AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG000359


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000359 MtrunA17_Chr1g0152661 94.538 238 6 3 1 237 1 232 2.65e-167 460
MsaG000359 MtrunA17_Chr3g0134711 57.028 249 78 9 1 235 1 234 1.95e-82 246
MsaG000359 MtrunA17_Chr1g0207451 43.071 267 84 13 1 226 3 242 2.14e-47 157
MsaG000359 MtrunA17_Chr1g0180311 36.082 194 90 9 43 205 81 271 7.70e-21 89.0
MsaG000359 MtrunA17_Chr4g0012691 50.000 86 41 1 80 165 220 303 2.34e-18 82.8
MsaG000359 MtrunA17_Chr7g0263121 36.667 120 56 2 43 162 15 114 2.31e-17 77.0
MsaG000359 MtrunA17_Chr7g0231181 39.007 141 59 5 71 211 231 344 2.55e-17 79.7
MsaG000359 MtrunA17_Chr1g0197281 28.829 222 112 7 21 198 81 300 2.23e-16 77.0
MsaG000359 MtrunA17_Chr7g0263131 36.364 121 66 2 80 200 34 143 5.75e-16 72.8
MsaG000359 MtrunA17_Chr5g0425411 47.253 91 43 2 79 164 118 208 1.09e-15 73.9
MsaG000359 MtrunA17_Chr1g0182161 29.070 172 89 4 32 196 3 148 6.35e-15 70.5
MsaG000359 MtrunA17_Chr1g0212561 42.169 83 39 1 80 162 45 118 1.12e-14 70.5
MsaG000359 MtrunA17_Chr5g0448611 41.441 111 38 3 80 166 130 237 1.65e-14 71.2
MsaG000359 MtrunA17_Chr7g0222831 33.333 138 68 4 32 169 2 115 6.30e-14 67.8
MsaG000359 MtrunA17_Chr1g0182181 32.609 138 64 3 38 173 6 116 1.19e-13 66.6
MsaG000359 MtrunA17_Chr4g0027991 29.878 164 70 4 44 162 67 230 7.89e-13 66.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000359 AT1G27730.1 50.000 248 88 11 1 233 1 227 1.21e-60 190
MsaG000359 AT5G04340.1 51.304 230 96 8 1 217 1 227 6.46e-52 168
MsaG000359 AT3G19580.1 40.000 255 105 7 1 214 1 248 3.81e-46 155
MsaG000359 AT3G19580.2 40.000 255 105 7 1 214 1 248 3.81e-46 155
MsaG000359 AT5G43170.1 45.570 237 72 11 1 225 1 192 1.20e-42 143
MsaG000359 AT5G67450.1 39.834 241 98 7 1 198 1 237 1.71e-36 129
MsaG000359 AT3G49930.1 43.069 202 69 8 25 211 36 206 6.69e-36 127
MsaG000359 AT2G28200.1 37.113 194 92 7 37 201 70 262 1.61e-24 99.0
MsaG000359 AT3G60580.1 37.500 184 83 5 38 211 122 283 2.74e-23 95.5
MsaG000359 AT2G45120.1 39.286 168 82 5 38 198 146 300 3.84e-22 93.2
MsaG000359 AT1G49900.1 51.111 90 36 2 80 169 193 274 3.17e-20 89.7
MsaG000359 AT1G49900.1 45.192 104 44 2 79 181 749 840 1.81e-19 87.4
MsaG000359 AT5G03510.1 31.250 192 102 4 39 201 69 259 1.06e-18 83.2
MsaG000359 AT5G04390.1 29.915 234 92 8 39 206 96 323 1.41e-17 80.9
MsaG000359 AT1G02040.1 32.105 190 96 7 5 163 61 248 4.84e-17 79.0
MsaG000359 AT5G56200.1 41.880 117 55 2 82 187 344 458 5.03e-17 80.1
MsaG000359 AT4G35280.1 39.231 130 54 5 39 164 138 246 1.78e-16 77.0
MsaG000359 AT2G37430.1 37.037 135 61 4 32 162 2 116 1.72e-15 72.4
MsaG000359 AT3G46090.1 34.848 132 59 3 38 169 11 115 4.98e-15 70.9
MsaG000359 AT1G02030.1 43.373 83 36 2 80 162 160 231 1.72e-14 71.2
MsaG000359 AT2G17180.1 30.303 165 77 5 39 198 121 252 2.62e-14 70.9
MsaG000359 AT3G53600.1 30.409 171 91 6 32 196 2 150 5.35e-14 68.2
MsaG000359 AT2G28710.1 35.000 120 45 3 43 162 14 100 5.50e-14 67.8
MsaG000359 AT3G10470.1 31.111 180 68 4 39 162 104 283 4.45e-13 68.2
MsaG000359 AT3G46080.1 43.023 86 37 2 77 162 34 107 5.32e-13 65.5
MsaG000359 AT5G61470.1 40.000 85 35 2 80 163 228 297 2.19e-12 65.9
MsaG000359 AT5G59820.1 32.836 134 56 6 46 176 18 120 9.55e-12 62.0
MsaG000359 AT3G46070.1 35.870 92 49 2 71 162 27 108 4.95e-11 60.1

