FlyBase Gene Report: Dmel\Pa1

General Information

Symbol

Dmel\Pa1

Species

D. melanogaster

Name

PTIP associated 1

Annotation Symbol

CG11750

Feature Type

protein_coding_gene

FlyBase ID

FBgn0287454

Gene Model Status

Current

Stock Availability

5 publicly available

Gene Summary

Contribute a Gene Snapshot for this gene.

All Summaries

Alliance
Auto summary
Gene Group
Interactive Fly

Also Known As

anon-10Ba

Key Links

Genomic Location

Cytogenetic map

10B5-10B5

Sequence location

X:11,359,236..11,360,929 [+]

Recombination map

1-34

RefSeq locus

NC_004354 REGION:11359236..11360929

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 (1 term)

Molecular Function (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Biological Process (0 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (0 terms)

Cellular Component (1 term)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

part_of MLL3/4 complex

inferred from direct assay

(Mohan et al., 2011)

Terms Based on Predictions or Assertions (0 terms)

Gene Group (FlyBase)

TRR COMPLEX

Protein Family (UniProt)

Protein Signatures (InterPro)

PTIP-associated protein 1

Summaries

Gene Group (FlyBase)

TRR COMPLEX -: The Trithorax-related (Trr) complex is a COMPASS-like complex that mediates the methylation of histone H3K4 and demethylation of histone H3K27. (Adapted from FBrf0216343 and FBrf0218498).

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\Pa1 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 Q9VYZ8)

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 5.45

Gene model reviewed during 5.52

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

Pa1-RA

FBtr0073456

NM_132484

1628

122

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

UniProt

RefSeq ID

GenBank

Pa1-PA

FBpp0073312

13.2

122

4.42

Q9VYZ8

NP_572712

AAF48034

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

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

PTIP-associated protein 1

Linkouts

Sequences Consistent with the Gene Model

Mapped Features

Click to get a list of regulatory features (enhancers, TFBS, etc.) and gene disruptions (point mutations, indels, etc.) within or overlapping Dmel\Pa1 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).

-0.63

Transcript Expression

in situ

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage 1 -- 3

organism

Comment: maternally deposited

(Fisher et al., 2012)

embryonic stage 4 -- 6

organism

(Fisher et al., 2012)

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

part_of MLL3/4 complex

inferred from direct assay

(Mohan et al., 2011)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\Pa1 in JBrowse

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

View exonic expression by developmental stage for Dmel\Pa1

View exonic expression by tissue for Dmel\Pa1

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

32079/tissue=All

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

FBgn0287454

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0030294

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

FBgn0287454

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

CG11750

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 2 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 6 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of Pa1

Transgenic constructs containing regulatory region of Pa1

Aberrations (Deficiencies and Duplications) ( 0 )

Inferred from experimentation ( 0 )

Inferred from location ( 15 )

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

viable

Pa1^f01412

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

Pa1^GD6674

viable, with Scer\GAL4^tin.CΔ4

Pa1^GD6674

Sterility

Allele

fertile

Pa1^f01412

Phenotype manifest in

Allele

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) (1)

Hsap\PAGR1

6 of 14

Yes

Model Organism Orthologs (via DIOPT v9.1)

Species\Gene Symbol

Score

Best Score

Best Reverse Score

Source

Alignment

Complementation?

Transgene?

Rattus norvegicus (Norway rat) (1)

Rnor\Pagr1

4 of 14

Yes

Mus musculus (laboratory mouse) (1)

Mmus\Pagr1a

4 of 14

Yes

Xenopus tropicalis (Western clawed frog) (2)

Xtro\gask1a

1 of 13

Yes

Xtro\pagr1

1 of 13

Yes

Danio rerio (Zebrafish) (1)

Drer\pagr1

5 of 14

Yes

Caenorhabditis elegans (Nematode, roundworm) (0)

Anopheles gambiae (African malaria mosquito) (1)

Agam\AgaP_AGAP003353

9 of 12

Yes

Arabidopsis thaliana (thale-cress) (0)

Saccharomyces cerevisiae (Brewer's yeast) (0)

Schizosaccharomyces pombe (Fission yeast) (0)

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:Pa1. 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) (0)

Human Disease Associations

FlyBase Human Disease Model Reports

Disease Ontology (DO) Annotations

Models Based on Experimental Evidence ( 1 )

Allele

Disease

Evidence

References

Pa1^KK110317

model of chromosome 16p11.2 deletion syndrome, 593-kb

CEA

(Iyer et al., 2018)

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 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?

PAGR1; PAXIP1 associated glutamate rich protein 1

6 of 14

612033

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

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

Pa1 - CG17002

experimental knowledge based

(Guruharsha et al., 2011)

Pa1 - CG3008

experimental knowledge based

(Guruharsha et al., 2011)

Pa1 - CG34159

experimental knowledge based

(Guruharsha et al., 2011)

Pa1 - CG7542

experimental knowledge based

(Guruharsha et al., 2011)

Pa1 - Cpsf6

experimental knowledge based

(Guruharsha et al., 2011)

Pa1 - Hcf

anti tag coimmunoprecipitation, peptide massfingerprinting

(Mohan et al., 2011)

Pa1 - Lpt

anti tag coimmunoprecipitation, peptide massfingerprinting

(Mohan et al., 2011)

Pa1 - MED11

experimental knowledge based

(Guruharsha et al., 2011)

Pa1 - MED14

experimental knowledge based

(Guruharsha et al., 2011)

Pa1 - MED15

experimental knowledge based

(Guruharsha et al., 2011)

