AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG006658


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006658 MtrunA17_Chr2g0283811 89.441 161 16 1 1 160 1 161 1.28e-103 293
MsaG006658 MtrunA17_Chr6g0453321 70.370 81 23 1 19 99 110 189 9.65e-37 132
MsaG006658 MtrunA17_Chr4g0042481 65.979 97 28 3 33 127 110 203 1.14e-35 128
MsaG006658 MtrunA17_Chr7g0217581 69.620 79 23 1 24 102 211 288 7.97e-35 127
MsaG006658 MtrunA17_Chr8g0355261 61.628 86 32 1 25 109 96 181 1.23e-34 125
MsaG006658 MtrunA17_Chr7g0254161 71.233 73 20 1 28 99 82 154 6.04e-33 120
MsaG006658 MtrunA17_Chr5g0417551 58.065 93 37 1 18 108 97 189 3.32e-32 117
MsaG006658 MtrunA17_Chr6g0460731 71.831 71 19 1 30 99 79 149 1.50e-31 116
MsaG006658 MtrunA17_Chr3g0092111 64.000 75 26 1 25 99 116 189 1.14e-30 115
MsaG006658 MtrunA17_Chr5g0417601 70.423 71 18 1 32 99 123 193 1.42e-30 113
MsaG006658 MtrunA17_Chr5g0417561 62.338 77 29 0 32 108 105 181 3.82e-30 112
MsaG006658 MtrunA17_Chr6g0460721 67.606 71 22 1 30 99 72 142 3.87e-30 111
MsaG006658 MtrunA17_Chr5g0417571 56.627 83 31 1 17 99 114 191 4.27e-30 111
MsaG006658 MtrunA17_Chr2g0328021 56.579 76 33 0 24 99 40 115 5.24e-28 105
MsaG006658 MtrunA17_Chr8g0341671 59.155 71 23 1 34 98 2 72 3.85e-26 98.6
MsaG006658 MtrunA17_Chr8g0367161 46.535 101 51 2 28 127 13 111 5.24e-26 100
MsaG006658 MtrunA17_Chr8g0374251 48.000 100 41 2 48 138 70 167 5.97e-26 100
MsaG006658 MtrunA17_Chr4g0010151 70.175 57 17 0 43 99 79 135 1.06e-25 100
MsaG006658 MtrunA17_Chr8g0374111 71.154 52 15 0 46 97 29 80 2.75e-25 96.7
MsaG006658 MtrunA17_Chr8g0346551 56.098 82 32 2 36 113 12 93 3.14e-25 97.4
MsaG006658 MtrunA17_Chr4g0031411 64.286 70 24 1 43 111 72 141 1.00e-24 97.4
MsaG006658 MtrunA17_Chr4g0061761 69.811 53 16 0 44 96 38 90 1.43e-24 96.7
MsaG006658 MtrunA17_Chr2g0326001 59.420 69 28 0 31 99 25 93 1.54e-24 96.3
MsaG006658 MtrunA17_Chr3g0127201 64.912 57 20 0 43 99 24 80 1.56e-24 96.3
MsaG006658 MtrunA17_Chr2g0308011 73.469 49 13 0 46 94 37 85 2.34e-24 94.0
MsaG006658 MtrunA17_Chr7g0223311 76.000 50 12 0 48 97 79 128 3.37e-24 96.7
MsaG006658 MtrunA17_Chr7g0237921 68.421 57 18 0 43 99 73 129 7.98e-24 95.1
MsaG006658 MtrunA17_Chr4g0047001 56.098 82 27 2 48 120 57 138 1.16e-23 95.1
MsaG006658 MtrunA17_Chr1g0188851 63.636 55 20 0 43 97 40 94 1.26e-23 93.6
MsaG006658 MtrunA17_Chr5g0411951 68.519 54 17 0 43 96 40 93 1.59e-23 94.4
MsaG006658 MtrunA17_Chr4g0047761 67.308 52 17 0 48 99 74 125 6.30e-23 92.4
MsaG006658 MtrunA17_Chr4g0030051 54.054 74 34 0 24 97 19 92 9.84e-23 91.3
MsaG006658 MtrunA17_Chr3g0126201 65.517 58 20 0 42 99 47 104 1.01e-22 92.0
MsaG006658 MtrunA17_Chr1g0177251 64.516 62 21 1 39 99 4 65 1.03e-22 91.3
MsaG006658 MtrunA17_Chr2g0282511 71.429 49 14 0 46 94 45 93 1.25e-22 91.3
MsaG006658 MtrunA17_Chr2g0282441 49.351 77 39 0 22 98 1 77 1.40e-22 91.7
MsaG006658 MtrunA17_Chr2g0282051 62.963 54 20 0 46 99 46 99 1.79e-22 90.5
MsaG006658 MtrunA17_Chr3g0117601 66.667 51 17 0 46 96 61 111 1.11e-21 89.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006658 AT1G29160.1 62.281 114 23 1 8 101 4 117 4.80e-46 148
MsaG006658 AT2G34140.1 62.727 110 25 1 8 101 4 113 2.18e-44 144
MsaG006658 AT3G47500.1 59.223 103 42 0 20 122 84 186 1.15e-35 128
