FlyBase Gene Report: Dmel\CstF64

General Information

Symbol

Dmel\CstF64

Species

D. melanogaster

Name

Cleavage stimulation factor 64 kD subunit

Annotation Symbol

CG7697

Feature Type

protein_coding_gene

FlyBase ID

FBgn0027841

Gene Model Status

Current

Stock Availability

4 publicly available

Gene Summary

Cleavage stimulation factor 64 kD subunit (CstF64) encodes an RNA-binding protein that is part of the cleavage stimulation factor (CstF) complex. As part of the CstF complex, it interacts with the polyadenylation protein encoded bysu(f). The product of CstF64 is necessary for the cleavage and polyadenylation of most mRNAs and for 3' end processing of mRNAs that encode the replication-dependent histones. [Date last reviewed: 2018-09-27] (FlyBase Gene Snapshot)

All Summaries

Gene Snapshot
Alliance
Auto summary
Gene Group
Interactive Fly

Also Known As

CstF-64

Key Links

Genomic Location

Cytogenetic map

91B8-91B8

Sequence location

3R:18,659,618..18,661,126 [+]

Recombination map

3-64

RefSeq locus

NT_033777 REGION:18659618..18661126

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 (6 terms)

Molecular Function (3 terms)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (3 terms)

CV Term

Evidence

References

enables mRNA binding

inferred from biological aspect of ancestor with PANTHER:PTN000566843

(GO Reference Genome Project, 2011-)

inferred from sequence or structural similarity

(Lasko, 2000)

enables nucleic acid binding

inferred from electronic annotation with InterPro:IPR035979

(InterPro Project Members, 2004-)

enables RNA binding

inferred from electronic annotation with InterPro:IPR000504

(InterPro Project Members, 2004-)

Biological Process (1 term)

Terms Based on Experimental Evidence (0 terms)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

involved_in mRNA 3'-end processing

inferred from electronic annotation with InterPro:IPR026896

(InterPro Project Members, 2004-)

Cellular Component (2 terms)

Terms Based on Experimental Evidence (1 term)

CV Term

Evidence

References

part_of mRNA cleavage stimulating factor complex

inferred from direct assay

(Sullivan et al., 2009)

Terms Based on Predictions or Assertions (1 term)

CV Term

Evidence

References

part_of mRNA cleavage and polyadenylation specificity factor complex

inferred from biological aspect of ancestor with PANTHER:PTN000566843

(GO Reference Genome Project, 2011-)

Gene Group (FlyBase)

HISTONE PRE-MRNA CLEAVAGE COMPLEX

POLYADENYLATION FACTORS

Protein Family (UniProt)

Protein Signatures (InterPro)

Summaries

Gene Snapshot

Gene Group (FlyBase)

HISTONE PRE-MRNA CLEAVAGE COMPLEX -: Histone cleavage complex includes endonucleases and polyadenylation factors involved in processing of histone pre-mRNA. (Adapted from FBrf0223323 and PMID:23071092).
POLYADENYLATION FACTORS -: Polyadenylation factors associate with snRNPs, cleavage complexes and other factors to mediate the 3' end processing of pre-mRNA. (Adapted from FBrf0223323).

Gene Model and Products

Number of Transcripts

Number of Unique Polypeptides

Please see the JBrowse view of Dmel\CstF64 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 Q9VE52)

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

Gene model reviewed during 5.53

Transcript Data

Annotated Transcripts

Name

FlyBase ID

RefSeq ID

Length (nt)

Assoc. CDS (aa)

CstF64-RA

FBtr0083660

NM_058105

1446

419

Additional Transcript Data and Comments

Reported size (kB)

1.5 (northern blot)

(Hatton et al., 2000)

Comments

External Data

Crossreferences

Polypeptide Data

Annotated Polypeptides

Name

FlyBase ID

Predicted MW (kDa)

Length (aa)

Theoretical pI

UniProt

RefSeq ID

GenBank

CstF64-PA

FBpp0083075

46.2

419

5.50

Q9VE52

NP_477453

AAF55577

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)

419 (aa); 64 (kD observed)

(Hatton et al., 2000)

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\CstF64 using the Feature Mapper tool.

