Processing of Capped Intron-Containing Pre-mRNA (Homo sapiens)

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57, 86, 77, 811-136, 76, 714, 1515, 169, 10cytosolnucleoplasmSpliceosomal A ComplexMature intronless transcript derived Histone mRNA:SLBP:TAP:Aly/Ref complexATAC C ComplexSMC2 (P-loop, DA-box)mRNA 3'-end cleavage factorhnRNP A0SURP 2, G patch proteinMature Intronless Transcript Derived mRNA:eIF4E ComplexCBP80Mature Intronless Transcript Derived Histone mRNA:TAP:Aly/Ref complexhPrp17THOC4(Aly/Ref)Mature intronless derived mRNA:TAP:Aly/Ref complexASR2BCF IIHuR /3 RRM proteinMature mRNP ComplexMature Intronless Transcript Derived Histone mRNA:TAP:Aly/Ref ComplexU12 snRNPhPrp18U2 snRNPCPSFNFX.1eIF4EhnRNP-E2DnaJ hom. NP_055602CF IIhUpf3BCF ITHOC4(Aly/Ref)U2AF 35 kDa subunithPrp5hnRNP H'THOC4(Aly/Ref)eIF4E3'-polyadenylated, capped mRNA complexTAPSRp20RNA polymerase II (phosphorylated):TFIIF complexMature intronless transcript derived Histone mRNA:SLBP:eIF4E ComplexhnRNP-E1hnRNP GCPSFhnRNP A2hnRNP RSR7/ 9G8 proteinSF2/ASF/SFRS1eIF4ESRm160CC1.3 protein /3 RRM, RSU4 ATAC:U5:U6 ATAC ComplexPoly(A) polymerase alphaCPSFTAPPoly(A) polymerase alphaMagoh-Y14 complexATAC A ComplexTAPPABPN1post exon ligation complexhPrp16hnRNP L3' end cleaved, ligated exon containing complexSpliceosomal Intermediate C ComplexCstFU6 ATAC snRNPhnRNP MU5 snRNPExport Receptor bound mature mRNA ComplexSRp40Export Receptor bound mature mRNA ComplexhnRNP HTHOC4(Aly/Ref)intron-containing complexSR4 / SRp75UBA, Tudor - FLJ21007hnRNP C1/C2SMC1 (BAA11495)hnRNP INuclear Pore Complex (NPC)TAPE1B-AP5 nucleocytoplasmic transport proteinSRm160CF ICap Binding Complex (CBC)NFAR-2 proteincapped, methylated pre-mRNP:CBC complexSRp55U4:U5:U6 trisnRNP complexNucleoplasmic mature intronless derived mRNA:TAP:Aly/Ref complexmRNA (N6-adenosine)-methyltransferaseU11 snRNPCleavage and Polyadenylation ComplexU1 snRNPSpliceosomal active C complex with lariat containing, 5'-end cleaved pre-mRNP:CBC complexMature intronless transcript derived Histone pre-mRNA:CBC complexRNPS1Spliceosomal B ComplexATAC C Complex with lariat containing 5'-end cleaved mRNAhTra2U4 ATAC snRNPhnRNP UFUS - RNA binding protein/TLShPrp43hnRNP FExon Junction ComplexDDX9/NDH IIhnRNP A1hnRNP KYB-1FLJ10839 DNA-binding proteinTAP:3'-polyadenylated, capped mRNA complexRBM 5capped, methylated pre-mRNA:CBC ComplexU2AF 65 kDa subunitATAC B Complexcapped pre-mRNA:CBC:RNA Pol II (phosphorylated) complexhSLU7p68 DEAH proteinMature Intronless transcript derived Histone mRNA:SLBP:CBP80:CBP20TAPPABPN1CstFU1 snRNPTAPNuclear Pore Complex (NPC)SR9 / SRp30Mature SLBP independent Histone mRNA:eIF4E complexhnRNP A3Mature intronless transcript derived Histone mRNA:SLBP:TAP:Aly/Ref complexU4 snRNPhPrp19SPF31 (Dna J)hnRNP D0SR 11/ p54hPrp22Mature intronless derived mRNA complexSpliceosomal E ComplexSpliceosomal Active C ComplexLigated exon containing complexCD2BP2 - GYFATPCBP20SR2 / SC352-412-4


