mRNA processing (Homo sapiens)

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3exon 1AGAexon 1YYYYAAUAAAU1 snRNPsnRNP Sm core complexSR-binding sitesU1 snRNPPoly(A)pb IIYYYYSR-phosphatasesNote: New participating members shown at each stepCPSFYYYYSR-proteinsexon 23U2AFsnRNP Sm core complexAG53iPoUGexon 133Internal methylation of mRNAU5SR protein kinasesSR-proteinsSR-proteins3CFICap BindingMisc.U4:U5:U6 tri-snRNP complexmRNA splice site selectionU5 snRNPAdditional SR proteinsCleavage of mRNA at the 3‚��-endFormation of the Spliceosomal A complexsplicing factor SF3ACleavage at the 3‚��-Splice-Site and Exon LigationPrimary RNA transcriptAGASpt5exon 2Formation of the Spliceosomal E complexAdditional FactorsPoly(A) pol3Formation of the active Spliceosomal C complex3CAU1mRNA polyadenylationU2AFexon 1hnRNPs(3)Accessory ProteinsAGexon 15mRNA 3‚��-end processingFormation of the Spliceosomal B complexheterogeneous nuclear ribonucleoproteinsYYYYdegradedMethylation of mRNAAG5Additional FactorsAAGU6 snRNPmRNA CappingU2 snRNPFormation of the Spliceosomal E complex5 G capright click on blue text for detailed information65U2 snRNPsCstF555Poly(A)-binding protein II5GU(2)Serine/Argenine Rich Proteins(SR)Rnmt (methyltransferase)Kinases Phosphorylating RS domains?SR protein phosphatasesPoly(A) polymerase alphaFormation of the Spliceosomal C complex(1)RNAi pathwaySF3b14bpre-mRNARegulation ofAlternative SplicingSR-binding sitesexon 2hnRNP regulatorsFormation of pre-mRNPsAAAAAAAAdditional FactorsAsplicing factor SF3BFormation of the Spliceosomal B complex3YYYY3Formation of pre-mRNPsCPSFPiRngtt (capping enzyme)exon 2U2 snRNPUGU55splicesome associated helicasesU2RNA helicase A(2c)U4 snRNPU4/U6Putative Alternative SplicingRegulators5exon 2exon 2mRNA cappingU435PRNA helicaseAsnRNP Sm core complexYYYY(2b)Processing of Intron-Containing Pre-mRNAmRNA splicing (major pathway)Aexon 15(2a)intronFormation of the Spliceosomal A complexInternal methylation of mRNACF ICstFU6Polr2aCF IICF IIP-SR-kinasesSR-repressor proteins5Lariat Formation and 5‚��-Splice Site Cleavage3HNRPH2DHX9HNRPCHNRPMHNRPA1RNPS1SNRPD3DHX16CLK3CSTF2RBM5CDC40LSM7SF4BRUNOL4FUSIP1HNRPDPRPF18CDC40HNRPA3P1SSFA1HNRPABDICER1PRPF8SF3B2SUPT5HLSM2SF3A3U4 snRNASNRPD2RBMXFNBP3DDX1CUGBP2RBM17SNRPD1PRPF8TMP21HNRPKSNRPA1CSTF2TCSTF3SF3B5PRPF4SNRPEHRMT1L2PSKH1HNRPA2B1SMC1L1SNRPB2PCBP2CLK2SF3A1SFRS8HNRPRSRP54PRPF3SNRPNPRPF4BDHX38SNRPBSF3B4HNRPLSFPQSRRM1U2AF2U5-116KDPHF5ACPSF4HEABU2AF1RNU2SFRS1SFRS10METTL3CUGBP1DDX20HNRPH1SFRS9SRPK2U5 snRNACSTF1SF3A2SFRS16RNMTSNRPNPOLR2AGMPSSFA1SFRS12WDR57CPSF1U1 snRNACLK1SNRPFRNGTTPABPN1DHX8CD2BP2NCBP2SFRS7FUSTXNL4ASFRS2CLK4PTBP2PPM1GATPSFRS5SNRPAXRN2CPSF3SPOPDHX15HRMT1L1NUDT21SNRPGRnu6SFRS4HNRPURNPC2SFRS6FUSIP1DNAJC8SNRP70NONONCBP1SFRS14SF3B1NXF1PAPOLAC20orf14SRPK1SF3B3PTBP1PRPF4NSEP1SFRS3SSFA1CPSF2LSM2


