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Protein

Splicing factor, arginine/serine-rich 19

Gene

Scaf1

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

Functioni

May function in pre-mRNA splicing.By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

mRNA processing, mRNA splicing

Keywords - Ligandi

RNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Splicing factor, arginine/serine-rich 19
Alternative name(s):
SR-related and CTD-associated factor 1
Gene namesi
Name:Scaf1
Synonyms:Sfrs19
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 7

Organism-specific databases

MGIiMGI:2141980. Scaf1.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 12561256Splicing factor, arginine/serine-rich 19PRO_0000299407Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei240 – 2401PhosphoserineCombined sources
Modified residuei328 – 3281PhosphothreonineBy similarity
Modified residuei442 – 4421PhosphoserineBy similarity
Modified residuei447 – 4471PhosphoserineBy similarity
Modified residuei491 – 4911PhosphoserineBy similarity
Modified residuei493 – 4931PhosphoserineBy similarity
Modified residuei510 – 5101PhosphoserineCombined sources
Modified residuei518 – 5181PhosphoserineCombined sources
Modified residuei520 – 5201PhosphoserineBy similarity
Modified residuei577 – 5771PhosphoserineCombined sources
Modified residuei579 – 5791PhosphoserineCombined sources
Modified residuei676 – 6761PhosphoserineCombined sources
Modified residuei682 – 6821PhosphoserineCombined sources
Modified residuei689 – 6891PhosphotyrosineBy similarity
Modified residuei691 – 6911PhosphoserineCombined sources
Modified residuei695 – 6951PhosphoserineCombined sources
Modified residuei821 – 8211PhosphoserineBy similarity
Modified residuei876 – 8761PhosphoserineBy similarity
Modified residuei883 – 8831PhosphoserineBy similarity
Modified residuei910 – 9101PhosphoserineCombined sources
Modified residuei912 – 9121PhosphoserineCombined sources
Modified residuei923 – 9231PhosphothreonineBy similarity
Modified residuei936 – 9361PhosphothreonineCombined sources
Modified residuei939 – 9391PhosphoserineCombined sources
Modified residuei948 – 9481PhosphothreonineBy similarity

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiQ5U4C3.
MaxQBiQ5U4C3.
PaxDbiQ5U4C3.
PRIDEiQ5U4C3.

PTM databases

iPTMnetiQ5U4C3.
PhosphoSiteiQ5U4C3.

Expressioni

Gene expression databases

BgeeiQ5U4C3.
CleanExiMM_SCAF1.
GenevisibleiQ5U4C3. MM.

Interactioni

Subunit structurei

Interacts with POLR2A.By similarity

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000082501.

Structurei

3D structure databases

ProteinModelPortaliQ5U4C3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni1131 – 1256126Necessary for interaction with the CTD domain of POLR2ABy similarityAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi185 – 26884Pro-richAdd
BLAST
Compositional biasi192 – 20817Ser-richAdd
BLAST
Compositional biasi269 – 28113Glu-richAdd
BLAST
Compositional biasi476 – 640165Arg-richAdd
BLAST
Compositional biasi710 – 821112Ser-richAdd
BLAST
Compositional biasi843 – 87331Lys-richAdd
BLAST
Compositional biasi956 – 98328Glu-richAdd
BLAST
Compositional biasi1228 – 125528Pro-richAdd
BLAST

Sequence similaritiesi

Belongs to the splicing factor SR family.Curated

Keywords - Domaini

Repeat

Phylogenomic databases

eggNOGiKOG0825. Eukaryota.
ENOG4111F4U. LUCA.
GeneTreeiENSGT00530000063661.
HOGENOMiHOG000154300.
HOVERGENiHBG097942.
InParanoidiQ5U4C3.
OMAiRPDKPDP.
OrthoDBiEOG7F24SX.
PhylomeDBiQ5U4C3.
TreeFamiTF332183.

Sequences (2)i

Sequence statusi: Complete.

