mRNA Processing (Bos taurus)

From WikiPathways

Revision as of 11:08, 26 June 2013 by Ddigles (Talk | contribs)
Jump to: navigation, search
1U2 snRNP(2c)CF IIFormation of pre-mRNPsSF3b14bCAFormation of the Spliceosomal B complex5AmRNA splice site selectionRnmt (methyltransferase)Putative Alternative SplicingRegulators5AGSR-proteinsYYYYAFormation of the Spliceosomal A complexPi(2a)SR-proteins5right click on blue text for detailed informationsnRNP Sm core complexSR protein phosphatasesPrimary RNA transcriptAAUAAAYYYYFormation of the Spliceosomal C complexSR-repressor proteinsCleavage of mRNA at the 3'-endU1 snRNP(2)Processing of Intron-Containing Pre-mRNAmRNA Cappingexon 253Spt5U2 snRNPs3U4:U5:U6 tri-snRNP complex5snRNP Sm core complexexon 2exon 23hnRNP regulatorsInternal methylation of mRNAU5U5CstF5RNA helicase ACPSFAGFormation of the Spliceosomal B complexexon 2Additional Factorsexon 1U4 snRNPARegulation ofAlternative Splicingexon 15 G capintronmRNA 3'-end processingFormation of pre-mRNPsU2AF5mRNA splicing (major pathway)Additional SR proteinsU6Formation of the active Spliceosomal C complex33APoly(A)-binding protein IIexon 1AU6 snRNPCF IIFormation of the Spliceosomal E complexCPSFU1 snRNPSR-phosphatasesYYYYAdditional FactorsCstFUGmRNA polyadenylationU4AGAccessory ProteinsU2Misc.Methylation of mRNAAGSR-binding sitesmRNA cappingCap BindingU5 snRNP5iPoU2AFPAUGFormation of the Spliceosomal A complexKinases Phosphorylating RS domains?exon 2SR-proteinsRNAi pathwaypre-mRNALariat Formation and 5'-Splice Site CleavageAdditional FactorsSR protein kinases5AAAAAAAYYYYSerine/Argenine Rich Proteins(SR)splicesome associated helicasesexon 1Note: New participating members shown at each stepSR-kinasesFormation of the Spliceosomal E complexPoly(A)pb IIRngtt (capping enzyme)3snRNP Sm core complexU2 snRNP335hnRNPsdegradedexon 165SR-binding sitesPolr2aRNA helicaseheterogeneous nuclear ribonucleoproteinsP-splicing factor SF3BCF I3(3)(1)AGInternal methylation of mRNAYYYY(2b)CFIGUCleavage at the 3'-Splice-Site and Exon LigationYYYY3U4/U6exon 1exon 235Poly(A) pol3splicing factor SF3AU1AGPoly(A) polymerase alpha5SRSF5HNRNPDCDC40DHX8PRPF6SNRPGU5 snRNASF3B2PRPF8CSTF2POLR2ANUDT21DICER1SRSF9SNRPD2RBM17PAPOLAU1 snRNASF3B4CLK2PRPF40ASRSF2PSKH1SSFA1SNRPD1DHX15CLK1FUSIP1SRPK1SNRNP40LSM7CUGBP2CD2BP2PRPF4TXNL4ARBM39EFTUD2TRA2BSNRPFCELF1FUSIP1SNRPD3PPM1GSNRPEHNRNPH2HNRNPLSNRPB2SNRPNTMED10CLASRPHNRNPH1PTBP2SRSF1SF3A1Rnu6LSM2HNRPA3P1PRPF8HNRNPA2B1CPSF2ATPRNU2DNAJC8SUGP2SF3B3SFSWAPRNMTPTBP1PHF5ASRRM1CSTF1HNRPA1SF3A2SNRPBNONOHNRNPRU2AF2PRPF18U2AF1RBM5METTL3SFPQHNRNPCCLP1GMPSPOPSRSF7HRMT1L1XRN2NCBP1CLK3RBMXPRPF3DHX9FUSSRPK2SF3B5SRSF3PRPF4PABPN1SRP54CPSF4PCBP2SF3A3SUPT5HHNRNPMSF3B1YBX1U4 snRNACELF4RNGTTDHX16PRPF4BHNRNPABSSFA1SRSF4PRMT1DDX1SNRPNSNRPASNRPA1NXF1CLK4SREK1CDC40CPSF1NCBP2LSM2SRSF6DDX20HNRNPKCSTF3SNRNP70RNPS1SUGP1DHX38SSFA1CSTF2TCPSF3SMC1AHNRNPU


This process describes the conversion of precursor messenger RNA into mature messenger RNA (mRNA).

