>VHA852 (VHA852Q) /CSM/VH/VHA8-C/VHA852Q.Seq.d/
GAATGGTACACCACCAATGCGTAAACAAGCTTTAAGACAATTGACTGATAAAGCAAGAGA
ATTTGGACCGGCACCATTGTTCAATCAGATATTACCATTATTCACCTCCACCTCATTGGA
GGACCAAGAGAGACATTTATTGGTAAAGGTGATCGATCGTATTCTCTACAAATTGGATGA
CTTGGTCGGACCATATGTTAGAAAGATTCTATCAGTTATTGAACCATTTTTAATTGATCA
GAATTATTATGCTCGTGTTGAGGCAAGAGAAATCATATCAAATCTTTCAAAAGCCGCTGG
TTTGGCAAGTATGACATCAACAATGAGACCTGATATCGATAGTCCAGAGGAAGATATTCG
TAATACAACCGCAAGGGCATTTGCTGTGGTTGCATCTGCATTGGGTATTCCATCATTGAT
GCCATTCCTCAAGGCGGTATGTAAGAGTAAAAAATCATGGCAAGCACGTCACACTGGTAT
AAAGATTGTTCAACAAATTGCCATTCTAATGGGTTGTGCCATTTTACCACATTTAAAGAA
TCTTGTAGTCATTGTTGAACATGGTTTAACCGATGAACAACXXXXXXXXXXAGATATGTT
GAAAGCTCATAAAAAAGGTATTCGTCGTGCCGCTGTAAATACATTTGGTTACATTGCAAA
AGCTATTGGTCCTCAAGAGGTATTGGCAACCCTATTAAACAATTTGAAAGTTCAAGATCG
TCAAAACAGAGTTTGTACAACCGTTGCCATTGCCATTGTTGCGGAAACTTGTGCACCTTA
TACCGTTTTACCAGGTCTAATCAATGAATATCGTATTCCAGAGTTGAATGTTCAAAATGG
TGTTTTGAAATCTTTATCTTTCCTCTTTGAATATATTGGCGAAATGGGTAAAGACTATAT
TTACGCCGTAACTACCCTACTCGAAGATGCACTCATGGATAGAGATGCTGTACATCGTCA
AACCGCTTGCTCTGCAATTAAACATATTTCATTGGGTGTAATGGGTTTAGGTTGTGAAGA
TTCACTCACTCATTTACTCAATTACGTTTGGCCAAATGTTTTCGAAACTTCTCCACATGT
TATCAACGCTTTCTTAGAGGCCGTTGAAGGTTTACGTTTTGCTTTAGGTCCAAATACTAT
TCTTCAATATACCCTTCAAGGTTTATTCCATCCATCTCGTAAAGTTAGAAATATTTATTG
GAAACTTTATAATATGCTTTATATTAGTTCTCAAGATGCTTTAACACCATGTTATCCAAN
A

NGTPPMRKQALRQLTDKAREFGPAPLFNQILPLFTSTSLEDQERHLLVKVIDRILYKLDD
LVGPYVRKILSVIEPFLIDQNYYARVEAREIISNLSKAAGLASMTSTMRPDIDSPEEDIR
NTTARAFAVVASALGIPSLMPFLKAVCKSKKSWQARHTGIKIVQQIAILMGCAILPHLKN
LVVIVEHGLTDEQ---

---DMLKAHKKGIRRAAVNTFGYIAKAIGPQEVLATLLNNLKVQDRQNRVCTTVAIAIVA
ETCAPYTVLPGLINEYRIPELNVQNGVLKSLSFLFEYIGEMGKDYIYAVTTLLEDALMDR
DAVHRQTACSAIKHISLGVMGLGCEDSLTHLLNYVWPNVFETSPHVINAFLEAVEGLRFA
LGPNTILQYTLQGLFHPSRKVRNIYWKLYNMLYISSQDALTPCYPX

Frame A:
ewyttna*tsfktid**skriwtgtivqsditiihlhliggpretfigkgdrsyslqig*
lgrtic*kdsisy*tifn*sellcsc*gkrnhiksfksrwfgkydinnet*yr*srgrys
*ynrkgiccgcicigysiidaipqggm*e*kimastshwykdcstnchsnglchfttfke
scshc*twfnr*t---