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

Isoform 1 (identifier: Q5U4C3-1) [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
MEEEDESRGK TEESGEDRGD GPPDRDPALS PSAFILRAIQ QAVGSSLQGD
60 70 80 90 100
LPNDKDGARC RGLRWRRCCR SPRSEPRSQE SGAADTATVL DTAADSFLVE
110 120 130 140 150
LVSILDPPDT WVPSRLDLQP GESEDMLELV AEVRIGDRDP MPLPVPSLFP
160 170 180 190 200
RLRAWRTGKT VSPQSHASRP ACSRHLTLGT GDGGPAPPPA PSSASSSPSP
210 220 230 240 250
SPSSSSPSPP PPPPPPPPPA LPAPRFDIYD PFHPTDEAYS PPPAPEQKYD
260 270 280 290 300
PFEPTGSNPS SSAGTPSPEE EEEEEEEEEE EGLSQSISRI SETLAGIYDD
310 320 330 340 350
NSLSQDFPGD DSPRREPPPP QTLGAPGTPP QADSTRAEGA PRRRVFVLGP
360 370 380 390 400
EAEACHEGKV SVEVVTAGAP ALSLPPLPPT DPEIEEGEIV QPEEEPRVAV
410 420 430 440 450
SLFRAARPRQ PPASVATLAS VAAPAAPPAS APRAPEGDDF LSLHADSDGE
460 470 480 490 500
GALQVDLGEP PAPPAADARW GGLDLRRKIL TQRRERYRQR SASPGPPPAR
510 520 530 540 550
KKARRERQRS GDPAPPDSPS WEAKKHRSRE RKLGSHSTAR RRSRSRSRRR
560 570 580 590 600
SRSRSADRRR GGHRSRSREK RRRRRRSASP PPAASSSSSS RRERHRGKRR
610 620 630 640 650
EGGKKKKKRS RSRAEKRSGD LEKLPASVPP SGSDRDSRRR GAVPPSIQDL
660 670 680 690 700
TDHDLFAIKR TITVGRPDKA EPRAPSPAPA VSPKREVLYD SEGLSADERG
710 720 730 740 750
GKSDKDRRRS GAASSSSSSR EKGSRRKALD GDRGRDRDRS SKKTRPPKDS
760 770 780 790 800
TPGSGPLPKA PPSSGSSSSS SSCSSRKVKL QSKVAVLIRE GVSSTTPAKD
810 820 830 840 850
SSSSGLGSIG VKFSRDRESR SPFLKPDERA PAEVAKVAPG SNKPKKTKAK
860 870 880 890 900
AKAGAKKAKG TKGKTKPSKT RKKVRSGGSS TASGGPGSLK KSKADSCSQA
910 920 930 940 950
ASAKGTEETS WSGEERTTKA PSTPPPKVAP PPPALTPDSQ TVDSSCKTPE
960 970 980 990 1000
VSFLPEEASE DTGVRVGAEE EEEEEEEEEE EEEQQPATTT ATSTAAAAPS
1010 1020 1030 1040 1050
TAPSAGSTAG DSGAEDGPAA RISQLPTLPP PMPWNLPAGV DCTTSGVLAL
1060 1070 1080 1090 1100
TALLFKMEEA NLASRAKAQE LIQATNQILS HRKPSSTLGV TPAPVPTSLG
1110 1120 1130 1140 1150
LPPGPSSYLL PGSLPIGGCG STPPTPTGLA PASDKREGSS SSEGRGDTDK
1160 1170 1180 1190 1200
YLKKLHTQER AVEEVKLAIK PYYQKKDITK EEYKDILRKA VHKICHSKSG
1210 1220 1230 1240 1250
EINPVKVSNL VRAYVQRYRY FRKHGRKPGD PPGPPRPPKE PGPPDKGGPG

LPLPPL
Length:1,256
Mass (Da):133,842
Last modified:December 7, 2004 - v1
Checksum:iE3D3BFCF441FE554
GO
Isoform 2 (identifier: Q5U4C3-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     161-166: VSPQSH → GSCPVA
     167-1256: Missing.

Note: No experimental confirmation available.
Show »
Length:166
Mass (Da):18,112
Checksum:iCBA9B09A53C1299C
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei161 – 1666VSPQSH → GSCPVA in isoform 2. 1 PublicationVSP_027636
Alternative sequencei167 – 12561090Missing in isoform 2. 1 PublicationVSP_027637Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK141920 mRNA. Translation: BAE24887.1.
BC042576 mRNA. Translation: AAH42576.1.
BC043138 mRNA. Translation: AAH43138.1.
BC085153 mRNA. Translation: AAH85153.1.
CCDSiCCDS21225.1. [Q5U4C3-1]
RefSeqiNP_001008422.1. NM_001008422.1. [Q5U4C3-1]
XP_006540883.1. XM_006540820.2. [Q5U4C3-1]
XP_006540884.1. XM_006540821.2. [Q5U4C3-1]
XP_011249157.1. XM_011250855.1. [Q5U4C3-1]
UniGeneiMm.28298.

