>SFJ236 (SFJ236Q) /CSM/SF/SFJ2-B/SFJ236Q.Seq.d/
AAATTTATCCACACACACATAATATATATACACCAAAAATGAATTGGAAAGAGCAACTTG
AAGAAATTGGTAATTGCCAAGATTCAAACAAAGCTATCCAAGATTATAATAAAATTCTCA
CTATTCAAGAATCACCAGATGATATTAAAGAGGAAGCAATTCTTAGATTAGCAAAATTAT
TTGTAAAGATTGGTAAAGGTGATCAATTACCAACACTTTTAAGATCAGTTAGACCATTTT
TTGATAAAATTTCTAAACCAAAGACTGATAAAATCGTTAGAAATTTTATTGATATTTTCT
CAACCGTACCTGATAATTTAACAACTTTAATTGAATTTGTCAAAGAGAATATTCAATGGT
GTAAAGATACAAATAGAATTTATTTAAGACAAAGATTAGAAACTAAACTTTTTACATTAA
TGTTTGAAGCAAAAGATTATGCAAATGCATTAAGCGGATTAACAACATTATTAACAGAAA
TTAAAAGATTGGATGATAAACCATTATTAGTTGAAATTCAACTTGTTGGAGAGTAGAATT
CAACATGCTCTTAAAAATATTCCAAAAGCAAGAGCTGCTTTAACTTCTTGCTCGTACAAA
TGCAAATACAATCTATXXXXXXXXXXAAATCGATATGCAATCTGGTATTTTACATTCTGA
AGAAAAAGATTATAAAACTGCTTTTTCATACTTTTTCGAATCATATGAAACTTATGATAG
TCTTGAAGATCCATTTGCAATGAAAGCATTAAAGTATATGTTACTTTGTAAAATTATGAC
CAACCAAACTGATGATGTTCATGCATTAGTTAATGGTAAAATTGGTTTGAAATATCATAA
CAATAGATCCATTGAAGCAATTACTCAAATTTCAAAATCTCATGCAAAGAGATCACTTCA
TATGTTCCAAGAGGTAACCAAAGAATTTTCTGATCAATTATCTGATGATCCAATCATTCA
TAGTCATTTAACTGAATTATATAGTAATCTTCTTGAACAAAATTTATGTCGTATTATTGA
ACCATTCTCAAGGGTTGAAATTTCACATATTGCAAAATTAATTGATTTACCAGTTGATGT
TGTTGAAAGAAAATTATCACTTATGATCCTTGATAAGAAATATAATGGTATCCTCGATCA
AGGTACTGGTACTTTAATTGTATTTGAAGAACAAAAAGAAGATAAATTATTTAATTGTTC
TTTAGAAACTATTGGTGCTTTAAGTCGTGTTGTGATTTACTTTAGAAAAAACAAACAAAC
TTTCTTAAATT

kfihthiiyihqk*igksnlkklviakiqtklskiiikfslfknhqmilkrkqfld*qny
l*rlvkvinyqhf*dqldhflikflnqrliksleillifsqpylii*ql*lnlskrifng
vkiqiefi*dkd*klnflh*clkqkimqmh*ad*qhy*qklkdwminhy*LKFNLLESRI
QHALKNIPKARAALTSCSYKCKYNL---

---IDMQSGILHSEEKDYKTAFSYFFESYETYDSLEDPFAMKALKYMLLCKIMTNQTDDV
HALVNGKIGLKYHNNRSIEAITQISKSHAKRSLHMFQEVTKEFSDQLSDDPIIHSHLTEL
YSNLLEQNLCRIIEPFSRVEISHIAKLIDLPVDVVERKLSLMILDKKYNGILDQGTGTLI
VFEEQKEDKLFNCSLETIGALSRVVIYFRKNKQTFLN

Frame A:
kfihthiiyihqk*igksnlkklviakiqtklskiiikfslfknhqmilkrkqfld*qny
l*rlvkvinyqhf*dqldhflikflnqrliksleillifsqpylii*ql*lnlskrifng
vkiqiefi*dkd*klnflh*clkqkimqmh*ad*qhy*qklkdwminhy*LKFNLLESRI
QHALKNIPKARAALTSCSYKCKYNL---

