>SHK324 (SHK324Q) /CSM/SH/SHK3-A/SHK324Q.Seq.d/
CTGTTGGCCTACTGGNATCTTACCATTTTTATTTATTTATTTATTAAATTATTATTTATT
TATTAAATTATTATTTATTGAGTTGTGTAAACTACCTTCCAATAAATTTTAATATTTTGT
ATATATATTCTTGTATAAATAAAAAAAAAAXXXXXXXXXXTGGTTTCCCAAAGACTGTTA
CCGTTAAACCAGCCCCCATCCGCTGAACACTCTTATGCTGAAGGTGAAGGTTTAGTCAAA
GTATTTGATAATGCCCCAGCTGAATTCACTATTTTCGCCGTTGACACTAAAGGTGTTGCT
CGTACCGATGGTGGTGATCCATTTGAAGTCGCTATCAATGGTCCAGATGGTTTAGTCGTT
GATGCCAAAGTTACCGATAACAATGACGGTACTTATGGTGTTGTCTATGATGCCCCAGTT
GAAGGTAACTACAATGTTAATGTCACCCTCCGTGGTAATCCAATCAAAAATATGCCAATC
GATGTCAAATGCATTGAAGGTGCCAATGGTGAAGATTCATCATTCGGTTCATTCACTTTT
ACCGTCGCTGCTAAAAATAAGAAAGGTGAAGTTAAAACCTATGGTGGTGATAAATTTGAA
GTCTCTATCACTGGTCCAGCTGAAG

vgllxsyhfylfiy*IIIYLLNYYLLSCVNYLPINFNILYIYSCINKKK---

---VSQRLLPLNQPPSAEHSYAEGEGLVKVFDNAPAEFTIFAVDTKGVARTDGGDPFEVA
INGPDGLVVDAKVTDNNDGTYGVVYDAPVEGNYNVNVTLRGNPIKNMPIDVKCIEGANGE
DSSFGSFTFTVAAKNKKGEVKTYGGDKFEVSITGPAE

Frame A:
llaywxltifiylfikllfiy*iiiy*vv*ttfq*ilifciyilv*ikkk---

---wfpkdcyr*tsphplntlmlkvkv*skylimpqlnslfspltlkvllvpmvvihlks
lsmvqmv*slmpklpitmtvlmvlsmmpqlkvttmlmspsvviqskicqsmsnalkvpmv
kihhsvhsllpsllkirkvklkpmvvinlkslslvqlk

Frame B:
cwptgilpflfiyllnyylfikllfielcklpsnkf*yfvyiflyk*kk---

---gfpktvtvkpapir*tllc*r*rfsqsi**cps*ihyfrr*h*rccsyrww*si*sr
yqwsrwfsr*cqsyr*q*rylwccl*cps*r*lqc*chppw*snqkyanrcqmh*rcqw*
rfiirfihfyrrc*k*er*s*nlww**i*slyhwss*

Frame C:
vgllxsyhfylfiy*IIIYLLNYYLLSCVNYLPINFNILYIYSCINKKK---

---VSQRLLPLNQPPSAEHSYAEGEGLVKVFDNAPAEFTIFAVDTKGVARTDGGDPFEVA
INGPDGLVVDAKVTDNNDGTYGVVYDAPVEGNYNVNVTLRGNPIKNMPIDVKCIEGANGE
DSSFGSFTFTVAAKNKKGEVKTYGGDKFEVSITGPAE

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SHK324 (SHK324Q) /CSM/SH/SHK3-A/SHK324Q.Seq.d/                        922   0.0
AHJ517 (AHJ517Q) /CSM/AH/AHJ5-A/AHJ517Q.Seq.d/                        922   0.0
AHJ831 (AHJ831Q) /CSM/AH/AHJ8-B/AHJ831Q.Seq.d/                        916   0.0
VHQ357 (VHQ357Q) /CSM/VH/VHQ3-C/VHQ357Q.Seq.d/                        906   0.0
VHQ144 (VHQ144Q) /CSM/VH/VHQ1-B/VHQ144Q.Seq.d/                        906   0.0
VHP113 (VHP113Q) /CSM/VH/VHP1-A/VHP113Q.Seq.d/                        906   0.0
VHO119 (VHO119Q) /CSM/VH/VHO1-A/VHO119Q.Seq.d/                        906   0.0
VHN879 (VHN879Q) /CSM/VH/VHN8-D/VHN879Q.Seq.d/                        906   0.0
VHN315 (VHN315Q) /CSM/VH/VHN3-A/VHN315Q.Seq.d/                        906   0.0
VHL789 (VHL789Q) /CSM/VH/VHL7-D/VHL789Q.Seq.d/                        906   0.0

