mRNA processing (Caenorhabditis elegans)

From WikiPathways

Revision as of 13:03, 31 January 2023 by Larsgw (Talk | contribs)
(diff) ←Older revision | Current revision (diff) | Newer revision→ (diff)
Jump to: navigation, search
1mRNA Cappingexon 1pre-mRNAA3CFIU2 snRNPAYYYYexon 2snRNP Sm core complexPoly(A)pb II5U1 snRNPintronUGRNA helicase AU5 snRNP5Alternative SplicingFormation of the Spliceosomal A complexheterogeneous nuclear ribonucleoproteinsCF IAGhnRNPsU5Note: New participating members shown at each stepSR-proteinsU4 snRNPYYYYexon 1U4Primary RNA transcript5splicing factor SF3Aexon 2Spt5mRNA splicing (major pathway)Formation of the Spliceosomal B complexPiInternal methylation of mRNAU6 snRNPFormation of pre-mRNPs3U2 snRNPssnRNP Sm core complexGU5GMPRegulation of35 G capmRNA cappingPolr2aRNAi pathwaysplicing factor SF3BYYYYAccessory ProteinsPutative Alternative SplicingYYYYFormation of the Spliceosomal B complex335CstFU2AFAdditional FactorsFormation of the Spliceosomal E complexCF IIU13exon 1exon 1YYYY3Processing of Intron-Containing Pre-mRNAYYYYdegraded5AGU2Serine/Argenine Rich Proteins(SR)exon 2Poly(A) polARnmt (methyltransferase)Methylation of mRNAFormation of the active Spliceosomal C complexexon 1Internal methylation of mRNAiPo3AG65Additional FactorshnRNP regulatorsSF3b14b5U2 snRNPexon 2U2AFSR-binding sitesUGP-Additional SR proteinsFormation of the Spliceosomal A complexAGAAAAAAAA3snRNP Sm core complexSR protein kinasesU1 snRNPU5AGU4/U6Formation of the Spliceosomal C complexCap Bindingexon 1SR-binding sitesSR-proteinsAGAFormation of pre-mRNPsexon 2CF II35Formation of the Spliceosomal E complexPoly(A) polymerase alphaRegulatorsmRNA splice site selectionPoly(A)-binding protein II5U6U4:U5:U6 tri-snRNP complex53RNA helicase5exon 2ACSTF2CUGBP2cpf-1Y55F3BR.1PTBP2rnp-7Y59A8B.6F08G12.2HRMT1L1PCBP2Rnu6FNBP3cpf-2SFRS10F09G2.4prp-8tag-172HNRPA3P1rnp-2F11A10.8Y55F3AM.3rha-1F58B3.7TXNL4ASFRS5SFRS9mog-1ama-1NONOrnp-3SF3B4him-1nxf-1rsp-1rsp-4FUSIP1eft-1tag-72HNRPH2T08A11.2bath-43rsp-2sap-1U1 snRNAHNRPKY73B6BL.33U5 snRNAdcr-1snr-5HNRPA2B1U4 snRNAprp-17DDX20snr-4unc-75snr-6cel-1mog-5SNRPNSFRS14spt-5phf-5F56D2.6C25A1.4M03C11.7NCBP2HNRPCrsp-6F28C1.1RBMXMETTL3CLK4SF4SSFA1F43G6.5gut-2HNRPABhrp-2prp-17CLK3Y48B6A.3gut-2Y76B12C.7prp-21SFRS3SSFA1rsp-3F43G9.5pab-3C36B1.5ptb-1mog-4tag-203SF3B5snr-7F37E3.1etr-1snr-1prp-8T08B2.5W03F9.10rsp-7suf-1C36B1.5C27H5.3snr-3F11A10.2rsr-1lsm-7T13H5.4Y67H2A.1teg-1C44B7.2SNRPBF47G9.1F59A2.4uaf-1HNRPDprp-4RNU2dnj-30NSEP1SNRPNCLK1Y113G7B.17HNRPA1


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

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.