MsaG006658 AT5G62430.1 60.000 100 28 2 12 99 8 107 3.61e-35 124
MsaG006658 AT5G39660.3 82.540 63 11 0 40 102 132 194 1.87e-34 125
MsaG006658 AT5G39660.1 82.540 63 11 0 40 102 132 194 1.87e-34 125
MsaG006658 AT5G39660.2 82.540 63 11 0 40 102 132 194 1.87e-34 125
MsaG006658 AT1G26790.1 56.311 103 38 1 23 125 88 183 4.21e-34 123
MsaG006658 AT1G69570.1 60.440 91 29 1 34 124 120 203 1.04e-32 120
MsaG006658 AT5G60850.1 74.074 54 14 0 46 99 51 104 3.38e-26 101
MsaG006658 AT1G51700.1 71.698 53 15 0 46 98 33 85 4.30e-26 98.2
MsaG006658 AT3G21270.1 76.923 52 12 0 46 97 29 80 8.81e-26 97.8
MsaG006658 AT2G28810.2 72.727 55 15 0 43 97 74 128 1.67e-25 99.8
MsaG006658 AT3G50410.1 71.698 53 15 0 46 98 30 82 2.14e-25 97.8
MsaG006658 AT4G38000.1 60.294 68 26 1 43 109 38 105 2.46e-25 97.8
MsaG006658 AT2G28810.1 72.727 55 15 0 43 97 91 145 2.77e-25 99.4
MsaG006658 AT3G55370.1 68.421 57 18 0 43 99 73 129 8.11e-25 97.8
MsaG006658 AT2G37590.1 68.421 57 18 0 43 99 86 142 8.15e-25 97.8
MsaG006658 AT3G55370.2 68.421 57 18 0 43 99 73 129 9.60e-25 98.2
MsaG006658 AT3G55370.3 68.421 57 18 0 43 99 118 174 1.19e-24 98.2
MsaG006658 AT5G65590.1 68.421 57 18 0 43 99 38 94 1.41e-24 97.1
MsaG006658 AT1G07640.2 52.500 80 38 0 18 97 49 128 2.12e-24 96.7
MsaG006658 AT1G07640.3 52.500 80 38 0 18 97 57 136 2.56e-24 96.7
MsaG006658 AT1G07640.1 76.000 50 12 0 48 97 23 72 3.24e-24 95.5
MsaG006658 AT5G66940.1 54.795 73 33 0 46 118 32 104 5.05e-24 93.6
MsaG006658 AT3G45610.1 54.167 72 33 0 28 99 22 93 7.62e-24 93.6
MsaG006658 AT5G60200.1 66.667 57 19 0 43 99 52 108 1.18e-23 93.6
MsaG006658 AT5G02460.1 68.421 57 18 0 43 99 92 148 1.62e-23 95.1
MsaG006658 AT4G24060.1 63.158 57 21 0 43 99 50 106 2.17e-23 94.4
MsaG006658 AT1G47655.1 64.815 54 19 0 41 94 24 77 3.47e-23 91.3
MsaG006658 AT3G52440.1 66.102 59 19 1 44 101 22 80 3.48e-23 92.0
MsaG006658 AT1G28310.1 68.519 54 17 0 46 99 27 80 3.81e-23 93.2
MsaG006658 AT3G52440.2 66.102 59 19 1 44 101 41 99 3.96e-23 92.4
MsaG006658 AT3G61850.2 57.812 64 27 0 36 99 52 115 4.56e-23 92.4
MsaG006658 AT3G61850.3 57.812 64 27 0 36 99 52 115 4.56e-23 92.4
MsaG006658 AT3G61850.1 57.812 64 27 0 36 99 64 127 4.95e-23 92.4
MsaG006658 AT1G28310.2 68.519 54 17 0 46 99 51 104 5.77e-23 93.2
MsaG006658 AT3G61850.5 57.812 64 27 0 36 99 52 115 6.69e-23 92.4
MsaG006658 AT3G61850.4 57.812 64 27 0 36 99 64 127 7.84e-23 92.4
MsaG006658 AT2G28510.1 71.154 52 15 0 48 99 50 101 1.18e-22 91.7
MsaG006658 AT1G64620.1 65.385 52 18 0 43 94 46 97 1.19e-22 92.4
MsaG006658 AT4G00940.1 71.154 52 15 0 48 99 70 121 1.66e-22 91.3
MsaG006658 AT4G00940.3 71.154 52 15 0 48 99 70 121 1.66e-22 91.3
MsaG006658 AT4G00940.2 71.154 52 15 0 48 99 70 121 1.66e-22 91.3
MsaG006658 AT1G21340.1 70.000 50 15 0 48 97 40 89 2.15e-22 90.1
MsaG006658 AT5G62940.1 69.388 49 15 0 48 96 75 123 1.09e-21 90.1
MsaG006658 AT4G21050.1 58.730 63 26 0 48 110 26 88 1.89e-21 86.7
MsaG006658 AT2G46590.1 68.750 48 15 0 46 93 68 115 5.84e-21 87.8
MsaG006658 AT2G46590.2 68.750 48 15 0 46 93 80 127 6.48e-21 87.8
MsaG006658 AT4G21040.1 60.000 60 20 1 48 103 27 86 2.41e-19 81.6
MsaG006658 AT4G21080.1 54.412 68 27 1 48 111 27 94 9.17e-19 80.5
MsaG006658 AT4G21030.1 45.588 68 37 0 48 115 23 90 2.30e-14 67.8

