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Protein

Splicing factor 3B subunit 3

Gene

Sf3b3

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

Subunit of the splicing factor SF3B required for 'A' complex assembly formed by the stable binding of U2 snRNP to the branchpoint sequence (BPS) in pre-mRNA. Sequence independent binding of SF3A/SF3B complex upstream of the branch site is essential, it may anchor U2 snRNP to the pre-mRNA. May also be involved in the assembly of the 'E' complex. Belongs also to the minor U12-dependent spliceosome, which is involved in the splicing of rare class of nuclear pre-mRNA intron (By similarity).By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

mRNA processing, mRNA splicing

Enzyme and pathway databases

ReactomeiR-MMU-72163. mRNA Splicing - Major Pathway.
R-MMU-72165. mRNA Splicing - Minor Pathway.

Names & Taxonomyi

Protein namesi
Recommended name:
Splicing factor 3B subunit 3
Alternative name(s):
Pre-mRNA-splicing factor SF3b 130 kDa subunit
Short name:
SF3b130
Spliceosome-associated protein 130
Short name:
SAP 130
Gene namesi
Name:Sf3b3
Synonyms:Kiaa0017
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 8

Organism-specific databases

MGIiMGI:1289341. Sf3b3.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus, Spliceosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 12171217Splicing factor 3B subunit 3PRO_0000276755Add
BLAST

Proteomic databases

EPDiQ921M3.
MaxQBiQ921M3.
PaxDbiQ921M3.
PRIDEiQ921M3.

PTM databases

iPTMnetiQ921M3.
PhosphoSiteiQ921M3.
SwissPalmiQ921M3.

Expressioni

Gene expression databases

BgeeiQ921M3.
CleanExiMM_SF3B3.
ExpressionAtlasiQ921M3. baseline and differential.
GenevisibleiQ921M3. MM.

Interactioni

Subunit structurei

Identified in the spliceosome C complex. Component of the U11/U12 snRNPs that are part of the U12-type spliceosome. Component of splicing factor SF3B complex which is composed of at least eight subunits; SF3B1, SF3B2, SF3B3, SF3B4, SF3B5, SF3B6, PHF5A/SF3B14B, and DDX42/SF3B125. SF3B associates with the splicing factor SF3A and a 12S RNA unit to form the U2 small nuclear ribonucleoproteins complex (U2 snRNP). Interaction between SF3B3 and SF3B1 is tighter than the interaction between SF3B3 and SF3B2. Associates with the STAGA transcription coactivator-HAT complex. Interacts with SUPT3H (By similarity).By similarity

Protein-protein interaction databases

BioGridi221759. 3 interactions.
IntActiQ921M3. 3 interactions.
MINTiMINT-4122514.
STRINGi10090.ENSMUSP00000045073.

Structurei

3D structure databases

ProteinModelPortaliQ921M3.
SMRiQ921M3. Positions 438-769, 881-1211.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the RSE1 family.Curated

Phylogenomic databases

eggNOGiKOG1898. Eukaryota.
ENOG410XPFQ. LUCA.
GeneTreeiENSGT00530000063396.
HOGENOMiHOG000216677.
HOVERGENiHBG093942.
InParanoidiQ921M3.
KOiK12830.
OMAiHPKGIRH.
OrthoDBiEOG7N8ZTN.
PhylomeDBiQ921M3.
TreeFamiTF105685.

Family and domain databases

InterProiIPR004871. Cleavage/polyA-sp_fac_asu_C.
IPR017986. WD40_repeat_dom.
[Graphical view]
PfamiPF03178. CPSF_A. 1 hit.
[Graphical view]
SUPFAMiSSF50978. SSF50978. 3 hits.

