AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040736


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040736 MtrunA17_Chr7g0274141 59.375 384 129 10 5 371 12 385 5.93e-117 348
MsaG040736 MtrunA17_Chr1g0190761 49.211 317 132 11 68 362 82 391 1.50e-69 226
MsaG040736 MtrunA17_Chr7g0274161 97.500 80 2 0 378 457 65 144 3.03e-44 152
MsaG040736 MtrunA17_Chr1g0190751 72.500 80 17 1 378 457 65 139 2.36e-29 112
MsaG040736 MtrunA17_Chr1g0194691 77.778 45 9 1 413 457 11 54 1.53e-12 62.4
MsaG040736 MtrunA17_Chr3g0139301 41.379 87 50 1 174 259 121 207 2.37e-12 67.4
MsaG040736 MtrunA17_Chr1g0147491 42.500 120 66 2 150 268 142 259 4.45e-12 67.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040736 AT5G28770.2 38.346 266 114 9 17 271 20 246 1.66e-28 115
MsaG040736 AT5G28770.1 36.981 265 112 8 17 271 20 239 1.52e-26 109
MsaG040736 AT5G28750.1 67.500 80 26 0 378 457 68 147 1.93e-26 104
MsaG040736 AT4G02640.3 39.738 229 112 9 47 267 102 312 1.87e-22 99.4
MsaG040736 AT4G02640.2 39.738 229 112 9 47 267 102 312 2.05e-22 99.4
MsaG040736 AT4G02640.4 39.823 226 110 8 47 267 102 306 3.14e-22 98.6
MsaG040736 AT4G02640.1 39.823 226 110 8 47 267 102 306 3.72e-22 98.6
MsaG040736 AT5G28770.3 37.143 245 104 9 17 250 20 225 1.72e-21 94.0
MsaG040736 AT5G24800.1 42.069 145 66 5 133 264 71 210 1.12e-20 92.0
MsaG040736 AT3G54620.1 30.189 318 139 9 21 282 40 330 7.32e-19 88.6

