AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG002181

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002181 MtrunA17_Chr1g0163221 91.118 304 26 1 1 304 1 303 0.0 529
MsaG002181 MtrunA17_Chr4g0067431 64.024 328 90 7 1 304 1 324 1.11e-140 400
MsaG002181 MtrunA17_Chr6g0467351 59.244 238 72 4 1 220 1 231 5.05e-94 278
MsaG002181 MtrunA17_Chr1g0163061 50.943 265 66 4 1 201 1 265 4.07e-67 211
MsaG002181 MtrunA17_Chr1g0163131 32.558 301 174 12 3 284 10 300 8.25e-34 125
MsaG002181 MtrunA17_Chr1g0163071 28.205 312 176 9 27 304 2 299 8.58e-30 115
MsaG002181 MtrunA17_Chr3g0131891 28.966 290 195 7 9 291 17 302 9.82e-30 115
MsaG002181 MtrunA17_Chr6g0467361 66.292 89 26 3 214 299 7 94 1.15e-29 108
MsaG002181 MtrunA17_Chr1g0163181 29.452 292 181 11 15 290 9 291 2.40e-29 116
MsaG002181 MtrunA17_Chr7g0233561 29.371 286 182 8 9 277 16 298 9.31e-29 112
MsaG002181 MtrunA17_Chr3g0103181 28.669 293 176 10 9 291 10 279 1.09e-28 111
MsaG002181 MtrunA17_Chr1g0163251 30.797 276 175 9 20 290 14 278 2.95e-28 112
MsaG002181 MtrunA17_Chr1g0163231 28.674 279 169 7 11 279 9 267 1.31e-27 108
MsaG002181 MtrunA17_Chr1g0163261 29.021 286 184 9 11 290 9 281 2.84e-27 108
MsaG002181 MtrunA17_Chr8g0390841 26.688 311 201 10 9 300 37 339 1.06e-26 109
MsaG002181 MtrunA17_Chr1g0208771 25.517 290 188 8 27 296 13 294 1.11e-26 108
MsaG002181 MtrunA17_Chr3g0103171 29.197 274 171 8 27 291 6 265 2.42e-26 104
MsaG002181 MtrunA17_Chr3g0103191 29.098 244 150 8 9 246 10 236 1.71e-25 102
MsaG002181 MtrunA17_Chr1g0163201 29.537 281 169 9 27 285 19 292 8.86e-25 102
MsaG002181 MtrunA17_Chr7g0233521 29.008 262 161 7 27 277 2 249 1.53e-23 97.4
MsaG002181 MtrunA17_Chr7g0233541 27.820 266 176 5 27 277 2 266 2.87e-23 97.1
MsaG002181 MtrunA17_Chr1g0171611 26.182 275 169 7 11 279 9 255 1.65e-21 92.0
MsaG002181 MtrunA17_Chr7g0233531 26.744 258 172 6 27 277 2 249 9.80e-21 89.7
MsaG002181 MtrunA17_Chr7g0233571 39.130 115 69 1 9 123 8 121 1.18e-20 88.6
MsaG002181 MtrunA17_Chr3g0103151 32.450 151 94 4 9 154 10 157 1.22e-20 86.7
MsaG002181 MtrunA17_Chr1g0163101 34.043 141 78 4 6 135 12 148 6.62e-20 85.5
MsaG002181 MtrunA17_Chr5g0419201 34.731 167 86 6 11 155 16 181 1.48e-19 84.7
MsaG002181 MtrunA17_Chr1g0154161 25.796 314 177 13 9 296 28 311 1.55e-18 84.3
MsaG002181 MtrunA17_Chr1g0163121 35.659 129 69 4 25 143 9 133 5.37e-18 79.3
MsaG002181 MtrunA17_Chr6g0476181 41.026 117 61 5 27 140 2 113 2.05e-17 78.2
MsaG002181 MtrunA17_Chr1g0154131 26.014 296 171 13 9 277 182 456 5.64e-17 80.9
MsaG002181 MtrunA17_Chr1g0163081 31.544 149 79 5 27 165 6 141 1.07e-16 75.5
MsaG002181 MtrunA17_Chr3g0077411 24.068 295 154 8 2 289 16 247 6.20e-16 78.2
MsaG002181 MtrunA17_Chr3g0077411 25.694 288 182 10 9 293 260 518 3.41e-13 69.7
MsaG002181 MtrunA17_Chr1g0163191 40.196 102 58 2 20 121 14 112 1.20e-15 73.2
MsaG002181 MtrunA17_Chr1g0162161 31.544 149 84 5 27 165 4 144 6.41e-15 71.2
MsaG002181 MtrunA17_Chr1g0163241 33.929 112 71 2 27 138 23 131 1.30e-14 70.5
MsaG002181 MtrunA17_Chr5g0429931 27.881 269 152 10 27 291 11 241 1.75e-14 72.0
MsaG002181 MtrunA17_Chr3g0103201 27.897 233 141 9 70 291 4 220 3.83e-14 70.5
MsaG002181 MtrunA17_Chr1g0154191 24.169 331 181 15 9 277 20 342 3.99e-14 72.0
MsaG002181 MtrunA17_Chr3g0077451 25.979 281 137 12 25 291 10 233 4.16e-14 70.5
MsaG002181 MtrunA17_Chr3g0077461 29.775 178 112 4 10 175 236 412 2.41e-13 70.1
MsaG002181 MtrunA17_Chr1g0154151 26.224 286 174 11 26 277 19 301 8.74e-13 67.8
MsaG002181 MtrunA17_Chr1g0163141 32.000 125 72 3 25 140 9 129 4.00e-12 63.9
MsaG002181 MtrunA17_Chr1g0154171 24.138 319 184 13 9 277 21 331 7.27e-12 65.5
MsaG002181 MtrunA17_Chr1g0163161 33.083 133 72 5 39 158 1 129 8.93e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002181 AT3G18990.2 25.723 346 190 11 11 298 6 342 5.25e-21 92.4
MsaG002181 AT3G18990.1 25.000 332 183 9 11 284 6 329 6.90e-21 91.7
MsaG002181 AT3G18960.1 34.653 101 65 1 11 111 30 129 6.88e-15 72.8
MsaG002181 AT3G18960.2 34.653 101 65 1 11 111 30 129 7.97e-15 72.0
MsaG002181 AT4G33280.1 23.549 293 187 6 24 291 36 316 1.09e-14 73.9
MsaG002181 AT1G49475.1 35.135 111 70 2 11 121 34 142 8.68e-14 69.3
MsaG002181 AT4G01580.1 32.673 101 67 1 11 111 30 129 1.28e-13 68.6
MsaG002181 AT3G18960.3 35.294 85 54 1 27 111 9 92 6.83e-11 60.5