Find 58 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGTTCATCGAAGGTGAATTT+AGG 0.257514 1:+4841913 None:intergenic
CGTTTAGTCCATGGAAGATT+TGG 0.286174 1:+4841892 None:intergenic
AAAATTCGGAATTTCAATCT+TGG 0.317164 1:+4841267 None:intergenic
AGAACATTTGTAACTGAGTT+TGG 0.333314 1:+4841726 None:intergenic
CCGGAGTTTGCTAATAAGAT+TGG 0.334097 1:-4841355 MsaT000359.1:CDS
ATTATTCATCACTGAAAATT+CGG 0.339013 1:+4841253 None:intergenic
TTGTCAATGGTTGTTGGTGG+TGG 0.368111 1:+4841760 None:intergenic
TTTCCGACAGGACAAGCTTT+GGG 0.386450 1:-4841508 MsaT000359.1:CDS
AAATTCGGAATTTCAATCTT+GGG 0.411878 1:+4841268 None:intergenic
TCTGAATATCCCGGCTTATC+CGG 0.414206 1:-4841374 MsaT000359.1:CDS
AACTCCGTCGGTGGCGGTGT+TGG 0.416768 1:-4841640 MsaT000359.1:CDS
GTTTCCGACAGGACAAGCTT+TGG 0.428305 1:-4841509 MsaT000359.1:CDS
GATTCAAAGGCTTGAAATCA+TGG 0.448405 1:+4841782 None:intergenic
TTCTTCATCATCACAGGATG+AGG 0.458403 1:+4841313 None:intergenic
TTGTTGTTGTCAATGGTTGT+TGG 0.473433 1:+4841754 None:intergenic
AATTTAGGAGTAGTAGAAGT+GGG 0.488875 1:+4841928 None:intergenic
GCTTTCTTCTTCATCATCAC+AGG 0.490449 1:+4841307 None:intergenic
TTAGCAAACTCCGGATAAGC+CGG 0.495798 1:+4841364 None:intergenic
GAATTTAGGAGTAGTAGAAG+TGG 0.499359 1:+4841927 None:intergenic
ATGAGTGTTCGATTTGTCAT+AGG 0.501927 1:-4841534 MsaT000359.1:CDS
ACTTGCTTTGTGTCCACCGA+GGG 0.502207 1:+4841672 None:intergenic
GTCGGTGGCGGTGTTGGTGT+TGG 0.503000 1:-4841634 MsaT000359.1:CDS
TGTCATAGGTCGTTTCCGAC+AGG 0.511441 1:-4841520 MsaT000359.1:CDS
TTGTTGTCAATGGTTGTTGG+TGG 0.511574 1:+4841757 None:intergenic
ACTAGCTCAGCCAACACAAA+TGG 0.523272 1:-4841574 MsaT000359.1:CDS
GAACGTTTACGTTTAGTCCA+TGG 0.526324 1:+4841883 None:intergenic
GTGGCAGCTGAGGAAGTTGA+TGG 0.530856 1:+4841598 None:intergenic
GGTGGCGGTGTTGGTGTTGG+TGG 0.533807 1:-4841631 MsaT000359.1:CDS
GTTGTTGGTGGTGGATTCAA+AGG 0.535966 1:+4841769 None:intergenic
TGTCACTACGAAGGTGTTGT+TGG 0.546239 1:-4841472 MsaT000359.1:CDS
TCGATGAACCAAATCTTCCA+TGG 0.550148 1:-4841900 MsaT000359.1:CDS
CCAATCTTATTAGCAAACTC+CGG 0.554584 1:+4841355 None:intergenic
CCACCCAAAGCTTGTCCTGT+CGG 0.557784 1:+4841505 None:intergenic
AACACCGCCACCATTTGTGT+TGG 0.558339 1:+4841564 None:intergenic
CACTACGAAGGTGTTGTTGG+TGG 0.560111 1:-4841469 MsaT000359.1:CDS
TACGAAGGTGTTGTTGGTGG+TGG 0.560220 1:-4841466 MsaT000359.1:CDS
ATTTGTGTTGGCTGAGCTAG+TGG 0.572839 1:+4841576 None:intergenic
TGAGCTAGTGGTGGCAGCTG+AGG 0.573892 1:+4841588 None:intergenic
TGATTTCGATCTGAATATCC+CGG 0.576158 1:-4841383 MsaT000359.1:CDS
CCGACAGGACAAGCTTTGGG+TGG 0.581171 1:-4841505 MsaT000359.1:CDS
TGAAATCATGGCGGTTGGTG+TGG 0.583151 1:+4841794 None:intergenic
TAGCAAACTCCGGATAAGCC+GGG 0.583949 1:+4841365 None:intergenic
AGGCTTGAAATCATGGCGGT+TGG 0.583949 1:+4841789 None:intergenic
TCTGCTATAACTGTCTCTGA+AGG 0.590024 1:-4841433 MsaT000359.1:CDS
TGTCTCATCATGCTCGCTCG+TGG 0.591916 1:-4841817 MsaT000359.1:CDS
TATAACTGTCTCTGAAGGTG+TGG 0.592472 1:-4841428 MsaT000359.1:CDS
TGGAAGATTTGGTTCATCGA+AGG 0.595055 1:+4841903 None:intergenic
AACACCAACACCGCCACCGA+CGG 0.603987 1:+4841636 None:intergenic
ATAACTGTCTCTGAAGGTGT+GGG 0.609017 1:-4841427 MsaT000359.1:CDS
GACTTGCTTTGTGTCCACCG+AGG 0.621099 1:+4841671 None:intergenic
AGCTCAGCCAACACAAATGG+TGG 0.632953 1:-4841571 MsaT000359.1:CDS
TCTTCTTATCAAGCCCTCGG+TGG 0.636904 1:-4841685 MsaT000359.1:CDS
TGTGTTGGCTGAGCTAGTGG+TGG 0.642248 1:+4841579 None:intergenic
TCAGCCAACACAAATGGTGG+CGG 0.646784 1:-4841568 MsaT000359.1:CDS
ATCACGTTGATGACTATGTG+TGG 0.647702 1:+4841402 None:intergenic
TGGCAGCTGAGGAAGTTGAT+GGG 0.673304 1:+4841599 None:intergenic
CACAAACGTTGTCACTACGA+AGG 0.683725 1:-4841481 MsaT000359.1:CDS
TCAAAGGCTTGAAATCATGG+CGG 0.753429 1:+4841785 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 4841261 4841974 4841261 ID=MsaG000359
Chr1 mRNA 4841261 4841974 4841261 ID=MsaT000359.1;Parent=MsaG000359
Chr1 exon 4841261 4841974 4841261 ID=MsaT000359.1.exon1;Parent=MsaT000359.1
Chr1 CDS 4841261 4841974 4841261 ID=cds.MsaT000359.1;Parent=MsaT000359.1
Gene Sequence