External Data

Crossreferences

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

CstF-64_1

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).

1.50

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)

embryonic stage 7 -- 8

organism | ubiquitous

(Fisher et al., 2012)

embryonic stage 9 -- 10

organism | ubiquitous

(Fisher et al., 2012)

embryonic stage 11 -- 12

organism | ubiquitous

(Fisher et al., 2012)

northern blot

Stage

Tissue/Position (including subcellular localization)

Reference

embryonic stage -- adult stage

(Hatton et al., 2000)

Additional Descriptive Data

CstF-64 transcripts are detected throughout development with the highest levels in early embryos and adult females.

(Hatton et al., 2000)

Marker for

Subcellular Localization

CV Term

Polypeptide Expression

Additional Descriptive Data

Marker for

Subcellular Localization

CV Term

Evidence

References

part_of mRNA cleavage stimulating factor complex

inferred from direct assay

(Sullivan et al., 2009)

Expression Deduced from Reporters

High-Throughput Expression Data

Associated Tools

JBrowse - Visual display of RNA-Seq signals

View Dmel\CstF64 in JBrowse

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

View exonic expression by developmental stage for Dmel\CstF64

View exonic expression by tissue for Dmel\CstF64

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

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0027841

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

42239/tissue=All

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

FBgn0027841

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0027841

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

FBgn0027841

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

CG7697

Flygut - An atlas of the Drosophila adult midgut

FBgn0027841

Images

FlyBase Wiki

Image Based Resources

Alleles, Insertions, Transgenic Constructs, and Aberrations

Classical and Insertion Alleles ( 1 )

For All Classical and Insertion Alleles Show

Other relevant insertions

Transgenic Constructs ( 5 )

For All Alleles Carried on Transgenic Constructs Show

Transgenic constructs containing/affecting coding region of CstF64

Transgenic constructs containing regulatory region of CstF64

Aberrations (Deficiencies and Duplications) ( 1 )

Inferred from experimentation ( 1 )

Gene disrupted in

Df(3R)Exel6180

(Ryder, 2004.4.26)

Inferred from location ( 4 )

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

lethal, with Scer\GAL4^insc-Mz1407

CstF64^GD9942

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

CstF64^GD9942

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

CstF64^GD9942

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

CstF64^GD9942

viable, with Scer\GAL4^tin.CΔ4

CstF64^GD9942

Other Phenotypes

Allele

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

CstF64^GD9942

abnormal starvation stress response | larval stage | somatic clone, with Scer\GAL4^Act.PU

CstF64^GD9942

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

CstF64^GD9942

Phenotype manifest in

Allele

autophagosome | larval stage | somatic clone | conditional, with Scer\GAL4^Act.PU

CstF64^GD9942

elongation stage spermatid, with Scer\GAL4^VP16.bam

CstF64^HMC06278

embryonic/larval fat body | larval stage | somatic clone | conditional, with Scer\GAL4^Act.PU

CstF64^GD9942

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

CstF64^GD9942

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

CstF64^GD9942

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) (100)

Hsap\CSTF2

12 of 14

Yes

Hsap\CSTF2T

12 of 14

Yes

Hsap\CIRBP

2 of 14

Yes

Hsap\RBM3

2 of 14

Yes

Hsap\SNRNP35

2 of 14

Yes

2 of 14

2 of 14

2 of 14

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Hsap\RBMXL3

1 of 14

Yes

Hsap\RBMY1A1

1 of 14

Hsap\RBMY1B

1 of 14

Hsap\RBMY1C

1 of 14

Yes

Hsap\RBMY1D

1 of 14

Hsap\RBMY1E

1 of 14

Yes

Hsap\RBMY1F

1 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

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Hsap\ZCRB1

1 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) (64)

Rnor\Cstf2

12 of 14

Yes

Rnor\Cstf2t

12 of 14

Yes

Rnor\Cirbp

2 of 14

Yes

Rnor\Rbm3

2 of 14

Yes

Rnor\Snrnp35

2 of 14

Yes

2 of 14

2 of 14

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 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

