FlyBase Gene Report: Dmel\Pif2

General Information

Symbol

Dmel\Pif2

Species

D. melanogaster

Name

PFTAIRE-interacting factor 2

Annotation Symbol

CG31483

Feature Type

protein_coding_gene

FlyBase ID

FBgn0046873

Gene Model Status

Current

Stock Availability

2 publicly available

Gene Snapshot

Contributions welcome

Other Summaries

Alliance
Auto summary
Interactive Fly

Also Known As

PIF-2

Key Links

Genomic Location

Cytogenetic map

83F1-83F1

Sequence location

3R:6,549,036..6,549,983 [+]

Recombination map

3-47.5

RefSeq locus

NT_033777 REGION:6549036..6549983

Sequence

Get Decorated FASTA

Genomic Maps

JBrowse GBrowse

Help me choose

Other Genome Views

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

Function

GO Summary Ribbons

Gene Ontology (GO) Annotations (1 term)

Molecular Function (1 term)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

enables protein binding

inferred from physical interaction with FLYBASE:Eip63E; FB:FBgn0005640

(Rascle et al., 2003)

Terms Based on Predictions or Assertions (0 terms)

Biological Process (0 terms)

There is no information supporting a Biological Process term for this gene. (Based on a review of available data before: 2006-08-03 )

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Cellular Component (0 terms)

There is no information supporting a Cellular Component term for this gene. (Based on a review of available data before: 2006-08-03 )

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Gene Group (FlyBase)

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Pif2 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

Comments on Gene Model

Gene model reviewed during 5.47

Sequence Ontology: Class of Gene

nuclear_gene

protein_coding_gene

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Pif2-RA

FBtr0081676

NM_169147

887

118

Additional Transcript Data and 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

Pif2-PA

FBpp0081176

11.6

118

7.05

NP_731093

AAF54113

Polypeptides with Identical Sequences

There is only one protein coding transcript and one polypeptide associated with this gene

Additional Polypeptide Data and Comments

Reported size (kDa)

Comments

External Data

Crossreferences

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\Pif2 using the Feature Mapper tool.

External Data

Crossreferences

Eukaryotic Promoter Database - A collection of databases of experimentally validated promoters for selected model organisms.

Pif2_1

Linkouts

Expression Data

Expression Summary Ribbons

Colored tiles in ribbon indicate that expression data has been curated by FlyBase for that anatomical location. Colorless tiles indicate that there is no curated data for that location.

For complete stage-specific expression data, view the modENCODE Development RNA-Seq section under High-Throughput Expression below.

Transcript Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

GBrowse - Visual display of RNA-Seq signals

View Dmel\Pif2 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\Pif2

View exonic expression by tissue for Dmel\Pif2

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

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

FBgn0046873

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

CG31483-RA

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

CG31483

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 0 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 1 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Pif2

Transgenic constructs containing regulatory region of Pif2

Aberrations (Deficiencies and Duplications) ( 0 )

Inferred from experimentation

Inferred from location

Phenotypes

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

Lethality

Allele

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

Pif2^GD5159

viable, with Scer\GAL4^tin.CΔ4

Pif2^GD5159

Phenotype manifest in

Allele

Orthologs

Downloads

Download All DIOPT Orthologs

Download All OrthoDB Orthologs

Human Orthologs (via DIOPT v8.0)

Homo sapiens (Human) (7)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Hsap\KRTAP4-2

1 of 15

Yes

Hsap\KRTAP4-4

1 of 15

Yes

Hsap\KRTAP4-5

1 of 15

Yes

Hsap\KRTAP5-9

1 of 15

Yes

Hsap\KRTAP9-3

1 of 15

Yes

Hsap\KRTAP9-4

1 of 15

Yes

Hsap\KRTAP9-6

1 of 15

Yes

Model Organism Orthologs (via DIOPT v8.0)

Mus musculus (laboratory mouse) (10)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Mmus\Gm11554

1 of 15

Yes

Mmus\Gm11555

1 of 15

Yes

Mmus\Gm11563

1 of 15

Yes

Mmus\Gm11569

1 of 15

Yes

Mmus\Gm36176

1 of 15

Yes

Mmus\Krtap1-3

1 of 15

Yes

Mmus\Krtap4-1

1 of 15

Yes

Mmus\Krtap4-2

1 of 15

Yes

Mmus\Krtap4-7

1 of 15

Yes

Mmus\Krtap4-13

1 of 15

Yes

Rattus norvegicus (Norway rat) (1)

Rnor\LOC690386

1 of 13

Yes

Xenopus tropicalis (Western clawed frog) (0)

No records found.

