AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001828


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001828 MtrunA17_Chr1g0203051 55.187 241 108 0 5 245 41 281 2.88e-88 285
MsaG001828 MtrunA17_Chr1g0203051 46.552 116 62 0 246 361 506 621 8.50e-26 111
MsaG001828 MtrunA17_Chr8g0389811 47.945 146 76 0 9 154 50 195 1.96e-47 164
MsaG001828 MtrunA17_Chr2g0331371 41.379 174 85 3 1 162 10 178 4.47e-37 136
MsaG001828 MtrunA17_Chr2g0308841 40.458 131 78 0 246 376 99 229 5.08e-30 118
MsaG001828 MtrunA17_Chr2g0287651 30.667 225 151 2 35 254 67 291 6.29e-30 125
MsaG001828 MtrunA17_Chr2g0287651 36.923 130 82 0 245 374 503 632 1.41e-19 92.8
MsaG001828 MtrunA17_Chr6g0473421 40.157 127 63 2 1 119 10 131 1.97e-26 105
MsaG001828 MtrunA17_Chr8g0340801 50.000 92 46 0 154 245 1 92 8.26e-25 99.0
MsaG001828 MtrunA17_Chr1g0172931 40.909 110 65 0 16 125 49 158 1.86e-24 99.8
MsaG001828 MtrunA17_Chr1g0171741 39.062 128 77 1 46 173 136 262 4.35e-23 99.0
MsaG001828 MtrunA17_Chr5g0448511 35.606 132 84 1 246 377 270 400 1.32e-18 89.4
MsaG001828 MtrunA17_Chr3g0118611 34.815 135 85 3 246 379 374 506 8.82e-17 84.0
MsaG001828 MtrunA17_Chr5g0448761 31.579 133 90 1 246 378 498 629 2.64e-16 82.4
MsaG001828 MtrunA17_Chr5g0448761 29.461 241 146 7 50 267 60 299 1.48e-14 77.0
MsaG001828 MtrunA17_Chr1g0198761 27.317 205 133 6 55 246 59 260 3.88e-16 82.0
MsaG001828 MtrunA17_Chr5g0431001 29.524 210 134 6 49 246 67 274 4.73e-15 77.8
MsaG001828 MtrunA17_Chr1g0202341 27.228 202 138 5 49 246 57 253 1.21e-14 77.0
MsaG001828 MtrunA17_Chr1g0202341 30.769 130 89 1 245 374 481 609 3.31e-14 75.5
MsaG001828 MtrunA17_Chr5g0440451 30.534 131 90 1 246 376 477 606 3.70e-14 75.9
MsaG001828 MtrunA17_Chr8g0366311 39.394 66 40 0 9 74 45 110 1.11e-13 67.4
MsaG001828 MtrunA17_Chr2g0276841 27.751 209 134 8 49 246 76 278 1.39e-13 73.6
MsaG001828 MtrunA17_Chr2g0290391 26.667 240 146 9 55 268 63 298 1.53e-13 73.6
MsaG001828 MtrunA17_Chr6g0458391 32.877 146 92 3 234 375 623 766 1.22e-12 70.9
MsaG001828 MtrunA17_Chr2g0324011 31.579 133 90 1 245 377 440 571 1.44e-11 67.0
MsaG001828 MtrunA17_Chr2g0287061 30.469 128 87 2 251 377 578 704 4.53e-11 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001828 AT4G38180.1 27.919 197 140 2 246 442 507 701 6.63e-17 84.7
