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_|*|_|*|_|*|_|*|_|*|_|*|_|*|_|*| | knownSP | secis_index:1 SeB_exonerate category:ALI_U |*|_|*|_|*|_|*|_|*|_|*|_|*|_|*|_
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Blastx evalue: 4e-65
Query name: gi|1044417681|ref|XP_017360374.1| PREDICTED: selenoprotein O isoform X1 [Cebus capucinus imitator]
Query range: 1-670 (total 670)
Target: /data/www-rg/seblastian_results/787896999/tempfiles/temptarget.fasta
Chromosome: KV389755.1:subseq_2867310,100476_ Strand: +
Positions:
-Exon 1 49922 50475
-Exon 2 54741 54944
-Exon 3 56618 56798
-Exon 4 58216 58346
-Exon 5 58641 58921
-Exon 6 62487 62649
-Exon 7 63540 63725
-Exon 8 63800 63956
-Exon 9 64033 64185
Redox box: YES
Query MAARRVAVCASLAATRPLPLGRRRLSPVPRSALSGAAMEPAPRWLAGLRFDNRALRALPVETPPAGPEGAWTTPRLVPGACFTRVRPTPLRQPRLVALSE
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Target MAARRVAVCASLAATRPLPLGRRRLSPVPRSALSGAAMEPAPRWLAGLRFDNRALRALPVETPPAGPEGAWTTPRLVPGACFTRVRPTPLRQPRLVALSE
aggcagggtgtcggacccccgcccctcgcctgttgggagcgcctcggcctgacgccgccggaccggcgggtaacccgcggttacgccacccccccggctg
tccggtctgcctcccgctctggggtcctcgcctcgcctacccggtcgtgtaagctgctctaccccgcagcgcccgttcgcgtcgtgccctgacgttctca
gcgcgcgcccgcttcacgccccccggcgcctgggcccggtggcgggagccccctgcgggggggtctcgccgcgggcgcgcccccggccggggcccggggg
Query PALALLGLGAPPAPEAEAEAALFFSGNALLPGAEPAAHCYCGHQFGQFAGQLGDGAAMYLGEVCTAAGERWELQLKGAGPTPFSR <---Intron--->
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| < 4265bp >
Target PALALLGLGAPPAPEAEAEAALFFSGNALLPGAEPAAHCYCGHQFGQFAGQLGDGAAMYLGEVCTAAGERWELQLKGAGPTPFSR
cgcgccgcggccgcgggggggtttagagcccgggcggctttgcctgctggccgggggatcgggtaggggctgcccagggcactta
cctcttgtgcccccacacacctttggacttcgcacccagaggaatgatcgatgagcctatgatgcccgaggatatagcgccctcg
ctggggcggggcgcgcacgcggcccccgcggccgccgccccccgccgccgggcccccgcacggcggccgcggggcgccgcgccc
Query QADGRKVLRSSIREFLCSEAMFHLGVPTTRAGACVTSESTVARDVFYDGNPKYEKCTVVLRIASTFIR <---Intron---> FGSFEIFKSADEHTG
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| < 1673bp > |||||||||||||||
Target QADGRKVLRSSIREFLCSEAMFHLGVPTTRAGACVTSESTVARDVFYDGNPKYEKCTVVLRIASTFIR FGSFEIFKSADEHTG
cgggcagcctaacgtctaggatccggcaacgggtgatgtaggcggttggacatgataggtcagtataa tgttgatatgggcag
acaggattgcgtgattggacttatgtcccgcgcgtccacctcgattaagacaaaagctttgtcccttg tgctattaccaaacg
agcctcgcagactggcgccacgccggcccagttcccgtgcgggttgcttttcataacatggtatctca gtactgttgcatgcgg
Query RAGPSVGRNDIRVQLLDYVISSFYPEIQAAHASDNVQRNAAFFRE <---Intron---> VTRRTARMVAEWQCVGFCHGVLNTDNMSILGLTIDYGPF
||||||||||||||||||||||||||||||||||||||||||||| < 1417bp > |||||||||||||||||||||||||||||||||||||||
Target RAGPSVGRNDIRVQLLDYVISSFYPEIQAAHASDNVQRNAAFFRE VTRRTARMVAEWQCVGFCHGVLNTDNMSILGLTIDYGPF
cggcaggaagacgcccgtgaatttcgacggcgagagcaaggttcg gaccagcagggtctggttcggcaagaaaacgcaagtgct
gcgcgtggaatgtattaattgctacataccacgaatagaccttga tcggccgttcagagtgtgagttacaatgttgtctaagct
