AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG006662

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006662 MtrunA17_Chr2g0283871 94.624 186 10 0 1 186 1 186 1.45e-132 376
MsaG006662 MtrunA17_Chr2g0283871 98.413 63 1 0 182 244 250 312 1.15e-35 129
MsaG006662 MtrunA17_Chr4g0041151 50.714 280 80 6 19 245 27 301 1.26e-77 236
MsaG006662 MtrunA17_Chr8g0344681 40.794 277 109 6 19 241 64 339 3.44e-49 166
MsaG006662 MtrunA17_Chr2g0325841 44.776 134 70 3 11 144 34 163 6.93e-29 114
MsaG006662 MtrunA17_Chr6g0485241 28.384 229 139 7 23 236 130 348 3.36e-26 104
MsaG006662 MtrunA17_Chr2g0331931 31.799 239 140 7 14 237 263 493 1.15e-24 102
MsaG006662 MtrunA17_Chr1g0179531 37.624 101 57 3 23 122 133 228 3.64e-17 80.5
MsaG006662 MtrunA17_Chr1g0164461 36.735 98 55 2 18 115 33 123 2.19e-14 69.3
MsaG006662 MtrunA17_Chr3g0082261 37.755 98 54 2 18 115 33 123 6.64e-14 70.1
MsaG006662 MtrunA17_Chr5g0402321 23.529 221 134 8 23 232 22 218 2.44e-12 64.7
MsaG006662 MtrunA17_Chr4g0066271 31.915 94 62 2 22 114 116 208 2.91e-12 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006662 AT3G58630.2 42.384 302 99 7 3 237 2 295 4.17e-63 200
MsaG006662 AT3G58630.1 42.333 300 102 6 3 237 2 295 7.10e-63 199
MsaG006662 AT5G05550.1 43.388 242 110 6 19 248 20 246 6.30e-50 164
MsaG006662 AT5G05550.3 44.635 233 102 6 19 239 20 237 8.55e-50 164
MsaG006662 AT5G05550.2 44.635 233 102 6 19 239 20 237 1.45e-49 163
MsaG006662 AT3G11100.1 41.880 234 112 5 19 239 18 240 6.05e-47 156
MsaG006662 AT3G14180.1 50.000 126 58 3 19 142 80 202 2.64e-35 130
MsaG006662 AT3G14180.1 46.970 66 33 1 184 247 356 421 2.41e-12 66.6
MsaG006662 AT3G24490.1 30.317 221 139 4 23 236 90 302 1.48e-27 108
MsaG006662 AT1G54060.1 51.020 98 44 2 19 116 90 183 1.20e-21 92.8
MsaG006662 AT3G10030.1 35.433 127 74 3 23 145 161 283 2.50e-20 90.1
MsaG006662 AT3G10030.2 35.433 127 74 3 23 145 161 283 2.57e-20 90.1
MsaG006662 AT3G54390.1 26.071 280 137 10 5 235 16 274 1.91e-19 85.9
MsaG006662 AT3G54390.2 26.786 280 135 11 5 235 32 290 2.00e-19 85.9
MsaG006662 AT2G44730.1 32.979 94 61 2 22 114 63 155 4.81e-11 62.4