Find 95 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTTCAGGATGCTCCAAAAT+AGG 0.198060 7:+103381972 MsaT040736.1:intron
CGACTTCAGCCTACTGTAAA+AGG 0.200539 7:+103381567 MsaT040736.1:CDS
GTTTAGCTGATTCCCTATTT+TGG 0.286405 7:-103381985 None:intergenic
TACTGAGGTTTCTAGTTCTA+AGG 0.292945 7:+103391151 MsaT040736.1:CDS
GGATCTGATCCTTCTGATAT+TGG 0.302870 7:+103381516 MsaT040736.1:CDS
GTTTGAGTCTGAGCTTAAAA+AGG 0.305627 7:+103391061 MsaT040736.1:CDS
CCCTTCTGAATTACAAAATA+AGG 0.310861 7:+103381726 MsaT040736.1:CDS
GAGAGATGTAAAAGATTAAC+TGG 0.323266 7:+103382587 MsaT040736.1:CDS
TGTCTAAAGGAAATTGATAA+AGG 0.341441 7:+103379504 MsaT040736.1:CDS
GGAGAGGTTAATATGAATAT+TGG 0.345096 7:+103381853 MsaT040736.1:CDS
ACAAAGGTGGAAGAAGTTAA+AGG 0.357578 7:-103379555 None:intergenic
AGGGGAAGAGAAAGCTTCTC+AGG 0.359196 7:+103381831 MsaT040736.1:CDS
CCTGAACTCGTTGTTATTGC+TGG 0.366575 7:+103388763 MsaT040736.1:CDS
GATATGAGAGGAGTCAATAA+TGG 0.367652 7:+103382779 MsaT040736.1:CDS
TATTAGGTCTCTACATTAAG+AGG 0.369226 7:+103382117 MsaT040736.1:intron
GTTCTATCACTTGTCTTCTT+CGG 0.371352 7:-103382941 None:intergenic
AAGATTAACTGGATCAATTC+CGG 0.379673 7:+103382598 MsaT040736.1:CDS
GGTGCATTCAAGATCAAGTT+TGG 0.383838 7:-103379649 None:intergenic
AACTGTCAAAAGCTTTCAAC+AGG 0.389906 7:+103388846 MsaT040736.1:CDS
CCGATACTGCGACCAACTTC+AGG 0.394518 7:-103388820 None:intergenic
ATTGATGTTGCCTCAGACAT+TGG 0.396102 7:-103382635 None:intergenic
GGCTCCCCTCCTGAGGAATC+TGG 0.401880 7:-103391086 None:intergenic
TTTCAGGATGCTCCAAAATA+GGG 0.416451 7:+103381973 MsaT040736.1:intron
GACATTGGATTATTAAAAGT+TGG 0.427671 7:-103382749 None:intergenic
AGAGGAGTCAATAATGGGTT+GGG 0.448583 7:+103382785 MsaT040736.1:CDS
GCAGCAGGATGGAACGAGAT+AGG 0.450336 7:+103382848 MsaT040736.1:CDS
TGATGACCAGGCTCTTCTTA+AGG 0.454270 7:+103379626 MsaT040736.1:CDS
CAAAGCTATCCACCCGCGGC+AGG 0.455051 7:-103382883 None:intergenic
TGAAACCTGTTGTCACAATC+AGG 0.455873 7:+103381788 MsaT040736.1:CDS
GACATGATCATAGTTGCTGC+TGG 0.457615 7:+103381748 MsaT040736.1:CDS
ATGGGAATGCCATTACTTGA+TGG 0.462778 7:+103382656 MsaT040736.1:CDS
AATGTCTGAGGCAACATCAA+TGG 0.467879 7:+103382637 MsaT040736.1:CDS
GTCTAAAGGAAATTGATAAA+GGG 0.468058 7:+103379505 MsaT040736.1:CDS
GAGAGGAGTCAATAATGGGT+TGG 0.473171 7:+103382784 MsaT040736.1:CDS
AAGGAGAAACAAAGATGAAT+CGG 0.475504 7:+103379454 MsaT040736.1:CDS
ATGTCTGAGGCAACATCAAT+GGG 0.480461 7:+103382638 MsaT040736.1:CDS
CCAGCAATAACAACGAGTTC+AGG 0.481286 7:-103388763 None:intergenic
TCAACGACAAGTGGATCCTC+AGG 0.483871 7:+103381811 MsaT040736.1:CDS
ATATGAGAGGAGTCAATAAT+GGG 0.486438 7:+103382780 MsaT040736.1:CDS
GATATTGGACCACAGACATC+TGG 0.488242 7:+103381531 MsaT040736.1:CDS
GCACCGCCTTTACAATGACT+TGG 0.494141 7:+103379667 MsaT040736.1:CDS
TTATTTGGATCTTCTTGCAC+AGG 0.496736 7:-103382713 None:intergenic
GGTGAAAAGAATGTCATCAA+TGG 0.497878 7:+103379398 None:intergenic
TTTGAGATTGTTATTAACAA+AGG 0.498642 7:-103379571 None:intergenic
CCTGAAGTTGGTCGCAGTAT+CGG 0.502726 7:+103388820 MsaT040736.1:CDS
GTTGACCTGATTGTGACAAC+AGG 0.513826 7:-103381793 None:intergenic
GGATAGCTTTGATCATCAGC+TGG 0.514472 7:+103382895 MsaT040736.1:CDS
ACAGGTTTCAGTGGCATGTA+GGG 0.514510 7:-103381775 None:intergenic
GTGCAGAAGAACACTGCAGC+AGG 0.518310 7:+103382833 MsaT040736.1:CDS
AACAAATTCCCTGCCGCGGG+TGG 0.522410 7:+103382874 MsaT040736.1:CDS
GTAAATCATGTAGGCAGCAA+AGG 0.522582 7:+103391037 MsaT040736.1:intron
ACAGCAATTGATTTCTCAGA+TGG 0.525895 7:-103391107 None:intergenic
ATTGGCATTGCATTAAATGC+CGG 0.535991 7:-103382617 None:intergenic
GACTCCTCTCATATCATGAC+TGG 0.537853 7:-103382771 None:intergenic
CTCATATCATGACTGGACAT+TGG 0.537888 7:-103382764 None:intergenic
ATGTCGGATGCGAGGAACGA+AGG 0.545841 7:+103379435 MsaT040736.1:CDS
CACCGCCTTTACAATGACTT+GGG 0.550480 7:+103379668 MsaT040736.1:CDS
GAGATTGTTATTAACAAAGG+TGG 0.550741 7:-103379568 None:intergenic
