AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG017025

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017025 MtrunA17_Chr3g0135351 94.604 278 13 1 1 276 1 278 0.0 545
MsaG017025 MtrunA17_Chr8g0389561 44.479 326 107 9 24 276 52 376 1.61e-76 237
MsaG017025 MtrunA17_Chr6g0487481 44.918 305 112 9 23 275 76 376 3.48e-74 231
MsaG017025 MtrunA17_Chr4g0040391 67.890 109 34 1 49 157 56 163 2.95e-53 175
MsaG017025 MtrunA17_Chr7g0257831 61.029 136 49 2 43 175 254 388 7.09e-53 183
MsaG017025 MtrunA17_Chr5g0430211 57.664 137 51 2 43 173 220 355 4.15e-52 181
MsaG017025 MtrunA17_Chr2g0324781 69.524 105 31 1 53 157 77 180 1.12e-51 174
MsaG017025 MtrunA17_Chr3g0088521 48.876 178 76 5 43 219 254 417 2.78e-49 173
MsaG017025 MtrunA17_Chr3g0113651 49.704 169 81 2 16 181 126 293 2.83e-49 170
MsaG017025 MtrunA17_Chr5g0437251 64.035 114 40 1 43 156 207 319 4.37e-48 169
MsaG017025 MtrunA17_Chr1g0187591 59.690 129 50 2 43 171 219 345 4.94e-47 166
MsaG017025 MtrunA17_Chr3g0092221 50.318 157 63 5 32 175 130 284 3.74e-46 159
MsaG017025 MtrunA17_Chr1g0171151 60.550 109 42 1 48 156 239 346 2.89e-45 160
MsaG017025 MtrunA17_Chr3g0092171 37.398 246 138 6 43 276 265 506 1.72e-44 157
MsaG017025 MtrunA17_Chr3g0105141 55.738 122 52 2 43 163 26 146 7.30e-44 146
MsaG017025 MtrunA17_Chr3g0105121 44.231 156 83 2 52 207 8 159 1.19e-39 141
MsaG017025 MtrunA17_Chr3g0105131 36.979 192 76 4 39 202 157 331 1.65e-32 124
MsaG017025 MtrunA17_Chr3g0105101 45.270 148 45 4 39 177 166 286 7.19e-30 116
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017025 AT4G29190.1 46.181 288 99 10 43 275 69 355 1.26e-69 219
MsaG017025 AT2G19810.1 41.411 326 130 9 10 275 34 358 3.79e-69 218
MsaG017025 AT2G25900.2 47.863 234 88 6 49 255 86 312 6.75e-65 206
MsaG017025 AT2G25900.1 47.863 234 88 6 49 255 86 312 6.75e-65 206
MsaG017025 AT1G03790.1 51.205 166 78 1 12 177 44 206 2.65e-56 186
MsaG017025 AT5G44260.1 63.636 121 41 1 37 157 47 164 1.27e-53 179
MsaG017025 AT2G40140.2 52.247 178 69 3 43 207 204 378 3.28e-52 179
MsaG017025 AT2G40140.1 52.247 178 69 3 43 207 204 378 3.28e-52 179
MsaG017025 AT2G41900.1 61.654 133 49 2 43 175 251 381 1.48e-51 179
MsaG017025 AT5G58620.1 63.158 114 41 1 43 156 199 311 4.48e-50 174
MsaG017025 AT5G12850.1 62.281 114 42 1 43 156 247 359 7.34e-50 175