Description

Co-transcriptional pre-mRNA splicing is not obligatory. Pre-mRNA splicing begins co-transcriptionally and often continues post-transcriptionally. Human genes contain an average of nine introns per gene, which cannot serve as splicing substrates until both 5' and 3' ends of each intron are synthesized. Thus the time that it takes for pol II to synthesize each intron defines a minimal time and distance along the gene in which splicing factors can be recruited. The time that it takes for pol II to reach the end of the gene defines the maximal time in which splicing could occur co-transcriptionally. Thus, the kinetics of transcription can affect the kinetics of splicing.Any covalent change in a primary (nascent) mRNA transcript is mRNA Processing. For successful gene expression, the primary mRNA transcript needs to be converted to a mature mRNA prior to its translation into polypeptide. Eucaryotic mRNAs undergo a series of complex processing reactions; these begin on nascent transcripts as soon as a few ribonucleotides have been synthesized during transcription by RNA Polymerase II, through the export of the mature mRNA to the cytoplasm, and culminate with mRNA turnover in the cytoplasm.

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  115. Shen H, Zheng X, Luecke S, Green MR.; ''The U2AF35-related protein Urp contacts the 3' splice site to promote U12-type intron splicing and the second step of U2-type intron splicing.''; PubMed Europe PMC Scholia
  116. Wahle E, Rüegsegger U.; ''3'-End processing of pre-mRNA in eukaryotes.''; PubMed Europe PMC Scholia
  117. Grüter P, Tabernero C, von Kobbe C, Schmitt C, Saavedra C, Bachi A, Wilm M, Felber BK, Izaurralde E.; ''TAP, the human homolog of Mex67p, mediates CTE-dependent RNA export from the nucleus.''; PubMed Europe PMC Scholia
  118. Bessonov S, Anokhina M, Will CL, Urlaub H, Lührmann R.; ''Isolation of an active step I spliceosome and composition of its RNP core.''; PubMed Europe PMC Scholia
  119. Singh J, Sikand K, Conrad H, Will CL, Komar AA, Shukla GC.; ''U6atac snRNA stem-loop interacts with U12 p65 RNA binding protein and is functionally interchangeable with the U12 apical stem-loop III.''; PubMed Europe PMC Scholia

History

View all...
CompareRevisionActionTimeUserComment
115088view17:03, 25 January 2021ReactomeTeamReactome version 75
113530view12:00, 2 November 2020ReactomeTeamReactome version 74
112728view16:13, 9 October 2020ReactomeTeamReactome version 73
101644view11:51, 1 November 2018ReactomeTeamreactome version 66
101180view21:38, 31 October 2018ReactomeTeamreactome version 65
100706view20:10, 31 October 2018ReactomeTeamreactome version 64
100256view16:56, 31 October 2018ReactomeTeamreactome version 63
99809view15:20, 31 October 2018ReactomeTeamreactome version 62 (2nd attempt)
93917view13:44, 16 August 2017ReactomeTeamreactome version 61
93494view11:25, 9 August 2017ReactomeTeamreactome version 61
88115view10:05, 26 July 2016RyanmillerOntology Term : 'regulatory pathway' added !
86590view09:21, 11 July 2016ReactomeTeamreactome version 56
83367view11:01, 18 November 2015ReactomeTeamVersion54
81532view13:04, 21 August 2015ReactomeTeamVersion53
77003view08:29, 17 July 2014ReactomeTeamFixed remaining interactions
76708view12:07, 16 July 2014ReactomeTeamFixed remaining interactions
76034view10:09, 11 June 2014ReactomeTeamRe-fixing comment source
75743view11:23, 10 June 2014ReactomeTeamReactome 48 Update
75093view14:04, 8 May 2014AnweshaFixing comment source for displaying WikiPathways description
74829view10:05, 30 April 2014ReactomeTeamReactome46
74740view08:49, 30 April 2014ReactomeTeamReactome46
42105view21:57, 4 March 2011MaintBotAutomatic update
39915view05:56, 21 January 2011MaintBotNew pathway

External references

DataNodes

View all...
NameTypeDatabase referenceComment
3' end cleaved,

ligated exon containing complex

ComplexREACT_3092 (Reactome)
3'-polyadenylated,

capped mRNA complex

ComplexREACT_5827 (Reactome)
ASR2B UnknownREACT_5122 (Reactome)
ATAC A Complex ComplexREACT_4037 (Reactome)
ATAC B Complex ComplexREACT_5095 (Reactome)
ATAC C Complex ComplexREACT_4626 (Reactome)
ATAC C Complex with

lariat containing 5'- end cleaved mRNA

ComplexREACT_5134 (Reactome)
ATP Metabolite15422 (ChEBI)
CBP20 ProteinP52298 (UniProt)
CBP80 ProteinQ09161 (UniProt)
CC1.3 protein /3

RRM, RS

UnknownREACT_4848 (Reactome)
CD2BP2 - GYF ProteinO95400 (UniProt)
CF I ComplexREACT_4896 (Reactome)
CF II ComplexREACT_3772 (Reactome)
CPSF ComplexREACT_4530 (Reactome)
Cap Binding

Complex (CBC)

ComplexREACT_3884 (Reactome)
Cleavage and

Polyadenylation Complex

ComplexREACT_3144 (Reactome)
CstF ComplexREACT_3503 (Reactome)
DDX9/NDH II ProteinQ08211 (UniProt)
DnaJ hom.

