>CHR241 (CHR241Q) /CSM/CH/CHR2-B/CHR241Q.Seq.d/
TTTTTCAAATATTTGTTTAACCATATAAAGTGAGAAAGACAAGTGTACATAAAAACTTGA
TCTTTTTTATTTTATATCACACACATACATAATAAAAAACTATGGCAACTCAACAACAAC
AACAACAACAACAACAACAACAACAGCAAATTAAGGCTAGAAAAGATATACAAATTCAAC
AAGCACAATCTGCTTCTGATATATTAGGACCACCAGAAATTTCAGAAACTGAAATTACAA
CAGAATCAATACTTGGTGATGGAAGTTTTGGTACTGTTTATAAAGGTCGTTGTAGATTAA
AGGATGTAGCAGTAAAGGTTATGTTAAAACAAGTCGATCAAAAGACTTTAACTGATTTCA
GAAAGGAAGTTGCAATTATGAGTAAAATTTTTCATCCAAATATTGTACTTTTTTTAGGTG
CATGTACATCTACACCAGGTAAACTTATGATTTGTACAGAATTAATGAAAGGTAATCTTG
TATCATTATTATTAGACCCAATGGTTAAACTCCCATTGATCACTCGTATGAGAATGGCAA
AAGATGCAGCTTTAGGTGTTTTATGGTTACATTCTTCAAATCCAGTATTCATTCACAGAG
ATTTAAAGACAAGCAATCTTTTAGTTGATGCTAATCTTACXXXXXXXXXXCCCCCCCCCN
ANNNGGGGGGGGNTTTTNTAAAAANNCNNNNNNAAAAAAAAAAAAAAANNGGNNNAAAAA
AAAAANNAAAAAAAAAAAANNNNNNNAAAAAAAAAAAAAAAAAAAAAAAAACAAAAACTA
AAAATAACATTACTATTAATTTCCCTCCATCACATTATTAAATTAATAATAATAATTTAT
ATACCAATAATTAATGT

fqifv*pykvrktsvhknliffilyhtht**KTMATQQQQQQQQQQQQQIKARKDIQIQQ
AQSASDILGPPEISETEITTESILGDGSFGTVYKGRCRLKDVAVKVMLKQVDQKTLTDFR
KEVAIMSKIFHPNIVLFLGACTSTPGKLMICTELMKGNLVSLLLDPMVKLPLITRMRMAK
DAALGVLWLHSSNPVFIHRDLKTSNLLVDANL---

---PPPXXGGXFXKXXXXKKKKXGXKKKXKKKXXXKKKKKKKKTKTKNNITINFPPSHY*
innnnlytnn*c

Frame A:
ffkylfnhik*erqvyikt*sflfyithihnkklwqlnnnnnnnnnnnsklrlekiykfn
khnllliy*dhqkfqklklqqnqylvmevlvlfikvvvd*rm*q*rlc*nksikrl*lis
erklql*vkffiqilyff*vhvhlhqvnl*fvqn**kvilyhyy*tqwlnsh*slv*ewq
kmql*vfygyilqiqysftei*rqaif*lmlil---

---PPPXXGGXFXKXXXXKKKKXGXKKKXKKKXXXKKKKKKKKTKTKNNITINFPPSHY*
innnnlytnn*c

Frame B:
fsniclti*sekdkct*kldlfyfishtyiiknygnstttttttttttan*g*krytnst
sticf*yirttrnfrn*nynrintw*wkfwycl*rsl*ikgcsskgyvktsrskdfn*fq
kgscnye*nfsskyctffrcmyiytr*tydlyriner*sciiiirpng*tpidhsyengk
rcsfrcfmvtffkssihsqrfkdkqsfs*c*sy---

---pppxxggxx*kxxxkkkkkxxxkkxxkkkxxxkkkkkkkkqklkitlllislhhiik
liiiiyipiin

Frame C:
fqifv*pykvrktsvhknliffilyhtht**KTMATQQQQQQQQQQQQQIKARKDIQIQQ
AQSASDILGPPEISETEITTESILGDGSFGTVYKGRCRLKDVAVKVMLKQVDQKTLTDFR
KEVAIMSKIFHPNIVLFLGACTSTPGKLMICTELMKGNLVSLLLDPMVKLPLITRMRMAK
DAALGVLWLHSSNPVFIHRDLKTSNLLVDANL---

