AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG015389

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015389 MtrunA17_Chr3g0117601 98.810 336 4 0 1 336 1 336 0.0 690
MsaG015389 MtrunA17_Chr3g0127201 34.615 312 142 15 43 324 8 287 7.81e-39 139
MsaG015389 MtrunA17_Chr4g0030051 55.039 129 42 3 39 159 21 141 4.24e-36 132
MsaG015389 MtrunA17_Chr2g0326001 54.331 127 45 4 38 155 19 141 9.38e-36 131
MsaG015389 MtrunA17_Chr8g0346551 52.800 125 44 4 45 158 10 130 1.52e-35 130
MsaG015389 MtrunA17_Chr4g0031411 58.491 106 37 3 44 142 55 160 2.30e-34 128
MsaG015389 MtrunA17_Chr2g0328021 72.603 73 18 1 50 122 51 121 6.87e-34 126
MsaG015389 MtrunA17_Chr1g0188851 53.125 128 46 5 41 163 25 143 1.22e-33 125
MsaG015389 MtrunA17_Chr8g0374251 66.197 71 24 0 61 131 68 138 2.90e-31 120
MsaG015389 MtrunA17_Chr4g0010151 69.333 75 20 2 44 115 62 136 9.85e-31 119
MsaG015389 MtrunA17_Chr7g0237921 60.870 92 29 3 27 115 43 130 3.89e-30 117
MsaG015389 MtrunA17_Chr7g0223311 56.122 98 27 3 34 115 34 131 8.09e-30 117
MsaG015389 MtrunA17_Chr8g0367161 67.164 67 22 0 50 116 21 87 8.37e-30 116
MsaG015389 MtrunA17_Chr3g0126201 71.875 64 18 0 52 115 42 105 8.42e-30 116
MsaG015389 MtrunA17_Chr2g0282441 77.049 61 14 0 52 112 16 76 1.33e-29 115
MsaG015389 MtrunA17_Chr4g0047001 81.818 55 10 0 62 116 56 110 1.81e-29 116
MsaG015389 MtrunA17_Chr8g0374111 55.319 94 35 2 52 141 16 106 1.11e-28 110
MsaG015389 MtrunA17_Chr5g0411951 78.571 56 12 0 56 111 38 93 1.22e-28 113
MsaG015389 MtrunA17_Chr1g0177251 71.212 66 19 0 59 124 10 75 2.35e-28 111
MsaG015389 MtrunA17_Chr8g0341671 74.603 63 16 0 56 118 15 77 6.54e-28 108
MsaG015389 MtrunA17_Chr4g0061761 84.314 51 8 0 61 111 40 90 6.13e-27 108
MsaG015389 MtrunA17_Chr2g0282511 84.000 50 8 0 60 109 44 93 4.02e-26 105
MsaG015389 MtrunA17_Chr2g0308011 82.353 51 9 0 59 109 35 85 6.36e-26 102
MsaG015389 MtrunA17_Chr3g0092111 66.667 69 22 1 50 118 126 193 1.08e-25 107
MsaG015389 MtrunA17_Chr2g0282051 47.458 118 42 5 1 116 1 100 2.04e-25 103
MsaG015389 MtrunA17_Chr4g0047761 76.786 56 12 1 61 116 72 126 6.42e-25 102
MsaG015389 MtrunA17_Chr7g0217581 43.697 119 59 2 25 136 190 307 3.45e-24 103
MsaG015389 MtrunA17_Chr4g0042481 60.870 69 26 1 50 118 112 179 4.43e-24 102
MsaG015389 MtrunA17_Chr6g0453321 44.545 110 54 1 30 132 98 207 5.64e-24 102
MsaG015389 MtrunA17_Chr7g0254161 42.342 111 58 2 20 130 66 170 1.04e-23 100