cacccgggcctcgggccccccccccgcgttcccccggatccccgg gagcgggggcgggcacccccgtccccgccgggccccgcc
Query GFLDR <---Intron---> YDPDHVCNASDNTGRYAYSKQPEVCKWNLRKLAEALQPELPLELGEAILAEEFDAEFQRHYLQKMRRKLGLVRVELEED
||||| < 294bp > |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Target GFLDR YDPDHVCNASDNTGRYAYSKQPEVCKWNLRKLAEALQPELPLELGEAILAEEFDAEFQRHYLQKMRRKLGLVRVELEED
gtcga tgcgcgtagtgaagctgtaaccggtataccacgggcccgcccgcgggacgggtgggtcactccaacaacgcgcggcggg
gttag aacaatgaccaacggacagaacatgagatgatcactacatctatgacttcaatacatagaataatggatgttgtataaa
ccgc gcccccgctcaccccccgccggcggcggcggggtgggggggcgggcgccgcggtccgcagccggggagagccggggggac
Query GVLVSKLLQTMHLTA <---Intron---> CVPGADFTNTFYLLSSFLVDPESPGLAEFLARLMEQCASLEELRQAFRPQMDPR <---Intron--->
||||||||||||||| < 3565bp > |||||||||||||||||||||||||||||||||||||||||||||||||||||| < 890bp >
Target GVLVSKLLQTMHLTA CVPGADFTNTFYLLSSFLVDPESPGLAEFLARLMEQCASLEELRQAFRPQMDPR
ggcgtacccaaccag tgcgggtaaatttcattcggcgtcgcggtcgacagctgtcggcacgtcccagcc
gtttcattactatc cgtcgcatcactattgctttacaccgtcattcgttaagcctaatgactgcatacg
ggggcgcggcgcgt cttattccaccccggcccggtggagcgggcgcgggggttcgggggaccgcggtc
Query QLSMMLMLAQSNPQLFALMGTRAGIARELERVEQQSQLEQLSAAELQSRNQDHWATWLQAYR <---Intron---> ARLDKDLEGAGDAAAWQAERV
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| < 74bp > |||||||||||||||||||||
Target QLSMMLMLAQSNPQLFALMGTRAGIARELERVEQQSQLEQLSAAELQSRNQDHWATWLQAYR ARLDKDLEGAGDAAAWQAERV
cctaatacgctaccctgcagacggagagcgcggcctccgccagggccaaacgctgatccgta gccgagcggggggggtcggcg
atctttttcacacattcttgcgcgtcgatagtaaacataatgccataggaaaagccgtacag cgtaaatagcgacccgacagt
gggcgggggagacgggcgcgccgacccggggcggggtggaggcgcgggcgcgccgccgcggc acggcgcggccacctcggcgtg
Query RVMRASNPKYVLRNYIAQNAIEAAERGDFSE <---Intron---> VQRVLKLLETPYHCEAGAATEPEATEPTGGQRSYSSKPPLWAAELCVTUSS
||||||||||||||||||||||||||||||| < 76bp > |||||||||||||||||||||||||||||||||||||||||||||||||||
Target RVMRASNPKYVLRNYIAQNAIEAAERGDFSE VQRVLKLLETPYHCEAGAATEPEATEPTGGQRSYSSKPPLWAAELCVTUSS
cgacgaacatgcaatagcagaggggcggttg gccgcaccgactctgggggagcggagcaggccttaaaccctgggctgattt
gttgcgacaattgaatcaactaccaggatca tagttattaccaagacgcccacaccaccggagcaggacctgccatgtcgcc
tggtccccgtggacccggcccgtcgcgccag tggaggaggctcccgagccagtgcgggtcggtccccgtgcgaaagtggaag
*
Sequence until next stop:
TAA
*
Distance CDS-SECIS: 121 ; UGA-SECIS: 127
------- SECIS element -- id:1 -- grade:A ----
Chromosome = KV389755.1:subseq_2867310,100476_ Strand = + Positions = 64307 - 64385
Found by: Infernal (score=25.42) Covels (score=25.5)
Stem2 length = 10 Apical loop length = 18 Insertion in stem2 = 0, 0
Free Energy = -16.23
..(((((((.......(((((((((((((((................)))))))))))))))............)))))))..
model uucggucaugcgUuaAUGAcGgccuggcccuAAAcC-cuuuuuggggcgggccaggcCuGAUGuu---u-uuucaugaccggc
..({(((((---....{[[(((((((((((..................)))))))))))]]}........-...)))))})..
target ACCCGUCUU---UCCAUGAAGGCAGAGACAUCCAGUCAGGACCUGACCUGUCUCUGUCUGACGCUGGCUC-AGCAGGACAGCU
**** ^^ ****