PXD030139

PXD030139 is an original dataset announced via ProteomeXchange.

Title	Octamer sequences with HEXplorer score amplitude of -10.35, –0.15 or +10.32
Description	Correct pre-mRNA processing in higher eukaryotes vastly depends on splice site recognition. Beyond conserved 5’ss and 3’ss motifs, splicing regulatory elements (SREs) play a pivotal role in this recognition process. Here, we present in silico designed sequences with arbitrary a priori prescribed splicing regulatory HEXplorer properties that can be concatenated to arbitrary length without changing their regulatory properties. We performed pulldown analysis to identify RNA-binding proteins, that bind either sequence segments with a HEXplorer score amplitude of +10.32, –0.15 or -10.35.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_07:29:32.586.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Gereon Poschmann
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2021-12-02 08:15:38	ID requested
1	2022-10-13 15:06:28	announced
⏵ 2	2023-11-14 07:29:33	announced	2023-11-14: Updated project metadata.

M, ü, ller L, Ptok J, Nisar A, Antemann J, Grothmann R, Hillebrand F, Brillen AL, Ritchie A, Theiss S, Schaal H, Modeling splicing outcome by combining 5'ss strength and splicing regulatory elements. Nucleic Acids Res, 50(15):8834-8851(2022) [pubmed]

submitter keyword: HEXplorer,slice site, splicing, splicing regulatory element

Gereon Poschmann
contact affiliation	Molecular Proteomics Laboratory BMFZ Heinrich Heine University Düsseldorf Germany
contact email	gereon.poschmann@hhu.de
lab head
Gereon Poschmann
contact affiliation	Molecular Proteomics Laboratory
contact email	gereon.poschmann@hhu.de
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2022/10/PXD030139

PRIDE project URI

• PRIDE
  1. PXD030139
     1. Label: PRIDE project
     2. Name: Octamer sequences with HEXplorer score amplitude of -10.35, –0.15 or +10.32