AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG003655

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003655 MtrunA17_Chr7g0225681 84.980 739 58 7 1 696 1 729 0.0 1117
MsaG003655 MtrunA17_Chr8g0373581 77.582 455 38 7 276 696 2 426 0.0 655
MsaG003655 MtrunA17_Chr8g0373591 86.667 270 25 3 1 260 1 269 1.49e-115 348
MsaG003655 MtrunA17_Chr8g0373591 60.131 153 48 5 163 314 45 185 1.02e-19 89.7
MsaG003655 MtrunA17_Chr1g0188151 96.739 92 3 0 605 696 1 92 1.28e-57 189
MsaG003655 MtrunA17_Chr1g0188141 87.912 91 10 1 1 91 1 90 4.93e-33 122
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003655 AT5G41020.1 55.124 283 126 1 411 693 302 583 1.56e-112 352

Find 135 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAATAAATTCCAGCTCTTC+AGG 0.282279 1:-60219954 None:intergenic
AACAAATGATCCACCATATT+GGG 0.286872 1:+60220438 MsaT003655.1:CDS
GAAGATCAAAGCAGCTGTTT+TGG 0.293853 1:+60219749 MsaT003655.1:CDS
ACATTGCTTTCGGACATATA+TGG 0.300898 1:-60218547 None:intergenic
CATTGAGCAGGTGGAAGTTC+TGG 0.301208 1:+60220481 MsaT003655.1:CDS
GTCACTATACTCCTTAAGTT+TGG 0.317240 1:-60219328 None:intergenic
TTGATCTTCTCATCTTCTTC+GGG 0.322099 1:-60219735 None:intergenic
TTTGATCTTCTCATCTTCTT+CGG 0.324153 1:-60219736 None:intergenic
GAACAAATGATCCACCATAT+TGG 0.329038 1:+60220437 MsaT003655.1:CDS
GATAAACGCTTTATATGCTT+TGG 0.342448 1:+60220337 MsaT003655.1:CDS
TATATAGATTCTCATGGTTT+GGG 0.357329 1:+60219774 MsaT003655.1:CDS
GTATATAGATTCTCATGGTT+TGG 0.365976 1:+60219773 MsaT003655.1:CDS
TCATCATCTTCACATTCATT+TGG 0.373205 1:-60219261 None:intergenic
GGGAGATGAAGGTCTTGATA+TGG 0.374391 1:+60219794 MsaT003655.1:CDS
GGAGGCAATTGGTCACAAAT+TGG 0.375244 1:+60220214 MsaT003655.1:CDS
TCTCTATCTTTCAACAGGTT+AGG 0.380269 1:-60220518 None:intergenic
ACTCCTAACTCTGCACATAA+TGG 0.384709 1:+60219624 MsaT003655.1:CDS
TTATGCGTGCCTTCTTCACT+TGG 0.390327 1:-60219027 None:intergenic
GTTCCATTATGTGCAGAGTT+AGG 0.391649 1:-60219627 None:intergenic
GAGGGCAGTAGCCGACGCTT+TGG 0.393084 1:+60220007 MsaT003655.1:CDS
TGGCTGCATGCTCCCCAATA+TGG 0.395764 1:-60220451 None:intergenic