NP_055602

UnknownREACT_4415 (Reactome)
E1B-AP5

nucleocytoplasmic transport protein

ProteinQ9BUJ2 (UniProt)
Exon Junction

Complex

ComplexREACT_2984 (Reactome)
Export Receptor

bound mature mRNA Complex

ComplexREACT_2455 (Reactome)
Export Receptor

bound mature mRNA Complex

ComplexREACT_2624 (Reactome)
FLJ10839 DNA-

binding protein

ProteinQ8IX12 (UniProt)
FUS - RNA binding

protein/TLS

ProteinP35637 (UniProt)
HuR /3 RRM protein UnknownREACT_5767 (Reactome)
Ligated exon

containing complex

ComplexREACT_5472 (Reactome)
Magoh-Y14 complex ComplexREACT_5524 (Reactome)
Mature Intronless

Transcript Derived Histone mRNA:TAP: Aly/Ref Complex

ComplexREACT_4560 (Reactome)
Mature Intronless

Transcript Derived Histone mRNA:TAP: Aly/Ref complex

ComplexREACT_5697 (Reactome)
Mature Intronless

Transcript Derived mRNA:eIF4E Complex

ComplexREACT_3252 (Reactome)
Mature Intronless

transcript derived Histone mRNA:SLBP: CBP80:CBP20

ComplexREACT_3802 (Reactome)
Mature SLBP

independent Histone mRNA:eIF4E complex

ComplexREACT_3452 (Reactome)
Mature intronless

derived mRNA complex

ComplexREACT_4047 (Reactome)
Mature intronless

derived mRNA:TAP: Aly/Ref complex

ComplexREACT_4662 (Reactome)
Mature intronless

transcript derived Histone mRNA:SLBP: TAP:Aly/Ref complex

ComplexREACT_2791 (Reactome)
Mature intronless

transcript derived Histone mRNA:SLBP: TAP:Aly/Ref complex

ComplexREACT_3824 (Reactome)
Mature intronless

transcript derived Histone mRNA:SLBP: eIF4E Complex

ComplexREACT_2270 (Reactome)
Mature intronless

transcript derived Histone pre-mRNA: CBC complex

ComplexREACT_5592 (Reactome)
Mature mRNP

Complex

ComplexREACT_4851 (Reactome)
NFAR-2 protein UnknownREACT_4072 (Reactome)
NFX.1 ProteinO43831 (UniProt)
Nuclear Pore

Complex (NPC)

ComplexREACT_5542 (Reactome)
Nucleoplasmic

mature intronless derived mRNA:TAP: Aly/Ref complex

ComplexREACT_4247 (Reactome)
PABPN1 ProteinQ86U42 (UniProt)
Poly(A) polymerase

alpha

ProteinP51003 (UniProt)
RBM 5 ProteinP52756 (UniProt)
RNA polymerase II

(phosphorylated): TFIIF complex

ComplexREACT_4593 (Reactome)
RNPS1 ProteinQ15287 (UniProt)
SF2/ASF/SFRS1 ProteinQ07955 (UniProt)
SMC1 (BAA11495) ProteinQ14683 (UniProt)
SMC2 (P-loop, DA-

box)

UnknownREACT_2529 (Reactome)
SPF31 (Dna J) ProteinO75937 (UniProt)
SR 11/ p54 ProteinQ05519 (UniProt)
SR2 / SC35 ProteinQ01130 (UniProt)
SR4 / SRp75 ProteinQ08170 (UniProt)
SR7/ 9G8 protein ProteinQ16629 (UniProt)
SR9 / SRp30 ProteinQ13242 (UniProt)
SRm160 ProteinQ8IYB3 (UniProt)
SRp20 ProteinP84103 (UniProt)
SRp40 ProteinQ13243 (UniProt)
SRp55 ProteinQ13247 (UniProt)
SURP 2, G patch

