AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG036316

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036316 MtrunA17_Chr5g0444351 74.359 156 28 1 1 156 2 145 3.44e-83 241
MsaG036316 MtrunA17_Chr7g0225111 93.913 115 7 0 1 115 2 116 5.54e-80 232
MsaG036316 MtrunA17_Chr2g0311601 50.926 108 53 0 2 109 11 118 6.10e-40 132
MsaG036316 MtrunA17_Chr5g0437571 51.351 111 54 0 3 113 5 115 4.66e-38 127
MsaG036316 MtrunA17_Chr5g0438091 46.970 132 70 0 5 136 40 171 9.07e-38 127
MsaG036316 MtrunA17_Chr4g0043421 50.459 109 54 0 2 110 13 121 4.49e-37 125
MsaG036316 MtrunA17_Chr3g0129071 51.376 109 53 0 2 110 45 153 1.78e-36 125
MsaG036316 MtrunA17_Chr3g0106101 48.182 110 57 0 3 112 6 115 1.92e-36 124
MsaG036316 MtrunA17_Chr4g0058651 51.376 109 53 0 3 111 10 118 5.04e-36 123
MsaG036316 MtrunA17_Chr3g0114061 52.427 103 49 0 2 104 6 108 8.40e-36 121
MsaG036316 MtrunA17_Chr7g0227511 46.825 126 58 1 3 119 10 135 2.04e-35 121
MsaG036316 MtrunA17_Chr3g0117121 50.909 110 51 1 3 109 9 118 5.78e-35 120
MsaG036316 MtrunA17_Chr4g0030001 47.748 111 57 1 1 110 21 131 1.03e-34 119
MsaG036316 MtrunA17_Chr3g0097221 49.558 113 57 0 3 115 6 118 2.65e-34 121
MsaG036316 MtrunA17_Chr3g0115431 47.619 105 55 0 3 107 8 112 8.07e-34 118
MsaG036316 MtrunA17_Chr6g0449641 43.182 132 75 0 3 134 8 139 3.82e-33 114
MsaG036316 MtrunA17_Chr5g0432451 45.588 136 70 1 2 137 41 172 4.41e-33 116
MsaG036316 MtrunA17_Chr5g0402611 48.571 105 54 0 3 107 7 111 8.87e-33 118
MsaG036316 MtrunA17_Chr1g0200201 40.845 142 76 1 5 146 73 206 1.76e-32 115
MsaG036316 MtrunA17_Chr8g0353981 50.459 109 52 1 3 111 6 112 2.59e-32 114
MsaG036316 MtrunA17_Chr6g0449651 51.579 95 46 0 3 97 66 160 7.87e-31 110
MsaG036316 MtrunA17_Chr3g0113891 46.465 99 53 0 3 101 13 111 1.82e-30 108
MsaG036316 MtrunA17_Chr5g0437401 44.660 103 57 0 3 105 10 112 3.14e-30 107
MsaG036316 MtrunA17_Chr7g0260971 46.154 104 55 1 5 107 15 118 6.06e-30 108
MsaG036316 MtrunA17_Chr6g0452691 36.364 143 90 1 4 145 9 151 1.40e-28 103
MsaG036316 MtrunA17_Chr6g0460951 41.818 110 63 1 1 109 37 146 2.55e-28 104
MsaG036316 MtrunA17_Chr1g0184281 48.000 100 51 1 5 103 16 115 3.04e-28 103
MsaG036316 MtrunA17_Chr6g0452671 42.268 97 56 0 5 101 12 108 6.56e-26 97.4
MsaG036316 MtrunA17_Chr8g0351701 41.509 106 61 1 5 109 24 129 8.07e-26 98.2
MsaG036316 MtrunA17_Chr7g0261031 41.732 127 71 2 3 126 7 133 8.88e-26 97.8
MsaG036316 MtrunA17_Chr8g0374601 38.318 107 66 0 1 107 23 129 9.13e-26 99.0
MsaG036316 MtrunA17_Chr1g0184271 44.118 102 56 1 5 105 13 114 1.87e-25 97.1
