mRNA Processing (Canis familiaris)

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1exon 1P-U25AG5Internal methylation of mRNA(2c)YYYYdegradedAdditional FactorsAAUAAAmRNA splice site selectionRegulation ofAlternative SplicingCleavage of mRNA at the 3'-endsplicing factor SF3A(2b)splicing factor SF3BAU2 snRNPs5heterogeneous nuclear ribonucleoproteinsexon 2Formation of the active Spliceosomal C complexA5mRNA cappingKinases Phosphorylating RS domains?CF IIGUexon 1U1 snRNPPoly(A) polymerase alphaCPSFsnRNP Sm core complex3U1 snRNPFormation of the Spliceosomal A complexmRNA polyadenylationSR-binding sitesInternal methylation of mRNASR-proteins3(3)Misc.exon 2RNAi pathwayRNA helicase Aexon 1CstFPutative Alternative SplicingRegulators5Polr2a(2a)Spt5intronSR-binding sitesAGsnRNP Sm core complexPrimary RNA transcriptNote: New participating members shown at each step3U2 snRNPUGmRNA 3'-end processingPoly(A)pb IISR-repressor proteinsYYYYU5(2)AU1Formation of pre-mRNPs3CF IIFormation of the Spliceosomal B complexPPoly(A) polPoly(A)-binding protein IIFormation of the Spliceosomal C complexYYYYU2AF3snRNP Sm core complexSR-kinases5Aexon 2U2 snRNP5mRNA CappingFormation of the Spliceosomal E complex5 G caphnRNPsRNA helicaseexon 2exon 13iPoCstFYYYYhnRNP regulators65SF3b14bRnmt (methyltransferase)exon 1exon 2(1)Additional Factors3U5CPSFU6 snRNPU4:U5:U6 tri-snRNP complexAccessory ProteinsA3U4/U6U4Additional FactorsU6right click on blue text for detailed informationMethylation of mRNARngtt (capping enzyme)exon 1AGexon 2SR-phosphatases3Cap BindingYYYYYYYYProcessing of Intron-Containing Pre-mRNASR protein phosphatasesCAU2AFUGAG35AAAAAAA5SR protein kinasesCFICF IFormation of the Spliceosomal E complex5Formation of the Spliceosomal A complexFormation of the Spliceosomal B complexpre-mRNALariat Formation and 5'-Splice Site Cleavage33Additional SR proteinsU4 snRNPFormation of pre-mRNPsSR-proteinsAGACleavage at the 3'-Splice-Site and Exon LigationSerine/Argenine Rich Proteins(SR)SR-proteinsU5 snRNP5mRNA splicing (major pathway)splicesome associated helicases5PiAGSF3B4SF3B2PRMT2HNRNPMPRPF8CLK3U1 snRNARnu6GMPDDX1SNRPD3HNRNPDSNRPAFUSHNRNPUSNRPBHNRPA1LOC100856414DHX16TMED10SRRM1LOC100856058DHX9SRSF1PTBP2NCBP2CLP1U4 snRNAHNRNPRCSTF1HNRNPH2PRMT1SRPK2PPM1GRBM5SNRNP70SRSF7ATPLOC100856065SNRPB2CSTF2SFPQCDC40CDC40FUSIP1SRSF9LOC100855927PRPF6NUDT21TRA2BCD2BP2CELF4SRSF3SF3B3LOC100856528LOC100855936SF3A3CLK1SUGP2SFSWAPPAPOLASSFA1SNRPNDHX38DICER1SRSF5U5 snRNASRP54LOC607025SREK1SF3A2SSFA1PRPF4FUSIP1SRSF6DHX8RBMXSNRPGCPSF4PRPF18CLK2PRPF8CSTF2TU2AF2SNRPD2PCBP2NCBP1SNRNP40U2AF1CELF1RBM17RNMTSMC1ARNGTTHNRNPCSF3B1CPSF1HNRNPA2B1SNRPA1PHF5APRPF4SF3A1PABPN1CSTF3LOC100687510SUGP1SUPT5HPRPF40ALOC100855941HNRPA3P1LSM2SRSF4DHX15RBM39EFTUD2POLR2AMETTL3CELF2CPSF2SNRPD1PSKH1SRPK1HNRNPKNONOHNRPABSNRPNDNAJC8LSM7PTBP1CLASRPRNU2XRN2LSM2CLK4NXF1RNPS1TXNL4ASSFA1HNRNPH1SPOPPRPF4B


Description

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: http://en.wikipedia.org/wiki/Post-transcriptional_modification

Pathway adapted from http://www.reactome.org.

Comments

HomologyConvert 
This pathway was inferred from Homo sapiens pathway WP411(r45374) with a 91% conversion rate.