protein

ProteinQ8IWZ8 (UniProt)
Spliceosomal

Intermediate C Complex

ComplexREACT_5473 (Reactome)
Spliceosomal A

Complex

ComplexREACT_4512 (Reactome)
Spliceosomal Active C

Complex

ComplexREACT_2680 (Reactome)
Spliceosomal B

Complex

ComplexREACT_3078 (Reactome)
Spliceosomal E

Complex

ComplexREACT_4545 (Reactome)
Spliceosomal active C

complex with lariat containing, 5'-end cleaved pre-mRNP: CBC complex

ComplexREACT_5191 (Reactome)
TAP ProteinQ9UBU9 (UniProt)
TAP:3'-

polyadenylated, capped mRNA complex

ComplexREACT_4136 (Reactome)
THOC4(Aly/Ref) ProteinQ86V81 (UniProt)
U1 snRNP ComplexREACT_2910 (Reactome) The U1 snRNP is a particle consisting of the U1 snRNA and Sm core plus unique snRNP polypeptides. The U1-specific polypeptides are 70K, A, and C. The Sm core polypeptides are B, B', D1, D2, D3, E, F, G. The Sm core is a heteroheptamer in the shape of a donut, containing either B or B', which are almost identical to each other.
U11 snRNP ComplexREACT_5751 (Reactome)
U12 snRNP ComplexREACT_3595 (Reactome)
U2 snRNP ComplexREACT_3715 (Reactome)
U2AF 35 kDa

subunit

ProteinQ01081 (UniProt)
U2AF 65 kDa

subunit

ProteinP26368 (UniProt)
U4 ATAC snRNP ComplexREACT_5266 (Reactome)
U4 ATAC:U5:U6

ATAC Complex

ComplexREACT_4539 (Reactome)
U4 snRNP ComplexREACT_4877 (Reactome)
U4:U5:U6 trisnRNP

complex

ComplexREACT_5066 (Reactome)
U5 snRNP ComplexREACT_2482 (Reactome)
U6 ATAC snRNP ComplexREACT_3135 (Reactome)
UBA, Tudor -

FLJ21007

UnknownREACT_3970 (Reactome)
YB-1 ProteinP67809 (UniProt)
capped pre-mRNA:

CBC:RNA Pol II (phosphorylated) complex

ComplexREACT_3243 (Reactome)
capped, methylated

pre-mRNA:CBC Complex

ComplexREACT_3634 (Reactome)
capped, methylated

pre-mRNP:CBC complex

ComplexREACT_2736 (Reactome)
eIF4E ProteinP06730 (UniProt)
hPrp16 ProteinQ92620 (UniProt)
hPrp17 ProteinO60508 (UniProt)
hPrp18 UnknownREACT_3085 (Reactome)
hPrp19 UnknownREACT_3274 (Reactome)
hPrp22 UnknownREACT_3038 (Reactome)
hPrp43 UnknownREACT_5171 (Reactome)
hPrp5 UnknownREACT_3263 (Reactome)
hSLU7 UnknownREACT_5157 (Reactome)
hTra2 UnknownREACT_4242 (Reactome)
hUpf3B ProteinQ9BZI7 (UniProt)
hnRNP A0 ProteinQ13151 (UniProt)
hnRNP A1 ProteinP09651 (UniProt)
hnRNP A2 ProteinP22626 (UniProt)
hnRNP A3 ProteinP51991 (UniProt)
hnRNP C1/C2 ProteinP07910 (UniProt)
hnRNP D0 ProteinQ14103 (UniProt)
hnRNP F ProteinP52597 (UniProt)
hnRNP G ProteinP38159 (UniProt)
hnRNP H ProteinP31943 (UniProt)
hnRNP H' ProteinP55795 (UniProt)
hnRNP I ProteinP26599 (UniProt)
hnRNP K ProteinP61978 (UniProt)
hnRNP L ProteinP14866 (UniProt)
hnRNP M ProteinP52272 (UniProt)
hnRNP R ProteinO43390 (UniProt)
hnRNP U ProteinQ00839 (UniProt)
hnRNP-E1 ProteinQ15365 (UniProt)
hnRNP-E2 ProteinQ15366 (UniProt)
intron-containing

complex

ComplexREACT_3239 (Reactome)
mRNA (N6-

adenosine)- methyltransferase

ComplexREACT_3236 (Reactome)
mRNA 3'-end

cleavage factor

ComplexREACT_2642 (Reactome)
p68 DEAH protein UnknownREACT_4900 (Reactome)
post exon ligation

complex

ComplexREACT_5793 (Reactome)

Annotated Interactions

No annotated interactions

Retrieved from "https://classic.wikipathways.org/index.php/Pathway:WP1889"
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