---ppxxgggfxkxxxxkkkkxxxkkkxkkkkxxxkkkkkkknkn*k*hyy*fpsitlln
****fiyq*lm

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

CHR241 (CHR241Q) /CSM/CH/CHR2-B/CHR241Q.Seq.d/                        940   0.0
AFE822 (AFE822Q) /CSM/AF/AFE8-A/AFE822Q.Seq.d/                        932   0.0
AFM648 (AFM648Q) /CSM/AF/AFM6-B/AFM648Q.Seq.d/                        920   0.0
VFK734 (VFK734Q) /CSM/VF/VFK7-B/VFK734Q.Seq.d/                        912   0.0
CFB221 (CFB221Q) /CSM/CF/CFB2-A/CFB221Q.Seq.d/                        912   0.0
AFM201 (AFM201Q) /CSM/AF/AFM2-A/AFM201Q.Seq.d/                        908   0.0
AFK731 (AFK731Q) /CSM/AF/AFK7-B/AFK731Q.Seq.d/                        878   0.0
AFF486 (AFF486Q) /CSM/AF/AFF4-D/AFF486Q.Seq.d/                        868   0.0
VFD621 (VFD621Q) /CSM/VF/VFD6-A/VFD621Q.Seq.d/                        848   0.0
VFO835 (VFO835Q) /CSM/VF/VFO8-B/VFO835Q.Seq.d/                        835   0.0

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

AJ297966|AJ297966.1 Dictyostelium discoideum mRNA for SHK1 protein.   490   0.0    2
BU582405|BU582405.1 PL N82 P.lunula ZAP-cDNA library Pyrocystis lunula cDNA clone 731 5' similar to SHK1 protein kinase, mRNA sequence.    50   1e-05  3
CB978404|CB978404.1 CAB40005_Ia_Fa_E08 Cabernet Sauvignon Berry - CAB4 Vitis vinifera cDNA clone CAB40005_Ia_Fa_E08 5', mRNA sequence.    50   0.077  1
CB916366|CB916366.1 VVD109H02_370393 An expressed sequence tag database for abiotic stressed berries of Vitis vinifera var. Chardonnay Vitis vinifera cDNA clone VVD109H02 5, mRNA sequence.    50   0.077  1
AP001777|AP001777.2 Homo sapiens genomic DNA, chromosome 18q22 clone:RP11-716B20, WORKING DRAFT SEQUENCE, 22 unordered pieces.    50   0.077  1
AC087534|AC087534.8 Homo sapiens chromosome 18, clone RP11-716B20, complete sequence.    50   0.077  1
AC009891|AC009891.2 Genomic Sequence for Homo sapiens clone H_NH0332F09, Chromosome 18, complete sequence.    50   0.077  1
AC105221|AC105221.3 Homo sapiens chromosome 18, clone RP11-480N3, complete sequence.    50   0.077  1
AC124215|AC124215.20 Medicago truncatula clone mth2-32m6, WORKING DRAFT SEQUENCE.    46   0.13   5
AC020632|AC020632.16 Homo sapiens 3 BAC RP11-333H9 (Roswell Park Cancer Institute Human BAC Library) complete sequence.    44   0.52   6

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54RB7) RecName: Full=Dual specificity protein kinase shkA;    ...   261   2e-68
(Q54Y55) RecName: Full=Dual specificity protein kinase shkC;    ...   169   8e-41
AC012679_7(AC012679|pid:none) Arabidopsis thaliana chromosome 1 ...   110   6e-23
EF014094_1(EF014094|pid:none) Synthetic construct HA-tagged prot...   110   6e-23
EF014090_1(EF014090|pid:none) Synthetic construct flag-tagged pr...   109   1e-22
DQ508134_1(DQ508134|pid:none) Synthetic construct flag-tagged pr...   109   1e-22
AC139526_35(AC139526|pid:none) Medicago truncatula clone mth2-9b...   109   1e-22
AY059769_1(AY059769|pid:none) Arabidopsis thaliana putative prot...   109   1e-22
AC012563_26(AC012563|pid:none) Arabidopsis thaliana chromosome 1...   109   1e-22
AC036106_13(AC036106|pid:none) Arabidopsis thaliana chromosome 3...   109   1e-22

 psg: 0.66  gvh: 0.44  alm: 0.37  top: 0.53  tms: 0.00  mit: 0.34  mip: 0.05
 nuc: 0.58  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 

