AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG029941


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG029941 MtrunA17_Chr6g0453021 97.778 225 5 0 1 225 53 277 4.67e-164 453
MsaG029941 MtrunA17_Chr7g0217111 60.669 239 63 7 1 217 43 272 1.14e-87 260
MsaG029941 MtrunA17_Chr8g0362151 54.435 248 71 8 3 222 47 280 6.29e-70 215
MsaG029941 MtrunA17_Chr5g0416391 53.200 250 74 7 3 222 45 281 2.53e-67 208
MsaG029941 MtrunA17_Chr5g0415941 49.495 198 73 8 27 207 74 261 4.34e-40 140
MsaG029941 MtrunA17_Chr3g0119291 45.960 198 92 4 30 213 42 238 7.36e-40 137
MsaG029941 MtrunA17_Chr8g0381741 48.734 158 62 4 34 173 43 199 2.00e-37 132
MsaG029941 MtrunA17_Chr6g0450991 64.000 100 36 0 40 139 63 162 7.17e-37 130
MsaG029941 MtrunA17_Chr8g0362751 67.000 100 33 0 40 139 85 184 4.06e-36 128
MsaG029941 MtrunA17_Chr3g0123691 57.143 112 46 1 28 139 46 155 5.16e-36 129
MsaG029941 MtrunA17_Chr4g0060031 60.784 102 40 0 38 139 89 190 7.91e-35 126
MsaG029941 MtrunA17_Chr7g0265521 55.435 92 41 0 43 134 62 153 4.87e-28 106
MsaG029941 MtrunA17_Chr3g0127511 56.044 91 40 0 46 136 40 130 5.98e-28 106
MsaG029941 MtrunA17_Chr1g0179581 60.494 81 32 0 43 123 27 107 3.28e-27 100
MsaG029941 MtrunA17_Chr8g0346251 53.488 86 40 0 51 136 48 133 1.90e-25 99.8
MsaG029941 MtrunA17_Chr4g0055851 46.154 104 55 1 28 131 105 207 6.42e-20 85.9
MsaG029941 MtrunA17_Chr5g0403701 51.579 95 46 0 44 138 53 147 8.35e-20 84.0
MsaG029941 MtrunA17_Chr5g0403691 51.064 94 46 0 44 137 53 146 1.33e-19 83.6
MsaG029941 MtrunA17_Chr2g0308611 42.276 123 48 2 31 137 171 286 6.63e-18 80.9
MsaG029941 MtrunA17_Chr5g0400781 46.154 104 49 1 34 137 113 209 4.90e-17 77.8
MsaG029941 MtrunA17_Chr5g0399491 46.000 100 53 1 32 131 125 223 5.57e-17 77.8
MsaG029941 MtrunA17_Chr7g0258831 45.946 111 51 2 27 137 145 246 5.98e-17 77.8
MsaG029941 MtrunA17_Chr4g0071411 47.253 91 41 1 47 137 91 174 8.26e-17 76.3
MsaG029941 MtrunA17_Chr1g0175651 38.129 139 83 1 34 172 147 282 1.05e-16 77.0
MsaG029941 MtrunA17_Chr1g0151971 50.000 94 40 1 44 137 130 216 1.63e-16 76.6
MsaG029941 MtrunA17_Chr4g0054421 45.192 104 49 2 34 137 118 213 2.04e-16 75.9
MsaG029941 MtrunA17_Chr8g0335131 48.864 88 45 0 44 131 146 233 3.11e-16 75.9
MsaG029941 MtrunA17_Chr4g0044091 50.000 88 44 0 44 131 65 152 9.06e-16 72.8
MsaG029941 MtrunA17_Chr3g0135331 36.170 141 68 3 44 169 145 278 2.77e-14 70.5
MsaG029941 MtrunA17_Chr2g0299031 43.182 88 50 0 44 131 82 169 2.76e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG029941 AT5G15150.1 56.198 242 79 8 1 218 64 302 8.16e-75 229
MsaG029941 AT3G01220.1 51.709 234 87 6 1 218 52 275 7.14e-71 218
MsaG029941 AT1G69780.1 51.739 230 74 7 25 222 69 293 7.07e-63 198
MsaG029941 AT1G26960.1 51.196 209 90 6 21 222 51 254 3.23e-58 185
MsaG029941 AT5G65310.1 52.448 143 57 2 28 159 52 194 4.06e-39 137
MsaG029941 AT5G65310.2 57.031 128 48 1 39 159 49 176 4.33e-39 137
MsaG029941 AT2G22430.1 64.078 103 37 0 37 139 55 157 7.12e-39 136
MsaG029941 AT4G40060.1 63.636 99 36 0 41 139 56 154 6.56e-38 134
MsaG029941 AT3G01470.1 62.000 100 38 0 40 139 64 163 1.74e-37 132
MsaG029941 AT2G46680.1 55.319 94 42 0 45 138 33 126 3.72e-29 110
MsaG029941 AT3G61890.1 55.556 90 40 0 47 136 33 122 2.88e-27 104
MsaG029941 AT2G46680.2 54.545 88 40 0 45 132 33 120 1.12e-26 103
MsaG029941 AT1G27045.5 46.400 125 63 1 44 164 25 149 5.95e-26 99.8
MsaG029941 AT1G27045.3 46.400 125 63 1 44 164 25 149 5.95e-26 99.8
MsaG029941 AT1G27045.2 46.400 125 63 1 44 164 17 141 6.48e-26 99.4
MsaG029941 AT1G27045.1 46.400 125 63 1 44 164 68 192 8.21e-26 100
MsaG029941 AT1G27045.4 52.632 95 45 0 44 138 68 162 8.65e-25 98.6
MsaG029941 AT5G03790.1 46.847 111 56 2 44 152 77 186 1.30e-23 95.1
MsaG029941 AT2G18550.1 42.657 143 65 3 44 169 61 203 1.81e-22 91.7
MsaG029941 AT2G36610.1 53.409 88 33 2 44 123 71 158 4.32e-22 89.7
MsaG029941 AT5G03790.2 49.462 93 40 1 44 136 77 162 5.65e-22 89.7
MsaG029941 AT4G36740.1 52.222 90 43 0 44 133 55 144 8.62e-21 87.0
MsaG029941 AT4G36740.2 52.222 90 43 0 44 133 56 145 8.98e-21 87.0
MsaG029941 AT5G53980.1 40.000 130 77 1 35 163 2 131 2.84e-20 84.3
MsaG029941 AT5G66700.1 47.573 103 52 1 33 133 58 160 4.22e-20 85.5
MsaG029941 AT2G01430.1 45.045 111 53 2 27 137 123 225 5.14e-19 83.6
MsaG029941 AT4G37790.1 46.296 108 49 2 30 137 114 212 1.34e-17 79.7
MsaG029941 AT5G06710.1 38.816 152 82 3 34 181 183 327 4.91e-17 79.0
MsaG029941 AT5G47370.1 41.322 121 56 2 28 137 103 219 6.97e-17 77.8
MsaG029941 AT2G22800.1 46.296 108 49 2 30 137 101 199 9.35e-17 77.4
MsaG029941 AT4G17460.1 46.667 105 51 2 34 137 124 224 1.47e-16 77.0
MsaG029941 AT3G60390.1 41.322 121 69 2 11 131 131 249 2.30e-16 76.6
MsaG029941 AT2G44910.1 46.591 88 47 0 44 131 163 250 5.63e-15 72.8
MsaG029941 AT4G16780.1 43.878 98 53 1 34 131 121 216 1.56e-14 71.2
MsaG029941 AT1G70920.2 48.864 88 45 0 44 131 39 126 1.98e-14 69.3
MsaG029941 AT1G70920.1 48.864 88 45 0 44 131 69 156 2.10e-14 69.7
MsaG029941 AT2G01430.2 48.571 70 35 1 27 96 123 191 7.12e-13 65.9
MsaG029941 AT5G06710.4 53.226 62 26 1 34 95 183 241 9.28e-11 60.5