---ksicnlvfyilkkkiikllfhtfsnhmklmivlkihlq*kh*sicyfvkl*ptklmm
fmh*lmvklv*niitidplkqllkfqnlmqrdhficskr*pknflinylmiqsfivi*ln
yiviflnkiyvvllnhsqglkfhilqn*liyqlmllkenyhl*slirnimvssikvlvl*
lylknkkkinylivl*kllvl*vvl*ftlektnkls*i

Frame B:
nlstht*yiytknelerat*rnw*lprfkqsyprl**nshysritr*y*rgsns*iskii
ckdw*r*sitntfkis*tif**nf*tkd**nr*kfy*yflnrt**fnnfn*icqreysmv
*ryk*nlfktkirn*tfyinv*skrlckcikrinniinrn*kig**tiis*nstcwrvef
nmllkifqkqell*llartnantiy---

---nryaiwyftf*rkrl*ncffilfrii*nl**s*rsicnesikvyvtl*nydqpn**c
scis*w*nwfeis*q*ih*snysnfkisckeitsyvprgnqrif*sii**snhs*sfn*i
i**ss*tkfmsyy*tilkg*nftyckin*fts*cc*kkiitydp**ei*wyprsrywyfn
ci*rtkrr*ii*lffrnywcfksccdll*kkqtnflk

Frame C:
iyphthniytpkmnwkeqleeigncqdsnkaiqdynkiltiqespddikeeailrlaklf
vkigkgdqlptllrsvrpffdkiskpktdkivrnfidifstvpdnlttliefvkeniqwc
kdtnriylrqrletklftlmfeakdyanalsglttllteikrlddkpllveiqlvge*ns
tcs*kyskskscfnfllvqmqiqs---

---IDMQSGILHSEEKDYKTAFSYFFESYETYDSLEDPFAMKALKYMLLCKIMTNQTDDV
HALVNGKIGLKYHNNRSIEAITQISKSHAKRSLHMFQEVTKEFSDQLSDDPIIHSHLTEL
YSNLLEQNLCRIIEPFSRVEISHIAKLIDLPVDVVERKLSLMILDKKYNGILDQGTGTLI
VFEEQKEDKLFNCSLETIGALSRVVIYFRKNKQTFLN

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SFJ236 (SFJ236Q) /CSM/SF/SFJ2-B/SFJ236Q.Seq.d/                       2460   0.0
VFI186 (VFI186Q) /CSM/VF/VFI1-D/VFI186Q.Seq.d/                       1267   0.0
AFF220 (AFF220Q) /CSM/AF/AFF2-A/AFF220Q.Seq.d/                       1267   0.0
VFF145 (VFF145Q) /CSM/VF/VFF1-B/VFF145Q.Seq.d/                       1265   0.0
SFD230 (SFD230Q) /CSM/SF/SFD2-B/SFD230Q.Seq.d/                       1265   0.0
AFO642 (AFO642Q) /CSM/AF/AFO6-B/AFO642Q.Seq.d/                       1265   0.0
AFM375 (AFM375Q) /CSM/AF/AFM3-D/AFM375Q.Seq.d/                       1265   0.0
AFG380 (AFG380Q) /CSM/AF/AFG3-D/AFG380Q.Seq.d/                       1265   0.0
VFA515 (VFA515Q) /CSM/VF/VFA5-A/VFA515Q.Seq.d/                       1261   0.0
AFJ788 (AFJ788Q) /CSM/AF/AFJ7-D/AFJ788Q.Seq.d/                       1261   0.0

                                                             Score    E
Sequences producing significant alignments:                  (bits) Value  N