MsaG001828 AT4G38180.1 30.942 223 139 9 58 267 88 308 1.02e-13 74.7
MsaG001828 AT5G28530.4 27.041 196 133 5 55 246 67 256 6.41e-16 81.3
MsaG001828 AT5G28530.5 27.041 196 133 5 55 246 67 256 6.77e-16 81.3
MsaG001828 AT5G28530.1 27.976 168 116 4 55 218 67 233 2.92e-15 79.3
MsaG001828 AT5G28530.3 27.976 168 116 4 55 218 67 233 3.25e-15 79.3
MsaG001828 AT5G28530.2 27.976 168 116 4 55 218 67 233 3.25e-15 79.3
MsaG001828 AT4G38170.1 33.846 130 85 1 246 375 272 400 4.17e-15 78.6
MsaG001828 AT1G10240.2 28.016 257 151 10 1 246 23 256 3.46e-14 75.9
MsaG001828 AT1G10240.1 28.016 257 151 10 1 246 23 256 3.46e-14 75.9
MsaG001828 AT2G27110.2 29.008 131 92 1 247 377 453 582 8.36e-14 75.1
MsaG001828 AT2G27110.1 29.008 131 92 1 247 377 453 582 8.36e-14 75.1
MsaG001828 AT2G27110.3 29.008 131 92 1 247 377 308 437 1.11e-13 74.3
MsaG001828 AT5G18960.2 33.065 124 82 1 251 374 606 728 1.40e-13 74.3
MsaG001828 AT5G18960.1 33.065 124 82 1 251 374 606 728 1.40e-13 74.3
MsaG001828 AT3G06250.2 32.258 124 83 1 251 374 582 704 3.42e-13 72.8
MsaG001828 AT3G06250.1 32.258 124 83 1 251 374 582 704 3.42e-13 72.8
MsaG001828 AT3G06250.3 32.258 124 83 1 251 374 582 704 3.42e-13 72.8

Find 106 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTAACTGTGTTCAAGATTT+AGG 0.066649 1:-27347735 MsaT001828.1:CDS
TTAACTGTGTTCAAGATTTA+GGG 0.253056 1:-27347734 MsaT001828.1:CDS
CCACCCCAACATCTGGAAAA+TGG 0.276553 1:+27347667 None:intergenic
TTTCTTACTATCTTTAGTTC+TGG 0.306509 1:+27345721 None:intergenic
GACAGAGATATTGGTGTATT+AGG 0.309093 1:-27345629 MsaT001828.1:CDS
AACTAAAGATAGTAAGAAAA+AGG 0.311805 1:-27345717 MsaT001828.1:CDS
CACTTGAATTCTAAGCTTGA+TGG 0.324487 1:+27346160 None:intergenic
CAAATGACGAAATGATGTTT+TGG 0.325033 1:-27347119 MsaT001828.1:CDS
CGAGAAAGGAATGACAAAAC+AGG 0.328327 1:-27347519 MsaT001828.1:CDS
TTTGTGGATGATATGTATTC+TGG 0.339805 1:-27347372 MsaT001828.1:CDS
GCTTGCTGTTATTGTGGCTT+TGG 0.341216 1:-27346092 MsaT001828.1:CDS
TGTAGGATTGTCAGGAAATC+TGG 0.343092 1:-27347591 MsaT001828.1:CDS
AATATTGATCCATTTATTGA+TGG 0.350305 1:-27345800 MsaT001828.1:CDS
TGTCATTATGACAGAGATAT+TGG 0.356658 1:-27345638 MsaT001828.1:CDS