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

X15430|X15430.1 Dictyostelium discoideum mRNA for gelation factor.   856   0.0    3
AQ543434|AQ543434.1 RPCI-11-349G2.TV RPCI-11 Homo sapiens genomic clone RPCI-11-349G2, genomic survey sequence.    48   0.25   1
AL356308|AL356308.16 Human DNA sequence from clone RP11-475L16 on chromosome 10.    48   0.25   1
CR940353|CR940353.1 Theileria annulata genomic DNA chromosome 4.    36   0.45   2
AC134000|AC134000.2 Rattus norvegicus clone CH230-463P7, *** SEQUENCING IN PROGRESS ***, 4 unordered pieces.    42   1.5    2
AC123148|AC123148.5 Rattus norvegicus clone CH230-43D20, WORKING DRAFT SEQUENCE, 2 unordered pieces.    34   1.9    2
AC119537|AC119537.5 Rattus norvegicus clone CH230-426J14, *** SEQUENCING IN PROGRESS ***, 4 unordered pieces.    34   1.9    2
DV482383|DV482383.1 5380_H09_O18Z_065 Brachypodium distachyon leaf EST library Brachypodium distachyon cDNA clone 5380_H09_O18, mRNA sequence.    44   3.9    1
BF983023|BF983023.1 602308354F1 NIH_MGC_88 Homo sapiens cDNA clone IMAGE:4399645 5', mRNA sequence.    44   3.9    1
CB142294|CB142294.1 K-EST0196054 L11SNU354s1 Homo sapiens cDNA clone L11SNU354s1-21-F05 5', mRNA sequence.    44   3.9    1

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AF080395_1(AF080395|pid:none) Entamoeba histolytica actin bindin...    81   3e-14
U70560_1(U70560|pid:none) Entamoeba histolytica actin binding pr...    71   3e-11
(Q1PRL4) RecName: Full=Tripartite motif-containing protein 71; A...    65   2e-09
AF220021_1(AF220021|pid:none) Homo sapiens tripartite motif prot...    64   3e-09
AF045239_1(AF045239|pid:none) Homo sapiens brain expressed ring ...    64   3e-09
AF220022_1(AF220022|pid:none) Homo sapiens tripartite motif prot...    64   3e-09
(O75382) RecName: Full=Tripartite motif-containing protein 3; Al...    63   7e-09
BC151315_1(BC151315|pid:none) Bos taurus tripartite motif-contai...    63   7e-09
(Q9R1R2) RecName: Full=Tripartite motif-containing protein 3; Al...    62   1e-08
AK170029_1(AK170029|pid:none) Mus musculus NOD-derived CD11c +ve...    62   1e-08

 psg: 0.89  gvh: 0.39  alm: 0.36  top: 0.73  tms: 0.00  mit: 0.35  mip: 0.07
 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 

	 40.0 %: mitochondrial
	 28.0 %: cytoplasmic
	 20.0 %: nuclear
	  8.0 %: cytoskeletal
	  4.0 %: plasma membrane

>> prediction for SHK324 is mit

>SHK324F.Seq
CTGTTGGCCTACTGGNATCTTACCATTTTTATTTATTTATTTATTAAATTATTATTTATT
TATTAAATTATTATTTATTGAGTTGTGTAAACTACCTTCCAATAAATTTTAATATTTTGT
ATATATATTCTTGTATAAATAAAAAAAAAANNNNNNNNNN

>SHK324Z.Seq
NNNNNNNNNNTGGTTTCCCAAAGACTGTTACCGTTAAACCAGCCCCCATCCGCTGAACAC
TCTTATGCTGAAGGTGAAGGTTTAGTCAAAGTATTTGATAATGCCCCAGCTGAATTCACT
ATTTTCGCCGTTGACACTAAAGGTGTTGCTCGTACCGATGGTGGTGATCCATTTGAAGTC
GCTATCAATGGTCCAGATGGTTTAGTCGTTGATGCCAAAGTTACCGATAACAATGACGGT
ACTTATGGTGTTGTCTATGATGCCCCAGTTGAAGGTAACTACAATGTTAATGTCACCCTC
CGTGGTAATCCAATCAAAAATATGCCAATCGATGTCAAATGCATTGAAGGTGCCAATGGT
GAAGATTCATCATTCGGTTCATTCACTTTTACCGTCGCTGCTAAAAATAAGAAAGGTGAA
GTTAAAACCTATGGTGGTGATAAATTTGAAGTCTCTATCACTGGTCCAGCTGAAG

>SHK324P.Seq
CTGTTGGCCTACTGGNATCTTACCATTTTTATTTATTTATTTATTAAATTATTATTTATT
TATTAAATTATTATTTATTGAGTTGTGTAAACTACCTTCCAATAAATTTTAATATTTTGT
ATATATATTCTTGTATAAATAAAAAAAAAA----------TGGTTTCCCAAAGACTGTTA
CCGTTAAACCAGCCCCCATCCGCTGAACACTCTTATGCTGAAGGTGAAGGTTTAGTCAAA
GTATTTGATAATGCCCCAGCTGAATTCACTATTTTCGCCGTTGACACTAAAGGTGTTGCT
CGTACCGATGGTGGTGATCCATTTGAAGTCGCTATCAATGGTCCAGATGGTTTAGTCGTT
GATGCCAAAGTTACCGATAACAATGACGGTACTTATGGTGTTGTCTATGATGCCCCAGTT
GAAGGTAACTACAATGTTAATGTCACCCTCCGTGGTAATCCAATCAAAAATATGCCAATC
GATGTCAAATGCATTGAAGGTGCCAATGGTGAAGATTCATCATTCGGTTCATTCACTTTT
ACCGTCGCTGCTAAAAATAAGAAAGGTGAAGTTAAAACCTATGGTGGTGATAAATTTGAA
GTCTCTATCACTGGTCCAGCTGAAG