Find 35 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTGGAAACCTTAGAGTAAT+TGG 0.167691 1:-33564759 None:intergenic
ATTTATCTTTGTCAACAAAA+AGG 0.196489 1:-33566266 None:intergenic
GAAGAGAATAATTTGAAATT+TGG 0.198679 1:+33566351 MsaT002181.1:CDS
CTCTATCAATGTATGACTTT+TGG 0.220204 1:-33565342 None:intergenic
TATAATTTACCTTCAAAATA+AGG 0.255936 1:-33566462 None:intergenic
AAGTAGTTGTGATGATATTA+AGG 0.299219 1:+33565246 MsaT002181.1:CDS
TTCTTACAAACTTTCATAGA+TGG 0.310675 1:-33565068 None:intergenic
TAACAAACCCAATTACTCTA+AGG 0.340216 1:+33564751 MsaT002181.1:CDS
GTCTTTAATGTGATTGTATT+CGG 0.340889 1:+33564918 MsaT002181.1:CDS
ATTTCAAATTATTCTCTTCA+CGG 0.368199 1:-33566347 None:intergenic
GAGAAAATAACAACTTGAAA+TGG 0.395512 1:-33566417 None:intergenic
TTTCTCTTTGGAAAAGGACT+TGG 0.399841 1:+33566434 MsaT002181.1:CDS
TGTGTCTTAACAAATTCATT+TGG 0.404885 1:-33566210 None:intergenic
CTTCCCTAGTTTCTCTTGAC+GGG 0.422598 1:-33564965 None:intergenic
TGAATTTGTTAAGACACATA+TGG 0.433535 1:+33566215 MsaT002181.1:CDS
TCTTCCCTAGTTTCTCTTGA+CGG 0.433773 1:-33564966 None:intergenic
TTGGAAACCTTAGAGTAATT+GGG 0.442652 1:-33564758 None:intergenic
TGAGAATCCTTCGTCATCAC+GGG 0.459175 1:+33565022 MsaT002181.1:CDS
TACTCTAAGGTTTCCAAACA+TGG 0.467994 1:+33564764 MsaT002181.1:CDS
TTGAGAATCCTTCGTCATCA+CGG 0.526374 1:+33565021 MsaT002181.1:CDS
AATACCCGTCAAGAGAAACT+AGG 0.533719 1:+33564961 MsaT002181.1:CDS
ATACATTGATAGAGATCGCT+TGG 0.539899 1:+33565351 MsaT002181.1:CDS
TTTGTGAAAAGGTATTGGAA+AGG 0.553882 1:+33564726 MsaT002181.1:CDS
AATCTGCACTAACTTGTGGT+TGG 0.573287 1:+33566316 MsaT002181.1:CDS
ATACCCGTCAAGAGAAACTA+GGG 0.582374 1:+33564962 MsaT002181.1:CDS
TAAGACACATATGGACATGA+TGG 0.584937 1:+33566224 MsaT002181.1:CDS
GTGATTGTATTCGGTAGATG+TGG 0.588390 1:+33564927 MsaT002181.1:CDS
AAACAATCTGCACTAACTTG+TGG 0.589005 1:+33566312 MsaT002181.1:CDS
ATGTCTTCTCAAGAGAGTAA+TGG 0.609709 1:+33564295 MsaT002181.1:CDS
GAATACAATCACATTAAAGA+CGG 0.610018 1:-33564916 None:intergenic
ATTACTCTCTTGAGAAGACA+TGG 0.618980 1:-33564293 None:intergenic
ACACATATGGACATGATGGA+AGG 0.627742 1:+33566228 MsaT002181.1:CDS
TCTAAGGTTTCCAAACATGG+TGG 0.644869 1:+33564767 MsaT002181.1:CDS
AAGCGTGAGCATGTGAACAA+TGG 0.705898 1:+33565125 MsaT002181.1:CDS
GAGAATCCTTCGTCATCACG+GGG 0.717191 1:+33565023 MsaT002181.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 33564295 33566631 33564295 ID=MsaG002181
Chr1 mRNA 33564295 33566631 33564295 ID=MsaT002181.1;Parent=MsaG002181
Chr1 exon 33564295 33564369 33564295 ID=MsaT002181.1.exon1;Parent=MsaT002181.1
Chr1 CDS 33564295 33564369 33564295 ID=cds.MsaT002181.1;Parent=MsaT002181.1
Chr1 exon 33564711 33565146 33564711 ID=MsaT002181.1.exon2;Parent=MsaT002181.1
Chr1 CDS 33564711 33565146 33564711 ID=cds.MsaT002181.1;Parent=MsaT002181.1
Chr1 exon 33565245 33565372 33565245 ID=MsaT002181.1.exon3;Parent=MsaT002181.1
Chr1 CDS 33565245 33565372 33565245 ID=cds.MsaT002181.1;Parent=MsaT002181.1
Chr1 exon 33566204 33566474 33566204 ID=MsaT002181.1.exon4;Parent=MsaT002181.1
Chr1 CDS 33566204 33566474 33566204 ID=cds.MsaT002181.1;Parent=MsaT002181.1
Chr1 exon 33566621 33566631 33566621 ID=MsaT002181.1.exon5;Parent=MsaT002181.1
Chr1 CDS 33566621 33566631 33566621 ID=cds.MsaT002181.1;Parent=MsaT002181.1
Gene Sequence