	 80.0 %: nuclear
	  8.0 %: plasma membrane
	  8.0 %: cytoskeletal
	  4.0 %: mitochondrial

>> prediction for CHR241 is nuc

>CHR241F.Seq
TTTTTCAAATATTTGTTTAACCATATAAAGTGAGAAAGACAAGTGTACATAAAAACTTGA
TCTTTTTTATTTTATATCACACACATACATAATAAAAAACTATGGCAACTCAACAACAAC
AACAACAACAACAACAACAACAACAGCAAATTAAGGCTAGAAAAGATATACAAATTCAAC
AAGCACAATCTGCTTCTGATATATTAGGACCACCAGAAATTTCAGAAACTGAAATTACAA
CAGAATCAATACTTGGTGATGGAAGTTTTGGTACTGTTTATAAAGGTCGTTGTAGATTAA
AGGATGTAGCAGTAAAGGTTATGTTAAAACAAGTCGATCAAAAGACTTTAACTGATTTCA
GAAAGGAAGTTGCAATTATGAGTAAAATTTTTCATCCAAATATTGTACTTTTTTTAGGTG
CATGTACATCTACACCAGGTAAACTTATGATTTGTACAGAATTAATGAAAGGTAATCTTG
TATCATTATTATTAGACCCAATGGTTAAACTCCCATTGATCACTCGTATGAGAATGGCAA
AAGATGCAGCTTTAGGTGTTTTATGGTTACATTCTTCAAATCCAGTATTCATTCACAGAG
ATTTAAAGACAAGCAATCTTTTAGTTGATGCTAATCTTACNNNNNNNNNN

>CHR241Z.Seq
NNNNNNNNNNCCCCCCCCCNANNNGGGGGGGGNTTTTNTAAAAANNCNNNNNNAAAAAAA
AAAAAAAANNGGNNNAAAAAAAAAANNAAAAAAAAAAAANNNNNNNAAAAAAAAAAAAAA
AAAAAAAAAAACAAAAACTAAAAATAACATTACTATTAATTTCCCTCCATCACATTATTA
AATTAATAATAATAATTTATATACCAATAATTAATGT

>CHR241P.Seq
TTTTTCAAATATTTGTTTAACCATATAAAGTGAGAAAGACAAGTGTACATAAAAACTTGA
TCTTTTTTATTTTATATCACACACATACATAATAAAAAACTATGGCAACTCAACAACAAC
AACAACAACAACAACAACAACAACAGCAAATTAAGGCTAGAAAAGATATACAAATTCAAC
AAGCACAATCTGCTTCTGATATATTAGGACCACCAGAAATTTCAGAAACTGAAATTACAA
CAGAATCAATACTTGGTGATGGAAGTTTTGGTACTGTTTATAAAGGTCGTTGTAGATTAA
AGGATGTAGCAGTAAAGGTTATGTTAAAACAAGTCGATCAAAAGACTTTAACTGATTTCA
GAAAGGAAGTTGCAATTATGAGTAAAATTTTTCATCCAAATATTGTACTTTTTTTAGGTG
CATGTACATCTACACCAGGTAAACTTATGATTTGTACAGAATTAATGAAAGGTAATCTTG
TATCATTATTATTAGACCCAATGGTTAAACTCCCATTGATCACTCGTATGAGAATGGCAA
AAGATGCAGCTTTAGGTGTTTTATGGTTACATTCTTCAAATCCAGTATTCATTCACAGAG
ATTTAAAGACAAGCAATCTTTTAGTTGATGCTAATCTTAC----------CCCCCCCCCN
ANNNGGGGGGGGNTTTTNTAAAAANNCNNNNNNAAAAAAAAAAAAAAANNGGNNNAAAAA
AAAAANNAAAAAAAAAAAANNNNNNNAAAAAAAAAAAAAAAAAAAAAAAAACAAAAACTA
AAAATAACATTACTATTAATTTCCCTCCATCACATTATTAAATTAATAATAATAATTTAT
ATACCAATAATTAATGT