MsaG036316 MtrunA17_Chr7g0245871 44.554 101 55 1 5 104 28 128 2.72e-25 97.1
MsaG036316 MtrunA17_Chr6g0452661 37.615 109 67 1 5 112 10 118 3.85e-24 94.0
MsaG036316 MtrunA17_Chr8g0374581 41.905 105 60 1 1 104 5 109 7.84e-24 92.8
MsaG036316 MtrunA17_Chr5g0435641 41.346 104 60 1 3 105 6 109 8.25e-24 92.0
MsaG036316 MtrunA17_Chr8g0374591 35.238 105 68 0 1 105 5 109 1.34e-23 89.7
MsaG036316 MtrunA17_Chr8g0351721 41.176 102 59 1 5 105 19 120 3.89e-23 90.9
MsaG036316 MtrunA17_Chr4g0055441 32.867 143 94 2 4 145 2 143 5.24e-23 89.0
MsaG036316 MtrunA17_Chr8g0342351 39.604 101 61 0 5 105 13 113 2.85e-22 89.4
MsaG036316 MtrunA17_Chr4g0059901 42.000 100 58 0 5 104 11 110 5.59e-22 88.6
MsaG036316 MtrunA17_Chr5g0439111 36.937 111 68 2 5 113 10 120 9.10e-21 85.1
MsaG036316 MtrunA17_Chr6g0460941 40.909 88 51 1 5 91 8 95 2.36e-20 80.1
MsaG036316 MtrunA17_Chr2g0330201 34.653 101 66 0 5 105 20 120 2.10e-19 82.4
MsaG036316 MtrunA17_Chr7g0245861 42.697 89 48 2 5 90 13 101 1.39e-18 77.0
MsaG036316 MtrunA17_Chr4g0040831 35.052 97 63 0 5 101 16 112 3.35e-18 77.4
MsaG036316 MtrunA17_Chr2g0326041 48.214 56 29 0 1 56 30 85 3.03e-16 69.7
MsaG036316 MtrunA17_Chr4g0046201 32.955 88 59 0 3 90 5 92 3.59e-14 67.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG036316 AT3G26660.1 67.327 101 33 0 5 105 6 106 1.57e-47 150
MsaG036316 AT3G26620.1 67.327 101 33 0 5 105 6 106 2.07e-47 150
MsaG036316 AT2G30130.1 52.727 110 52 0 3 112 7 116 6.15e-39 130
MsaG036316 AT1G31320.1 53.043 115 53 1 3 116 12 126 1.68e-36 124
MsaG036316 AT2G30340.1 50.459 109 54 0 2 110 50 158 1.07e-35 124
MsaG036316 AT2G30340.2 50.459 109 54 0 2 110 51 159 1.12e-35 124
MsaG036316 AT1G07900.1 43.307 127 67 1 1 127 30 151 1.71e-35 122
MsaG036316 AT5G63090.4 47.009 117 62 0 3 119 10 126 4.84e-35 120
MsaG036316 AT5G63090.3 47.009 117 62 0 3 119 10 126 4.84e-35 120
MsaG036316 AT5G63090.2 47.009 117 62 0 3 119 10 126 4.84e-35 120
MsaG036316 AT5G63090.1 47.009 117 62 0 3 119 10 126 4.84e-35 120
MsaG036316 AT2G28500.1 47.273 110 58 0 1 110 52 161 8.17e-35 121
MsaG036316 AT3G27650.1 50.000 102 51 0 3 104 38 139 9.34e-34 116
MsaG036316 AT5G66870.1 48.544 103 53 0 3 105 6 108 4.61e-33 119
MsaG036316 AT2G40470.2 51.402 107 52 0 2 108 18 124 7.67e-33 115
MsaG036316 AT1G16530.1 50.943 106 51 1 2 106 12 117 8.22e-33 114
MsaG036316 AT2G40470.1 51.402 107 52 0 2 108 43 149 1.22e-32 115
MsaG036316 AT2G23660.2 48.515 101 52 0 5 105 6 106 3.78e-32 116
MsaG036316 AT2G23660.3 48.515 101 52 0 5 105 6 106 3.78e-32 116