---ryvess*krysscrckyiwlhcksywssrgignpikqfessrsskqslynrchchcc
gnlctlyrftrsnq*isysrvecskwcfeififpl*iywrng*rlylrrnyptrrcthg*
rcctssnrllcn*tyfigcngfrl*rfthsftqlrlakcfrnfstcyqrflrgr*rftfc
frskyyssiypsrfipsis*s*kylletl*yaly*fsrcfntmlsx

Frame B:
NGTPPMRKQALRQLTDKAREFGPAPLFNQILPLFTSTSLEDQERHLLVKVIDRILYKLDD
LVGPYVRKILSVIEPFLIDQNYYARVEAREIISNLSKAAGLASMTSTMRPDIDSPEEDIR
NTTARAFAVVASALGIPSLMPFLKAVCKSKKSWQARHTGIKIVQQIAILMGCAILPHLKN
LVVIVEHGLTDEQ---

---DMLKAHKKGIRRAAVNTFGYIAKAIGPQEVLATLLNNLKVQDRQNRVCTTVAIAIVA
ETCAPYTVLPGLINEYRIPELNVQNGVLKSLSFLFEYIGEMGKDYIYAVTTLLEDALMDR
DAVHRQTACSAIKHISLGVMGLGCEDSLTHLLNYVWPNVFETSPHVINAFLEAVEGLRFA
LGPNTILQYTLQGLFHPSRKVRNIYWKLYNMLYISSQDALTPCYPX

Frame C:
mvhhqcvnkl*dn*likqenldrhhcsiryyhysppphwrtkrdiyw*r*sivfstnwmt
wsdhmlerfyqllnhf*liriimlvlrqeksyqifqkplvwqv*hqq*dlisivqrkifv
iqpqghllwlhlhwvfhh*chssrryvrvknhgkhvtlv*rlfnklpf*wvvpfyhi*ri
l*sllnmv*pmnn---

---ic*klikkvfvvpl*ihlvtlqkllvlkrywqpy*ti*kfkivktefvqplplpllr
klvhlipfyqv*smnivfqs*mfkmvf*nlylsslnilakwvktiftp*lpyskmhswie
mlyivkplalqlnifhwv*wv*vvkihsliysitfgqmfskllhmlstls*rplkvyvll
*vqilffnipfkvysihlvkleifignfiicfilvlkml*hhviq

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VHA852 (VHA852Q) /CSM/VH/VHA8-C/VHA852Q.Seq.d/                       2436   0.0
AHA193 (AHA193Q) /CSM/AH/AHA1-D/AHA193Q.Seq.d/                       1324   0.0
SHL853 (SHL853Q) /CSM/SH/SHL8-C/SHL853Q.Seq.d/                       1251   0.0
CHD773 (CHD773Q) /CSM/CH/CHD7-D/CHD773Q.Seq.d/                       1166   0.0
SHB332 (SHB332Q) /CSM/SH/SHB3-B/SHB332Q.Seq.d/                       1128   0.0
VHP552 (VHP552Q) /CSM/VH/VHP5-C/VHP552Q.Seq.d/                       1124   0.0
SHA183 (SHA183Q) /CSM/SH/SHA1-D/SHA183Q.Seq.d/                       1100   0.0
AHD177 (AHD177Q) /CSM/AH/AHD1-D/AHD177Q.Seq.d/                       1041   0.0
AHD733 (AHD733Q) /CSM/AH/AHD7-B/AHD733Q.Seq.d/                       1027   0.0
AHM560 (AHM560Q) /CSM/AH/AHM5-C/AHM560Q.Seq.d/                       1025   0.0