Description

No description

Comments

GenMAPP notes 
Gene lists from obtained from InterPro 9-23-2003: Mm RNA-binding region RNP-1 (RNA recognition motif)
GenMAPP remarks 
Adapted from http://www.reactome.org.

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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

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CompareRevisionActionTimeUserComment
126308view17:23, 20 April 2023EgonwLicense is CCZero
122796view02:11, 18 May 2022AlexanderPicocleaning up broken comments
117160view09:47, 18 May 2021EweitzModified title
105857view23:19, 15 August 2019KhanspersModified description
102226view21:19, 11 December 2018Khanspersreplaced arcs with curved graphical lines
96893view13:50, 18 April 2018FehrhartFixed minor graphical issues
96288view21:54, 6 March 2018Andrewlmasonnone
95128view15:26, 16 November 2017Mkutmonremoved nested groups
94839view15:55, 6 October 2017Khanspersconverted interactions to graphical lines
79980view14:12, 29 April 2015Zarireplaced new Id for SSFA1
71369view18:37, 17 October 2013MaintBotAutomated update of data sources
70024view01:52, 12 July 2013AlexanderPicoModified title
68926view17:33, 8 July 2013MaintBotUpdated to 2013 gpml schema
67498view11:09, 26 June 2013DdiglesOntology Term : 'spliceosome pathway' added !
45374view21:22, 7 October 2011Khansperscleaned up description and removed old comment
44924view10:51, 6 October 2011MartijnVanIerselOntology Term : 'transcription pathway' added !
41073view23:19, 1 March 2011MaintBotRemoved redundant pathway information and comments
38901view20:24, 24 September 2010AlexanderPicominor tweaks
38872view18:29, 24 September 2010Khanspers
35228view18:39, 11 February 2010KhanspersChanged snRNAs from Other to RNA
35227view18:35, 11 February 2010KhanspersPeriodical save, work in progress
35226view18:21, 11 February 2010KhanspersModified description
35225view18:20, 11 February 2010KhanspersModified description
35122view13:25, 11 February 2010MartijnVanIerseladded lit. ref.
34454view18:24, 10 December 2009MaintBotAutomatic update of empty xrefs
32426view17:10, 15 August 2009MaintBotFixed text labels
32086view13:41, 14 August 2009MaintBotFixed group labels
30272view20:25, 25 July 2009AlexanderPicofixed unsupported characters in TextLabels
26223view23:00, 24 November 2008AlexanderPico
21548view11:32, 14 November 2008MaintBot[[Pathway:Homo sapiens:mRNA processing Reactome]] moved to [[Pathway:WP411]]: Moved to stable identifier
14985view20:16, 24 May 2008AlexanderPicoGrouped and fixed labels
13092view11:15, 17 May 2008MaintBotautomated metabolite conversion
12979view10:59, 17 May 2008MaintBotSticky edges patch by Sjoerd
8274view13:46, 7 January 2008MaintBot[[Pathway:Human:mRNA processing Reactome]] moved to [[Pathway:Homo sapiens:mRNA processing Reactome]]: Renaming species
7757view16:15, 18 December 2007MaintBotfixed category names
7319view12:42, 4 November 2007MaintBotAdded categories to GPML
6407view22:18, 22 May 2007Nsalomonisgpml file for [[Human:mRNA_processing_Reactome]]