Danio rerio (Zebrafish) (0)

No records found.

Caenorhabditis elegans (Nematode, roundworm) (1)

Cele\Y39G8B.7

1 of 15

Yes

Arabidopsis thaliana (thale-cress) (0)

No records found.

Saccharomyces cerevisiae (Brewer's yeast) (0)

No records found.

Schizosaccharomyces pombe (Fission yeast) (0)

No records found.

Ortholog(s) in Drosophila Species (via OrthoDB v9.1) ( None identified )

No orthologies identified

Orthologs in non-Drosophila Dipterans (via OrthoDB v9.1) ( None identified )

No non-Drosophilid orthologies identified

Orthologs in non-Dipteran Insects (via OrthoDB v9.1) ( None identified )

No non-Dipteran orthologies identified

Orthologs in non-Insect Arthropods (via OrthoDB v9.1) ( None identified )

No non-Insect Arthropod orthologies identified

Orthologs in non-Arthropod Metazoa (via OrthoDB v9.1) ( None identified )

No non-Arthropod Metazoa orthologies identified

Paralogs

Downloads

Download All DIOPT Paralogs

Paralogs (via DIOPT v8.0)

Drosophila melanogaster (Fruit fly) (0)

No records found.

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

Disease Associations of Human Orthologs (via DIOPT v8.0 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?

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

Summary of Genetic Interactions

esyN Network Diagram

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

External Data

Linkouts

DroID - A comprehensive database of gene and protein interactions.

FBgn0046873

InterologFinder - Protein-protein interactions (PPI) from both known and predicted PPI data sets.

170876

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

External Data

Linkouts

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

3-47.5

Cytogenetic map

83F1-83F1

Sequence location

3R:6,549,036..6,549,983 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

83F1-83F1

Limits computationally determined from genome sequence between P{lacW}cas^j1C2 and P{PZ}lab⁰¹²⁴¹

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

83E7-83F2

(Rascle, 2000.6.1)

Experimentally Determined Recombination Data

Location

3-47.5

(FlyBase, 2016)

3-44.1

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (2)

VDRC

v51328

w¹¹¹⁸; P{GD5159}v51328

v51329

w¹¹¹⁸; P{GD5159}v51329

Genomic Clones (21)

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

cDNA Clones (19)

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 GBrowse for alignment of the cDNAs and ESTs to the gene model.

cDNA clones, fully sequenced

BDGP DGC clones

Other clones

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.

FBgn0046873

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0046873

GenomeRNAi - A database for cell-based and in vivo RNAi phenotypes and reagents

170876

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Other Information

Relationship to Other Genes

Source for database identify of

Source for database merge of

Source for merge of: Pif2 NEST:bs19e11 NEST:bs25a03 NEST:bs35g11

(Rana, 2004.7.8)

Source for merge of: Pif2 NEST:bs20e01

(FlyBase, 1996-)

Source for merge of: Pif2 NEST:bs18a02

(FlyBase, 1996-)

Source for merge of: Pif2 BcDNA:AT26658

(FlyBase, 1996-)

Additional comments

Release 2 annotation CG10690 maps to the same place in the genome as the release 3 annotation CG31483 (Pif2) but is on the opposite strand.

(FlyBase Genome Annotators, 2002-2003)

Source for merge of Pif2 NEST:bs18a02 was sequence comparison ( date:031024 ).

(FlyBase, 1996-)

Source for merge of Pif2 BcDNA:AT26658 was a shared cDNA ( date:030728 ).

(FlyBase, 1996-)

Other Comments

New annotation (CG31483) in release 3 of the genome annotation.

(FlyBase Genome Annotators, 2002-2003)

Origin and Etymology

Discoverer

Etymology

Identification

External Crossreferences and Linkouts ( 29 )

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.

170876

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

Other crossreferences

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