mRNA Processing (WP906)

Pan troglodytes

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.

Authors

Kristina Hanspers , Daniela Digles , and Martina Summer-Kutmon

Activity

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Organisms

Pan troglodytes

Communities

Annotations

Pathway Ontology

transcription pathway spliceosome pathway

Participants

Label Type Compact URI Comment
GMP Metabolite cas:85-32-5
ATP Metabolite cas:1927-31-7
PRPF4 GeneProduct ensembl:ENSPTRG00000021274 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:9128
SNRPA1 GeneProduct ensembl:ENSPTRG00000007513 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:6627
RBM17 GeneProduct ensembl:ENSPTRG00000002265 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:84991
SNRPD3 GeneProduct ensembl:ENSPTRG00000014176 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:6634
NCBP2 GeneProduct ensembl:ENSPTRG00000048726 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:22916
DNAJC8 GeneProduct ensembl:ENSPTRG00000000426 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:22826
RNGTT GeneProduct ensembl:ENSPTRG00000018413 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:8732
SNRPD1 GeneProduct ensembl:ENSPTRG00000050159 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:6632
SF3A2 GeneProduct ensembl:ENSPTRG00000010227 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:8175
SNRPD2 GeneProduct ensembl:ENSPTRG00000011162 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:6633
XRN2 GeneProduct ensembl:ENSPTRG00000013308 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:22803
DHX16 GeneProduct ensembl:ENSPTRG00000017935 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:8449
HNRNPM GeneProduct ensembl:ENSPTRG00000010424 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:4670
HNRNPA1 GeneProduct ensembl:ENSPTRG00000049417 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:3178
CELF2 GeneProduct ensembl:ENSPTRG00000002284 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:10659
SPOP GeneProduct ensembl:ENSPTRG00000009380 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:8405
HNRNPA2B1 GeneProduct ensembl:ENSPTRG00000019002 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:3181
PHF5A GeneProduct ensembl:ENSPTRG00000014427 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:84844
SF3B5 GeneProduct ensembl:ENSPTRG00000018676 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:83443
HNRNPR GeneProduct ensembl:ENSPTRG00000000324 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:10236
PRPF6 GeneProduct ensembl:ENSPTRG00000013765 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:24148
NSEP1 GeneProduct ensembl:ENSPTRG00000047244 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:4904
SRSF9 GeneProduct ensembl:ENSPTRG00000005535 PMID: 12738786, PMID: 12024014 (associated with hnRNP A1 splicing)
Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:8683
SUGP1 GeneProduct ensembl:ENSPTRG00000010737 inferred from: SURP 2, G patch protein, UniProt:O60378
Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:57794
SSFA1 GeneProduct ensembl:ENSPTRG00000052851 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:4809
SF3B3 GeneProduct ensembl:ENSPTRG00000008308 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:23450
PRPF40A GeneProduct ensembl:ENSPTRG00000012543 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:55660
PSKH1 GeneProduct ensembl:ENSPTRG00000008252 PMID: 12466556
Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:5681
SNRPB2 GeneProduct ensembl:ENSPTRG00000013271 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:6629
HNRPH2 GeneProduct ensembl:ENSPTRG00000046132 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:3188
SNRNP40 GeneProduct ensembl:ENSPTRG00000000455 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:9410
HNRNPU GeneProduct ensembl:ENSPTRG00000002182 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:3192
LSM7 GeneProduct ensembl:ENSPTRG00000010233 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:51690
DDX1 GeneProduct ensembl:ENSPTRG00000011670 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:1653
SRPK1 GeneProduct ensembl:ENSPTRG00000018094 PMID: 12773558
Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:6732
U2AF1 GeneProduct ensembl:ENSPTRG00000045377 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:7307
TRA2B GeneProduct ensembl:ENSPTRG00000015707 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:6434
SRPK2 GeneProduct ensembl:ENSPTRG00000019564 PMID: 12773558
Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:6733
HNRNPK GeneProduct ensembl:ENSPTRG00000048500 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:3190
SSFA1 GeneProduct ensembl:ENSPTRG00000052851 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:4809