CGGTATTGAGTTTGAAATAC+AGG 0.359141 1:+27346361 None:intergenic
CCTTTGCTTCGGACTCGATC+GGG 0.363864 1:+27345764 None:intergenic
GAATTACTGAGCGTTGTAAA+AGG 0.364952 1:-27345943 MsaT001828.1:CDS
ATAGTTTCCTGAAGGTAATC+TGG 0.368826 1:+27345890 None:intergenic
TCATTCACGTGACCCGGCTT+TGG 0.376398 1:-27345981 MsaT001828.1:CDS
CAAGTATTGTAGAGAAGGTT+TGG 0.382240 1:-27346203 MsaT001828.1:CDS
AGCAGTGTACCATCAATAAA+TGG 0.383206 1:+27345791 None:intergenic
AACAGACATTTGTGTGTCAT+AGG 0.391598 1:-27347554 MsaT001828.1:CDS
CTAGAAAATGTAGGATTGTC+AGG 0.392809 1:-27347599 MsaT001828.1:CDS
TGAAATGCCACCCCAACATC+TGG 0.393327 1:+27347660 None:intergenic
GCAGAAGCGAACGCAATATT+CGG 0.394092 1:-27347181 MsaT001828.1:CDS
AATTGGTATGGTTGCAATCA+AGG 0.403166 1:-27347630 MsaT001828.1:CDS
CAAACCTTCTCTACAATACT+TGG 0.420542 1:+27346204 None:intergenic
CGATGAGAAAAGTTGGCATT+AGG 0.425341 1:-27347296 MsaT001828.1:CDS
CTCCACCACACCCTTTGCTT+CGG 0.431719 1:+27345753 None:intergenic
CCCTTTGCTTCGGACTCGAT+CGG 0.438783 1:+27345763 None:intergenic
AACATTTCATTCACGTGACC+CGG 0.462736 1:-27345987 MsaT001828.1:CDS
TTCTAAGGGTATATACATAC+AGG 0.462969 1:-27346273 MsaT001828.1:CDS
ATGTATTGACTGACCAAAGC+CGG 0.472641 1:+27345968 None:intergenic
CAGAATCTGTTGTGTTGAAA+AGG 0.480060 1:-27346054 MsaT001828.1:CDS
GCAAACAAACAGTAGATGTT+GGG 0.486245 1:+27347270 None:intergenic
CCTTCAGGAAACTATACAAA+TGG 0.489777 1:-27345882 MsaT001828.1:CDS
ACACTTGCTTGCTGTTATTG+TGG 0.491884 1:-27346098 MsaT001828.1:CDS
TGTTTGTTTGCTATGCAAGC+AGG 0.502595 1:-27347258 MsaT001828.1:CDS
AGCAAACAAACAGTAGATGT+TGG 0.503688 1:+27347269 None:intergenic
CCCGATCGAGTCCGAAGCAA+AGG 0.504922 1:-27345764 MsaT001828.1:CDS
AATTAGAAGCAGTTCGAAGA+GGG 0.505502 1:-27345841 MsaT001828.1:CDS
TGTGGTCTATGTGGAGCAAA+AGG 0.507931 1:-27345677 MsaT001828.1:CDS
TGGCAGACCAGATTACCTTC+AGG 0.508652 1:-27345897 MsaT001828.1:CDS
GGGAAGGGCAAAGGCGAGAA+AGG 0.509059 1:-27347533 MsaT001828.1:CDS
TGGCATGCTACCAGCACATA+GGG 0.510071 1:-27347352 MsaT001828.1:CDS
ATTGGTATGGTTGCAATCAA+GGG 0.515732 1:-27347629 MsaT001828.1:CDS
AAACATACGGTGGATGAAGA+TGG 0.518408 1:-27347096 MsaT001828.1:CDS
AAATGGATCAATATTTGCAA+GGG 0.525460 1:+27345808 None:intergenic