External references

DataNodes

View all...
NameTypeDatabase referenceComment
ATPUnknown1927-31-7 (CAS)
BRUNOL4GeneProduct56853 (Entrez Gene)
C20orf14GeneProduct24148 (Entrez Gene)
CD2BP2GeneProduct10421 (Entrez Gene)
CDC40GeneProduct51362 (Entrez Gene)
CLK1GeneProduct1195 (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.
CLK2GeneProduct1196 (Entrez Gene)
CLK3GeneProduct1198 (Entrez Gene)
CLK4GeneProduct57396 (Entrez Gene)
CPSF1GeneProduct29894 (Entrez Gene)
CPSF2GeneProduct53981 (Entrez Gene)
CPSF3GeneProduct51692 (Entrez Gene)
CPSF4GeneProduct10898 (Entrez Gene)
CSTF1GeneProduct1477 (Entrez Gene)
CSTF2GeneProduct1478 (Entrez Gene)
CSTF2TGeneProduct23283 (Entrez Gene)
CSTF3GeneProduct1479 (Entrez Gene)
CUGBP1GeneProduct10658 (Entrez Gene)
CUGBP2GeneProduct10659 (Entrez Gene)
DDX1GeneProduct1653 (Entrez Gene)
DDX20GeneProduct11218 (Entrez Gene)
DHX15GeneProduct1665 (Entrez Gene)
DHX16GeneProduct8449 (Entrez Gene)
DHX38GeneProduct9785 (Entrez Gene)
DHX8GeneProduct1659 (Entrez Gene)
DHX9GeneProduct1660 (Entrez Gene)
DICER1GeneProduct23405 (Entrez Gene)
DNAJC8GeneProduct22826 (Entrez Gene)
FNBP3GeneProduct55660 (Entrez Gene)
FUSGeneProduct2521 (Entrez Gene)
FUSIP1GeneProduct10772 (Entrez Gene) FUSI MOUSE PMID: 11684676
GMPUnknown85-32-5 (CAS)
HEABGeneProduct10978 (Entrez Gene)
HNRPA1GeneProduct3178 (Entrez Gene)
HNRPA2B1GeneProduct3181 (Entrez Gene)
HNRPA3P1GeneProduct10151 (Entrez Gene)
HNRPABGeneProduct3182 (Entrez Gene)
HNRPCGeneProduct3183 (Entrez Gene)
HNRPDGeneProduct3184 (Entrez Gene)
HNRPH1GeneProduct3187 (Entrez Gene)
HNRPH2GeneProduct3188 (Entrez Gene)
HNRPKGeneProduct3190 (Entrez Gene)
HNRPLGeneProduct3191 (Entrez Gene)
HNRPMGeneProduct4670 (Entrez Gene)
HNRPRGeneProduct10236 (Entrez Gene)
HNRPUGeneProduct3192 (Entrez Gene)
HRMT1L1GeneProduct3275 (Entrez Gene)
HRMT1L2GeneProduct3276 (Entrez Gene)
LSM2GeneProduct57819 (Entrez Gene)
LSM7GeneProduct51690 (Entrez Gene)
METTL3GeneProduct56339 (Entrez Gene)
NCBP1GeneProduct4686 (Entrez Gene)
NCBP2GeneProduct22916 (Entrez Gene)
NONOGeneProduct4841 (Entrez Gene)
NSEP1GeneProduct4904 (Entrez Gene)
NUDT21GeneProduct11051 (Entrez Gene)
NXF1GeneProduct10482 (Entrez Gene)
PABPN1GeneProduct8106 (Entrez Gene)
PAPOLAGeneProduct10914 (Entrez Gene)
PCBP2GeneProduct5094 (Entrez Gene)
PHF5AGeneProduct84844 (Entrez Gene)
POLR2AGeneProduct5430 (Entrez Gene)
PPM1GGeneProduct5496 (Entrez Gene) PMID: 12773558
PRPF18GeneProduct8559 (Entrez Gene)
PRPF3GeneProduct9129 (Entrez Gene)
PRPF4GeneProduct9128 (Entrez Gene)
PRPF4BGeneProduct8899 (Entrez Gene)
PRPF8GeneProduct10594 (Entrez Gene)
PSKH1GeneProduct5681 (Entrez Gene) PMID: 12466556
PTBP1GeneProduct5725 (Entrez Gene)