Try the New WikiPathways

View approved pathways at the new wikipathways.org.

Quality Tags

Ontology Terms

 

Bibliography

  1. Zahler, A. M.; ''Pre-mRNA splicing and its regulation in Caenorhabditis elegans''; WormBook, ed. The C. elegans Research Community, WormBook, doi/10.1895/wormbook.1.31.2, 2012 DOI Scholia

History

View all...
CompareRevisionActionTimeUserComment
125266view13:03, 31 January 2023LarsgwAdd DOI to publication
122783view23:27, 17 May 2022AlexanderPicocleaning up broken comments
118541view11:23, 28 May 2021DeSlAdded lit. ref.
118426view14:25, 27 May 2021Fehrhartconverted graphical lines
118419view14:20, 27 May 2021Fehrhartconverted graphical lines
71848view20:09, 18 October 2013MaintBotremoved data source from nodes without identifier
69960view20:58, 11 July 2013MaintBotupdating to 2013 schema
67495view11:09, 26 June 2013DdiglesOntology Term : 'spliceosome pathway' added !
40645view19:58, 1 March 2011MaintBotRemoved redundant pathway information and comments
35240view19:45, 11 February 2010KhanspersModified description
20941view11:30, 14 November 2008MaintBot[[Pathway:Caenorhabditis elegans:mRNA processing Reactome]] moved to [[Pathway:WP123]]: Moved to stable identifier
8507view14:01, 7 January 2008MaintBotAdded to category $category
8505view14:01, 7 January 2008NsalomonisUploaded new pathway