MsaG015389 MtrunA17_Chr6g0460721 42.478 113 57 4 7 119 43 147 2.41e-23 98.6
MsaG015389 MtrunA17_Chr8g0355261 53.333 75 34 1 41 115 99 172 4.83e-23 99.0
MsaG015389 MtrunA17_Chr6g0460731 55.714 70 30 1 50 119 86 154 7.19e-23 97.8
MsaG015389 MtrunA17_Chr5g0417571 41.600 125 55 3 12 118 71 195 2.81e-22 95.5
MsaG015389 MtrunA17_Chr2g0283811 66.667 54 18 0 61 114 47 100 3.48e-22 91.3
MsaG015389 MtrunA17_Chr5g0417601 63.793 58 21 0 57 114 136 193 1.43e-20 91.7
MsaG015389 MtrunA17_Chr5g0417561 45.161 93 47 1 26 114 80 172 3.19e-20 90.1
MsaG015389 MtrunA17_Chr5g0417551 68.519 54 17 0 61 114 127 180 6.85e-20 89.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015389 AT5G62940.1 42.748 393 145 23 1 334 1 372 1.27e-55 186
MsaG015389 AT5G60200.1 66.292 89 27 3 33 121 30 115 2.49e-35 129
MsaG015389 AT1G51700.1 47.656 128 54 2 56 170 28 155 7.09e-33 121
MsaG015389 AT2G28510.1 56.364 110 35 2 63 160 50 158 5.21e-32 121
MsaG015389 AT3G45610.1 43.373 166 68 7 54 212 32 178 2.41e-31 118
MsaG015389 AT4G24060.1 50.000 122 46 2 50 156 42 163 2.72e-31 120
MsaG015389 AT5G02460.1 70.667 75 19 2 44 115 75 149 5.15e-31 121
MsaG015389 AT3G55370.1 65.000 80 25 2 43 119 55 134 7.19e-31 119
MsaG015389 AT3G55370.2 65.000 80 25 2 43 119 55 134 8.81e-31 119
MsaG015389 AT3G55370.3 65.000 80 25 2 43 119 100 179 1.30e-30 119
MsaG015389 AT2G37590.1 64.474 76 24 1 44 116 69 144 1.74e-30 118
MsaG015389 AT1G07640.1 69.444 72 19 1 47 115 4 75 6.32e-30 115
MsaG015389 AT5G60850.1 66.234 77 20 1 50 120 34 110 6.70e-30 116
MsaG015389 AT1G07640.2 69.444 72 19 1 47 115 60 131 1.09e-29 116
MsaG015389 AT1G07640.3 69.444 72 19 1 47 115 68 139 1.21e-29 116
MsaG015389 AT1G64620.1 52.672 131 47 3 45 164 33 159 1.76e-29 116
MsaG015389 AT3G61850.2 65.753 73 23 1 46 118 49 119 3.49e-29 114
MsaG015389 AT3G61850.3 65.753 73 23 1 46 118 49 119 3.49e-29 114
MsaG015389 AT5G65590.1 62.963 81 25 1 35 115 20 95 3.83e-29 114
MsaG015389 AT3G61850.1 65.753 73 23 1 46 118 61 131 3.89e-29 114
MsaG015389 AT3G61850.5 65.753 73 23 1 46 118 49 119 5.87e-29 114
MsaG015389 AT3G61850.4 65.753 73 23 1 46 118 61 131 6.09e-29 114
MsaG015389 AT3G52440.1 68.182 66 21 0 58 123 22 87 1.03e-28 111
MsaG015389 AT1G28310.1 82.143 56 10 0 61 116 27 82 1.39e-28 112
MsaG015389 AT3G52440.2 68.182 66 21 0 58 123 41 106 2.02e-28 111