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

AC117082|AC117082.2 Dictyostelium discoideum chromosome 2 map complement(6807709-6776860) strain AX4, complete sequence.  1324   0.0    1
AU312337|AU312337.1 Elaphe quadrivirgata cDNA, clone:Eq_aB_021_F03.   109   6e-43  3
Y08997|Y08997.1 Xenopus laevis mRNA for 146 kDa nuclear protein.    76   7e-37  8
EC286335|EC286335.1 BRAINF089834J4 POSSUM_01-POSSUM-C-BRAIN-2KB Trichosurus vulpecula cDNA clone 1061024733099, mRNA sequence.    92   8e-36  4
EC364387|EC364387.1 IMMUNEF093542N20 POSSUM_01-C-POSSUM-IMMUNE-2KB Trichosurus vulpecula cDNA clone 1061024549274, mRNA sequence.    92   1e-35  4
EC289560|EC289560.1 BRAINF089623B7 POSSUM_01-POSSUM-C-BRAIN-2KB Trichosurus vulpecula cDNA clone 1061024822769, mRNA sequence.    92   3e-35  4
AY410322|AY410322.1 Homo sapiens SF3B1 gene, VIRTUAL TRANSCRIPT, partial sequence, genomic survey sequence.    74   7e-33  7
CQ720030|CQ720030.1 Sequence 5964 from Patent WO02068579.          74   1e-32  7
DD231788|DD231788.1 METHODS AND COMPOSITIONS FOR DIAGNOSING AND MONITORING AUTO IMMUNE AND CHRONIC INFLAMMATORY DISEASES.    74   1e-32  7
DD145320|DD145320.1 Angiogenesis_PCT.                              74   1e-32  7

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AP008208_305(AP008208|pid:none) Oryza sativa (japonica cultivar-...   391   e-107
AE014134_132(AE014134|pid:none) Drosophila melanogaster chromoso...   379   e-104
AK221391_1(AK221391|pid:none) Arabidopsis thaliana mRNA for nucl...   377   e-103
CP000583_21(CP000583|pid:none) Ostreococcus lucimarinus CCE9901 ...   375   e-102
CP001324_246(CP001324|pid:none) Micromonas sp. RCC299 chromosome...   374   e-102
(O75533) RecName: Full=Splicing factor 3B subunit 1; AltName: Fu...   371   e-101
(O57683) RecName: Full=Splicing factor 3B subunit 1; AltName: Fu...   370   e-101
BC172813_1(BC172813|pid:none) Synthetic construct Homo sapiens c...   370   e-101
AM270010_46(AM270010|pid:none) Aspergillus niger contig An02c015...   345   2e-93
AP007159_186(AP007159|pid:none) Aspergillus oryzae RIB40 genomic...   345   2e-93

 psg: 0.53  gvh: 0.44  alm: 0.31  top: 1.10  tms: 0.20  mit: 0.38  mip: 0.03
 nuc: 0.04  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: 1.00  m_ : 0.00 

	 36.0 %: plasma membrane
	 16.0 %: endoplasmic reticulum
	 16.0 %: vacuolar
	 12.0 %: mitochondrial
	  8.0 %: nuclear
	  4.0 %: cytoskeletal
	  4.0 %: Golgi
	  4.0 %: cytoplasmic

>> prediction for VHA852 is pla

>VHA852F.Seq
GAATGGTACACCACCAATGCGTAAACAAGCTTTAAGACAATTGACTGATAAAGCAAGAGA
ATTTGGACCGGCACCATTGTTCAATCAGATATTACCATTATTCACCTCCACCTCATTGGA
GGACCAAGAGAGACATTTATTGGTAAAGGTGATCGATCGTATTCTCTACAAATTGGATGA
CTTGGTCGGACCATATGTTAGAAAGATTCTATCAGTTATTGAACCATTTTTAATTGATCA
GAATTATTATGCTCGTGTTGAGGCAAGAGAAATCATATCAAATCTTTCAAAAGCCGCTGG
TTTGGCAAGTATGACATCAACAATGAGACCTGATATCGATAGTCCAGAGGAAGATATTCG
TAATACAACCGCAAGGGCATTTGCTGTGGTTGCATCTGCATTGGGTATTCCATCATTGAT
GCCATTCCTCAAGGCGGTATGTAAGAGTAAAAAATCATGGCAAGCACGTCACACTGGTAT
AAAGATTGTTCAACAAATTGCCATTCTAATGGGTTGTGCCATTTTACCACATTTAAAGAA
TCTTGTAGTCATTGTTGAACATGGTTTAACCGATGAACAACNNNNNNNNNN