External references

DataNodes

View all...
NameTypeDatabase referenceComment
C25A1.4GeneProduct172881 (Entrez Gene)
C27H5.3GeneProduct174175 (Entrez Gene)
C36B1.5GeneProduct183250 (Entrez Gene)
C44B7.2GeneProduct3565706 (Entrez Gene)
CLK1GeneProduct
CLK3GeneProduct
CLK4GeneProduct
CSTF2GeneProduct
CUGBP2GeneProduct
DDX20GeneProduct
F08G12.2GeneProduct181319 (Entrez Gene)
F09G2.4GeneProduct179103 (Entrez Gene)
F11A10.2GeneProduct178147 (Entrez Gene)
F11A10.8GeneProduct178151 (Entrez Gene)
F28C1.1GeneProduct179705 (Entrez Gene)
F37E3.1GeneProduct172345 (Entrez Gene)
F43G6.5GeneProduct174816 (Entrez Gene)
F43G9.5GeneProduct172657 (Entrez Gene)
F47G9.1GeneProduct179567 (Entrez Gene)
F56D2.6GeneProduct175771 (Entrez Gene)
F58B3.7GeneProduct178091 (Entrez Gene)
F59A2.4GeneProduct175442 (Entrez Gene)
FNBP3GeneProduct
FUSIP1GeneProduct
HNRPA1GeneProduct
HNRPA2B1GeneProduct
HNRPA3P1GeneProduct
HNRPABGeneProduct
HNRPCGeneProduct
HNRPDGeneProduct
HNRPH2GeneProduct
HNRPKGeneProduct
HRMT1L1GeneProduct
M03C11.7GeneProduct176461 (Entrez Gene)
METTL3GeneProduct
NCBP2GeneProduct
NONOGeneProduct
NSEP1GeneProduct
PCBP2GeneProduct
PTBP2GeneProduct
RBMXGeneProduct
RNU2GeneProductGenBank sequence: K00027
Rnu6GeneProductGenBank sequence: M10329
SF3B4GeneProduct
SF3B5GeneProduct
SF4GeneProductinferred from: SURP 2, G patch protein, UniProt:O60378
SFRS10GeneProduct
SFRS14GeneProduct
SFRS3GeneProduct
SFRS5GeneProduct
SFRS9GeneProductPMID: 12738786, PMID: 12024014 (associated with hnRNP A1 splicing)
SNRPBGeneProduct
SNRPNGeneProduct
SSFA1GeneProduct
T08A11.2GeneProduct175549 (Entrez Gene)
T08B2.5GeneProduct172312 (Entrez Gene)
T13H5.4GeneProduct174364 (Entrez Gene)
TXNL4AGeneProduct
U1 snRNAGeneProductGenBank sequence: J00645
U4 snRNAGeneProductGenBank sequence: M10328, M18004
U5 snRNAGeneProductGenBank sequence: AB021173
W03F9.10GeneProduct178542 (Entrez Gene)
Y113G7B.17GeneProduct180326 (Entrez Gene)
Y48B6A.3GeneProduct175071 (Entrez Gene)
Y55F3AM.3GeneProduct176922 (Entrez Gene)
Y55F3BR.1GeneProduct176913 (Entrez Gene)
Y59A8B.6GeneProduct180180 (Entrez Gene)
Y67H2A.1GeneProduct178285 (Entrez Gene)
Y73B6BL.33GeneProduct177398 (Entrez Gene)
Y76B12C.7GeneProduct177003 (Entrez Gene)
ama-1GeneProduct177190 (Entrez Gene)
bath-43GeneProduct176422 (Entrez Gene)
cel-1GeneProduct172814 (Entrez Gene)
cpf-1GeneProduct174378 (Entrez Gene)
cpf-2GeneProduct176742 (Entrez Gene)
dcr-1GeneProduct176138 (Entrez Gene)
dnj-30GeneProduct171833 (Entrez Gene)
eft-1GeneProduct175851 (Entrez Gene)
etr-1GeneProduct173401 (Entrez Gene)
gut-2GeneProduct179833 (Entrez Gene)
him-1GeneProduct172116 (Entrez Gene)
hrp-2GeneProduct173086 (Entrez Gene)
lsm-7GeneProduct177988 (Entrez Gene)
mog-1GeneProduct176409 (Entrez Gene)
mog-4GeneProduct175117 (Entrez Gene)
mog-5GeneProduct173920 (Entrez Gene)
nxf-1GeneProduct191736 (Entrez Gene)
pab-3GeneProduct172768 (Entrez Gene)
phf-5GeneProduct3564851 (Entrez Gene)
prp-17GeneProduct172999 (Entrez Gene)
prp-21GeneProduct173440 (Entrez Gene)
prp-4GeneProduct172443 (Entrez Gene)
prp-8GeneProduct176153 (Entrez Gene)
ptb-1GeneProduct174647 (Entrez Gene)
rha-1GeneProduct174417 (Entrez Gene)
rnp-2GeneProduct177181 (Entrez Gene)
rnp-3GeneProduct177182 (Entrez Gene)
rnp-7GeneProduct176002 (Entrez Gene)
rsp-1GeneProduct174748 (Entrez Gene)
rsp-2GeneProduct174747 (Entrez Gene)
rsp-3GeneProduct176688 (Entrez Gene) Antagonist splicing factor
rsp-4GeneProduct173915 (Entrez Gene)
rsp-6GeneProduct177566 (Entrez Gene)
rsp-7GeneProduct174646 (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.
rsr-1GeneProduct173013 (Entrez Gene)
sap-1GeneProduct173767 (Entrez Gene)
snr-1GeneProduct178483 (Entrez Gene)
snr-3GeneProduct174072 (Entrez Gene)
snr-4GeneProduct179639 (Entrez Gene)
snr-5GeneProduct176103 (Entrez Gene)
snr-6GeneProduct176668 (Entrez Gene)
snr-7GeneProduct171834 (Entrez Gene)
spt-5GeneProduct178143 (Entrez Gene)
suf-1GeneProduct174380 (Entrez Gene)
tag-172GeneProduct3565068 (Entrez Gene)
tag-203GeneProduct172406 (Entrez Gene)
tag-72GeneProduct182875 (Entrez Gene)
teg-1GeneProduct176561 (Entrez Gene)
uaf-1GeneProduct175270 (Entrez Gene)
unc-75GeneProduct182722 (Entrez Gene)

Annotated Interactions

No annotated interactions
Personal tools