Find 45 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATACAAGGGATTAAGCTATT+TGG 0.296201 2:-8125165 MsaT006658.1:CDS
GGTCTTCCTCCGCCGCTTGC+CGG 0.325640 2:+8124765 None:intergenic
GCTTCATAGACACAACTTTC+CGG 0.327262 2:+8124868 None:intergenic
GTTCTAACCCTAAGTAGTTC+TGG 0.342013 2:+8124827 None:intergenic
GTAAGAGCTGTCAAAGATAC+TGG 0.350596 2:-8124975 MsaT006658.1:CDS
ATGTCCAAGATGCAAGAGTA+TGG 0.357770 2:-8125052 MsaT006658.1:CDS
GATGATGGCCAGAACTACTT+AGG 0.413991 2:-8124835 MsaT006658.1:CDS
GTTTCCATACTCTTGCATCT+TGG 0.414049 2:+8125048 None:intergenic
TGGGGCCCTCCGTAACGTTC+CGG 0.432988 2:-8124944 MsaT006658.1:CDS
TTCCGACGACCTGCTCCAAC+CGG 0.436863 2:+8124925 None:intergenic
ATCCTCAAGACTTGGCGGCT+TGG 0.465996 2:+8124900 None:intergenic
CGTAACGTTCCGGTTGGAGC+AGG 0.491556 2:-8124934 MsaT006658.1:CDS
CAAAGATACTGGACGGCTGG+TGG 0.496439 2:-8124964 MsaT006658.1:CDS
AAAAGAAAGTGAAGATCAAA+CGG 0.511866 2:-8125103 MsaT006658.1:CDS
CTGCTCCAACCGGAACGTTA+CGG 0.518351 2:+8124935 None:intergenic
GCCCTCCGTAACGTTCCGGT+TGG 0.526190 2:-8124940 MsaT006658.1:CDS
AAAGATACTGGACGGCTGGT+GGG 0.536772 2:-8124963 MsaT006658.1:CDS
TTGCATGAGGAATTAAAAGA+AGG 0.537402 2:-8125129 MsaT006658.1:CDS
TCTTGAGGATAGCGGTTCAC+CGG 0.541063 2:-8124887 MsaT006658.1:CDS
ATGATGGCCAGAACTACTTA+GGG 0.541176 2:-8124834 MsaT006658.1:CDS
TGTCAAAGATACTGGACGGC+TGG 0.542444 2:-8124967 MsaT006658.1:CDS
AGAAAAGGTGAAGAGATACA+AGG 0.544735 2:-8125180 MsaT006658.1:CDS
ATACTCTTGCATCTTGGACA+TGG 0.546078 2:+8125054 None:intergenic
GGCCAAGCCGCCAAGTCTTG+AGG 0.555303 2:-8124902 MsaT006658.1:CDS
TTCCGGTTGGAGCAGGTCGT+CGG 0.558411 2:-8124927 MsaT006658.1:CDS
AAGCGGCGGAGGAAGACCTC+AGG 0.572311 2:-8124760 MsaT006658.1:CDS
GAAGCTGCTAATTCTGATGA+TGG 0.575725 2:-8124850 MsaT006658.1:CDS
AAAATGGCTGAAGTGAGAAA+AGG 0.579551 2:-8125195 MsaT006658.1:CDS
AAGATACTGGACGGCTGGTG+GGG 0.581078 2:-8124962 MsaT006658.1:CDS
CCGCTATCCTCAAGACTTGG+CGG 0.597183 2:+8124895 None:intergenic
GAACCGCTATCCTCAAGACT+TGG 0.599554 2:+8124892 None:intergenic
GAAAAGGTGAAGAGATACAA+GGG 0.603099 2:-8125179 MsaT006658.1:CDS
GGTTGGAGCAGGTCGTCGGA+AGG 0.608139 2:-8124923 MsaT006658.1:CDS
CACAACAATAAAATTGCATG+AGG 0.620119 2:-8125142 MsaT006658.1:CDS
CGGCGGAGGAAGACCTCAGG+TGG 0.630380 2:-8124757 MsaT006658.1:CDS
TGCTAATGAATAACCACCTG+AGG 0.631649 2:+8124744 None:intergenic
GAGCTGTCAAAGATACTGGA+CGG 0.644495 2:-8124971 MsaT006658.1:CDS
TCCAACCGGAACGTTACGGA+GGG 0.647718 2:+8124939 None:intergenic
TCCCGAAAATCACTCTGAGG+AGG 0.648141 2:+8124796 None:intergenic
CTCCAACCGGAACGTTACGG+AGG 0.649811 2:+8124938 None:intergenic
ACTTCCCGAAAATCACTCTG+AGG 0.686816 2:+8124793 None:intergenic
GTAAAGAACAAGAAATCACA+AGG 0.691544 2:+8124717 None:intergenic
AGAAAGTGAAGATCAAACGG+TGG 0.696077 2:-8125100 MsaT006658.1:CDS
CCGCCAAGTCTTGAGGATAG+CGG 0.704408 2:-8124895 MsaT006658.1:CDS
AAGAACAAGAAATCACAAGG+AGG 0.761754 2:+8124720 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 8124732 8125214 8124732 ID=MsaG006658
Chr2 mRNA 8124732 8125214 8124732 ID=MsaT006658.1;Parent=MsaG006658
Chr2 exon 8124732 8125214 8124732 ID=MsaT006658.1.exon1;Parent=MsaT006658.1
Chr2 CDS 8124732 8125214 8124732 ID=cds.MsaT006658.1;Parent=MsaT006658.1
Gene Sequence