CAGATCAGCTACATTGCTTT+CGG 0.400572 1:-60218557 None:intergenic
CTCTATCTTTCAACAGGTTA+GGG 0.404823 1:-60220517 None:intergenic
CATTGGTTGCTAGTGGTGAT+TGG 0.407410 1:+60220291 MsaT003655.1:CDS
AGGCCTCTCTATCTTTCAAC+AGG 0.417278 1:-60220523 None:intergenic
AGAAGCAATGAAGGTGATAA+TGG 0.417384 1:+60218784 MsaT003655.1:CDS
GTTTCATTATGTGCACAGTT+AGG 0.420555 1:-60219603 None:intergenic
TTCCAACAGCCTCTAACCTC+GGG 0.421209 1:-60219837 None:intergenic
TAGCCCTCTCGAGCAGATCT+AGG 0.424550 1:-60220139 None:intergenic
AAAGGGAGGGGAGGTGTAAG+TGG 0.424706 1:+60219928 MsaT003655.1:CDS
GTTGCGAGATAATATTTGTT+GGG 0.434220 1:+60220193 MsaT003655.1:CDS
AAATTACACCCCGAGGTTAG+AGG 0.442409 1:+60219828 MsaT003655.1:CDS
GTTTCATTACGTGCACAGTT+AGG 0.446203 1:-60219471 None:intergenic
AGGGCAGTAGCCGACGCTTT+GGG 0.446431 1:+60220008 MsaT003655.1:CDS
GCTGCATGGAGGAGGTAGAC+TGG 0.446516 1:+60220366 MsaT003655.1:CDS
CTAAACGCAAACAAGTAACT+TGG 0.447239 1:+60219652 MsaT003655.1:CDS
TGCTCATGCTTTGTTAGAAA+GGG 0.448940 1:+60219911 MsaT003655.1:CDS
GTGCTCATGCTTTGTTAGAA+AGG 0.460254 1:+60219910 MsaT003655.1:CDS
AATATTTGTTGGGAGGCAAT+TGG 0.463198 1:+60220203 MsaT003655.1:CDS
TTTCCAACAGCCTCTAACCT+CGG 0.465967 1:-60219838 None:intergenic
ACACTGTAATGAGGCCTCTC+AGG 0.470045 1:-60219879 None:intergenic
GTCACTGAAGTTAATGATGA+AGG 0.477306 1:+60219390 MsaT003655.1:CDS
TGCTTTGGATGCTTGCTGCA+TGG 0.479442 1:+60220352 MsaT003655.1:CDS
TCTCATGGTTTGGGAGATGA+AGG 0.479659 1:+60219783 MsaT003655.1:CDS
TAGAAGCAATGGAGGTGAAG+AGG 0.481860 1:+60219158 MsaT003655.1:CDS
ACGGCTTATTGCGTGGGAAA+AGG 0.484774 1:+60219706 MsaT003655.1:CDS
AAGAAGCAGAAATTAATTGA+AGG 0.487991 1:+60219108 MsaT003655.1:CDS
TGTTGCGAGATAATATTTGT+TGG 0.489321 1:+60220192 MsaT003655.1:CDS
GTCAGTGAAGTTAATGATCA+AGG 0.490585 1:+60219531 MsaT003655.1:CDS
GGATGCTTGCTGCATGGAGG+AGG 0.492182 1:+60220358 MsaT003655.1:CDS
AAGAAGAAACCAAGTGAAGA+AGG 0.493411 1:+60219018 MsaT003655.1:CDS
AAGTGAAGAAGGCACGCATA+AGG 0.495784 1:+60219029 MsaT003655.1:CDS
GAGTGAGGAAAGCAAACATA+AGG 0.496559 1:+60218843 MsaT003655.1:CDS
AAGTGAAGAAAGTAAACATA+AGG 0.498172 1:+60219221 MsaT003655.1:CDS