MsaG015389 AT1G28310.2 82.143 56 10 0 61 116 51 106 2.16e-28 112
MsaG015389 AT1G21340.1 69.444 72 19 1 63 134 40 108 3.01e-28 110
MsaG015389 AT3G21270.1 54.717 106 42 3 61 164 29 130 4.88e-28 108
MsaG015389 AT4G21050.1 59.551 89 33 2 54 142 19 104 5.91e-28 108
MsaG015389 AT2G28810.2 65.152 66 22 1 47 112 64 128 5.95e-28 111
MsaG015389 AT2G28810.1 65.152 66 22 1 47 112 81 145 1.06e-27 111
MsaG015389 AT4G00940.1 53.398 103 31 2 63 151 70 169 8.91e-27 107
MsaG015389 AT4G00940.3 53.398 103 31 2 63 151 70 169 8.91e-27 107
MsaG015389 AT4G00940.2 53.398 103 31 2 63 151 70 169 8.91e-27 107
MsaG015389 AT2G46590.1 55.682 88 36 2 22 108 30 115 2.59e-26 107
MsaG015389 AT4G38000.1 60.256 78 30 1 41 117 21 98 2.62e-26 105
MsaG015389 AT2G46590.2 55.682 88 36 2 22 108 42 127 2.97e-26 107
MsaG015389 AT3G50410.1 75.439 57 14 0 61 117 30 86 7.29e-26 104
MsaG015389 AT5G66940.1 70.968 62 18 0 61 122 32 93 1.06e-25 103
MsaG015389 AT1G47655.1 73.684 57 13 1 55 109 21 77 5.92e-25 100
MsaG015389 AT3G47500.1 63.235 68 24 1 51 118 101 167 4.87e-24 102
MsaG015389 AT5G62430.1 46.087 115 48 3 50 164 44 144 6.02e-24 100
MsaG015389 AT5G39660.3 63.768 69 24 1 50 118 128 195 9.95e-24 101
MsaG015389 AT5G39660.1 63.768 69 24 1 50 118 128 195 9.95e-24 101
MsaG015389 AT5G39660.2 63.768 69 24 1 50 118 128 195 9.95e-24 101
MsaG015389 AT1G69570.1 64.516 62 21 1 53 114 125 185 3.91e-23 99.4
MsaG015389 AT1G29160.1 60.000 70 26 1 45 114 48 115 4.48e-23 94.7
MsaG015389 AT2G34140.1 47.253 91 36 1 24 114 33 111 1.46e-22 93.2
MsaG015389 AT4G21040.1 57.971 69 29 0 63 131 27 95 4.59e-22 93.6
MsaG015389 AT1G26790.1 53.333 75 35 0 58 132 108 182 8.63e-22 95.1
MsaG015389 AT4G21080.1 56.000 75 30 1 63 134 27 101 4.24e-21 91.3
MsaG015389 AT4G21030.1 55.556 63 25 1 50 112 13 72 6.51e-15 72.8

Find 89 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TACTTGTTCTCCATGAAATT+AGG 0.146876 3:+86313707 None:intergenic
AATCACACCTTGGACATTTA+AGG 0.155190 3:+86314041 None:intergenic
AGTAAGTTAGAAGGCATAAT+TGG 0.168612 3:-86313632 MsaT015389.1:CDS
TCTCACCTAAGTAACTTATT+TGG 0.188613 3:-86313752 MsaT015389.1:CDS
AAAGAAAGTTGAAGATCTTT+AGG 0.198842 3:+86313791 None:intergenic
TAGCAATGGTGCTTACTTAA+TGG 0.209633 3:-86313450 MsaT015389.1:CDS
CATTCAAGTGACAATAGTTT+AGG 0.231938 3:+86313350 None:intergenic
ACTTGTTCTCCATGAAATTA+GGG 0.276978 3:+86313708 None:intergenic