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Mus musculus (laboratory mouse) (66)

Mmus\Cstf2

12 of 14

Yes

Mmus\Cstf2t

11 of 14

Yes

Mmus\Cirbp

2 of 14

Yes

Mmus\Rbm3

2 of 14

Yes

Mmus\Snrnp35

2 of 14

Yes

2 of 14

2 of 14

2 of 14

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Xenopus tropicalis (Western clawed frog) (48)

Xtro\cstf2

6 of 13

Yes

2 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

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

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Danio rerio (Zebrafish) (85)

Drer\cstf2

12 of 14

Yes

Drer\cirbpa

2 of 14

Yes

Drer\cirbpb

2 of 14

Yes

2 of 14

2 of 14

2 of 14

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Drer\LOC100537585

1 of 14

Yes

Drer\LOC101885013

1 of 14

Yes

Drer\LOC110437789

1 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

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Drer\slirp

1 of 14

Drer\snrnp35

1 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

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Yes

Drer\zgc:171310

1 of 14

Yes

Caenorhabditis elegans (Nematode, roundworm) (44)

Cele\cpf-2

12 of 14

Yes

Cele\R06C1.4

4 of 14

Yes

Cele\rbm-3.2

4 of 14

Yes

Cele\rbm-3.1

3 of 14

Yes

Cele\drr-2

2 of 14

Yes

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

2 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

1 of 14

Anopheles gambiae (African malaria mosquito) (50)

Agam\AgaP_AGAP010918

12 of 12

Yes

Agam\AgaP_AGAP004414

8 of 12

Yes

Agam\AgaP_AGAP002335

2 of 12

Agam\AgaP_AGAP006755

2 of 12

Agam\AgaP_AGAP012250

2 of 12

Yes

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

Yes

Agam\EIF3G_ANOGA

1 of 12

Agam\NCBP2_ANOGA

1 of 12

Arabidopsis thaliana (thale-cress) (138)

Atha\CSTF64

11 of 13

Yes

Atha\AT2G43370

2 of 13

Yes

Atha\GRP4

2 of 13

Yes

Atha\GRP7

2 of 13

Yes

Atha\GR-RBP2

2 of 13

Yes

Atha\RPS19

2 of 13

Yes

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

2 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

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

Yes

Atha\AT2G27330

1 of 13

Yes

Atha\AT2G33410

1 of 13

Atha\AT2G37220

1 of 13

Atha\AT2G37510

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

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Atha\AT3G46020

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

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

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

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

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

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Atha\FCA

1 of 13

Atha\GR-RBP1

1 of 13

Atha\GR-RBP3

1 of 13

Yes

Atha\GR-RBP5

1 of 13

Yes

Atha\GR-RBP6

1 of 13

Atha\LIF2

1 of 13

Atha\ML3

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

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

Saccharomyces cerevisiae (Brewer's yeast) (22)

Scer\RNA15

11 of 13

Yes

Scer\PTI1

2 of 13

Yes

2 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Scer\NOP12

1 of 13

Scer\NOP13

1 of 13

Yes

Scer\NPL3

1 of 13

Scer\NSR1

1 of 13

Yes

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

Yes

Scer\SGN1

1 of 13

Schizosaccharomyces pombe (Fission yeast) (22)

Spom\SPAC644.16

10 of 12

Yes

Spom\ctf1

6 of 12

Yes

2 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

Yes

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

1 of 12

Yes

Escherichia coli (enterobacterium) (0)

Other Organism Orthologs (via OrthoDB)

Data provided directly from OrthoDB:CstF64. 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) (52)

CG10466

2 of 13

LS2

2 of 13

snRNP-U1-70K

2 of 13

B52

1 of 13

bol

1 of 13

bru2

1 of 13

bru3

1 of 13

Caper

1 of 13

caz

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

fne

1 of 13

hfp

1 of 13

Hrb27C

1 of 13

lark

1 of 13

maca

1 of 13

msi

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

rin

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

1 of 13

SF2

1 of 13

Sf3b6

1 of 13

spen

1 of 13

Spx

1 of 13

sqd

1 of 13

Syp

1 of 13

TBPH

1 of 13

tra2

1 of 13

tsu

1 of 13

U2af50

1 of 13

x16

1 of 13

Human Disease Associations

FlyBase Human Disease Model Reports

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 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?