TGAAGGTGATAATGGCGAGC+AGG 0.499793 1:+60218792 MsaT003655.1:CDS
TCAGCATCACCTTCATTGCC+AGG 0.508437 1:-60219495 None:intergenic
ATAGGTCTGGTGATGTATGC+AGG 0.510035 1:+60220405 MsaT003655.1:CDS
TGTAATGACTTTAGAAGCAA+TGG 0.511180 1:+60219147 MsaT003655.1:CDS
AACAACTTTAGAAGCAATGA+AGG 0.512264 1:+60218775 MsaT003655.1:CDS
TAAGTGGACACCTGAAGAGC+TGG 0.512398 1:+60219944 MsaT003655.1:CDS
AATTGAGGAAGCCAAACTTA+AGG 0.514474 1:+60219317 MsaT003655.1:CDS
AGTGACATTATAAGCAATGA+AGG 0.517478 1:+60219345 MsaT003655.1:CDS
TTTGGGTAAAAGTCGAGATC+AGG 0.519802 1:+60220025 MsaT003655.1:CDS
AGCCAAGTCATTCATTGAGC+AGG 0.521908 1:+60220469 MsaT003655.1:CDS
AATCTACTTGAGCATAGGTC+TGG 0.523977 1:+60220392 MsaT003655.1:CDS
CTGCATGGAGGAGGTAGACT+GGG 0.526890 1:+60220367 MsaT003655.1:CDS
AAAAGCAATAAAAGTGAAGA+TGG 0.528970 1:+60218589 MsaT003655.1:CDS
GAAGAAGAAGAAACTAATTG+AGG 0.530342 1:+60219302 MsaT003655.1:CDS
CGAGCAATTAACATCAGCAT+TGG 0.533412 1:+60220274 MsaT003655.1:CDS
AAGAAGCGGAAGCTAGTTGA+AGG 0.534153 1:+60218733 MsaT003655.1:CDS
TTGGAGTATATAGATTCTCA+TGG 0.535104 1:+60219768 MsaT003655.1:CDS
ACCCCGAGGTTAGAGGCTGT+TGG 0.535419 1:+60219835 MsaT003655.1:CDS
AAAAGTGAAGATGGCGAGCA+AGG 0.538269 1:+60218598 MsaT003655.1:CDS
CATATATGGATCACCTCCAT+TGG 0.545409 1:-60218533 None:intergenic
CATATAAAGCGTTTATCAAG+CGG 0.546556 1:-60220331 None:intergenic
AATCACAGGTTTGTTGTCAA+AGG 0.550299 1:-60220543 None:intergenic
ACGAGCAACATGGATCTAGT+TGG 0.551620 1:+60219985 MsaT003655.1:CDS
AACTTGGGCTGATGAGGTGG+AGG 0.553676 1:+60219668 MsaT003655.1:CDS
GTTTATCAAGCGGAAGTCAT+CGG 0.557461 1:-60220321 None:intergenic
ACAAGTAACTTGGGCTGATG+AGG 0.559174 1:+60219662 MsaT003655.1:CDS
TGTTGTGACGGCTTATTGCG+TGG 0.561335 1:+60219699 MsaT003655.1:CDS
AATGAAACTCCTGGCAATGA+AGG 0.566619 1:+60219486 MsaT003655.1:CDS
TGTGCACGTAATGAAACTCC+TGG 0.570515 1:+60219477 MsaT003655.1:CDS
CGGTTATACACACTGTAATG+AGG 0.572231 1:-60219888 None:intergenic
AGAAGCAATGGAGGTGAAGA+GGG 0.572295 1:+60219159 MsaT003655.1:CDS
CATGCTTTGTTAGAAAGGGA+GGG 0.573971 1:+60219915 MsaT003655.1:CDS
AGTAACTTGGGCTGATGAGG+TGG 0.573985 1:+60219665 MsaT003655.1:CDS