Find 32 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCACCTTGCTCTTCTATTT+TGG 0.086155 6:-110870 None:intergenic
TTGATGAGCAGCAGAGTTTA+TGG 0.202182 6:+112649 MsaT029941.1:CDS
ATGCAATTGGCTAAAGCTTT+GGG 0.280624 6:+110817 MsaT029941.1:CDS
AAAAGGGACTGCTTTGAAAA+TGG 0.299378 6:+112441 MsaT029941.1:CDS
CTTGTAGGCTTAAGTGAATT+TGG 0.316425 6:-112552 None:intergenic
AGCAGCAGAGTTTATGGCCT+TGG 0.338430 6:+112655 MsaT029941.1:CDS
GAAGCAATTTGATTCTCTTA+AGG 0.348897 6:+110930 MsaT029941.1:CDS
TCTTCGAGTCTTAACGGAAT+TGG 0.375678 6:-112695 None:intergenic
AATGCAATTGGCTAAAGCTT+TGG 0.380110 6:+110816 MsaT029941.1:CDS
CTGATCTTGAAGAGCATTGA+AGG 0.381692 6:-112587 None:intergenic
AACCTAGACAAGTAGCTATA+TGG 0.403297 6:+110845 MsaT029941.1:CDS
AGGAGCTGTGTCATGCTTGT+AGG 0.404646 6:-112567 None:intergenic
GTGAATTTGGTGTTCTGAAA+AGG 0.404759 6:-112539 None:intergenic
AGCTACAAACTCTAAAGAAA+AGG 0.429689 6:+112424 MsaT029941.1:intron
TGAAGAAGGGTACTCACAAA+TGG 0.439119 6:+110705 MsaT029941.1:CDS
AGATCAGATCTTCAAGATGA+AGG 0.470396 6:+112603 MsaT029941.1:CDS
GGCTGATAATGACACACTTA+AGG 0.472252 6:+110951 MsaT029941.1:CDS
TAACAGCTCAGATATGAATC+TGG 0.487547 6:+112515 MsaT029941.1:CDS
GCTACAAACTCTAAAGAAAA+GGG 0.493192 6:+112425 MsaT029941.1:intron
GATCAATTATCAGATGAAGA+AGG 0.500107 6:+110691 MsaT029941.1:CDS
AATGAAGGTTCTTGGAGCAA+TGG 0.528783 6:+112486 MsaT029941.1:CDS
CTCTATGCCTGAAAATGACA+TGG 0.537665 6:-110617 None:intergenic
GAAGAAGGGTACTCACAAAT+GGG 0.542302 6:+110706 MsaT029941.1:CDS
ATCAATTATCAGATGAAGAA+GGG 0.550627 6:+110692 MsaT029941.1:CDS
TGCAATTGGCTAAAGCTTTG+GGG 0.570828 6:+110818 MsaT029941.1:CDS
AACCATATAGCTACTTGTCT+AGG 0.577432 6:-110847 None:intergenic
AAATGGGTGAAAAGAAGAAG+AGG 0.594234 6:+110722 MsaT029941.1:CDS
AAACAACAAATTACATGCAG+AGG 0.604512 6:+110978 MsaT029941.1:CDS
GGTTCCAAAATAGAAGAGCA+AGG 0.645595 6:+110866 MsaT029941.1:CDS
AAGTGTGATGAATTAGTGCA+TGG 0.667963 6:+110661 MsaT029941.1:CDS
TGTTGCTGATGATCAGTCCA+AGG 0.684041 6:-112672 None:intergenic
TCCAAAATAGAAGAGCAAGG+TGG 0.719995 6:+110869 MsaT029941.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 110604 112707 110604 ID=MsaG029941
Chr6 mRNA 110604 112707 110604 ID=MsaT029941.1;Parent=MsaG029941
Chr6 exon 110604 110999 110604 ID=MsaT029941.1.exon1;Parent=MsaT029941.1
Chr6 CDS 110604 110999 110604 ID=cds.MsaT029941.1;Parent=MsaT029941.1
Chr6 exon 112426 112707 112426 ID=MsaT029941.1.exon2;Parent=MsaT029941.1
Chr6 CDS 112426 112707 112426 ID=cds.MsaT029941.1;Parent=MsaT029941.1
Gene Sequence