PTBP2GeneProduct58155 (Entrez Gene)
RBM17GeneProduct84991 (Entrez Gene)
RBM5GeneProduct10181 (Entrez Gene)
RBMXGeneProduct27316 (Entrez Gene)
RNGTTGeneProduct8732 (Entrez Gene)
RNMTGeneProduct8731 (Entrez Gene)
RNPC2GeneProduct9584 (Entrez Gene)
RNPS1GeneProduct10921 (Entrez Gene) PMID: 14729963
RNU2GeneProduct6066 (Entrez Gene) GenBank sequence: K00027
Rnu6GeneProductGenBank sequence: M10329
SF3A1GeneProduct10291 (Entrez Gene)
SF3A2GeneProduct8175 (Entrez Gene)
SF3A3GeneProduct10946 (Entrez Gene)
SF3B1GeneProduct23451 (Entrez Gene)
SF3B2GeneProduct10992 (Entrez Gene)
SF3B3GeneProduct23450 (Entrez Gene)
SF3B4GeneProduct10262 (Entrez Gene)
SF3B5GeneProduct83443 (Entrez Gene)
SF4GeneProduct57794 (Entrez Gene) inferred from: SURP 2, G patch protein, UniProt:O60378
SFPQGeneProduct6421 (Entrez Gene)
SFRS10GeneProduct6434 (Entrez Gene)
SFRS12GeneProduct140890 (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.
SFRS14GeneProduct10147 (Entrez Gene)
SFRS16GeneProduct11129 (Entrez Gene)
SFRS1GeneProduct6426 (Entrez Gene) Antagonist splicing factor
SFRS2GeneProduct6427 (Entrez Gene)
SFRS3GeneProduct6428 (Entrez Gene)
SFRS4GeneProduct6429 (Entrez Gene)
SFRS5GeneProduct6430 (Entrez Gene)
SFRS6GeneProduct6431 (Entrez Gene)
SFRS7GeneProduct6432 (Entrez Gene)
SFRS8GeneProduct6433 (Entrez Gene)
SFRS9GeneProduct8683 (Entrez Gene) PMID: 12738786, PMID: 12024014 (associated with hnRNP A1 splicing)
SMC1L1GeneProduct8243 (Entrez Gene)
SNRP70GeneProduct6625 (Entrez Gene)
SNRPA1GeneProduct6627 (Entrez Gene)
SNRPAGeneProduct6626 (Entrez Gene)
SNRPB2GeneProduct6629 (Entrez Gene)
SNRPBGeneProduct6628 (Entrez Gene)
SNRPD1GeneProduct6632 (Entrez Gene)
SNRPD2GeneProduct6633 (Entrez Gene)
SNRPD3GeneProduct6634 (Entrez Gene)
SNRPEGeneProduct6635 (Entrez Gene)
SNRPFGeneProduct6636 (Entrez Gene)
SNRPGGeneProduct6637 (Entrez Gene)
SNRPNGeneProduct6638 (Entrez Gene)
SPOPGeneProduct8405 (Entrez Gene)
SRP54GeneProduct6729 (Entrez Gene) PMID: 14729963
SRPK1GeneProduct6732 (Entrez Gene) PMID: 12773558
SRPK2GeneProduct6733 (Entrez Gene) PMID: 12773558
SRRM1GeneProduct10250 (Entrez Gene)
SSFA1GeneProduct6743 (Entrez Gene)
SUPT5HGeneProduct6829 (Entrez Gene)
TMP21GeneProduct10972 (Entrez Gene)
TXNL4AGeneProduct10907 (Entrez Gene)
U1 snRNAGeneProductGenBank sequence: J00645
U2AF1GeneProduct7307 (Entrez Gene)
U2AF2GeneProduct11338 (Entrez Gene)
U4 snRNAGeneProductGenBank sequence: M10328, M18004
U5 snRNAGeneProductGenBank sequence: AB021173
U5-116KDGeneProduct9343 (Entrez Gene)
WDR57GeneProduct9410 (Entrez Gene)
XRN2GeneProduct22803 (Entrez Gene)

Annotated Interactions

No annotated interactions
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