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q921M3-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MFLYNLTLQR ATGISFAIHG NFSGTKQQEI VVSRGKILEL LRPDPNTGKV
60 70 80 90 100
HTLLTVEVFG VIRSLMAFRL TGGTKDYIVV GSDSGRIVIL EYQPSKNMFE
110 120 130 140 150
KIHQETFGKS GCRRIVPGQF LAVDPKGRAV MISAIEKQKL VYILNRDAAA
160 170 180 190 200
RLTISSPLEA HKANTLVYHV VGVDVGFENP MFACLEMDYE EADNDPTGEA
210 220 230 240 250
AANTQQTLTF YELDLGLNHV VRKYSEPLEE HGNFLITVPG GSDGPSGVLI
260 270 280 290 300
CSENYITYKN FGDQPDIRCP IPRRRNDLDD PERGMIFVCS ATHKTKSMFF
310 320 330 340 350
FLAQTEQGDI FKITLETDED MVTEIRLKYF DTVPVAAAMC VLKTGFLFVA
360 370 380 390 400
SEFGNHYLYQ IAHLGDDDEE PEFSSAMPLE EGDTFFFQPR PLKNLVLVDE
410 420 430 440 450
LDSLSPILFC QIADLANEDT PQLYVACGRG PRSSLRVLRH GLEVSEMAVS
460 470 480 490 500
ELPGNPNAVW TVRRHIEDEF DAYIIVSFVN ATLVLSIGET VEEVTDSGFL
510 520 530 540 550
GTTPTLSCSL LGDDALVQVY PDGIRHIRAD KRVNEWKTPG KKTIVKCAVN
560 570 580 590 600
QRQVVIALTG GELVYFEMDP SGQLNEYTER KEMSADVVCM SLANVPPGEQ
610 620 630 640 650
RSRFLAVGLV DNTVRIISLD PSDCLQPLSM QALPAQPESL CIVEMGGTEK
660 670 680 690 700
QDELGERGSI GFLYLNIGLQ NGVLLRTVLD PVTGDLSDTR TRYLGSRPVK
710 720 730 740 750
LFRVRMQGQE AVLAMSSRSW LSYSYQSRFH LTPLSYETLE FASGFASEQC
760 770 780 790 800
PEGIVAISTN TLRILALEKL GAVFNQVAFP LQYTPRKFVI HPESNNLIII
810 820 830 840 850
ETDHNAYTEA TKAQRKQQMA EEMVEAAGED ERELAAEMAA AFLNENLPES
860 870 880 890 900
IFGAPKAGNG QWASVIRVMN PIQGNTLDLV QLEQNEAAFS VAVCRFSNTG
910 920 930 940 950
EDWYVLVGVA KDLILSPRSV AGGFVYTYKL VNNGEKLEFL HKTPVEEVPA
960 970 980 990 1000
AIAPFQGRVL IGVGKLLRVY DLGKKKLLRK CENKHIANYI SGIQTIGHRV
1010 1020 1030 1040 1050
IVSDVQESFI WVRYKRNENQ LIIFADDTYP RWVTTASLLD YDTVAGADKF
1060 1070 1080 1090 1100
GNICVVRLPP NTNDEVDEDP TGNKALWDRG LLNGASQKAE VIMNYHVGET
1110 1120 1130 1140 1150
VLSLQKTTLI PGGSESLVYT TLSGGIGILV PFTSHEDHDF FQHVEMHLRS
1160 1170 1180 1190 1200
EHPPLCGRDH LSFRSYYFPV KNVIDGDLCE QFNSMEPNKQ KNVSEELDRT
1210
PPEVSKKLED IRTRYAF
Length:1,217
Mass (Da):135,550
Last modified:December 1, 2001 - v1
Checksum:iDD12A12EC8E8B23A
GO
Isoform 2 (identifier: Q921M3-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     819-913: Missing.

Note: No experimental confirmation available.
Show »
Length:1,122
Mass (Da):125,308
Checksum:i5ADE870D11D99217
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti327 – 3271L → I in BAE28225 (PubMed:16141072).Curated
Sequence conflicti870 – 8701N → S in BAE28225 (PubMed:16141072).Curated
Sequence conflicti1135 – 11351H → Y in BAC97845 (PubMed:16141072).Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei819 – 91395Missing in isoform 2. 1 PublicationVSP_022980Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK085705 mRNA. Translation: BAC39513.1.
AK088268 mRNA. Translation: BAC40248.1.
AK129035 Transcribed RNA. Translation: BAC97845.1.
AK147914 mRNA. Translation: BAE28225.1.
BC011412 mRNA. Translation: AAH11412.1.
BC031197 mRNA. Translation: AAH31197.2.
BC042580 mRNA. Translation: AAH42580.1.
CCDSiCCDS22665.1. [Q921M3-1]
RefSeqiNP_598714.1. NM_133953.2. [Q921M3-1]
XP_006530581.1. XM_006530518.2. [Q921M3-1]
UniGeneiMm.236123.