Find 63 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAGAGGATGCAGATGTTTA+TGG 0.218617 2:-8201933 MsaT006662.1:CDS
CATCGGAAATTTGCTAATTC+TGG 0.236718 2:-8202361 MsaT006662.1:CDS
ACTGAGGCAGATGGTGGATT+TGG 0.320650 2:-8201993 MsaT006662.1:CDS
AACTTCTTAGCACTGAAATT+AGG 0.324747 2:+8202445 None:intergenic
TTCCACTCTCGTCGATGCAT+GGG 0.378747 2:-8202710 MsaT006662.1:CDS
GACCAACAATCCTCGCGAAC+GGG 0.390355 2:+8202745 None:intergenic
CTTCCACTCTCGTCGATGCA+TGG 0.395037 2:-8202711 MsaT006662.1:CDS
GTGGAATGTACCGCAATTGC+AGG 0.408758 2:+8202325 None:intergenic
GCGAAGGCGATAGAGAGTTT+TGG 0.411580 2:-8202046 MsaT006662.1:intron
ATTAAGCGTGGAAAACCATC+TGG 0.413416 2:-8201887 MsaT006662.1:CDS
ATCAATTTCTTCACCGGTGG+CGG 0.426236 2:-8202422 MsaT006662.1:CDS
AAAGAATCGTGGTGAAAATC+CGG 0.442007 2:+8202790 None:intergenic
GGAAAACCATCTGGGTCTAA+TGG 0.443061 2:-8201878 MsaT006662.1:intron
GTAATCTTCGTCAGAAAGAT+TGG 0.446554 2:-8202660 MsaT006662.1:CDS
TCCCCGTTCGCGAGGATTGT+TGG 0.451755 2:-8202747 MsaT006662.1:CDS
GGCGGTGACACCGTCGCCTC+CGG 0.452209 2:-8202404 MsaT006662.1:CDS
GAAGTTATCAATTTCTTCAC+CGG 0.471334 2:-8202428 MsaT006662.1:CDS
GATGCTGTTAACGCTCTTCA+TGG 0.472381 2:-8202625 MsaT006662.1:CDS
GCTAGGGTTACGGAATCTAA+TGG 0.474097 2:-8202520 MsaT006662.1:CDS
TATGGATACTCAAGTTCAGC+TGG 0.498348 2:-8201915 MsaT006662.1:CDS
CGGAAATTTGCTAATTCTGG+TGG 0.506455 2:-8202358 MsaT006662.1:CDS
CTCTTCCGTTGATTCCTCAT+CGG 0.506683 2:-8202378 MsaT006662.1:CDS
CGTGGCTGCGGCTACTGCTA+CGG 0.507470 2:-8202266 MsaT006662.1:intron
GGCGACGGTGTCACCGCCAC+CGG 0.524853 2:+8202409 None:intergenic
GAATTATTCTGCCGTGGCTG+CGG 0.538446 2:-8202278 MsaT006662.1:CDS
TGGTGAAATGTATGAGAGAG+TGG 0.540008 2:-8202026 MsaT006662.1:CDS
GGAAGAGCCACCGGAGGCGA+CGG 0.553904 2:+8202394 None:intergenic
ACAATCCTCGCGAACGGGGA+CGG 0.571999 2:+8202750 None:intergenic
TCGTCGATGCATGGGGTCGT+CGG 0.574131 2:-8202702 MsaT006662.1:CDS
CGTAGCAGTAGCCGCAGCCA+CGG 0.576525 2:+8202267 None:intergenic
TGACCAACAATCCTCGCGAA+CGG 0.577799 2:+8202744 None:intergenic
CTAAAGATCTTGAAGTGCAG+AGG 0.579375 2:-8201949 MsaT006662.1:CDS
GGAATCAACGGAAGAGCCAC+CGG 0.582868 2:+8202385 None:intergenic
ATCTCACCATTAGACCCAGA+TGG 0.584691 2:+8201872 None:intergenic
TTATTCATCACCTGCAATTG+CGG 0.591019 2:-8202335 MsaT006662.1:CDS
CGAACGGGGACGGTGCGTGA+CGG 0.602447 2:+8202760 None:intergenic
GCAGAATAATTCCTCTTCTG+AGG 0.603793 2:+8202289 None:intergenic
TGGTGGATTTGGAGAAACAA+AGG 0.604782 2:-8201982 MsaT006662.1:CDS
ACGGGGACGGTGCGTGACGG+TGG 0.605580 2:+8202763 None:intergenic
ACCCCATGCATCGACGAGAG+TGG 0.606737 2:+8202708 None:intergenic
ACGCACCGTCCCCGTTCGCG+AGG 0.609985 2:-8202755 MsaT006662.1:CDS
GAAGAGGAATTATTCTGCCG+TGG 0.613185 2:-8202284 MsaT006662.1:CDS
TCGTGGTGAAAATCCGGCAT+CGG 0.613818 2:+8202796 None:intergenic
ACAGAAACTGAGGCAGATGG+TGG 0.614677 2:-8201999 MsaT006662.1:CDS
GGTGACACCGTCGCCTCCGG+TGG 0.615400 2:-8202401 MsaT006662.1:CDS
AATTTCCGATGAGGAATCAA+CGG 0.616061 2:+8202373 None:intergenic
CGGTGGCGTTACCTCAGAAG+AGG 0.617929 2:-8202300 MsaT006662.1:CDS
GTTATCAATTTCTTCACCGG+TGG 0.628483 2:-8202425 MsaT006662.1:CDS
GAGTGGAAGAACAGAAACTG+AGG 0.631673 2:-8202009 MsaT006662.1:CDS
AGAACAGAAACTGAGGCAGA+TGG 0.635950 2:-8202002 MsaT006662.1:CDS
TCCACTCTCGTCGATGCATG+GGG 0.638750 2:-8202709 MsaT006662.1:CDS
TGCGGTACATTCCACCGCGG+TGG 0.640964 2:-8202317 MsaT006662.1:CDS
GAATTAGCAAATTTCCGATG+AGG 0.643473 2:+8202364 None:intergenic
CTGAGGTAACGCCACCGCGG+TGG 0.646102 2:+8202306 None:intergenic
TTAAGCGTGGAAAACCATCT+GGG 0.647441 2:-8201886 MsaT006662.1:CDS
ATCAACGGAAGAGCCACCGG+AGG 0.652573 2:+8202388 None:intergenic
ACCAACAATCCTCGCGAACG+GGG 0.660501 2:+8202746 None:intergenic
CTTTCTGACGAAGATTACCA+CGG 0.666897 2:+8202665 None:intergenic
CGGTATCTTGAACTCAACCG+TGG 0.727584 2:-8202682 MsaT006662.1:CDS
CAGCTGGAGAGAATTAAGCG+TGG 0.736726 2:-8201899 MsaT006662.1:CDS
CTTCTGAGGTAACGCCACCG+CGG 0.741340 2:+8202303 None:intergenic
ACGGTGGTGTGAAAGAATCG+TGG 0.749435 2:+8202779 None:intergenic
AATTGCGGTACATTCCACCG+CGG 0.821763 2:-8202320 MsaT006662.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 8201802 8202815 8201802 ID=MsaG006662
Chr2 mRNA 8201802 8202815 8201802 ID=MsaT006662.1;Parent=MsaG006662
Chr2 exon 8201802 8201821 8201802 ID=MsaT006662.1.exon3;Parent=MsaT006662.1
Chr2 CDS 8201802 8201821 8201802 ID=cds.MsaT006662.1;Parent=MsaT006662.1
Chr2 exon 8201879 8202062 8201879 ID=MsaT006662.1.exon2;Parent=MsaT006662.1
Chr2 CDS 8201879 8202062 8201879 ID=cds.MsaT006662.1;Parent=MsaT006662.1
Chr2 exon 8202267 8202815 8202267 ID=MsaT006662.1.exon1;Parent=MsaT006662.1
Chr2 CDS 8202267 8202815 8202267 ID=cds.MsaT006662.1;Parent=MsaT006662.1
Gene Sequence