MsaG036316 AT2G23660.1 48.515 101 52 0 5 105 6 106 3.78e-32 116
MsaG036316 AT1G65620.1 48.113 106 55 0 3 108 8 113 3.96e-32 114
MsaG036316 AT1G65620.4 48.113 106 55 0 3 108 8 113 3.96e-32 114
MsaG036316 AT1G65620.3 48.113 106 55 0 3 108 8 113 3.96e-32 114
MsaG036316 AT1G65620.5 48.113 106 55 0 3 108 8 113 3.96e-32 114
MsaG036316 AT1G65620.2 48.113 106 55 0 3 108 8 113 3.96e-32 114
MsaG036316 AT3G11090.1 44.762 105 58 0 3 107 10 114 1.24e-31 111
MsaG036316 AT4G00210.1 37.500 144 80 3 5 138 12 155 1.56e-27 102
MsaG036316 AT3G50510.1 34.899 149 81 2 5 153 13 145 3.71e-27 100
MsaG036316 AT3G50510.2 34.899 149 81 2 5 153 13 145 3.71e-27 100
MsaG036316 AT2G42430.1 44.860 107 58 1 3 108 14 120 6.97e-27 101
MsaG036316 AT3G03760.1 44.554 101 55 1 5 104 52 152 7.16e-27 102
MsaG036316 AT2G42440.1 45.000 100 54 1 5 103 8 107 1.13e-25 98.2
MsaG036316 AT5G06080.1 43.243 111 62 1 3 112 6 116 2.14e-25 95.9
MsaG036316 AT3G58190.1 44.118 102 56 1 5 105 12 113 2.90e-25 96.7
MsaG036316 AT3G13850.1 35.065 154 92 2 5 150 37 190 2.55e-24 95.5
MsaG036316 AT4G00220.1 42.308 104 59 1 7 109 20 123 3.66e-24 94.0
MsaG036316 AT2G45420.1 42.308 104 59 1 7 109 40 143 1.33e-23 93.2
MsaG036316 AT2G45410.1 42.000 100 57 1 7 105 19 118 2.11e-23 91.3
MsaG036316 AT5G35900.1 36.893 103 65 0 3 105 4 106 3.94e-22 88.2
MsaG036316 AT3G47870.1 37.500 104 65 0 5 108 37 140 7.68e-22 89.7
MsaG036316 AT2G31310.1 33.962 106 69 1 1 105 4 109 3.09e-20 82.8
MsaG036316 AT1G06280.1 37.931 87 54 0 5 91 25 111 4.84e-18 77.4
MsaG036316 AT1G72980.1 34.951 103 67 0 2 104 11 113 4.89e-18 77.8
MsaG036316 AT2G19820.1 34.043 94 61 1 5 97 13 106 1.64e-15 68.9
MsaG036316 AT5G15060.1 42.857 77 40 2 2 75 15 90 1.73e-13 64.3
MsaG036316 AT4G22700.1 32.727 110 68 3 5 109 6 114 2.40e-12 62.0
MsaG036316 AT1G36000.1 30.233 86 60 0 5 90 10 95 7.65e-12 59.3

Find 29 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACCTTCAAATTGTTGATTT+TGG 0.080390 7:-31932090 None:intergenic
AGGATTCAAGATCCTGTTTA+TGG 0.232394 7:+31931974 MsaT036316.1:CDS
GGCCTAGTCAAACTCCTAAT+TGG 0.295938 7:+31932203 MsaT036316.1:CDS
GGATCATTGGGAGGGAAATA+TGG 0.321654 7:-31931467 None:intergenic
GCCACTACATAGTAACAAAA+TGG 0.324947 7:+31932168 MsaT036316.1:CDS
GCTTCTGTTCACCGAATCTA+TGG 0.327300 7:+31931500 MsaT036316.1:CDS
AGCAAATCTTTGAGGATCAT+TGG 0.352548 7:-31931480 None:intergenic
AACTCCTAATTGGTTCAATT+AGG 0.365498 7:+31932213 MsaT036316.1:CDS
AAGTCCTAATTGAACCAATT+AGG 0.385923 7:-31932217 None:intergenic
ATCCCAACACATCCATAAAC+AGG 0.432009 7:-31931986 None:intergenic