The pre-mRNA molecule undergoes three main modifications. These modifications are 5' capping, 3' polyadenylation, and RNA splicing, which occur in the cell nucleus before the RNA is translated.

5' Capping: Capping of the pre-mRNA involves the addition of 7-methylguanosine (m7G) to the 5' end. The cap protects the 5' end of the primary RNA transcript from attack by ribonucleases that have specificity to the 3'5' phosphodiester bonds.

3' Processing: The pre-mRNA processing at the 3' end of the RNA molecule involves cleavage of its 3' end and then the addition of about 200 adenine residues to form a poly(A) tail. As the poly(A) tails is synthesised, it binds multiple copies of poly(A) binding protein, which protects the 3'end from ribonuclease digestion.

Splicing: RNA splicing is the process by which introns, regions of RNA that do not code for protein, are removed from the pre-mRNA and the remaining exons connected to re-form a single continuous molecule.

Description adapted from Wikipedia:

Pathway adapted from


This pathway was inferred from Homo sapiens pathway WP411(r45374) with a 90% conversion rate.

Quality Tags

Ontology Terms



  1. Carmody SR, Wente SR; ''mRNA nuclear export at a glance.''; J Cell Sci, 2009 PubMed Europe PMC Scholia


View all...
95764view14:18, 19 January 2018MkutmonHomology conversion update
80888view15:29, 30 June 2015Mkutmonhomology conversion
71421view19:02, 17 October 2013MaintBotAutomated update of data sources
67492view11:08, 26 June 2013DdiglesOntology Term : 'spliceosome pathway' added !
63389view00:03, 10 May 2013MaintBotUpdated to 2013 gpml schema
48124view05:41, 9 May 2012KhanspersUpdating from human to fix xref duplication
40562view19:32, 1 March 2011MaintBotRemoved redundant pathway information and comments
35238view19:44, 11 February 2010Khanspersupdated xrefs
35235view19:37, 11 February 2010KhanspersModified description
33800view00:16, 9 December 2009MaintBotAutomatic update of empty xrefs
32497view12:47, 17 August 2009MaintBotFixed text labels
32189view12:34, 15 August 2009MaintBotFixed text labels
31663view11:39, 14 August 2009MaintBotFixed group labels
31195view19:31, 13 August 2009MaintBotFixed text labels
30592view22:13, 29 July 2009MaintBotNew pathway

External references


View all...
NameTypeDatabase referenceComment
ATPMetabolite1927-31-7 (CAS)
CD2BP2GeneProduct513857 (Entrez Gene)
CDC40GeneProduct514003 (Entrez Gene)
CELF1GeneProduct540475 (Entrez Gene)
CELF4GeneProduct535177 (Entrez Gene)
CLASRPGeneProduct509208 (Entrez Gene)
CLK1GeneProductPMID: 15010457: Inhibitor John C. Bell, PhD

Professor, Depts. of Medicine and Biochemistry, Microbiology & Immunology University of Ottawa Career Scientist, Ottawa Regional Cancer Centre Associate Scientist, The Ottawa Hospital Research Institute Telephone: 613-737-7700 ext 6893 Fax: 613-247-3524 Email: The control of pre-mRNA splicing by the Clk kinase family