SUPT5H GeneProduct ensembl:ENSPTRG00000010971 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:6829
FAM177A1 GeneProduct ensembl:ENSPTRG00000006259 PMID: 14729963
Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:6729
PRPF4B GeneProduct ensembl:ENSPTRG00000017683 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:8899
CELF1 GeneProduct ensembl:ENSPTRG00000052299 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:10658
SRSF1 GeneProduct ensembl:ENSPTRG00000049077 Antagonist splicing factor
Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:6426
CLP1 GeneProduct ensembl:ENSPTRG00000047318 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:10978
SNRPF GeneProduct ensembl:ENSPTRG00000047717 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:6636
METTL3 GeneProduct ensembl:ENSPTRG00000006127 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:56339
SRSF6 GeneProduct ensembl:ENSPTRG00000044686 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:6431
NXF1 GeneProduct ensembl:ENSPTRG00000003791 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:10482
SF3B2 GeneProduct ensembl:ENSPTRG00000003912 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:10992
SFPQ GeneProduct ensembl:ENSPTRG00000000518 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:6421
RBM5 GeneProduct ensembl:ENSPTRG00000014946 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:10181
PRPF3 GeneProduct ensembl:ENSPTRG00000001254 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:9129
SSFA1 GeneProduct ensembl:ENSPTRG00000052851 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:4809
SRSF10 GeneProduct ensembl:ENSPTRG00000044753 FUSI MOUSE PMID: 11684676
Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:10772
CSTF3 GeneProduct ensembl:ENSPTRG00000003485 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:1479
PAPOLA GeneProduct ensembl:ENSPTRG00000006704 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:10914
HNRNPD GeneProduct ensembl:ENSPTRG00000016215 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:3184
CPSF3 GeneProduct ensembl:ENSPTRG00000011638 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:51692
HNRNPAB GeneProduct ensembl:ENSPTRG00000017601 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:3182
CLASRP GeneProduct ensembl:ENSPTRG00000022583 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:11129
DICER1 GeneProduct ensembl:ENSPTRG00000023484 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:23405
PABPN1 GeneProduct ensembl:ENSPTRG00000052729 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:8106
U2 GeneProduct ensembl:ENSPTRG00000044342 GenBank sequence: K00027
Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:6066
PRMT1 GeneProduct ensembl:ENSPTRG00000040282 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:3276
CPSF4 GeneProduct ensembl:ENSPTRG00000019453 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:10898
SFSWAP GeneProduct ensembl:ENSPTRG00000005640 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:6433
SFRS3 GeneProduct ensembl:ENSPTRG00000041876 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:6428
SF3A1 GeneProduct ensembl:ENSPTRG00000014240 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:10291
CD2BP2 GeneProduct ensembl:ENSPTRG00000007995 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:10421
LSM2 GeneProduct ensembl:ENSPTRG00000017986 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:57819
SRSF10 GeneProduct ensembl:ENSPTRG00000044753 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:10772
TMED10 GeneProduct ensembl:ENSPTRG00000052822 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:10972
CPSF2 GeneProduct ensembl:ENSPTRG00000006651 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:53981
CPSF1 GeneProduct ensembl:ENSPTRG00000051253 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:29894
SRSF2 GeneProduct ensembl:ENSPTRG00000009692 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:6427
PPM1G GeneProduct ensembl:ENSPTRG00000011768 PMID: 12773558
Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:5496
NUDT21 GeneProduct ensembl:ENSPTRG00000008131 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:11051
SF3B4 GeneProduct ensembl:ENSPTRG00000001243 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:10262
CSTF2 GeneProduct ensembl:ENSPTRG00000022090 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:1478
DHX38 GeneProduct ensembl:ENSPTRG00000008338 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:9785
HNRNPC GeneProduct ensembl:ENSPTRG00000006118 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:3183
SREK1 GeneProduct ensembl:ENSPTRG00000016936 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.
Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:140890