ACCAGCACATAGGGAGATGC+CGG 0.527032 1:-27347343 MsaT001828.1:CDS
TACTGAGCGTTGTAAAAGGA+TGG 0.528322 1:-27345939 MsaT001828.1:CDS
TCCGGCATCTCCCTATGTGC+TGG 0.531093 1:+27347342 None:intergenic
ATGCATACGATGAGAAAAGT+TGG 0.531637 1:-27347303 MsaT001828.1:CDS
GTCTCCAAGTATTGTAGAGA+AGG 0.532295 1:-27346208 MsaT001828.1:CDS
TAAATGGATCAATATTTGCA+AGG 0.539950 1:+27345807 None:intergenic
TGCTGATGTGTACACGAAAG+AGG 0.540124 1:-27346320 MsaT001828.1:CDS
ACAGACATTTGTGTGTCATA+GGG 0.541615 1:-27347553 MsaT001828.1:CDS
TGTACACAATCACGCATTTG+TGG 0.542864 1:-27347388 MsaT001828.1:CDS
TATCCACATCTGCACAATCA+AGG 0.547535 1:+27345549 None:intergenic
TGTATTGACTGACCAAAGCC+GGG 0.550860 1:+27345969 None:intergenic
GTTACGGCAGCGATTGATTG+TGG 0.551429 1:-27345917 MsaT001828.1:CDS
CTGGCATGCTACCAGCACAT+AGG 0.554357 1:-27347353 MsaT001828.1:CDS
GTATATACCCTTAGAAGCAC+AGG 0.554913 1:+27346280 None:intergenic
AATTCAAGTGTTCATGTGAG+AGG 0.556339 1:-27346147 MsaT001828.1:CDS
AGATGCCGGATTATGACAAA+AGG 0.558458 1:-27347329 MsaT001828.1:CDS
GCACCAACTTGTGGTCTATG+TGG 0.565201 1:-27345686 MsaT001828.1:CDS
CATCAGCAGCTGATTTCTCA+AGG 0.569024 1:+27346335 None:intergenic
GTCCGAAGCAAAGGGTGTGG+TGG 0.579057 1:-27345755 MsaT001828.1:CDS
AAAGATGCTAAAGTCTCAGT+TGG 0.584877 1:-27346025 MsaT001828.1:CDS
AGAAGCAGTTCGAAGAGGGA+AGG 0.585840 1:-27345837 MsaT001828.1:CDS
ACATTTGTGTGTCATAGGGA+AGG 0.586919 1:-27347549 MsaT001828.1:CDS
CCGATCGAGTCCGAAGCAAA+GGG 0.588401 1:-27345763 MsaT001828.1:CDS
CATTTGTGTGTCATAGGGAA+GGG 0.589806 1:-27347548 MsaT001828.1:CDS
ACCATGTGATGATGAATAGT+CGG 0.590023 1:+27346387 None:intergenic
CCATTTGTATAGTTTCCTGA+AGG 0.590171 1:+27345882 None:intergenic
TTGAAGAGAGTAGTCGCCGC+TGG 0.592249 1:-27347431 MsaT001828.1:CDS
AGCAGTTCGAAGAGGGAAGG+AGG 0.602045 1:-27345834 MsaT001828.1:CDS
GCTCCACATAGACCACAAGT+TGG 0.605504 1:+27345683 None:intergenic
AGACCTTGATTGTGCAGATG+TGG 0.608170 1:-27345552 MsaT001828.1:CDS
CGAGTCCGAAGCAAAGGGTG+TGG 0.610634 1:-27345758 MsaT001828.1:CDS
ATTGTAGAGAAGGTTTGGAG+TGG 0.613394 1:-27346198 MsaT001828.1:CDS
TTGTTTGCTATGCAAGCAGG+AGG 0.614007 1:-27347255 MsaT001828.1:CDS
GCAAGGAAAGCACCAACTTG+TGG 0.615606 1:-27345695 MsaT001828.1:CDS
CAGCTGATTTCTCAAGGGAA+CGG 0.620297 1:+27346341 None:intergenic