TCATGCTTTGTTAGAAAGGG+AGG 0.576855 1:+60219914 MsaT003655.1:CDS
TAGAAACCTCAACAAATCAC+AGG 0.579568 1:-60220557 None:intergenic
GAAGGTGATAATGGCGAGCA+GGG 0.580967 1:+60218793 MsaT003655.1:CDS
ATGCTTTGTTAGAAAGGGAG+GGG 0.581640 1:+60219916 MsaT003655.1:CDS
CACCTGCTCAATGAATGACT+TGG 0.584077 1:-60220471 None:intergenic
AACAAACCTGTGATTTGTTG+AGG 0.586181 1:+60220551 MsaT003655.1:CDS
AGCAACATGGATCTAGTTGG+AGG 0.586815 1:+60219988 MsaT003655.1:CDS
GCGAGATAATATTTGTTGGG+AGG 0.587211 1:+60220196 MsaT003655.1:CDS
GAGGAGAAGTTATGTTGTGA+CGG 0.589001 1:+60219687 MsaT003655.1:CDS
ACATCAGCATTGGTTGCTAG+TGG 0.590714 1:+60220284 MsaT003655.1:CDS
AGAAGCAATGATGATGAAGA+TGG 0.598793 1:+60218970 MsaT003655.1:CDS
GACGACGAGGGTGAAACCAA+TGG 0.599409 1:+60218517 MsaT003655.1:CDS
CTGCATGCTCCCCAATATGG+TGG 0.600862 1:-60220448 None:intergenic
TAAACGCAAACAAGTAACTT+GGG 0.603412 1:+60219653 MsaT003655.1:CDS
TGAAGGAAACACACTTGAGG+AGG 0.607482 1:+60218750 MsaT003655.1:CDS
AAACCTAGATCTGCTCGAGA+GGG 0.608007 1:+60220136 MsaT003655.1:CDS
TAAACCTAGATCTGCTCGAG+AGG 0.609475 1:+60220135 MsaT003655.1:CDS
TTGATCATTAACTTCACTGA+CGG 0.613157 1:-60219529 None:intergenic
AATTGAAGGAAGCACACTGA+AGG 0.616212 1:+60218933 MsaT003655.1:CDS
GGGACAATCTACTTGAGCAT+AGG 0.618965 1:+60220387 MsaT003655.1:CDS
TAACCTGTTGAAAGATAGAG+AGG 0.620502 1:+60220520 MsaT003655.1:CDS
ACAAATGATCCACCATATTG+GGG 0.622830 1:+60220439 MsaT003655.1:CDS
CAAGTCATTCATTGAGCAGG+TGG 0.627450 1:+60220472 MsaT003655.1:CDS
GAAAAGACCTACGAGCAACA+TGG 0.630731 1:+60219975 MsaT003655.1:CDS
TTTCTAACAAAGCATGAGCA+CGG 0.633278 1:-60219908 None:intergenic
GTGATGTATGCAGGAAACGA+TGG 0.636494 1:+60220414 MsaT003655.1:CDS
GTTGTGACGGCTTATTGCGT+GGG 0.642851 1:+60219700 MsaT003655.1:CDS
GCAACATGGATCTAGTTGGA+GGG 0.643237 1:+60219989 MsaT003655.1:CDS
TTTGGATGCTTGCTGCATGG+AGG 0.643384 1:+60220355 MsaT003655.1:CDS
AATGAATGTGAAGATGATGA+TGG 0.645642 1:+60219264 MsaT003655.1:CDS
ACTAGATCCATGTTGCTCGT+AGG 0.645688 1:-60219982 None:intergenic
TGATGTATGCAGGAAACGAT+GGG 0.648956 1:+60220415 MsaT003655.1:CDS
GAGATCAGGTAAAAGATGCG+TGG 0.653330 1:+60220039 MsaT003655.1:CDS