>MsaT029941.1

ATGATGAAGAGATCCATGTCATTTTCAGGCATAGAGAGCAATCATATAAACAACAATAAGTGTGATGAATTAGTGCATGGAGATGAAGATCAATTATCAGATGAAGAAGGGTACTCACAAATGGGTGAAAAGAAGAAGAGGTTGAGTTTAGAACAAGTGAAAGCACTTGAGAAGAGTTTTGAGATTGGTAACAAGCTTGAACCTGAGAGAAAAATGCAATTGGCTAAAGCTTTGGGGTTACAACCTAGACAAGTAGCTATATGGTTCCAAAATAGAAGAGCAAGGTGGAAAACTAAGCAACTTGAGAAAGAATATGAAGTTCTTAAGAAGCAATTTGATTCTCTTAAGGCTGATAATGACACACTTAAGGCTCAAAACAACAAATTACATGCAGAGCTACAAACTCTAAAGAAAAGGGACTGCTTTGAAAATGGAACAATTACCCTCAAAAAAGAAAATGAAGGTTCTTGGAGCAATGGAAGTGATAACAGCTCAGATATGAATCTGGACCTTTTCAGAACACCAAATTCACTTAAGCCTACAAGCATGACACAGCTCCTTCAATGCTCTTCAAGATCAGATCTTCAAGATGAAGGCTTTTGCAACATGTTTAACAACATTGATGAGCAGCAGAGTTTATGGCCTTGGACTGATCATCAGCAACACCAATTCCGTTAA

Protein sequence

>MsaT029941.1

MMKRSMSFSGIESNHINNNKCDELVHGDEDQLSDEEGYSQMGEKKKRLSLEQVKALEKSFEIGNKLEPERKMQLAKALGLQPRQVAIWFQNRRARWKTKQLEKEYEVLKKQFDSLKADNDTLKAQNNKLHAELQTLKKRDCFENGTITLKKENEGSWSNGSDNSSDMNLDLFRTPNSLKPTSMTQLLQCSSRSDLQDEGFCNMFNNIDEQQSLWPWTDHQQHQFR*