CSTF2; cleavage stimulation factor subunit 2

12 of 14

300907

INTELLECTUAL DEVELOPMENTAL DISORDER, X-LINKED 113; XLID113

CSTF2T; cleavage stimulation factor subunit 2 tau variant

12 of 14

611968

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

CstF64 - Clp

anti bait coimmunoprecipitation, peptide massfingerprinting

(Sabath et al., 2013)

CstF64 - Cpsf100

anti bait coimmunoprecipitation, western blot, peptide massfingerprinting

(Sabath et al., 2013)

CstF64 - Cpsf160

anti bait coimmunoprecipitation, peptide massfingerprinting

(Sabath et al., 2013)

CstF64 - Cpsf5

anti bait coimmunoprecipitation, peptide massfingerprinting

(Sabath et al., 2013)

CstF64 - Cpsf6

anti bait coimmunoprecipitation, peptide massfingerprinting, western blot

(Sabath et al., 2013)

CstF64 - Cpsf73

anti bait coimmunoprecipitation, peptide massfingerprinting, western blot

(Sabath et al., 2013)

CstF64 - CstF50

anti bait coimmunoprecipitation, western blot, peptide massfingerprinting

(Sabath et al., 2013)

CstF64 - FLASH

anti bait coimmunoprecipitation, peptide massfingerprinting, western blot

(Sabath et al., 2013)

CstF64 - Fip1

anti bait coimmunoprecipitation, peptide massfingerprinting

(Sabath et al., 2013)

CstF64 - Sym

anti bait coimmunoprecipitation, western blot, peptide massfingerprinting

(Sabath et al., 2013)

CstF64 - Wdr33

anti bait coimmunoprecipitation, peptide massfingerprinting

(Sabath et al., 2013)

CstF64 - su(f)

two hybrid, anti bait coimmunoprecipitation, peptide massfingerprinting

(Sabath et al., 2013, Hatton et al., 2000)

RNA-protein

Physical Interaction

Assay

References

CstF64 - His3

pull down, anti tag western blot, affinity technology, Identification by mass spectrometry, western blot

(Skrajna et al., 2018, Skrajna et al., 2017)

CstF64 - snRNA:U7

pull down, peptide massfingerprinting

(Sabath et al., 2013)

Summary of Genetic Interactions

Interaction Browsers

View in FlyBase Interactions Browser View in MIST tool (external link)

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

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Starting gene(s)

Interaction type

Interacting gene(s)

Reference

Atg1

suppressible

CstF64

(Tang et al., 2018)

Tsc1|gig

suppressible

CstF64

(Tang et al., 2018)

tut

enhanceable

CstF64

(Shan et al., 2017)

External Data

Linkouts

BioGRID - A database of protein and genetic interactions.

67247

DroID - A comprehensive database of gene and protein interactions.

FBgn0027841

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

42239

Pathways

Signaling Pathways (FlyBase)

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.

mRNA surveillance pathway

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

3-64

Cytogenetic map

91B8-91B8

Sequence location

3R:18,659,618..18,661,126 [+]

FlyBase Computed Cytological Location

Cytogenetic map

Evidence for location

91B8-91B8

Limits computationally determined from genome sequence between P{PZ}sprd⁰⁵²⁸⁴ and P{PZ}cdi⁰⁷⁰¹³&P{lacW}nos^j3B6

Experimentally Determined Cytological Location

Cytogenetic map

Notes

References

Experimentally Determined Recombination Data

Location

3-64

(FlyBase, 2016)

3-63.2

(Comeron et al., 2012)

Left of (cM)

Right of (cM)

Notes

Stocks and Reagents

Stocks (4)

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

Bloomington

31812

w¹¹¹⁸; P{EP}CstF64^G16431

76367

y^* w^*; M{UAS-CstF64.A}ZH-51D/CyO; tut⁴/TM6B, Tb¹

NIG-Fly

7697R-1

P{NIG.7697R}1

VDRC

v21045

w¹¹¹⁸; P{GD9942}v21045/CyO

Genomic Clones (20)

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

cDNA Clones (7)

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

RE27227

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.