AX488960|AX488960.1 Sequence 6260 from Patent WO02053728.          74   4e-18  3
AJ497077|AJ497077.1 Medicago truncatula EST, clone mt--abc955104c04.    68   5e-10  3
CB893586|CB893586.1 EST646378 HOGA Medicago truncatula cDNA clone HOGA-28K10, mRNA sequence.    68   7e-10  3
CG960238|CG960238.1 MBEKP41TF mth2 Medicago truncatula genomic clone 75H10, genomic survey sequence.    68   9e-10  3
AP004173|AP004173.1 Mycoplasma penetrans genomic DNA, complete sequence, section 4/5.    34   2e-09  22
BE320243|BE320243.2 NF024E04RT1F1023 Developing root Medicago truncatula cDNA clone NF024E04RT 5', mRNA sequence.    68   6e-08  2
AL408021|AL408021.1 T7 end of clone AV0AA006B01 of library AV0AA from strain CBS 379 of Saccharomyces exiguus.    52   9e-08  4
AW126253|AW126253.2 N100360e rootphos(-) Medicago truncatula cDNA clone MHRP-5A2, mRNA sequence.    68   1e-07  2
AR409405|AR409405.1 Sequence 1 from patent US 6632935.             38   1e-07  26
BD061520|BD061520.1 Genome DNA of symbiotic bacteria of aphid.     38   1e-07  26

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54UB5) RecName: Full=26S proteasome non-ATPase regulatory subu...   415   0.0
AM424416_1(AM424416|pid:none) Vitis vinifera contig VV78X196128....   256   2e-91
BT053774_1(BT053774|pid:none) Zea mays full-length cDNA clone ZM...   253   4e-91
EU969379_1(EU969379|pid:none) Zea mays clone 329471 26S proteaso...   252   7e-91
BT069707_1(BT069707|pid:none) Zea mays full-length cDNA clone ZM...   251   1e-90
AY230834_1(AY230834|pid:none) Arabidopsis thaliana 26S proteasom...   251   1e-90
AK064788_1(AK064788|pid:none) Oryza sativa Japonica Group cDNA c...   252   1e-90
A86414(A86414) hypothetical protein F28N24.15 - Arabidopsis thal...   251   2e-90
AY230837_1(AY230837|pid:none) Arabidopsis thaliana 26S proteasom...   251   3e-90
BT035753_1(BT035753|pid:none) Zea mays full-length cDNA clone ZM...   250   8e-90

 psg: 0.65  gvh: 0.37  alm: 0.40  top: 0.53  tms: 0.00  mit: 0.32  mip: 0.05
 nuc: 0.00  erl: 0.00  erm: 0.00  pox: 0.00  px2: 0.00  vac: 0.00  rnp: 0.00
 act: 0.00  caa: 0.00  yqr: 0.00  tyr: 0.00  leu: 0.00  gpi: 0.00  myr: 0.00
 dna: 0.00  rib: 0.00  bac: 0.00  m1a: 0.00  m1b: 0.00  m2 : 0.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 1.00 

	 32.0 %: nuclear
	 28.0 %: mitochondrial
	 28.0 %: cytoplasmic
	  8.0 %: cytoskeletal
	  4.0 %: vesicles of secretory system

>> prediction for SFJ236 is nuc

>SFJ236F.Seq
AAATTTATCCACACACACATAATATATATACACCAAAAATGAATTGGAAAGAGCAACTTG
AAGAAATTGGTAATTGCCAAGATTCAAACAAAGCTATCCAAGATTATAATAAAATTCTCA
CTATTCAAGAATCACCAGATGATATTAAAGAGGAAGCAATTCTTAGATTAGCAAAATTAT
TTGTAAAGATTGGTAAAGGTGATCAATTACCAACACTTTTAAGATCAGTTAGACCATTTT
TTGATAAAATTTCTAAACCAAAGACTGATAAAATCGTTAGAAATTTTATTGATATTTTCT
CAACCGTACCTGATAATTTAACAACTTTAATTGAATTTGTCAAAGAGAATATTCAATGGT
GTAAAGATACAAATAGAATTTATTTAAGACAAAGATTAGAAACTAAACTTTTTACATTAA
TGTTTGAAGCAAAAGATTATGCAAATGCATTAAGCGGATTAACAACATTATTAACAGAAA
TTAAAAGATTGGATGATAAACCATTATTAGTTGAAATTCAACTTGTTGGAGAGTAGAATT
CAACATGCTCTTAAAAATATTCCAAAAGCAAGAGCTGCTTTAACTTCTTGCTCGTACAAA
TGCAAATACAATCTAT----------