ACATGATCATAGTTGCTGCT+GGG 0.551656 7:+103381749 MsaT040736.1:CDS
GTTTGGCCTTAAGAAGAGCC+TGG 0.554569 7:-103379632 None:intergenic
CTGATGCAAAACGAGTTAAG+AGG 0.557366 7:+103381887 MsaT040736.1:CDS
TTTAGAGAAAGATGATGACC+AGG 0.565934 7:+103379614 MsaT040736.1:CDS
AGAGAAAGCTTCTCAGGGAG+AGG 0.567096 7:+103381837 MsaT040736.1:CDS
AAGAACAAATTCCCTGCCGC+GGG 0.569746 7:+103382871 MsaT040736.1:CDS
AACAGGTTTCAGTGGCATGT+AGG 0.571055 7:-103381776 None:intergenic
CTCAGATGGCTCCCCTCCTG+AGG 0.577964 7:-103391093 None:intergenic
ACAATCAGGTCAACGACAAG+TGG 0.581189 7:+103381802 MsaT040736.1:CDS
GTCTGTGGTCCAATATCAGA+AGG 0.586487 7:-103381525 None:intergenic
GGAACAATATTTGTTGATGT+CGG 0.586597 7:+103379419 MsaT040736.1:CDS
ACATACCCAAGTCATTGTAA+AGG 0.590157 7:-103379673 None:intergenic
GAAGGACTTCCATCAAGTAA+TGG 0.591255 7:-103382665 None:intergenic
TAATGCAATGCCAATGTCTG+AGG 0.599128 7:+103382625 MsaT040736.1:CDS
AAGGTGGAAGAAGTTAAAGG+TGG 0.599798 7:-103379552 None:intergenic
AAAGCTATCCACCCGCGGCA+GGG 0.601789 7:-103382882 None:intergenic
GGGGAAGAGAAAGCTTCTCA+GGG 0.602774 7:+103381832 MsaT040736.1:CDS
ATTTGTTGATGTCGGATGCG+AGG 0.603239 7:+103379427 MsaT040736.1:CDS
CATGATCATAGTTGCTGCTG+GGG 0.605839 7:+103381750 MsaT040736.1:CDS
GGAACCAGATTCCTCAGGAG+GGG 0.609899 7:+103391082 MsaT040736.1:CDS
GGCTGAAGTCGAAGTTCTGA+AGG 0.612129 7:-103381555 None:intergenic
AAGGAACCAGATTCCTCAGG+AGG 0.613287 7:+103391080 MsaT040736.1:CDS
AAATACTAAGCTTGAAACAC+AGG 0.618412 7:+103382033 MsaT040736.1:CDS
AGGAACCAGATTCCTCAGGA+GGG 0.620434 7:+103391081 MsaT040736.1:CDS
GCATCAGCTGATAACTCAGA+AGG 0.620964 7:-103382683 None:intergenic
CAACGACAAGTGGATCCTCA+GGG 0.625807 7:+103381812 MsaT040736.1:CDS
ATTGTGACAACAGGTTTCAG+TGG 0.628600 7:-103381784 None:intergenic
GGAGTCAATAATGGGTTGGG+AGG 0.632977 7:+103382788 MsaT040736.1:CDS
AGAGAAGAAGCAAGATACTG+AGG 0.643616 7:+103391136 MsaT040736.1:CDS
GAAGAACAAATTCCCTGCCG+CGG 0.646610 7:+103382870 MsaT040736.1:CDS
AGAAGCTTTCTCTTCCCCTG+AGG 0.650082 7:-103381827 None:intergenic
TACCCAAGTCATTGTAAAGG+CGG 0.659591 7:-103379670 None:intergenic
ATGTCCAGTCATGATATGAG+AGG 0.664118 7:+103382767 MsaT040736.1:CDS
AGAAGAACACTGCAGCAGGA+TGG 0.669756 7:+103382837 MsaT040736.1:CDS
TCTGAAGGACCAGATGTCTG+TGG 0.689035 7:-103381540 None:intergenic
AACGACAAGTGGATCCTCAG+GGG 0.710138 7:+103381813 MsaT040736.1:CDS
TGATCAAAGCTATCCACCCG+CGG 0.714097 7:-103382887 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 103379408 103391184 103379408 ID=MsaG040736
Chr7 mRNA 103379408 103391184 103379408 ID=MsaT040736.1;Parent=MsaG040736
Chr7 exon 103379408 103379689 103379408 ID=MsaT040736.1.exon1;Parent=MsaT040736.1
Chr7 CDS 103379408 103379689 103379408 ID=cds.MsaT040736.1;Parent=MsaT040736.1
Chr7 exon 103381516 103381588 103381516 ID=MsaT040736.1.exon2;Parent=MsaT040736.1
Chr7 CDS 103381516 103381588 103381516 ID=cds.MsaT040736.1;Parent=MsaT040736.1
Chr7 exon 103381719 103381908 103381719 ID=MsaT040736.1.exon3;Parent=MsaT040736.1
Chr7 CDS 103381719 103381908 103381719 ID=cds.MsaT040736.1;Parent=MsaT040736.1
Chr7 exon 103381979 103382054 103381979 ID=MsaT040736.1.exon4;Parent=MsaT040736.1
Chr7 CDS 103381979 103382054 103381979 ID=cds.MsaT040736.1;Parent=MsaT040736.1
Chr7 exon 103382123 103382248 103382123 ID=MsaT040736.1.exon5;Parent=MsaT040736.1
Chr7 CDS 103382123 103382248 103382123 ID=cds.MsaT040736.1;Parent=MsaT040736.1
Chr7 exon 103382572 103382953 103382572 ID=MsaT040736.1.exon6;Parent=MsaT040736.1
Chr7 CDS 103382572 103382953 103382572 ID=cds.MsaT040736.1;Parent=MsaT040736.1
Chr7 exon 103388758 103388867 103388758 ID=MsaT040736.1.exon7;Parent=MsaT040736.1
Chr7 CDS 103388758 103388867 103388758 ID=cds.MsaT040736.1;Parent=MsaT040736.1
Chr7 exon 103391050 103391184 103391050 ID=MsaT040736.1.exon8;Parent=MsaT040736.1
Chr7 CDS 103391050 103391184 103391050 ID=cds.MsaT040736.1;Parent=MsaT040736.1
Gene Sequence