We are studying a family of kinases which we believe provide an interface between intracellular signaling networks and the post-transcriptional mechanism of mRNA splicing. We are performing a structure:function analysis of the three Clk family members to identify domains in the three proteins which are involved in regulating splicing. Using homologous recombination we are generating null strains of mice which are lacking one, two or all three Clk genes. The Clk kinases all possess dual specificity kinase activity and yeast expression systems are being used to produce large amounts of the kinase to perform a detailed analysis of the sites of serine, threonine and tyrosine autophosphorylation within the kinase.
CLK2GeneProduct512737 (Entrez Gene)
CLK3GeneProduct505499 (Entrez Gene)
CLK4GeneProduct529633 (Entrez Gene)
CLP1GeneProduct506507 (Entrez Gene)
CPSF1GeneProduct282703 (Entrez Gene)
CPSF2GeneProduct327689 (Entrez Gene)
CPSF3GeneProduct281712 (Entrez Gene)
CPSF4GeneProduct280875 (Entrez Gene)
CSTF1GeneProduct507051 (Entrez Gene)
CSTF2GeneProduct282588 (Entrez Gene)
CSTF2TGeneProduct783569 (Entrez Gene)
CSTF3GeneProduct508491 (Entrez Gene)
DDX1GeneProduct510816 (Entrez Gene)
DDX20GeneProduct528433 (Entrez Gene)
DHX15GeneProduct512327 (Entrez Gene)
DHX16GeneProduct506405 (Entrez Gene)
DHX38GeneProduct520046 (Entrez Gene)
DHX8GeneProduct536093 (Entrez Gene)
DHX9GeneProduct281115 (Entrez Gene)
DICER1GeneProduct337871 (Entrez Gene)
DNAJC8GeneProduct614259 (Entrez Gene)
EFTUD2GeneProduct509425 (Entrez Gene)
FUSGeneProduct280796 (Entrez Gene)
FUSIP1GeneProductFUSI MOUSE PMID: 11684676
GMPMetabolite85-32-5 (CAS)
HNRNPA2B1GeneProduct507564 (Entrez Gene)
HNRNPABGeneProduct513410 (Entrez Gene)
HNRNPCGeneProduct510852 (Entrez Gene)
HNRNPDGeneProduct527471 (Entrez Gene)
HNRNPH1GeneProduct541202 (Entrez Gene)
HNRNPH2GeneProduct534001 (Entrez Gene)
HNRNPKGeneProduct528135 (Entrez Gene)
HNRNPLGeneProduct504520 (Entrez Gene)
HNRNPMGeneProduct515290 (Entrez Gene)
HNRNPRGeneProduct512479 (Entrez Gene)
HNRNPUGeneProduct539950 (Entrez Gene)
LSM2GeneProduct538662 (Entrez Gene)
LSM7GeneProduct509920 (Entrez Gene)
METTL3GeneProduct540339 (Entrez Gene)
NCBP1GeneProduct100124428 (Entrez Gene)
NCBP2GeneProduct510872 (Entrez Gene)
NONOGeneProduct615175 (Entrez Gene)
NUDT21GeneProduct518859 (Entrez Gene)
NXF1GeneProduct512136 (Entrez Gene)
PABPN1GeneProduct282298 (Entrez Gene)
PAPOLAGeneProduct338051 (Entrez Gene)
PCBP2GeneProduct540653 (Entrez Gene)
PHF5AGeneProduct507180 (Entrez Gene)
POLR2AGeneProduct282312 (Entrez Gene)
PPM1GGeneProduct286880 (Entrez Gene) PMID: 12773558
PRMT1GeneProduct520388 (Entrez Gene)
PRPF18GeneProduct507639 (Entrez Gene)
PRPF3GeneProduct510322 (Entrez Gene)
PRPF40AGeneProduct100301114 (Entrez Gene)
PRPF4GeneProduct508735 (Entrez Gene)
PRPF4BGeneProduct512236 (Entrez Gene)
PRPF6GeneProduct534228 (Entrez Gene)
PRPF8GeneProduct507371 (Entrez Gene)
PSKH1GeneProduct509656 (Entrez Gene) PMID: 12466556
PTBP1GeneProduct282018 (Entrez Gene)
RBM17GeneProduct512694 (Entrez Gene)
RBM39GeneProduct508722 (Entrez Gene)
RBM5GeneProduct534216 (Entrez Gene)
RBMXGeneProduct509591 (Entrez Gene)
RNGTTGeneProduct511408 (Entrez Gene)
RNMTGeneProduct511555 (Entrez Gene)
RNPS1GeneProduct504506 (Entrez Gene) PMID: 14729963
RNU2GeneProductGenBank sequence: K00027
Rnu6RnaGenBank sequence: M10329
SF3A1GeneProduct504381 (Entrez Gene)