>VHA852Z.Seq
NNNNNNNNNNAGATATGTTGAAAGCTCATAAAAAAGGTATTCGTCGTGCCGCTGTAAATA
CATTTGGTTACATTGCAAAAGCTATTGGTCCTCAAGAGGTATTGGCAACCCTATTAAACA
ATTTGAAAGTTCAAGATCGTCAAAACAGAGTTTGTACAACCGTTGCCATTGCCATTGTTG
CGGAAACTTGTGCACCTTATACCGTTTTACCAGGTCTAATCAATGAATATCGTATTCCAG
AGTTGAATGTTCAAAATGGTGTTTTGAAATCTTTATCTTTCCTCTTTGAATATATTGGCG
AAATGGGTAAAGACTATATTTACGCCGTAACTACCCTACTCGAAGATGCACTCATGGATA
GAGATGCTGTACATCGTCAAACCGCTTGCTCTGCAATTAAACATATTTCATTGGGTGTAA
TGGGTTTAGGTTGTGAAGATTCACTCACTCATTTACTCAATTACGTTTGGCCAAATGTTT
TCGAAACTTCTCCACATGTTATCAACGCTTTCTTAGAGGCCGTTGAAGGTTTACGTTTTG
CTTTAGGTCCAAATACTATTCTTCAATATACCCTTCAAGGTTTATTCCATCCATCTCGTA
AAGTTAGAAATATTTATTGGAAACTTTATAATATGCTTTATATTAGTTCTCAAGATGCTT
TAACACCATGTTATCCAANA

>VHA852P.Seq
GAATGGTACACCACCAATGCGTAAACAAGCTTTAAGACAATTGACTGATAAAGCAAGAGA
ATTTGGACCGGCACCATTGTTCAATCAGATATTACCATTATTCACCTCCACCTCATTGGA
GGACCAAGAGAGACATTTATTGGTAAAGGTGATCGATCGTATTCTCTACAAATTGGATGA
CTTGGTCGGACCATATGTTAGAAAGATTCTATCAGTTATTGAACCATTTTTAATTGATCA
GAATTATTATGCTCGTGTTGAGGCAAGAGAAATCATATCAAATCTTTCAAAAGCCGCTGG
TTTGGCAAGTATGACATCAACAATGAGACCTGATATCGATAGTCCAGAGGAAGATATTCG
TAATACAACCGCAAGGGCATTTGCTGTGGTTGCATCTGCATTGGGTATTCCATCATTGAT
GCCATTCCTCAAGGCGGTATGTAAGAGTAAAAAATCATGGCAAGCACGTCACACTGGTAT
AAAGATTGTTCAACAAATTGCCATTCTAATGGGTTGTGCCATTTTACCACATTTAAAGAA
TCTTGTAGTCATTGTTGAACATGGTTTAACCGATGAACAAC----------AGATATGTT
GAAAGCTCATAAAAAAGGTATTCGTCGTGCCGCTGTAAATACATTTGGTTACATTGCAAA
AGCTATTGGTCCTCAAGAGGTATTGGCAACCCTATTAAACAATTTGAAAGTTCAAGATCG
TCAAAACAGAGTTTGTACAACCGTTGCCATTGCCATTGTTGCGGAAACTTGTGCACCTTA
TACCGTTTTACCAGGTCTAATCAATGAATATCGTATTCCAGAGTTGAATGTTCAAAATGG
TGTTTTGAAATCTTTATCTTTCCTCTTTGAATATATTGGCGAAATGGGTAAAGACTATAT
TTACGCCGTAACTACCCTACTCGAAGATGCACTCATGGATAGAGATGCTGTACATCGTCA
AACCGCTTGCTCTGCAATTAAACATATTTCATTGGGTGTAATGGGTTTAGGTTGTGAAGA
TTCACTCACTCATTTACTCAATTACGTTTGGCCAAATGTTTTCGAAACTTCTCCACATGT
TATCAACGCTTTCTTAGAGGCCGTTGAAGGTTTACGTTTTGCTTTAGGTCCAAATACTAT
TCTTCAATATACCCTTCAAGGTTTATTCCATCCATCTCGTAAAGTTAGAAATATTTATTG
GAAACTTTATAATATGCTTTATATTAGTTCTCAAGATGCTTTAACACCATGTTATCCAAN
A