AAGTTCATCTTCAGCTACTG+AGG 0.622313 1:-27347882 MsaT001828.1:intron
TGTGAGAGGTTTGAATCACT+AGG 0.626538 1:-27346133 MsaT001828.1:CDS
TGTGTCATAGGGAAGGGCAA+AGG 0.627002 1:-27347542 MsaT001828.1:CDS
GCTTTGGTCAGTCAATACAT+AGG 0.627606 1:-27345965 MsaT001828.1:CDS
CTTTGCTTCGGACTCGATCG+GGG 0.628711 1:+27345765 None:intergenic
TGAAATATTTGATATACCAG+CGG 0.629946 1:+27347415 None:intergenic
GCGTTGTAAAAGGATGGTTA+CGG 0.630679 1:-27345933 MsaT001828.1:CDS
TGATTGTGCAGATGTGGATA+CGG 0.631467 1:-27345546 MsaT001828.1:CDS
ACGTAGGTAGATGTAGATTG+TGG 0.636902 1:+27345596 None:intergenic
TACATCTACCTACGTTGACG+AGG 0.638309 1:-27345588 MsaT001828.1:CDS
TGGTTGTGAGGCAAGATGTG+TGG 0.639488 1:-27347460 MsaT001828.1:CDS
ACAGCAAGCAAGTGTTCACA+AGG 0.642225 1:+27346106 None:intergenic
AATGGATCAATATTTGCAAG+GGG 0.644846 1:+27345809 None:intergenic
GATATTGGTGTATTAGGACA+TGG 0.647107 1:-27345623 MsaT001828.1:CDS
AATCTGTTGTGTTGAAAAGG+TGG 0.653000 1:-27346051 MsaT001828.1:CDS
GAGAAAGGAATGACAAAACA+GGG 0.657637 1:-27347518 MsaT001828.1:CDS
ATATGTATAATGAGCAAGTG+AGG 0.658753 1:-27347203 MsaT001828.1:CDS
ATCAGCAGCTGATTTCTCAA+GGG 0.666105 1:+27346336 None:intergenic
AAATTAGAAGCAGTTCGAAG+AGG 0.668707 1:-27345842 MsaT001828.1:CDS
GTCATCTTCCTCGTCAACGT+AGG 0.674039 1:+27345580 None:intergenic
TCTAAGGGTATATACATACA+GGG 0.679627 1:-27346272 MsaT001828.1:CDS
GCCGACTATTCATCATCACA+TGG 0.685218 1:-27346388 MsaT001828.1:CDS
AGGATTGTCAGGAAATCTGG+TGG 0.773147 1:-27347588 MsaT001828.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 27345505 27347918 27345505 ID=MsaG001828
Chr1 mRNA 27345505 27347918 27345505 ID=MsaT001828.1;Parent=MsaG001828
Chr1 exon 27345505 27346420 27345505 ID=MsaT001828.1.exon3;Parent=MsaT001828.1
Chr1 CDS 27345505 27346420 27345505 ID=cds.MsaT001828.1;Parent=MsaT001828.1
Chr1 exon 27347093 27347793 27347093 ID=MsaT001828.1.exon2;Parent=MsaT001828.1
Chr1 CDS 27347093 27347793 27347093 ID=cds.MsaT001828.1;Parent=MsaT001828.1
Chr1 exon 27347883 27347918 27347883 ID=MsaT001828.1.exon1;Parent=MsaT001828.1
Chr1 CDS 27347883 27347918 27347883 ID=cds.MsaT001828.1;Parent=MsaT001828.1
Gene Sequence

>MsaT001828.1