GATATGATGAATGGACAAAA+TGG 0.284919 3:-86313530 MsaT015389.1:CDS
TTTGGAGCTAATGGAGCATT+AGG 0.302981 3:-86313734 MsaT015389.1:CDS
TGATCATATGAATATGAATA+TGG 0.304551 3:-86313570 MsaT015389.1:CDS
AGTAACTTATTTGGAGCTAA+TGG 0.308114 3:-86313743 MsaT015389.1:CDS
TTCTCTTCACGTCTGCAATA+TGG 0.315298 3:-86314672 MsaT015389.1:CDS
AAGAAAGTTGAAGATCTTTA+GGG 0.315430 3:+86313792 None:intergenic
ATTCAAGTGACAATAGTTTA+GGG 0.332848 3:+86313351 None:intergenic
ATCACACCTTGGACATTTAA+GGG 0.338610 3:+86314042 None:intergenic
CTGGGAAAGGTCAGTCATTT+GGG 0.359835 3:-86313301 MsaT015389.1:CDS
GCTGGGAAAGGTCAGTCATT+TGG 0.360092 3:-86313302 MsaT015389.1:CDS
TTTCTACAGCCTCCACCAAC+TGG 0.361161 3:+86313908 None:intergenic
ATGAATATGGGTGTTGGGAT+TGG 0.368536 3:-86313557 MsaT015389.1:CDS
CTTTCCATCATGAAGTCAAT+AGG 0.377139 3:+86313653 None:intergenic
GCAAGACTTGTAGAAGGTAT+TGG 0.393470 3:-86313958 MsaT015389.1:CDS
GTTGTTGTAGTAACAGAATT+TGG 0.394528 3:+86314009 None:intergenic
ATTAGGAAACCCTAATTTCA+TGG 0.397565 3:-86313717 MsaT015389.1:CDS
GATCAAGGTTGCTCTGATGC+TGG 0.405144 3:-86313320 MsaT015389.1:CDS
AGTGACAATAGTTTAGGGTT+TGG 0.405871 3:+86313356 None:intergenic
TTTGGTGGAATGTCATTTGA+TGG 0.425628 3:-86313482 MsaT015389.1:CDS
TCCTCATCATTAGCATCATA+TGG 0.425855 3:+86313404 None:intergenic
GTAAGTTAGAAGGCATAATT+GGG 0.426365 3:-86313631 MsaT015389.1:CDS
TAGCTCCAAATAAGTTACTT+AGG 0.442973 3:+86313747 None:intergenic
AGGTGAGAGAATTGCACATC+AGG 0.445358 3:+86313767 None:intergenic
ATCTGCAGATCATTGGTTGC+AGG 0.446436 3:-86314645 MsaT015389.1:intron
TCTTAGCCTCCTCTCTATCA+TGG 0.458753 3:+86314081 None:intergenic
AGTCATTTGGGTATGGATCA+TGG 0.466736 3:-86313289 MsaT015389.1:CDS
ATGATGGAAAGTAAGTTAGA+AGG 0.467778 3:-86313641 MsaT015389.1:CDS
TGGAATCATCTGCAGATCAT+TGG 0.469488 3:-86314652 MsaT015389.1:CDS
CTAAACTATTGTCACTTGAA+TGG 0.473946 3:-86313349 MsaT015389.1:CDS
GAGCTTAGCCGTTGATCAAA+GGG 0.477519 3:+86313228 None:intergenic
TGTAGAAGGTATTGGACAAA+AGG 0.479247 3:-86313950 MsaT015389.1:CDS
AGTGGTATGATGAATGGTTA+TGG 0.480178 3:-86313266 MsaT015389.1:CDS
AATATGGGTGTTGGGATTGG+AGG 0.481246 3:-86313554 MsaT015389.1:CDS
GGCACAATTCACGATGAGTC+AGG 0.484101 3:-86314160 MsaT015389.1:CDS
GATTCATCTTCACCAATGTC+TGG 0.489933 3:-86314133 MsaT015389.1:CDS
GAGAACAAGTATAGCAATGT+TGG 0.493849 3:-86313695 MsaT015389.1:CDS
CTCCTCTCTATCATGGATGA+TGG 0.495201 3:+86314088 None:intergenic