MsaG017025 AT3G55980.1 55.147 136 60 1 43 178 201 335 7.90e-49 170
MsaG017025 AT3G55980.2 55.147 136 60 1 43 178 268 402 3.07e-48 169
MsaG017025 AT5G07500.1 61.261 111 42 1 48 158 47 156 8.40e-48 159

Find 80 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATTGTGTTGTGTTCCATTC+AGG 0.185975 3:-105012416 None:intergenic
GCCAAAATCTATGCAAAATT+TGG 0.227605 3:+105013121 MsaT017025.1:CDS
TTGGCTTCATGAGGAGTGTT+AGG 0.270195 3:+105012969 MsaT017025.1:CDS
TGCCCGGAGTTTCGCAAATT+AGG 0.270671 3:+105012683 MsaT017025.1:CDS
TCTCAGATGGGTTCTGTGTT+TGG 0.301160 3:+105013013 MsaT017025.1:CDS
TCGGTCCCTATTCCTGATAT+TGG 0.325287 3:+105013172 MsaT017025.1:CDS
GTAACGACGGAACCCTTTGC+CGG 0.351954 3:+105012792 MsaT017025.1:CDS
AAACTATGAAGGGGTTTCTA+TGG 0.361016 3:+105013069 MsaT017025.1:CDS
TCCGCAACCCATCCAATATC+AGG 0.361209 3:-105013184 None:intergenic
TGAATTCGAACATTCGGAAT+TGG 0.372764 3:-105012544 None:intergenic
GGAGATGAAACAAATGATTC+TGG 0.374623 3:-105012875 None:intergenic
AAACTCCGGGCAAGGATTGC+CGG 0.383876 3:-105012672 None:intergenic
ACCCATCCAATATCAGGAAT+AGG 0.409750 3:-105013178 None:intergenic
TGGCTTCATGAGGAGTGTTA+GGG 0.417289 3:+105012970 MsaT017025.1:CDS
GAAACCCCTTCATAGTTTGA+TGG 0.429345 3:-105013064 None:intergenic
ATTGTGTTGTGTTCCATTCA+GGG 0.430094 3:-105012415 None:intergenic
CCCATCCAATATCAGGAATA+GGG 0.437178 3:-105013177 None:intergenic
TCCCTATTCCTGATATTGGA+TGG 0.439014 3:+105013176 MsaT017025.1:CDS
CTATGTCATTTGAAATGAAA+TGG 0.449117 3:-105012460 None:intergenic
TCTGTGTTTGGTTCTCCACC+AGG 0.450591 3:+105013025 MsaT017025.1:CDS
GAACTTTGAATTCGAACATT+CGG 0.452223 3:-105012550 None:intergenic
TCTATGGAGAGGGTGGAATC+AGG 0.458742 3:+105013085 MsaT017025.1:CDS
CTTAAACGATGGTGTTGCTT+CGG 0.462081 3:+105013153 MsaT017025.1:CDS
AGCAAACTCGTCGCCGGCAA+AGG 0.462993 3:-105012805 None:intergenic
AGTCTTCCATCAAACTATGA+AGG 0.470405 3:+105013058 MsaT017025.1:CDS
GATTCTTGCCACTTTGCTCA+TGG 0.472931 3:+105012722 MsaT017025.1:CDS
TCCTGATATTGGATGGGTTG+CGG 0.482606 3:+105013183 MsaT017025.1:CDS
CCCTATTCCTGATATTGGAT+GGG 0.486365 3:+105013177 MsaT017025.1:CDS
TGTCCTAATTTGCGAAACTC+CGG 0.493268 3:-105012686 None:intergenic
ACCTCGATACGGTGTCCCTC+CGG 0.499369 3:+105012928 MsaT017025.1:CDS
GGAGAATCAAGAACTGAAGT+AGG 0.502308 3:-105012896 None:intergenic
GTCATTTGAAATGAAATGGT+TGG 0.505715 3:-105012456 None:intergenic