Genome annotation databases

EnsembliENSMUST00000085383; ENSMUSP00000082501; ENSMUSG00000038406. [Q5U4C3-1]
GeneIDi233208.
KEGGimmu:233208.
UCSCiuc009gso.1. mouse. [Q5U4C3-1]
uc009gsq.1. mouse. [Q5U4C3-2]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK141920 mRNA. Translation: BAE24887.1.
BC042576 mRNA. Translation: AAH42576.1.
BC043138 mRNA. Translation: AAH43138.1.
BC085153 mRNA. Translation: AAH85153.1.
CCDSiCCDS21225.1. [Q5U4C3-1]
RefSeqiNP_001008422.1. NM_001008422.1. [Q5U4C3-1]
XP_006540883.1. XM_006540820.2. [Q5U4C3-1]
XP_006540884.1. XM_006540821.2. [Q5U4C3-1]
XP_011249157.1. XM_011250855.1. [Q5U4C3-1]
UniGeneiMm.28298.

3D structure databases

ProteinModelPortaliQ5U4C3.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10090.ENSMUSP00000082501.

PTM databases

iPTMnetiQ5U4C3.
PhosphoSiteiQ5U4C3.

Proteomic databases

EPDiQ5U4C3.
MaxQBiQ5U4C3.
PaxDbiQ5U4C3.
PRIDEiQ5U4C3.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000085383; ENSMUSP00000082501; ENSMUSG00000038406. [Q5U4C3-1]
GeneIDi233208.
KEGGimmu:233208.
UCSCiuc009gso.1. mouse. [Q5U4C3-1]
uc009gsq.1. mouse. [Q5U4C3-2]

Organism-specific databases

CTDi58506.
MGIiMGI:2141980. Scaf1.

Phylogenomic databases

eggNOGiKOG0825. Eukaryota.
ENOG4111F4U. LUCA.
GeneTreeiENSGT00530000063661.
HOGENOMiHOG000154300.
HOVERGENiHBG097942.
InParanoidiQ5U4C3.
OMAiRPDKPDP.
OrthoDBiEOG7F24SX.
PhylomeDBiQ5U4C3.
TreeFamiTF332183.

Miscellaneous databases

ChiTaRSiScaf1. mouse.
PROiQ5U4C3.
SOURCEiSearch...

Gene expression databases

BgeeiQ5U4C3.
CleanExiMM_SCAF1.
GenevisibleiQ5U4C3. MM.

Family and domain databases

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 2).
    Strain: C57BL/6J.
    Tissue: Spinal ganglion.
  2. "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: C57BL/6J and FVB/N.
    Tissue: Brain, Embryonic brain and Liver.
  3. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-691; SER-695; SER-912 AND THR-936, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Liver.
  4. "Specific phosphopeptide enrichment with immobilized titanium ion affinity chromatography adsorbent for phosphoproteome analysis."
    Zhou H., Ye M., Dong J., Han G., Jiang X., Wu R., Zou H.
    J. Proteome Res. 7:3957-3967(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Liver.
  5. "The phagosomal proteome in interferon-gamma-activated macrophages."
    Trost M., English L., Lemieux S., Courcelles M., Desjardins M., Thibault P.
    Immunity 30:143-154(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  6. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-240; SER-510; SER-518; SER-577; SER-579; SER-676; SER-682; SER-691; SER-695; SER-910; SER-912; THR-936 AND SER-939, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Brain, Brown adipose tissue, Heart, Kidney, Liver, Lung, Pancreas, Spleen and Testis.

Entry informationi

Entry nameiSFR19_MOUSE
AccessioniPrimary (citable) accession number: Q5U4C3
Secondary accession number(s): Q3UR01
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 11, 2007
Last sequence update: December 7, 2004
Last modified: June 8, 2016
This is version 83 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.