FBgn0027841

cDNA Clones, End Sequenced (ESTs)

BDGP DGC clones

GH27275

Other clones

RNAi and Array Information

Linkouts

DRSC - Results frm RNAi screens

FBgn0027841

Antibody Information

Laboratory Generated Antibodies

polyclonal

(Skrajna et al., 2018, Sabath et al., 2013)

monoclonal

(Na et al., 2016)

Commercially Available Antibodies

Cell Line Information

Publicly Available Cell Lines

Other Stable Cell Lines

Other Comments

Relationship to Other Genes

Source for database merge of

Additional comments

PCR analysis suggests that "CstF-64" maps to 91D1 before the distal end of Df(3R)Cha5 but after the distal end of Df(3R)Cha^M5. The only gene known in this interval is "l(3)91Cd" but as the mutants for "l(3)91Cd" are no longer extant it is not possible to test whether these are the same gene.

(Hatton et al., 2000)

Nomenclature History

Source for database identify of

Source for identity of: CstF64 CstF-64

(Sabath et al., 2013)

Nomenclature comments

Etymology

Synonyms and Secondary IDs (9)

Reported As

Symbol Synonym

CG7697

(Ibaraki et al., 2021, Çiçek et al., 2016, Na et al., 2016, Hosono et al., 2015, Shanshan and Laixin, 2015, Perkins et al., 2009, Mount and Salz, 2000, O'Hare, 2000.8.2)

CStF 64

(Lasko, 2000)

CstF 64

(Wagner et al., 2007)

CstF-64

(Ibaraki et al., 2021, Brewer-Jensen et al., 2016, Na et al., 2016, Japanese National Institute of Genetics, 2012.5.21, Guo et al., 2011, Ding et al., 2010, Kong et al., 2010, Salisbury et al., 2006)

CstF64

(Lee et al., 2021, Sureka and Mishra, 2021, Skrajna et al., 2018, Tang et al., 2018, Moschall et al., 2017, Shan et al., 2017, Skrajna et al., 2017, Tatomer et al., 2014, Sabath et al., 2013, Ezzeddine et al., 2011, Sullivan et al., 2009, Wagner et al., 2007, Gawande et al., 2006)

dCstF64

(Soller and White, 2003)

Name Synonyms

Cleavage stimulation factor 64 kD subunit

Cleavage stimulation factor 64 kilodalton subunit

cleavage stimulation factor

(Soller and White, 2003)

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 ( 46 )

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.

42239

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.

Q9VE52

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.

Q9VE52

BDGP expression data - Patterns of gene expression in Drosophila embryogenesis

FBgn0027841

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

42239/tissue=All

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

FBgn0027841

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

FBgn0027841

FlyMine - An integrated database for Drosophila genomics

FBgn0027841

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

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

dme:Dmel_CG7697

MARRVEL_MODEL - MARRVEL (model organism gene)

42239

Linkouts

BioGRID - A database of protein and genetic interactions.

67247

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

FBgn0027841

DroID - A comprehensive database of gene and protein interactions.

FBgn0027841

DRSC - Results frm RNAi screens

FBgn0027841

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

CstF-64_1

FlyAtlas - Adult expression by tissue, using Affymetrix Dros2 array

FBgn0027841

FlyCyc Genes - Genes from a BioCyc PGDB for Dmel

FBGN0027841

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

CG7697

Flygut - An atlas of the Drosophila adult midgut

FBgn0027841

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

FBgn0027841

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

TC004378

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

mRNA surveillance pathway

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

42239

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

References (62)

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

1.50

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