GCAAACTCGTCGCCGGCAAA+GGG 0.507995 3:-105012804 None:intergenic
GAAATGAAATGGTTGGAGAA+TGG 0.518175 3:-105012449 None:intergenic
ACTAATTCCCTCACGTTCAC+CGG 0.518657 3:-105012947 None:intergenic
TGAGACACGGAGTTGATCAA+TGG 0.519658 3:-105012840 None:intergenic
CTACTCCGGCAATCCTTGCC+CGG 0.523473 3:+105012667 MsaT017025.1:CDS
ACAGAACCCATCTGAGATAC+CGG 0.527743 3:-105013007 None:intergenic
ACAAAGCTGAGTTCTGTAAC+GGG 0.529200 3:-105012771 None:intergenic
ATGAAGGGGTTTCTATGGAG+AGG 0.530332 3:+105013074 MsaT017025.1:CDS
AAAGTGGCAAGAATCACCTT+TGG 0.537660 3:-105012714 None:intergenic
ATGGAGTCCGGTATCTCAGA+TGG 0.538705 3:+105013000 MsaT017025.1:CDS
GTCCTAATTTGCGAAACTCC+GGG 0.542282 3:-105012685 None:intergenic
GTCTTCCATCAAACTATGAA+GGG 0.551277 3:+105013059 MsaT017025.1:CDS
CAAACCTTAAAATCCCTGAA+TGG 0.551949 3:+105012402 MsaT017025.1:CDS
GGGAATTAGTTGGCTTCATG+AGG 0.558865 3:+105012960 MsaT017025.1:CDS
AATTTGCGAAACTCCGGGCA+AGG 0.560424 3:-105012680 None:intergenic
ATTGGTCTGTTGAGAAAACA+TGG 0.569270 3:-105012526 None:intergenic
ACACCGTATCGAGGTTTCCT+CGG 0.574430 3:-105012920 None:intergenic
TAGGGTTGATGAATGGAGTC+CGG 0.576489 3:+105012988 MsaT017025.1:CDS
TACAAAGCTGAGTTCTGTAA+CGG 0.577054 3:-105012772 None:intergenic
AGGGGTTTCTATGGAGAGGG+TGG 0.581223 3:+105013078 MsaT017025.1:CDS
GTGTCCCTCCGGTGAACGTG+AGG 0.581697 3:+105012939 MsaT017025.1:CDS
CAAAGAAGCAAACTCGTCGC+CGG 0.584023 3:-105012811 None:intergenic
GGTAGATTGAACTTAAACGA+TGG 0.584454 3:+105013142 MsaT017025.1:CDS
GTGAACGTGAGGGAATTAGT+TGG 0.588119 3:+105012950 MsaT017025.1:CDS
AACGTGGTAGGTCTCATGAC+TGG 0.591872 3:+105012582 MsaT017025.1:CDS
TCTGTTGAGAAAACATGGAT+TGG 0.594271 3:-105012521 None:intergenic
GGAGTGTTAGGGTTGATGAA+TGG 0.595988 3:+105012981 MsaT017025.1:CDS
AAATTAGGACACTGCACCAA+AGG 0.596122 3:+105012698 MsaT017025.1:CDS
TTCGAAAATGCCAACGTGGT+AGG 0.602152 3:+105012570 MsaT017025.1:CDS
AGCTGAGTTCTGTAACGGGA+AGG 0.612629 3:-105012767 None:intergenic
GTGTTTGGTTCTCCACCAGG+TGG 0.617183 3:+105013028 MsaT017025.1:CDS
TGGAGTCCGGTATCTCAGAT+GGG 0.620816 3:+105013001 MsaT017025.1:CDS
TCTTCCATCAAACTATGAAG+GGG 0.627249 3:+105013060 MsaT017025.1:CDS
ATTCCCTCACGTTCACCGGA+GGG 0.629594 3:-105012943 None:intergenic
CCTCCGAGGAAACCTCGATA+CGG 0.630315 3:+105012917 MsaT017025.1:CDS
AGAACTCAGCTTTGTAACGA+CGG 0.632022 3:+105012779 MsaT017025.1:CDS