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Ontology Terms

 

Bibliography

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

History

View all...
CompareRevisionActionTimeUserComment
122786view00:13, 18 May 2022AlexanderPicocleaning up broken comments
95765view14:20, 19 January 2018MkutmonHomology conversion update
71483view19:18, 17 October 2013MaintBotAutomated update of data sources
69956view20:51, 11 July 2013MaintBotupdated to 2013 schema
68581view23:08, 5 July 2013MaintBotUpdated to 2013 gpml schema
67493view11:09, 26 June 2013DdiglesOntology Term : 'spliceosome pathway' added !
48160view18:58, 9 May 2012MaintBotUpdating from human to fix xrefs
40740view21:53, 1 March 2011MaintBotRemoved redundant pathway information and comments
35243view19:50, 11 February 2010KhanspersModified description
34015view18:43, 9 December 2009MaintBotAutomatic update of empty xrefs
32569view13:12, 17 August 2009MaintBotFixed text labels
32247view12:54, 15 August 2009MaintBotFixed text labels
31762view12:06, 14 August 2009MaintBotFixed group labels
31267view19:57, 13 August 2009MaintBotFixed text labels
30711view22:53, 29 July 2009MaintBotNew pathway

External references

DataNodes

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NameTypeDatabase referenceComment
ATPMetabolite1927-31-7 (CAS)
CD2BP2GeneProduct489937 (Entrez Gene)
CDC40GeneProduct475025 (Entrez Gene)
CELF1GeneProduct475979 (Entrez Gene)
CELF2GeneProduct607310 (Entrez Gene)
CELF4GeneProduct610838 (Entrez Gene)
CLASRPGeneProduct476436 (Entrez Gene)
CLK1GeneProduct478866 (Entrez Gene) PMID: 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: [email protected] 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.
CLK2GeneProduct490427 (Entrez Gene)
CLK3GeneProduct478367 (Entrez Gene)
CLK4GeneProduct474645 (Entrez Gene)
CLP1GeneProduct610161 (Entrez Gene)
CPSF1GeneProduct475126 (Entrez Gene)
CPSF2GeneProduct480230 (Entrez Gene)
CPSF4GeneProduct489859 (Entrez Gene)
CSTF1GeneProduct612933 (Entrez Gene)
CSTF2GeneProduct492015 (Entrez Gene)
CSTF2TGeneProduct
CSTF3GeneProduct475948 (Entrez Gene)
DDX1GeneProduct475671 (Entrez Gene)
DHX15GeneProduct488856 (Entrez Gene)
DHX16GeneProduct481706 (Entrez Gene)
DHX38GeneProduct479669 (Entrez Gene)
DHX8GeneProduct480507 (Entrez Gene)
DHX9GeneProduct480032 (Entrez Gene)
DICER1GeneProduct480426 (Entrez Gene)
DNAJC8GeneProduct478166 (Entrez Gene)
EFTUD2GeneProduct490935 (Entrez Gene)
FUSGeneProduct
FUSIP1GeneProductFUSI MOUSE PMID: 11684676
GMPMetabolite85-32-5 (CAS)
HNRNPA2B1GeneProduct475260 (Entrez Gene)
HNRNPCGeneProduct475399 (Entrez Gene)
HNRNPDGeneProduct478450 (Entrez Gene)
HNRNPH1GeneProduct481455 (Entrez Gene)
HNRNPH2GeneProduct480989 (Entrez Gene)
HNRNPKGeneProduct100855638 (Entrez Gene)
HNRNPMGeneProduct476725 (Entrez Gene)
HNRNPRGeneProduct478192 (Entrez Gene)
HNRNPUGeneProduct480100 (Entrez Gene)
HNRPA1GeneProduct
HNRPA3P1GeneProduct
HNRPABGeneProduct
LOC100687510GeneProduct100687510 (Entrez Gene)
LOC100855927GeneProduct100855927 (Entrez Gene)
LOC100855936GeneProduct100855936 (Entrez Gene)
LOC100855941GeneProduct100855941 (Entrez Gene)
LOC100856058GeneProduct100856058 (Entrez Gene)
LOC100856065GeneProduct100856065 (Entrez Gene)
LOC100856414GeneProduct100856414 (Entrez Gene)
LOC100856528GeneProduct100856528 (Entrez Gene)
LOC607025GeneProduct607025 (Entrez Gene)
LSM2GeneProduct474849 (Entrez Gene)