>MsaT006658.1

ATGGCTGAAGTGAGAAAAGGTGAAGAGATACAAGGGATTAAGCTATTTGGCACAACAATAAAATTGCATGAGGAATTAAAAGAAGGTCAAAAAGAAAGTGAAGATCAAACGGTGGAGAAGAAGATAGAAAAGATCATACCATGTCCAAGATGCAAGAGTATGGAAACTAAATTTTGTTATTTCAATAATTATAACGTTAATCAACCAAGACATTTTTGTAAGAGCTGTCAAAGATACTGGACGGCTGGTGGGGCCCTCCGTAACGTTCCGGTTGGAGCAGGTCGTCGGAAGGCCAAGCCGCCAAGTCTTGAGGATAGCGGTTCACCGGAAAGTTGTGTCTATGAAGCTGCTAATTCTGATGATGGCCAGAACTACTTAGGGTTAGAACAATTTATGCCTCCTCAGAGTGATTTTCGGGAAGTATTTTCCGGCAAGCGGCGGAGGAAGACCTCAGGTGGTTATTCATTAGCATCCTCCTTGTGA

Protein sequence

>MsaT006658.1

MAEVRKGEEIQGIKLFGTTIKLHEELKEGQKESEDQTVEKKIEKIIPCPRCKSMETKFCYFNNYNVNQPRHFCKSCQRYWTAGGALRNVPVGAGRRKAKPPSLEDSGSPESCVYEAANSDDGQNYLGLEQFMPPQSDFREVFSGKRRRKTSGGYSLASSL*