>MsaT006662.1

ATGCCGGATTTTCACCACGATTCTTTCACACCACCGTCACGCACCGTCCCCGTTCGCGAGGATTGTTGGTCAGAAGAAGCTTCTTCCACTCTCGTCGATGCATGGGGTCGTCGGTATCTTGAACTCAACCGTGGTAATCTTCGTCAGAAAGATTGGCAAGATGTTGCTGATGCTGTTAACGCTCTTCATGGTCATACCAAGAAAACTCATCGCACAGATGTTCAGTGTAAGAATCGAATCGATACGATTAAGAAAAAGTATAAGGTTGAAAAAGCTAGGGTTACGGAATCTAATGGTGTTTTGAATTCTAATTGGCCTTTTTTTGAACGGTTAGATGTTTTGATTGGACCTAATTTCAGTGCTAAGAAGTTATCAATTTCTTCACCGGTGGCGGTGACACCGTCGCCTCCGGTGGCTCTTCCGTTGATTCCTCATCGGAAATTTGCTAATTCTGGTGGTTATTCATCACCTGCAATTGCGGTACATTCCACCGCGGTGGCGTTACCTCAGAAGAGGAATTATTCTGCCGTGGCTGCGGCTACTGCTACGGCGATAGAGAGTTTTGGTGAAATGTATGAGAGAGTGGAAGAACAGAAACTGAGGCAGATGGTGGATTTGGAGAAACAAAGGATGCAGTTTGCTAAAGATCTTGAAGTGCAGAGGATGCAGATGTTTATGGATACTCAAGTTCAGCTGGAGAGAATTAAGCGTGGAAAACCATCTGGGTCTAATGCTTGTGATTTGATAATTTAA
Protein sequence

>MsaT006662.1

MPDFHHDSFTPPSRTVPVREDCWSEEASSTLVDAWGRRYLELNRGNLRQKDWQDVADAVNALHGHTKKTHRTDVQCKNRIDTIKKKYKVEKARVTESNGVLNSNWPFFERLDVLIGPNFSAKKLSISSPVAVTPSPPVALPLIPHRKFANSGGYSSPAIAVHSTAVALPQKRNYSAVAAATATAIESFGEMYERVEEQKLRQMVDLEKQRMQFAKDLEVQRMQMFMDTQVQLERIKRGKPSGSNACDLII*