>MsaT000359.1

ATGGCTCTTGAAGCACTTAACTCACCCACTTCTACTACTCCTAAATTCACCTTCGATGAACCAAATCTTCCATGGACTAAACGTAAACGTTCTAAACGTTCACGTTCATGCACTGAAGAAGAGTATCTTGCTCTCTGTCTCATCATGCTCGCTCGTGGCCACACCAACCGCCATGATTTCAAGCCTTTGAATCCACCACCAACAACCATTGACAACAACAACAACACCAAACTCAGTTACAAATGTTCTGTCTGTAACAAAGAGTTTTCTTCTTATCAAGCCCTCGGTGGACACAAAGCAAGTCACCGCAAAAACTCCGTCGGTGGCGGTGTTGGTGTTGGTGGTGATGATCACCCATCAACTTCCTCAGCTGCCACCACTAGCTCAGCCAACACAAATGGTGGCGGTGTTAGATCTCATGAGTGTTCGATTTGTCATAGGTCGTTTCCGACAGGACAAGCTTTGGGTGGACACAAACGTTGTCACTACGAAGGTGTTGTTGGTGGTGGTGCTTCTGCTTCTGCTATAACTGTCTCTGAAGGTGTGGGATCCACACATAGTCATCAACGTGATTTCGATCTGAATATCCCGGCTTATCCGGAGTTTGCTAATAAGATTGGAGAAGATGAAGTTGAAAGTCCTCATCCTGTGATGATGAAGAAGAAAGCTCGTGTTTTCTTGGTGCCCAAGATTGAAATTCCGAATTTTCAGTGA

Protein sequence

>MsaT000359.1

MALEALNSPTSTTPKFTFDEPNLPWTKRKRSKRSRSCTEEEYLALCLIMLARGHTNRHDFKPLNPPPTTIDNNNNTKLSYKCSVCNKEFSSYQALGGHKASHRKNSVGGGVGVGGDDHPSTSSAATTSSANTNGGGVRSHECSICHRSFPTGQALGGHKRCHYEGVVGGGASASAITVSEGVGSTHSHQRDFDLNIPAYPEFANKIGEDEVESPHPVMMKKKARVFLVPKIEIPNFQ*