>MsaT002181.1

ATGTCTTCTCAAGAGAGTAATGGTGTCCACTTTTTTAAGGTTATTCGTCAAAGTACCCTTCAAGAAGAAAAACTGAGTGTGCCCATAAGTTTTGTGAAAAGGTATTGGAAAGGAATAACAAACCCAATTACTCTAAGGTTTCCAAACATGGTGGAAAAGAAAGTTTTTTGGGAGAAAACTAGTGATTATGAAGTTATGTTTTGCAATGGTTGGAAAGAACTTGCAAATTATTTGTCTTTGAATGAATCACAATTTTTGGTGTTTCAATATCAAGAAAATTCCGTCTTTAATGTGATTGTATTCGGTAGATGTGGATTAGAAATAAAATACCCGTCAAGAGAAACTAGGGAAGAATCTGAAGAGAGTGATAGTTCTTTGAAAATTATTGAGAATCCTTCGTCATCACGGGGTAAAAAGCTAAAATCTTCAGCACCATCTATGAAAGTTTGTAAGAAGATGAAAATCAACTCAAAAGAACAAAAAAATTCTAAGCGTGAGCATGTGAACAATGGAAGTAGTTGTGATGATATTAAGGAGAGAAGTAGAATTTTGTTCCAGAAAGTGAAGAAAAAATTCGACTCTGATAAGGACTTTTTTGCATGTATGATCCAAAAGTCATACATTGATAGAGATCGCTTGGTCATACCAAATGAATTTGTTAAGACACATATGGACATGATGGAAGGAAGAGATGATGCTACCCTTTTTGTTGACAAAGATAAATGGAATGTGAAGCTCACTTTAAATAAACAATCTGCACTAACTTGTGGTTGGAGAGAATTCCGTGAAGAGAATAATTTGAAATTTGGTGATGTTTGTGTTTTTGTGCTAAACAAAGGCAAAGAAACTGTTCCATTTCAAGTTGTTATTTTCTCTTTGGAAAAGGACTTGGAAACTCCTTATTTTGAAGGGTTGGCTTGA
Protein sequence

>MsaT002181.1

MSSQESNGVHFFKVIRQSTLQEEKLSVPISFVKRYWKGITNPITLRFPNMVEKKVFWEKTSDYEVMFCNGWKELANYLSLNESQFLVFQYQENSVFNVIVFGRCGLEIKYPSRETREESEESDSSLKIIENPSSSRGKKLKSSAPSMKVCKKMKINSKEQKNSKREHVNNGSSCDDIKERSRILFQKVKKKFDSDKDFFACMIQKSYIDRDRLVIPNEFVKTHMDMMEGRDDATLFVDKDKWNVKLTLNKQSALTCGWREFREENNLKFGDVCVFVLNKGKETVPFQVVIFSLEKDLETPYFEGLA*