ACTTCTGCAAGACTTGTAGA+AGG 0.495701 3:-86313964 MsaT015389.1:CDS
ATCAAGGTTGCTCTGATGCT+GGG 0.498182 3:-86313319 MsaT015389.1:CDS
AGAGCTTAGCCGTTGATCAA+AGG 0.500555 3:+86313227 None:intergenic
ATGAATATGAATATGGGTGT+TGG 0.503188 3:-86313563 MsaT015389.1:CDS
GTGACATGCTAACATGTTCA+AGG 0.508689 3:-86314111 MsaT015389.1:CDS
TGAATATGAATATGGGTGTT+GGG 0.514370 3:-86313562 MsaT015389.1:CDS
ATCATGAAGTCAATAGGCCT+AGG 0.516098 3:+86313659 None:intergenic
AAAGGTCAGTCATTTGGGTA+TGG 0.536234 3:-86313296 MsaT015389.1:CDS
CTTGAATGGCAACAAGATCA+AGG 0.543433 3:-86313335 MsaT015389.1:CDS
TTCTACAGCCTCCACCAACT+GGG 0.549436 3:+86313909 None:intergenic
GGTTGCTCTGATGCTGGGAA+AGG 0.557290 3:-86313314 MsaT015389.1:CDS
CAAGTCTTGCAGAAGTACCT+TGG 0.558008 3:+86313971 None:intergenic
CTTAGGAACATCCCAGTTGG+TGG 0.561107 3:-86313920 MsaT015389.1:CDS
ACCTATCCCTTAAATGTCCA+AGG 0.564253 3:-86314048 MsaT015389.1:CDS
ACAACAAACCCTTTGATCAA+CGG 0.565654 3:-86313236 MsaT015389.1:CDS
ATATGATGAATGGACAAAAT+GGG 0.566744 3:-86313529 MsaT015389.1:CDS
ATTGGAGGAGATATGATGAA+TGG 0.570060 3:-86313539 MsaT015389.1:CDS
GATCATATGAATATGAATAT+GGG 0.580380 3:-86313569 MsaT015389.1:CDS
AGGAACATCCCAGTTGGTGG+AGG 0.580870 3:-86313917 MsaT015389.1:CDS
TAGGCCTATTGACTTCATGA+TGG 0.581168 3:-86313657 MsaT015389.1:CDS
TCATGGAGTGGTATGATGAA+TGG 0.582721 3:-86313272 MsaT015389.1:CDS
ACCTTGGACATTTAAGGGAT+AGG 0.582910 3:+86314047 None:intergenic
GGACAAAAGGAGGAACACTT+AGG 0.590540 3:-86313937 MsaT015389.1:CDS
AATTCACGATGAGTCAGGAA+TGG 0.596611 3:-86314155 MsaT015389.1:CDS
AGGAAGGTACATGATGTGGT+TGG 0.607867 3:+86313825 None:intergenic
GGTGGAATGTCATTTGATGG+AGG 0.611132 3:-86313479 MsaT015389.1:CDS
TCATGAAGTCAATAGGCCTA+GGG 0.612063 3:+86313660 None:intergenic
GGCCATCATCCATGATAGAG+AGG 0.614387 3:-86314090 MsaT015389.1:CDS
GATGGAGGAAACAATAGCAA+TGG 0.614470 3:-86313464 MsaT015389.1:CDS
GGTGAGAGAATTGCACATCA+GGG 0.615522 3:+86313768 None:intergenic
TTGGCATGCTTGAAAACCCT+AGG 0.618350 3:-86313676 MsaT015389.1:CDS
AGAAGGTATTGGACAAAAGG+AGG 0.623390 3:-86313947 MsaT015389.1:CDS
GTTAGCATGTCACCAGACAT+TGG 0.624948 3:+86314121 None:intergenic
TGGTAGGAAGGTACATGATG+TGG 0.632743 3:+86313821 None:intergenic
CATTTAAGGGATAGGTCATG+TGG 0.639862 3:+86314055 None:intergenic
GTTGATCAAAGGGTTTGTTG+TGG 0.647747 3:+86313238 None:intergenic
TTTGGGTATGGATCATGGAG+TGG 0.650428 3:-86313284 MsaT015389.1:CDS