GCAAATCTTTGAGGATCATT+GGG 0.442273 7:-31931479 None:intergenic
CTCCAAAATCAACAATTTGA+AGG 0.458414 7:+31932088 MsaT036316.1:CDS
ATCTATGGTGGTAGCAATGT+TGG 0.480363 7:+31931515 MsaT036316.1:CDS
TGTATTTAGAAGCACAATGT+AGG 0.497154 7:+31931954 MsaT036316.1:CDS
ACAAAATGGAGCAGATTCAA+TGG 0.514503 7:+31932182 MsaT036316.1:CDS
ATCCTGTTTATGGATGTGTT+GGG 0.518295 7:+31931984 MsaT036316.1:CDS
TCAAGATACAGAAGTTGAGT+TGG 0.518830 7:+31932033 MsaT036316.1:CDS
TATGGAGAGAAAATGCAATC+AGG 0.521384 7:-31931449 None:intergenic
CATTGCTACCACCATAGATT+CGG 0.528587 7:-31931511 None:intergenic
GATCCTGTTTATGGATGTGT+TGG 0.530554 7:+31931983 MsaT036316.1:CDS
TGAACAGAAGCAAATCTTTG+AGG 0.534397 7:-31931488 None:intergenic
AATACATAGAATTTGCAGCT+TGG 0.550687 7:-31931937 None:intergenic
CTTGCAAGAGTCAAAGAAGA+AGG 0.562843 7:+31931420 MsaT036316.1:CDS
ATCTTTGAGGATCATTGGGA+GGG 0.584186 7:-31931475 None:intergenic
AATCTTTGAGGATCATTGGG+AGG 0.604113 7:-31931476 None:intergenic
TCTGTTCACCGAATCTATGG+TGG 0.619615 7:+31931503 MsaT036316.1:CDS
AACCAATTAGGAGTTTGACT+AGG 0.647531 7:-31932205 None:intergenic
GCTTGGTGTCGTACATAGTG+AGG 0.654586 7:-31931920 None:intergenic
GGAGAGAAAATGCAATCAGG+AGG 0.655607 7:-31931446 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 31931103 31932234 31931103 ID=MsaG036316
Chr7 mRNA 31931103 31932234 31931103 ID=MsaT036316.1;Parent=MsaG036316
Chr7 exon 31931103 31931113 31931103 ID=MsaT036316.1.exon1;Parent=MsaT036316.1
Chr7 CDS 31931103 31931113 31931103 ID=cds.MsaT036316.1;Parent=MsaT036316.1
Chr7 exon 31931412 31931550 31931412 ID=MsaT036316.1.exon2;Parent=MsaT036316.1
Chr7 CDS 31931412 31931550 31931412 ID=cds.MsaT036316.1;Parent=MsaT036316.1
Chr7 exon 31931914 31932234 31931914 ID=MsaT036316.1.exon3;Parent=MsaT036316.1
Chr7 CDS 31931914 31932234 31931914 ID=cds.MsaT036316.1;Parent=MsaT036316.1
Gene Sequence

>MsaT036316.1

ATGGTGTCAATGTGTGCTGCTTGCAAGAGTCAAAGAAGAAGGTGTCCTCCTGATTGCATTTTCTCTCCATATTTCCCTCCCAATGATCCTCAAAGATTTGCTTCTGTTCACCGAATCTATGGTGGTAGCAATGTTGGAAAAATGCTTCAGCAATTGCCTCACTATGTACGACACCAAGCTGCAAATTCTATGTATTTAGAAGCACAATGTAGGATTCAAGATCCTGTTTATGGATGTGTTGGGATTATCTCTAAATTATCTCAACAAATTCAAGATACAGAAGTTGAGTTGGCTAAAATCAAAACTCAGATTGCTTATCATAAACTCCAAAATCAACAATTTGAAGGTGAATCAAACTTCAATGTCTTGTCAACAATTGATGCTGAATCAAACTTAAGCTCTTTGCCACTACATAGTAACAAAATGGAGCAGATTCAATGGCCTAGTCAAACTCCTAATTGGTTCAATTAG
Protein sequence

>MsaT036316.1

MVSMCAACKSQRRRCPPDCIFSPYFPPNDPQRFASVHRIYGGSNVGKMLQQLPHYVRHQAANSMYLEAQCRIQDPVYGCVGIISKLSQQIQDTEVELAKIKTQIAYHKLQNQQFEGESNFNVLSTIDAESNLSSLPLHSNKMEQIQWPSQTPNWFN*