ATGGATGATTCAGAAAGTTCATCTTCAGCTACTGAGGCAGGGGGTGGGTGTAACTTTGATGCTGAAAGTGCAATTAACTGTGTTCAAGATTTAGGGAAATTTAACTTTAAAAATATGAGTGAAGAAGAATTGATTCGATTCCATTTTCCAGATGTTGGGGTGGCATTTCAATTTTATAATTGGTATGGTTGCAATCAAGGGTTTTCAGCTAGAAAATGTAGGATTGTCAGGAAATCTGGTGGTGAAATAATACAACAGACATTTGTGTGTCATAGGGAAGGGCAAAGGCGAGAAAGGAATGACAAAACAGGGACTAGAAAGCGAGAACAGAAGCGAAAAAGTAGATGTGGTTGTGAGGCAAGATGTGTGGTTCACATTGAAGAGAGTAGTCGCCGCTGGTATATCAAATATTTCAATGATGTACACAATCACGCATTTGTGGATGATATGTATTCTGGCATGCTACCAGCACATAGGGAGATGCCGGATTATGACAAAAGGCAGATGCATACGATGAGAAAAGTTGGCATTAGGACTCCCAACATCTACTGTTTGTTTGCTATGCAAGCAGGAGGATTTGATAAACTTCGTTATTCTAAACGTGATATGTATAATGAGCAAGTGAGGCAGAAGCGAACGCAATATTCGGATGCTCAAATTGCACTTGATTTTCTTCACGAAATGTGTTCAAATGACGAAATGATGTTTTGGAAACATACGGTGGATGAAGATGGAAAGGAATTTGAAGCCGACTATTCATCATCACATGGTGAACCTGTATTTCAAACTCAATACCGTTCCCTTGAGAAATCAGCTGCTGATGTGTACACGAAAGAGGTTTATATGCTTTTTCGACCTGTGCTTCTAAGGGTATATACATACAGGGTTGTTGACATCACCCAATCTGCATCAGTTTTTATATGCACGGTCTCCAAGTATTGTAGAGAAGGTTTGGAGTGGCATGTGTCTTTTTTTCCATCAAGCTTAGAATTCAAGTGTTCATGTGAGAGGTTTGAATCACTAGGCATACCTTGTGAACACTTGCTTGCTGTTATTGTGGCTTTGGACATTGTCAAGTTACCAGAATCTGTTGTGTTGAAAAGGTGGACAAAAGATGCTAAAGTCTCAGTTGGTACTTTTGCTGTTAAAACATTTCATTCACGTGACCCGGCTTTGGTCAGTCAATACATAGGAATTACTGAGCGTTGTAAAAGGATGGTTACGGCAGCGATTGATTGTGGCAGACCAGATTACCTTCAGGAAACTATACAAATGGTAATGACACAAACTGATAAATTAGAAGCAGTTCGAAGAGGGAAGGAGGTGCCCCTTGCAAATATTGATCCATTTATTGATGGTACACTGCTTAACCCCGATCGAGTCCGAAGCAAAGGGTGTGGTGGAGTATCACAAACCAGAACTAAAGATAGTAAGAAAAAGGCAAGGAAAGCACCAACTTGTGGTCTATGTGGAGCAAAAGGTCACTATCGAAAATCATGTCATTATGACAGAGATATTGGTGTATTAGGACATGGTCAACCACAATCTACATCTACCTACGTTGACGAGGAAGATGACTACGAAGACCTTGATTGTGCAGATGTGGATACGGTAATAACATTTATGTCAGCTCAAATGTGTTTACTAGCTTAA

Protein sequence

>MsaT001828.1

MDDSESSSSATEAGGGCNFDAESAINCVQDLGKFNFKNMSEEELIRFHFPDVGVAFQFYNWYGCNQGFSARKCRIVRKSGGEIIQQTFVCHREGQRRERNDKTGTRKREQKRKSRCGCEARCVVHIEESSRRWYIKYFNDVHNHAFVDDMYSGMLPAHREMPDYDKRQMHTMRKVGIRTPNIYCLFAMQAGGFDKLRYSKRDMYNEQVRQKRTQYSDAQIALDFLHEMCSNDEMMFWKHTVDEDGKEFEADYSSSHGEPVFQTQYRSLEKSAADVYTKEVYMLFRPVLLRVYTYRVVDITQSASVFICTVSKYCREGLEWHVSFFPSSLEFKCSCERFESLGIPCEHLLAVIVALDIVKLPESVVLKRWTKDAKVSVGTFAVKTFHSRDPALVSQYIGITERCKRMVTAAIDCGRPDYLQETIQMVMTQTDKLEAVRRGKEVPLANIDPFIDGTLLNPDRVRSKGCGGVSQTRTKDSKKKARKAPTCGLCGAKGHYRKSCHYDRDIGVLGHGQPQSTSTYVDEEDDYEDLDCADVDTVITFMSAQMCLLA*