ACACTTAGGAACATCCCAGT+TGG 0.662546 3:-86313923 MsaT015389.1:CDS
ACTACAGTCTCTCTCAGCCA+AGG 0.663924 3:-86313988 MsaT015389.1:CDS
GTGTGAGTTGAATCACACCT+TGG 0.665322 3:+86314031 None:intergenic
TCCATATGATGCTAATGATG+AGG 0.665364 3:-86313405 MsaT015389.1:CDS
AATGCATGATGAAAATTCTG+TGG 0.671096 3:+86313503 None:intergenic
CATCATCCATGATAGAGAGG+AGG 0.679330 3:-86314087 MsaT015389.1:CDS
TTAAGGGATAGGTCATGTGG+TGG 0.699015 3:+86314058 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 86313232 86314705 86313232 ID=MsaG015389
Chr3 mRNA 86313232 86314705 86313232 ID=MsaT015389.1;Parent=MsaG015389
Chr3 exon 86313232 86314182 86313232 ID=MsaT015389.1.exon2;Parent=MsaT015389.1
Chr3 CDS 86313232 86314182 86313232 ID=cds.MsaT015389.1;Parent=MsaT015389.1
Chr3 exon 86314646 86314705 86314646 ID=MsaT015389.1.exon1;Parent=MsaT015389.1
Chr3 CDS 86314646 86314705 86314646 ID=cds.MsaT015389.1;Parent=MsaT015389.1
Gene Sequence

>MsaT015389.1

ATGGGTTTATCTTCTCTTCACGTCTGCAATATGGAATCATCTGCAGATCATTGGTTGCAGGGCACAATTCACGATGAGTCAGGAATGGATTCATCTTCACCAATGTCTGGTGACATGCTAACATGTTCAAGGCCATCATCCATGATAGAGAGGAGGCTAAGACCACCACATGACCTATCCCTTAAATGTCCAAGGTGTGATTCAACTCACACCAAATTCTGTTACTACAACAACTACAGTCTCTCTCAGCCAAGGTACTTCTGCAAGACTTGTAGAAGGTATTGGACAAAAGGAGGAACACTTAGGAACATCCCAGTTGGTGGAGGCTGTAGAAAAAACAAAAAAGTTTCTTCCAAAAAATCAAATGATCACTTGGCTAATAATAATATTCAAAACCAACCACATCATGTACCTTCCTACCATCAAAACCCTAAAGATCTTCAACTTTCTTTCCCTGATGTGCAATTCTCTCACCTAAGTAACTTATTTGGAGCTAATGGAGCATTAGGAAACCCTAATTTCATGGAGAACAAGTATAGCAATGTTGGCATGCTTGAAAACCCTAGGCCTATTGACTTCATGATGGAAAGTAAGTTAGAAGGCATAATTGGGAGTAGTTCTAGAAATTTTGATAATTATTTTGGAAATAGTGATCATATGAATATGAATATGGGTGTTGGGATTGGAGGAGATATGATGAATGGACAAAATGGGTTGCCACAGAATTTTCATCATGCATTTGGTGGAATGTCATTTGATGGAGGAAACAATAGCAATGGTGCTTACTTAATGGATTCTTGTCAAAGACTTATGCTTCCATATGATGCTAATGATGAGGATCATAATGCTTCAATTGATGTGAAGCCAAACCCTAAACTATTGTCACTTGAATGGCAACAAGATCAAGGTTGCTCTGATGCTGGGAAAGGTCAGTCATTTGGGTATGGATCATGGAGTGGTATGATGAATGGTTATGGATCTTCCACAACAAACCCTTTGATCAACGGCTAA
Protein sequence

>MsaT015389.1

MGLSSLHVCNMESSADHWLQGTIHDESGMDSSSPMSGDMLTCSRPSSMIERRLRPPHDLSLKCPRCDSTHTKFCYYNNYSLSQPRYFCKTCRRYWTKGGTLRNIPVGGGCRKNKKVSSKKSNDHLANNNIQNQPHHVPSYHQNPKDLQLSFPDVQFSHLSNLFGANGALGNPNFMENKYSNVGMLENPRPIDFMMESKLEGIIGSSSRNFDNYFGNSDHMNMNMGVGIGGDMMNGQNGLPQNFHHAFGGMSFDGGNNSNGAYLMDSCQRLMLPYDANDEDHNASIDVKPNPKLLSLEWQQDQGCSDAGKGQSFGYGSWSGMMNGYGSSTTNPLING*