AGCAAAGACAGTAACAAGCG+AGG 0.653375 1:+60219578 MsaT003655.1:CDS
AAATGTGAAGCTGACGACCA+AGG 0.655741 1:+60218889 MsaT003655.1:CDS
AATGACTTTAGAAGCAATGG+AGG 0.658645 1:+60219150 MsaT003655.1:CDS
CTTTGTTAGAAAGGGAGGGG+AGG 0.659450 1:+60219919 MsaT003655.1:CDS
GAAGGAAACACACTTGAGGA+GGG 0.660891 1:+60218751 MsaT003655.1:CDS
AAAAGGACATTGGTCCCAAG+AGG 0.666914 1:+60220088 MsaT003655.1:CDS
AAATGTCAAATTACACCCCG+AGG 0.668903 1:+60219821 MsaT003655.1:CDS
CAAAAGAACTGAAGACGACG+AGG 0.676138 1:+60218504 MsaT003655.1:CDS
TGTGAAGATGATGATGGCCA+AGG 0.683186 1:+60219270 MsaT003655.1:CDS
TCCAACAGCCTCTAACCTCG+GGG 0.692890 1:-60219836 None:intergenic
AATGATTGTGAAGATGACCA+AGG 0.698674 1:+60219072 MsaT003655.1:CDS
AGTTGAAGGAAACACACTTG+AGG 0.699110 1:+60218747 MsaT003655.1:CDS
AAAAGAACTGAAGACGACGA+GGG 0.720222 1:+60218505 MsaT003655.1:CDS
GAATGTGAAGATGATGACCA+CGG 0.736913 1:+60218697 MsaT003655.1:CDS
GACGAGGGTGAAACCAATGG+AGG 0.742823 1:+60218520 MsaT003655.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 60218481 60220571 60218481 ID=MsaG003655
Chr1 mRNA 60218481 60220571 60218481 ID=MsaT003655.1;Parent=MsaG003655
Chr1 exon 60218481 60220571 60218481 ID=MsaT003655.1.exon1;Parent=MsaT003655.1
Chr1 CDS 60218481 60220571 60218481 ID=cds.MsaT003655.1;Parent=MsaT003655.1
Gene Sequence

>MsaT003655.1

ATGAAGACTCCGAGCAAGAAAAACAAAAGAACTGAAGACGACGAGGGTGAAACCAATGGAGGTGATCCATATATGTCCGAAAGCAATGTAGCTGATCTGCCTTTGACCAAAAGCAATAAAAGTGAAGATGGCGAGCAAGGCAAAAAGAAAAAGAAAAAGAAGAAGAAACTGAGTGAAGAAAGCAATCATAAGAAGTATAATGAGTTCAAAAGCAATGAATGTGAAGATGATGACCACGGAAAGAAGATGAAAAAGAAGCGGAAGCTAGTTGAAGGAAACACACTTGAGGAGGGTAACAACTTTAGAAGCAATGAAGGTGATAATGGCGAGCAGGGAAAGAAGAAAAAGAAAAAGGAAAAATTGAGTGAGGAAAGCAAACATAAGGAGTATAACGAGTTCAAAAGTAACAAATGTGAAGCTGACGACCAAGGAAAGAAGATGAAAAAGAAGCTAATTGAAGGAAGCACACTGAAGGAATGTAACGACTTTAGAAGCAATGATGATGAAGATGGTGAGCGAGAGAAAAAGATGAAGAAAAAGAAGAAACCAAGTGAAGAAGGCACGCATAAGGAGTATAGTGAGTTCAAAAGCAATGATTGTGAAGATGACCAAGGAAAAAAGACGAAAAAGAAGCAGAAATTAATTGAAGGAAACACACTTAATGAGTGTAATGACTTTAGAAGCAATGGAGGTGAAGAGGGTGATCAAGACAAGAAGATGAAGAAAAAGAAGAAGAAACTAAGTGAAGAAAGTAAACATAAGGAGTATAGCAAGTTTGAACCAAATGAATGTGAAGATGATGATGGCCAAGGAAAGAAAATGAAGAAGAAGAAACTAATTGAGGAAGCCAAACTTAAGGAGTATAGTGACATTATAAGCAATGAAGGTGATGCTGATACTTGTTTCTCTGTCACTGAAGTTAATGATGAAGGCAAAAAGATGAAGAAAAAAAAGAAAGCAAAGAAAGCAAAGATAGTTACAAGCGAGTCTCCTAACTGTGCACGTAATGAAACTCCTGGCAATGAAGGTGATGCTGATGCTTGTTTCTCCGTCAGTGAAGTTAATGATCAAGGCAAAAAGATGAAGAAAAAAAAGAAAGCAAAGACAGTAACAAGCGAGGCTCCTAACTGTGCACATAATGAAACTCCTAACTCTGCACATAATGGAACATCTAAACGCAAACAAGTAACTTGGGCTGATGAGGTGGAGGAGAAGTTATGTTGTGACGGCTTATTGCGTGGGAAAAGGTATACACCCGAAGAAGATGAGAAGATCAAAGCAGCTGTTTTGGAGTATATAGATTCTCATGGTTTGGGAGATGAAGGTCTTGATATGGTTCTAAATGTCAAATTACACCCCGAGGTTAGAGGCTGTTGGAAAGAAATCGCAAAAAGCATACCTGAGAGGCCTCATTACAGTGTGTATAACCGTGCTCATGCTTTGTTAGAAAGGGAGGGGAGGTGTAAGTGGACACCTGAAGAGCTGGAATTTATTGAAAAGACCTACGAGCAACATGGATCTAGTTGGAGGGCAGTAGCCGACGCTTTGGGTAAAAGTCGAGATCAGGTAAAAGATGCGTGGCGCCGATTAAAATATACCAAAACAAAAAAAGGACATTGGTCCCAAGAGGAGTATCAAAATTTATTTAACTTAGTAAACCTAGATCTGCTCGAGAGGGCTAAAGAGCCTTATAAAAAATCACAACATGGTATGTTGCGAGATAATATTTGTTGGGAGGCAATTGGTCACAAATTGGAGACTCGAAACAGTGCATTTTGCTGCAAGAAGTGGTACGAGCAATTAACATCAGCATTGGTTGCTAGTGGTGATTGGTGTGATACCGATGACTTCCGCTTGATAAACGCTTTATATGCTTTGGATGCTTGCTGCATGGAGGAGGTAGACTGGGACAATCTACTTGAGCATAGGTCTGGTGATGTATGCAGGAAACGATGGGAACAAATGATCCACCATATTGGGGAGCATGCAGCCAAGTCATTCATTGAGCAGGTGGAAGTTCTGGCAAAGAGATTCTGCCCTAACCTGTTGAAAGATAGAGAGGCCTTTGACAACAAACCTGTGATTTGTTGA
Protein sequence

>MsaT003655.1

MKTPSKKNKRTEDDEGETNGGDPYMSESNVADLPLTKSNKSEDGEQGKKKKKKKKKLSEESNHKKYNEFKSNECEDDDHGKKMKKKRKLVEGNTLEEGNNFRSNEGDNGEQGKKKKKKEKLSEESKHKEYNEFKSNKCEADDQGKKMKKKLIEGSTLKECNDFRSNDDEDGEREKKMKKKKKPSEEGTHKEYSEFKSNDCEDDQGKKTKKKQKLIEGNTLNECNDFRSNGGEEGDQDKKMKKKKKKLSEESKHKEYSKFEPNECEDDDGQGKKMKKKKLIEEAKLKEYSDIISNEGDADTCFSVTEVNDEGKKMKKKKKAKKAKIVTSESPNCARNETPGNEGDADACFSVSEVNDQGKKMKKKKKAKTVTSEAPNCAHNETPNSAHNGTSKRKQVTWADEVEEKLCCDGLLRGKRYTPEEDEKIKAAVLEYIDSHGLGDEGLDMVLNVKLHPEVRGCWKEIAKSIPERPHYSVYNRAHALLEREGRCKWTPEELEFIEKTYEQHGSSWRAVADALGKSRDQVKDAWRRLKYTKTKKGHWSQEEYQNLFNLVNLDLLERAKEPYKKSQHGMLRDNICWEAIGHKLETRNSAFCCKKWYEQLTSALVASGDWCDTDDFRLINALYALDACCMEEVDWDNLLEHRSGDVCRKRWEQMIHHIGEHAAKSFIEQVEVLAKRFCPNLLKDREAFDNKPVIC*