SF3A2GeneProduct789082 (Entrez Gene)
SF3A3GeneProduct523250 (Entrez Gene)
SF3B1GeneProduct510177 (Entrez Gene)
SF3B2GeneProduct531931 (Entrez Gene)
SF3B3GeneProduct504962 (Entrez Gene)
SF3B4GeneProduct506123 (Entrez Gene)
SF3B5GeneProduct574400 (Entrez Gene)
SFPQGeneProduct618226 (Entrez Gene)
SFSWAPGeneProduct512326 (Entrez Gene)
SMC1AGeneProduct282370 (Entrez Gene)
SNRNP40GeneProduct534645 (Entrez Gene)
SNRNP70GeneProduct535113 (Entrez Gene)
SNRPA1GeneProduct512584 (Entrez Gene)
SNRPAGeneProduct509802 (Entrez Gene)
SNRPB2GeneProduct767873 (Entrez Gene)
SNRPBGeneProduct613304 (Entrez Gene)
SNRPD1GeneProduct508788 (Entrez Gene)
SNRPD2GeneProduct514932 (Entrez Gene)
SNRPD3GeneProduct617823 (Entrez Gene)
SNRPEGeneProduct531493 (Entrez Gene)
SNRPGGeneProduct522621 (Entrez Gene)
SNRPNGeneProduct780877 (Entrez Gene)
SPOPGeneProduct530618 (Entrez Gene)
SREK1GeneProduct507801 (Entrez Gene) PMID: 14559993. SRrp86 is a unique member of the SR protein superfamily containing one RNA recognition motif and two serine-arginine (SR)-rich domains separated by an unusual glutamic acid-lysine (EK)-rich region. Previously, we showed that SRrp86 could regulate alternative splicing by both positively and negatively modulating the activity of other SR proteins and that the unique EK domain could inhibit both constitutive and alternative splicing. These functions were most consistent with the model in which SRrp86 functions by interacting with and thereby modulating the activity of target proteins. To identify the specific proteins that interact with SRrp86, we used a yeast two-hybrid library screen and immunoprecipitation coupled to mass spectrometry. We show that SRrp86 interacts with all of the core SR proteins, as well as a subset of other splicing regulatory proteins, including SAF-B, hnRNP G, YB-1, and p72. In contrast to previous results that showed activation of SRp20 by SRrp86, we now show that SAF-B, hnRNP G, and 9G8 all antagonize the activity of SRrp86. Overall, we conclude that not only does SRrp86 regulate SR protein activity but that it is, in turn, regulated by other splicing factors to control alternative splice site selection.
SRP54GeneProduct614017 (Entrez Gene) PMID: 14729963
SRPK1GeneProduct512631 (Entrez Gene) PMID: 12773558
SRPK2GeneProduct505945 (Entrez Gene) PMID: 12773558
SRRM1GeneProduct784123 (Entrez Gene)
SRSF1GeneProduct615796 (Entrez Gene) Antagonist splicing factor
SRSF2GeneProduct508312 (Entrez Gene)
SRSF3GeneProduct540276 (Entrez Gene)
SRSF4GeneProduct614310 (Entrez Gene)
SRSF5GeneProduct510474 (Entrez Gene)
SRSF6GeneProduct507828 (Entrez Gene)
SRSF7GeneProduct507066 (Entrez Gene)
SRSF9GeneProduct509905 (Entrez Gene) PMID: 12738786, PMID: 12024014 (associated with hnRNP A1 splicing)
SUGP1GeneProduct533971 (Entrez Gene) inferred from: SURP 2, G patch protein, UniProt:O60378
SUGP2GeneProduct516567 (Entrez Gene)
SUPT5HGeneProduct519808 (Entrez Gene)
TMED10GeneProduct529761 (Entrez Gene)
TRA2BGeneProduct615156 (Entrez Gene)
TXNL4AGeneProduct535457 (Entrez Gene)
U1 snRNARnaGenBank sequence: J00645
U2AF1GeneProduct512680 (Entrez Gene)
U2AF2GeneProduct507895 (Entrez Gene)
U4 snRNARnaGenBank sequence: M10328, M18004
U5 snRNARnaGenBank sequence: AB021173
XRN2GeneProduct517417 (Entrez Gene)
YBX1GeneProduct287023 (Entrez Gene)

Annotated Interactions

No annotated interactions
Personal tools