Pa1 - MED16

experimental knowledge based

(Guruharsha et al., 2011)

Pa1 - MED17

experimental knowledge based

(Guruharsha et al., 2011)

Pa1 - MED18

experimental knowledge based

(Guruharsha et al., 2011)

Pa1 - MED20

experimental knowledge based

(Guruharsha et al., 2011)

Pa1 - MED6

experimental knowledge based

(Guruharsha et al., 2011)

Pa1 - MED7

experimental knowledge based

(Guruharsha et al., 2011)

Pa1 - Ncoa6

anti tag coimmunoprecipitation, peptide massfingerprinting

(Mohan et al., 2011)

Pa1 - Ptip

anti tag coimmunoprecipitation, peptide massfingerprinting

(Mohan et al., 2011)

Pa1 - Utx

anti tag coimmunoprecipitation, peptide massfingerprinting

(Mohan et al., 2011)

Pa1 - ash2

anti tag coimmunoprecipitation, peptide massfingerprinting

(Mohan et al., 2011)

Pa1 - boca

experimental knowledge based

(Guruharsha et al., 2011)

Pa1 - dsh

experimental knowledge based

(Guruharsha et al., 2011)

Pa1 - ebi

experimental knowledge based

(Guruharsha et al., 2011)

Pa1 - trr

anti tag coimmunoprecipitation, peptide massfingerprinting

(Mohan et al., 2011)

Pa1 - wds

anti tag coimmunoprecipitation, peptide massfingerprinting

(Mohan et al., 2011)

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

Pathways

Signaling Pathways (FlyBase)

Metabolic Pathways

FlyBase

External Links

External Data

Linkouts

Class of Gene

gene

nuclear_gene

protein_coding_gene

Genomic Location and Detailed Mapping Data

Chromosome (arm)

Recombination map

1-34

Cytogenetic map

10B5-10B5

Sequence location

X:11,359,236..11,360,929 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

10B5-10B5

Limits computationally determined from genome sequence between P{EP}CG11756^EP1610 and P{EP}CG32666^EP1452

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

1-34

(FlyBase, 2016)

1-36.1

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (5)

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

Bloomington

18438

w¹¹¹⁸ PBac{WH}Pa1^f01412

81999

y¹ sc^* v¹ sev²¹; P{TKO.GS04253}attP40

81717

y¹ sc^* v¹ sev²¹; P{SAM.dCas9.GS03980}attP40

VDRC

v101952

P{KK110317}VIE-260B

v45978

w¹¹¹⁸; P{GD6674}v45978

Genomic Clones (14)

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

cDNA Clones (46)

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

DPiM_RH21749

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.

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

RNAi and Array Information

Linkouts

Antibody Information

Laboratory Generated Antibodies

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

Identified as a 2kb transcript adjacent to dsh during a molecular analysis of dsh.

(Theisen et al., 1994)

Relationship to Other Genes

Source for database merge of

Source for merge of: CG11750 BcDNA:RE09126

(FlyBase, 1996-)

Source for merge of: CG11750 BcDNA:RH21749

(FlyBase, 1996-)

Source for merge of: Pa1 anon-10Ba

(FlyBase, 1996-)

Additional comments

Source for merge of Pa1 anon-10Ba was comparison of Figure 7A in FBrf0068710 with corresponding region of release 6 genome.

(FlyBase, 1996-)

Source for merge of CG11750 BcDNA:RE09126 was TrEMBL update ( date:020807 ).

(FlyBase, 1996-)

Source for merge of CG11750 BcDNA:RH21749 was TrEMBL update ( date:020807 ).

(FlyBase, 1996-)

Nomenclature History

Source for database identify of

Source for identity of: Pa1 CG11750

(Mohan et al., 2011)

Nomenclature comments

Etymology

Synonyms and Secondary IDs (10)

Reported As

Symbol Synonym

BcDNA:RE09126

BcDNA:RH21749

CG11750

(Mohan et al., 2011, Keleman et al., 2009.8.5, Legube et al., 2006)

PA1

(Cenik and Shilatifard, 2021, Shilatifard, 2012, Schuettengruber et al., 2011)

Pa1

(Martinez, 2025, Walther et al., 2024, Erokhin et al., 2023, Kang et al., 2022, Yusuff et al., 2021, Chetverina et al., 2020, Jiang et al., 2019, Baranski et al., 2018, Ma et al., 2018, Transgenic RNAi Project members, 2017-, John et al., 2016, Piunti and Shilatifard, 2016, Van Bortle et al., 2015, Bischof and FlyORF project members, 2014.6.20)

anon-10B

anon-10Ba

dPA1

(Mohan et al., 2011)

Name Synonyms

PTIP associated 1

(John et al., 2016)

PTIP-associated 1

(Piunti and Shilatifard, 2016)

anon-10Ba

Secondary FlyBase IDs

FBgn0030294
FBgn0047031
FBgn0047174
FBgn0014077

Datasets (0)

Study focus (0)

Experimental Role

Project

Project Type

Title

Study result (0)

Result

Result Type

Title

External Crossreferences and Linkouts ( 22 )

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.

32079

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.

Q9VYZ8

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

Q9VYZ8

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.

Q9VYZ8

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

32079/tissue=All

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

FBgn0287454

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

FBgn0287454

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

PTIP-associated protein 1

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

dme:Dmel_CG11750

MARRVEL_MODEL - MARRVEL (model organism gene)

32079

Linkouts

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0030294

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0287454

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

CG11750

References (46)

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

-0.63

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