTRN

(Allemand et al., 2002, Siomi et al., 1998)

dTnpo

(Casas-Tintó, 2024, Goodman et al., 2021)

dTrn

(Twyffels et al., 2013)

Name Synonyms

Karyopherin-β2

(Guo et al., 2018)

Transportin

(Nakayama et al., 2014, Shi et al., 2014, Bandyopadhyay et al., 2006, Hogarth et al., 2005, Anholt and Mackay, 2001)

Transportin-1

(Boeynaems et al., 2016)

transportin

(Twyffels et al., 2013, Kang et al., 2002, Siomi, 1998.4.15)

transportin-1

(Boeynaems et al., 2016)

Secondary FlyBase IDs

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 68 )

Sequence Crossreferences

NCBI Gene - Gene integrates information from a wide range of species. A record may include nomenclature, Reference Sequences (RefSeqs), maps, pathways, variations, phenotypes, and links to genome-, phenotype-, and locus-specific resources worldwide.

38721

GenBank Nucleotide - A collection of sequences from several sources, including GenBank, RefSeq, TPA, and PDB.

GenBank Protein - A collection of sequences from several sources, including translations from annotated coding regions in GenBank, RefSeq and TPA, as well as records from SwissProt, PIR, PRF, and PDB.

RefSeq - A comprehensive, integrated, non-redundant, well-annotated set of reference sequences including genomic, transcript, and protein.

UniProt/GCRP - The gene-centric reference proteome (GCRP) provides a 1:1 mapping between genes and UniProt accessions in which a single 'canonical' isoform represents the product(s) of each protein-coding gene.

Q9VRV8

UniProt/TrEMBL - Automatically annotated and unreviewed records of protein sequence and functional information

Other crossreferences

AlphaFold DB - AlphaFold provides open access to protein structure predictions for the human proteome and other key proteins of interest, to accelerate scientific research.

Q9VRV8

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

38721/tissue=All

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

FBgn0024921

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

FBgn0024921

FlyMine - An integrated database for Drosophila genomics

FBgn0024921

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

KEGG Genes - Molecular building blocks of life in the genomic space.

dme:Dmel_CG7398

MARRVEL_MODEL - MARRVEL (model organism gene)

38721

Linkouts

BioGRID - A database of protein and genetic interactions.

64174

Drosophila Genomics Resource Center - Drosophila Genomics Resource Center (DGRC) cDNA clones

FBgn0024921

DroID - A comprehensive database of gene and protein interactions.

FBgn0024921

DRSC - Results frm RNAi screens

FBgn0024921

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0024921

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0024921

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

CG7398

Flygut - An atlas of the Drosophila adult midgut

FBgn0024921

FlyMet - A comprehensive tissue-specific metabolomics resource for Drosophila.

FBgn0024921

iBeetle-Base - RNAi phenotypes in the red flour beetle (Tribolium castaneum)

KEGG Pathways - A collection of manually drawn pathway maps representing knowledge of molecular interaction, reaction and relation networks.

Nucleocytoplasmic transport

MIST (protein-protein) - An integrated Molecular Interaction Database

38721

Reactome - An open-source, open access, manually curated and peer-reviewed pathway database.

References (78)

The following external sites may use different assemblies or annotations than FlyBase.

-0.74

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