>SFJ236Z.Seq
----------AAATCGATATGCAATCTGGTATTTTACATTCTGAAGAAAAAGATTATAAA
ACTGCTTTTTCATACTTTTTCGAATCATATGAAACTTATGATAGTCTTGAAGATCCATTT
GCAATGAAAGCATTAAAGTATATGTTACTTTGTAAAATTATGACCAACCAAACTGATGAT
GTTCATGCATTAGTTAATGGTAAAATTGGTTTGAAATATCATAACAATAGATCCATTGAA
GCAATTACTCAAATTTCAAAATCTCATGCAAAGAGATCACTTCATATGTTCCAAGAGGTA
ACCAAAGAATTTTCTGATCAATTATCTGATGATCCAATCATTCATAGTCATTTAACTGAA
TTATATAGTAATCTTCTTGAACAAAATTTATGTCGTATTATTGAACCATTCTCAAGGGTT
GAAATTTCACATATTGCAAAATTAATTGATTTACCAGTTGATGTTGTTGAAAGAAAATTA
TCACTTATGATCCTTGATAAGAAATATAATGGTATCCTCGATCAAGGTACTGGTACTTTA
ATTGTATTTGAAGAACAAAAAGAAGATAAATTATTTAATTGTTCTTTAGAAACTATTGGT
GCTTTAAGTCGTGTTGTGATTTACTTTAGAAAAAACAAACAAACTTTCTTAAATT

>SFJ236P.Seq
AAATTTATCCACACACACATAATATATATACACCAAAAATGAATTGGAAAGAGCAACTTG
AAGAAATTGGTAATTGCCAAGATTCAAACAAAGCTATCCAAGATTATAATAAAATTCTCA
CTATTCAAGAATCACCAGATGATATTAAAGAGGAAGCAATTCTTAGATTAGCAAAATTAT
TTGTAAAGATTGGTAAAGGTGATCAATTACCAACACTTTTAAGATCAGTTAGACCATTTT
TTGATAAAATTTCTAAACCAAAGACTGATAAAATCGTTAGAAATTTTATTGATATTTTCT
CAACCGTACCTGATAATTTAACAACTTTAATTGAATTTGTCAAAGAGAATATTCAATGGT
GTAAAGATACAAATAGAATTTATTTAAGACAAAGATTAGAAACTAAACTTTTTACATTAA
TGTTTGAAGCAAAAGATTATGCAAATGCATTAAGCGGATTAACAACATTATTAACAGAAA
TTAAAAGATTGGATGATAAACCATTATTAGTTGAAATTCAACTTGTTGGAGAGTAGAATT
CAACATGCTCTTAAAAATATTCCAAAAGCAAGAGCTGCTTTAACTTCTTGCTCGTACAAA
TGCAAATACAATCTAT----------AAATCGATATGCAATCTGGTATTTTACATTCTGA
AGAAAAAGATTATAAAACTGCTTTTTCATACTTTTTCGAATCATATGAAACTTATGATAG
TCTTGAAGATCCATTTGCAATGAAAGCATTAAAGTATATGTTACTTTGTAAAATTATGAC
CAACCAAACTGATGATGTTCATGCATTAGTTAATGGTAAAATTGGTTTGAAATATCATAA
CAATAGATCCATTGAAGCAATTACTCAAATTTCAAAATCTCATGCAAAGAGATCACTTCA
TATGTTCCAAGAGGTAACCAAAGAATTTTCTGATCAATTATCTGATGATCCAATCATTCA
TAGTCATTTAACTGAATTATATAGTAATCTTCTTGAACAAAATTTATGTCGTATTATTGA
ACCATTCTCAAGGGTTGAAATTTCACATATTGCAAAATTAATTGATTTACCAGTTGATGT
TGTTGAAAGAAAATTATCACTTATGATCCTTGATAAGAAATATAATGGTATCCTCGATCA
AGGTACTGGTACTTTAATTGTATTTGAAGAACAAAAAGAAGATAAATTATTTAATTGTTC
TTTAGAAACTATTGGTGCTTTAAGTCGTGTTGTGATTTACTTTAGAAAAAACAAACAAAC
TTTCTTAAATT