>MsaT040736.1

ATGTCATCAATGGAACAATATTTGTTGATGTCGGATGCGAGGAACGAAGGAGAAACAAAGATGAATCGGATTGATTCAAAATTAGATTTTCTGCAGTGTCTAAAGGAAATTGATAAAGGGACAAATACTGTAAAATTTTGTTCTCCACCTTTAACTTCTTCCACCTTTGTTAATAACAATCTCAAAATCAATAATAATATTATTGATTTAGAGAAAGATGATGACCAGGCTCTTCTTAAGGCCAAACTTGATCTTGAATGCACCGCCTTTACAATGACTTGGGGATCTGATCCTTCTGATATTGGACCACAGACATCTGGTCCTTCAGAACTTCGACTTCAGCCTACTGTAAAAGAGTGTGGCCCTTCTGAATTACAAAATAAGGACATGATCATAGTTGCTGCTGGGGCACCCTACATGCCACTGAAACCTGTTGTCACAATCAGGTCAACGACAAGTGGATCCTCAGGGGAAGAGAAAGCTTCTCAGGGAGAGGTTAATATGAATATTGGAGACAATAACCCTGATGCAAAACGAGTTAAGAGGATGCTCCAAAATAGGGAATCAGCTAAACGCTCGAGAGATAGAAAGATAGCTGAAAATACTAAGCTTGAAACACAGGTCTCTACATTAAGAGGTGATAATTCTTCATTGTTGAAGCGTTTATCAGATGTGAGTCAAAAATATGACAATTCTGCTGTTGACAACAGAATATTAAACGCTAATTTTGAAACAATAAAAGCGAAGGTGAATGCGGCAAAAGAGAGATGTAAAAGATTAACTGGATCAATTCCGGCATTTAATGCAATGCCAATGTCTGAGGCAACATCAATGGGAATGCCATTACTTGATGGAAGTCCTTCTGAGTTATCAGCTGATGCATATGTACCTGTGCAAGAAGATCCAAATAATTTCTTTTTTCAACCAACTTTTAATAATCCAATGTCCAGTCATGATATGAGAGGAGTCAATAATGGGTTGGGAGGCATTATTTCTTCAGTTGAAAGTGTGCAGAAGAACACTGCAGCAGGATGGAACGAGATAGGAAGAACAAATTCCCTGCCGCGGGTGGATAGCTTTGATCATCAGCTGGATTCTTTTTGTGGTGATGCAATGCCGAAGAAGACAAGTGTACCTGAACTCGTTGTTATTGCTGGTGTTGCTGCCATCGTTTTTGGTCCCAAAAAATTGCCTGAAGTTGGTCGCAGTATCGGTAAAACTGTCAAAAGCTTTCAACAGGCAGCAAAGGAGTTTGAGTCTGAGCTTAAAAAGGAACCAGATTCCTCAGGAGGGGAGCCATCTGAGAAATCAATTGCTGTTAGCGAAGAGAAGAAGCAAGATACTGAGGTTTCTAGTTCTAAGGACAGTGTATGA

Protein sequence

>MsaT040736.1

MSSMEQYLLMSDARNEGETKMNRIDSKLDFLQCLKEIDKGTNTVKFCSPPLTSSTFVNNNLKINNNIIDLEKDDDQALLKAKLDLECTAFTMTWGSDPSDIGPQTSGPSELRLQPTVKECGPSELQNKDMIIVAAGAPYMPLKPVVTIRSTTSGSSGEEKASQGEVNMNIGDNNPDAKRVKRMLQNRESAKRSRDRKIAENTKLETQVSTLRGDNSSLLKRLSDVSQKYDNSAVDNRILNANFETIKAKVNAAKERCKRLTGSIPAFNAMPMSEATSMGMPLLDGSPSELSADAYVPVQEDPNNFFFQPTFNNPMSSHDMRGVNNGLGGIISSVESVQKNTAAGWNEIGRTNSLPRVDSFDHQLDSFCGDAMPKKTSVPELVVIAGVAAIVFGPKKLPEVGRSIGKTVKSFQQAAKEFESELKKEPDSSGGEPSEKSIAVSEEKKQDTEVSSSKDSV*