SRSF4 GeneProduct ensembl:ENSPTRG00000000445 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:6429
CLK2 GeneProduct ensembl:ENSPTRG00000001419 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:1196
PRPF8 GeneProduct ensembl:ENSPTRG00000039576 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:10594
SF3A3 GeneProduct ensembl:ENSPTRG00000000559 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:10946
SNRPN GeneProduct ensembl:ENSPTRG00000006826 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:6638
CLK4 GeneProduct ensembl:ENSPTRG00000017605 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:57396
SF3B1 GeneProduct ensembl:ENSPTRG00000012771 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:23451
PRPF4 GeneProduct ensembl:ENSPTRG00000021274 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:9128
PRMT2 GeneProduct ensembl:ENSPTRG00000014027 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:3275
DDX20 GeneProduct ensembl:ENSPTRG00000001105 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:11218
NONO GeneProduct ensembl:ENSPTRG00000022010 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:4841
CELF4 GeneProduct ensembl:ENSPTRG00000009982 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:56853
SRSF5 GeneProduct ensembl:ENSPTRG00000006488 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:6430
PRPF18 GeneProduct ensembl:ENSPTRG00000002306 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:8559
CSTF2T GeneProduct ensembl:ENSPTRG00000043097 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:23283
SNRPN GeneProduct ensembl:ENSPTRG00000006826 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:6638
CSTF1 GeneProduct ensembl:ENSPTRG00000013647 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:1477
HNRNPL GeneProduct ensembl:ENSPTRG00000010941 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:3191
U2AF2 GeneProduct ensembl:ENSPTRG00000011523 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:11338
SRSF7 GeneProduct ensembl:ENSPTRG00000011851 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:6432
DHX9 GeneProduct ensembl:ENSPTRG00000001759 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:1660
SUGP2 GeneProduct ensembl:ENSPTRG00000010727 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:10147
SRRM1 GeneProduct ensembl:ENSPTRG00000000349 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:10250
RNMT GeneProduct ensembl:ENSPTRG00000009890 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:8731
SNRPE GeneProduct ensembl:ENSPTRG00000044898 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:6635
CDC40 GeneProduct ensembl:ENSPTRG00000018495 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:51362
SNRPG GeneProduct ensembl:ENSPTRG00000012029 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:6637
SMC1A GeneProduct ensembl:ENSPTRG00000021927 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:8243
SNRNP70 GeneProduct ensembl:ENSPTRG00000011277 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:6625
PRPF8 GeneProduct ensembl:ENSPTRG00000039576 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:10594
TXNL4A GeneProduct ensembl:ENSPTRG00000052385 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:10907
NCBP1 GeneProduct ensembl:ENSPTRG00000021167 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:4686
CDC40 GeneProduct ensembl:ENSPTRG00000018495 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:51362
DHX8 GeneProduct ensembl:ENSPTRG00000009246 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:1659
CLK1 GeneProduct ensembl:ENSPTRG00000012792 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.
Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:1195
CLK3 GeneProduct ensembl:ENSPTRG00000007278 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:1198
PTBP2 GeneProduct ensembl:ENSPTRG00000000987 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:58155
EFTUD2 GeneProduct ensembl:ENSPTRG00000009287 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:9343
LSM2 GeneProduct ensembl:ENSPTRG00000017986 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:57819
RBM39 GeneProduct ensembl:ENSPTRG00000049720 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:9584
SNRPA GeneProduct ensembl:ENSPTRG00000011007 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:6626
HNRNPH2 GeneProduct ensembl:ENSPTRG00000051626 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:3187
FUS GeneProduct ensembl:ENSPTRG00000008038 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:2521
DHX15 GeneProduct ensembl:ENSPTRG00000015955 Homology Mapping from Homo sapiens to Pan troglodytes: Original ID = L:1665

References

  1. mRNA nuclear export at a glance. Carmody SR, Wente SR. J Cell Sci. 2009 Jun 15;122(Pt 12):1933–7. PubMed Europe PMC Scholia