LSM7GeneProduct612170 (Entrez Gene)
METTL3GeneProduct475404 (Entrez Gene)
NCBP1GeneProduct474772 (Entrez Gene)
NCBP2GeneProduct478603 (Entrez Gene)
NONOGeneProduct612773 (Entrez Gene)
NUDT21GeneProduct478123 (Entrez Gene)
NXF1GeneProduct483780 (Entrez Gene)
PABPN1GeneProduct100170671 (Entrez Gene)
PAPOLAGeneProduct480430 (Entrez Gene)
PCBP2GeneProduct477596 (Entrez Gene)
PHF5AGeneProduct474489 (Entrez Gene)
POLR2AGeneProduct479483 (Entrez Gene)
PPM1GGeneProduct475703 (Entrez Gene) PMID: 12773558
PRMT1GeneProduct476411 (Entrez Gene)
PRMT2GeneProduct480811 (Entrez Gene)
PRPF18GeneProduct477998 (Entrez Gene)
PRPF40AGeneProduct476152 (Entrez Gene)
PRPF4GeneProduct474807 (Entrez Gene)
PRPF4BGeneProduct488199 (Entrez Gene)
PRPF6GeneProduct477289 (Entrez Gene)
PRPF8GeneProduct480651 (Entrez Gene)
PSKH1GeneProduct100687571 (Entrez Gene) PMID: 12466556
PTBP1GeneProduct485097 (Entrez Gene)
PTBP2GeneProduct490149 (Entrez Gene)
RBM17GeneProduct478014 (Entrez Gene)
RBM39GeneProduct477216 (Entrez Gene)
RBM5GeneProduct476618 (Entrez Gene)
RBMXGeneProduct481063 (Entrez Gene)
RNGTTGeneProduct481914 (Entrez Gene)
RNMTGeneProduct476200 (Entrez Gene)
RNPS1GeneProduct479880 (Entrez Gene) PMID: 14729963
RNU2GeneProductGenBank sequence: K00027
Rnu6RnaGenBank sequence: M10329
SF3A1GeneProduct477538 (Entrez Gene)
SF3A2GeneProduct612188 (Entrez Gene)
SF3A3GeneProduct475326 (Entrez Gene)
SF3B1GeneProduct488456 (Entrez Gene)
SF3B2GeneProduct476015 (Entrez Gene)
SF3B3GeneProduct479659 (Entrez Gene)
SF3B4GeneProduct483177 (Entrez Gene)
SFPQGeneProduct100688260 (Entrez Gene)
SFSWAPGeneProduct477438 (Entrez Gene)
SMC1AGeneProduct480928 (Entrez Gene)
SNRNP40GeneProduct611914 (Entrez Gene)
SNRNP70GeneProduct484388 (Entrez Gene)
SNRPA1GeneProduct607102 (Entrez Gene)
SNRPAGeneProduct476454 (Entrez Gene)
SNRPB2GeneProduct477148 (Entrez Gene)
SNRPBGeneProduct485806 (Entrez Gene)
SNRPD1GeneProduct480178 (Entrez Gene)
SNRPD2GeneProduct100685983 (Entrez Gene)
SNRPD3GeneProduct607772 (Entrez Gene)
SNRPGGeneProduct612653 (Entrez Gene)
SNRPNGeneProduct479012 (Entrez Gene)
SPOPGeneProduct480548 (Entrez Gene)
SREK1GeneProduct487233 (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.
SRP54GeneProduct403953 (Entrez Gene) PMID: 14729963
SRPK1GeneProduct474887 (Entrez Gene) PMID: 12773558
SRPK2GeneProduct475894 (Entrez Gene) PMID: 12773558
SRRM1GeneProduct478185 (Entrez Gene)
SRSF1GeneProduct609693 (Entrez Gene) Antagonist splicing factor
SRSF3GeneProduct403687 (Entrez Gene)
SRSF4GeneProduct478160 (Entrez Gene)
SRSF5GeneProduct490754 (Entrez Gene)
SRSF6GeneProduct403667 (Entrez Gene)
SRSF7GeneProduct475730 (Entrez Gene)
SRSF9GeneProduct477510 (Entrez Gene) PMID: 12738786, PMID: 12024014 (associated with hnRNP A1 splicing)
SSFA1GeneProduct
SUGP1GeneProduct476661 (Entrez Gene) inferred from: SURP 2, G patch protein, UniProt:O60378
SUGP2GeneProduct487882 (Entrez Gene)
SUPT5HGeneProduct476462 (Entrez Gene)
TMED10GeneProduct610559 (Entrez Gene)
TRA2BGeneProduct478663 (Entrez Gene)
TXNL4AGeneProduct476156 (Entrez Gene)
U1 snRNARnaGenBank sequence: J00645
U2AF1GeneProduct478422 (Entrez Gene)
U2AF2GeneProduct100687048 (Entrez Gene)
U4 snRNARnaGenBank sequence: M10328, M18004
U5 snRNARnaGenBank sequence: AB021173
XRN2GeneProduct477133 (Entrez Gene)

Annotated Interactions

No annotated interactions
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