Genome annotation databases

EnsembliENSMUST00000042012; ENSMUSP00000045073; ENSMUSG00000033732. [Q921M3-1]
GeneIDi101943.
KEGGimmu:101943.
UCSCiuc009nlb.1. mouse. [Q921M3-1]
uc009nlc.1. mouse. [Q921M3-2]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK085705 mRNA. Translation: BAC39513.1.
AK088268 mRNA. Translation: BAC40248.1.
AK129035 Transcribed RNA. Translation: BAC97845.1.
AK147914 mRNA. Translation: BAE28225.1.
BC011412 mRNA. Translation: AAH11412.1.
BC031197 mRNA. Translation: AAH31197.2.
BC042580 mRNA. Translation: AAH42580.1.
CCDSiCCDS22665.1. [Q921M3-1]
RefSeqiNP_598714.1. NM_133953.2. [Q921M3-1]
XP_006530581.1. XM_006530518.2. [Q921M3-1]
UniGeneiMm.236123.

3D structure databases

ProteinModelPortaliQ921M3.
SMRiQ921M3. Positions 438-769, 881-1211.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi221759. 3 interactions.
IntActiQ921M3. 3 interactions.
MINTiMINT-4122514.
STRINGi10090.ENSMUSP00000045073.

PTM databases

iPTMnetiQ921M3.
PhosphoSiteiQ921M3.
SwissPalmiQ921M3.

Proteomic databases

EPDiQ921M3.
MaxQBiQ921M3.
PaxDbiQ921M3.
PRIDEiQ921M3.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000042012; ENSMUSP00000045073; ENSMUSG00000033732. [Q921M3-1]
GeneIDi101943.
KEGGimmu:101943.
UCSCiuc009nlb.1. mouse. [Q921M3-1]
uc009nlc.1. mouse. [Q921M3-2]

Organism-specific databases

CTDi23450.
MGIiMGI:1289341. Sf3b3.
RougeiSearch...

Phylogenomic databases

eggNOGiKOG1898. Eukaryota.
ENOG410XPFQ. LUCA.
GeneTreeiENSGT00530000063396.
HOGENOMiHOG000216677.
HOVERGENiHBG093942.
InParanoidiQ921M3.
KOiK12830.
OMAiHPKGIRH.
OrthoDBiEOG7N8ZTN.
PhylomeDBiQ921M3.
TreeFamiTF105685.

Enzyme and pathway databases

ReactomeiR-MMU-72163. mRNA Splicing - Major Pathway.
R-MMU-72165. mRNA Splicing - Minor Pathway.

Miscellaneous databases

NextBioi355190.
PROiQ921M3.
SOURCEiSearch...

Gene expression databases

BgeeiQ921M3.
CleanExiMM_SF3B3.
ExpressionAtlasiQ921M3. baseline and differential.
GenevisibleiQ921M3. MM.

Family and domain databases

InterProiIPR004871. Cleavage/polyA-sp_fac_asu_C.
IPR017986. WD40_repeat_dom.
[Graphical view]
PfamiPF03178. CPSF_A. 1 hit.
[Graphical view]
SUPFAMiSSF50978. SSF50978. 3 hits.
ProtoNetiSearch...

Publicationsi

  1. "The transcriptional landscape of the mammalian genome."
    Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
    , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
    Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    Strain: C57BL/6J and NOD.
    Tissue: Mammary gland and Thymus.
  2. "Prediction of the coding sequences of mouse homologues of KIAA gene: III. The complete nucleotide sequences of 500 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries."
    Okazaki N., Kikuno R., Ohara R., Inamoto S., Koseki H., Hiraoka S., Saga Y., Nagase T., Ohara O., Koga H.
    DNA Res. 10:167-180(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
    Tissue: Embryonic tail.
  3. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
    Strain: FVB/N and FVB/N-3.
    Tissue: Eye and Mammary tumor.
  4. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Brain, Brown adipose tissue, Heart, Kidney, Liver, Lung, Pancreas, Spleen and Testis.

Entry informationi

Entry nameiSF3B3_MOUSE
AccessioniPrimary (citable) accession number: Q921M3
Secondary accession number(s): Q3UGI3
, Q6ZQL0, Q8BUD9, Q8K2J8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 6, 2007
Last sequence update: December 1, 2001
Last modified: May 11, 2016
This is version 112 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.