GTGAAGCGTTATTTGAGACA+CGG 0.632246 3:-105012853 None:intergenic
CAGTTCTTGATTCTCCTCCG+AGG 0.634516 3:+105012903 MsaT017025.1:CDS
AATTCCCTCACGTTCACCGG+AGG 0.638441 3:-105012944 None:intergenic
GATTGTCCATACTCTCATCC+CGG 0.639508 3:+105012608 MsaT017025.1:CDS
TGAAGGGGTTTCTATGGAGA+GGG 0.646493 3:+105013075 MsaT017025.1:CDS
TGTCCCTCCGGTGAACGTGA+GGG 0.657063 3:+105012940 MsaT017025.1:CDS
TGGTAGGTCTCATGACTGGA+CGG 0.659097 3:+105012586 MsaT017025.1:CDS
ACCGGAGGGACACCGTATCG+AGG 0.671631 3:-105012929 None:intergenic
AGTCATGAGACCTACCACGT+TGG 0.672854 3:-105012580 None:intergenic
ATGGAACACAACACAATACG+AGG 0.674097 3:+105012421 MsaT017025.1:CDS
CCGTATCGAGGTTTCCTCGG+AGG 0.710192 3:-105012917 None:intergenic
AAAGTTCGAAAATGCCAACG+TGG 0.760484 3:+105012566 MsaT017025.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 105012389 105013219 105012389 ID=MsaG017025
Chr3 mRNA 105012389 105013219 105012389 ID=MsaT017025.1;Parent=MsaG017025
Chr3 exon 105012389 105013219 105012389 ID=MsaT017025.1.exon1;Parent=MsaT017025.1
Chr3 CDS 105012389 105013219 105012389 ID=cds.MsaT017025.1;Parent=MsaT017025.1
Gene Sequence

>MsaT017025.1

ATGATCAAAATTCCAAACCTTAAAATCCCTGAATGGAACACAACACAATACGAGGAAGTACCATTCTCCAACCATTTCATTTCAAATGACATAGACACACATGCTTCATGCATGACTGAAGATTTCGACTTACCAATCCATGTTTTCTCAACAGACCAATTCCGAATGTTCGAATTCAAAGTTCGAAAATGCCAACGTGGTAGGTCTCATGACTGGACGGATTGTCCATACTCTCATCCCGGCGAAAAAGCTCGCCGGAGAGACCCTCAAAAATACAACTACTCCGGCAATCCTTGCCCGGAGTTTCGCAAATTAGGACACTGCACCAAAGGTGATTCTTGCCACTTTGCTCATGGTGTTTTTGAATGCTGGCTTCATCCTTCCCGTTACAGAACTCAGCTTTGTAACGACGGAACCCTTTGCCGGCGACGAGTTTGCTTCTTTGCTCATACCATTGATCAACTCCGTGTCTCAAATAACGCTTCACCAGAATCATTTGTTTCATCTCCTACTTCAGTTCTTGATTCTCCTCCGAGGAAACCTCGATACGGTGTCCCTCCGGTGAACGTGAGGGAATTAGTTGGCTTCATGAGGAGTGTTAGGGTTGATGAATGGAGTCCGGTATCTCAGATGGGTTCTGTGTTTGGTTCTCCACCAGGTGGTTTTTTGAGTCTTCCATCAAACTATGAAGGGGTTTCTATGGAGAGGGTGGAATCAGGAAGAGATCTTAGAGCCAAAATCTATGCAAAATTTGGTAGATTGAACTTAAACGATGGTGTTGCTTCGGTCCCTATTCCTGATATTGGATGGGTTGCGGAACTTGTTAACTGA
Protein sequence

>MsaT017025.1

MIKIPNLKIPEWNTTQYEEVPFSNHFISNDIDTHASCMTEDFDLPIHVFSTDQFRMFEFKVRKCQRGRSHDWTDCPYSHPGEKARRRDPQKYNYSGNPCPEFRKLGHCTKGDSCHFAHGVFECWLHPSRYRTQLCNDGTLCRRRVCFFAHTIDQLRVSNNASPESFVSSPTSVLDSPPRKPRYGVPPVNVRELVGFMRSVRVDEWSPVSQMGSVFGSPPGGFLSLPSNYEGVSMERVESGRDLRAKIYAKFGRLNLNDGVASVPIPDIGWVAELVN*