AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001457

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001457 MtrunA17_Chr1g0163221 86.520 319 27 2 1 319 1 303 0.0 525
MsaG001457 MtrunA17_Chr4g0067431 65.854 328 99 6 1 319 1 324 1.90e-145 412
MsaG001457 MtrunA17_Chr6g0467351 63.866 238 76 3 1 235 1 231 3.45e-100 294
MsaG001457 MtrunA17_Chr1g0163061 52.075 265 78 3 1 216 1 265 2.90e-68 214
MsaG001457 MtrunA17_Chr1g0163071 29.642 307 189 8 31 319 2 299 8.60e-33 123
MsaG001457 MtrunA17_Chr1g0208771 27.931 290 192 8 31 311 13 294 2.71e-32 125
MsaG001457 MtrunA17_Chr6g0467361 68.539 89 24 3 229 314 7 94 2.22e-31 113
MsaG001457 MtrunA17_Chr1g0163131 30.218 321 181 13 1 299 1 300 9.90e-31 117
MsaG001457 MtrunA17_Chr8g0390841 27.331 311 210 9 13 315 37 339 4.30e-30 119
MsaG001457 MtrunA17_Chr3g0131891 28.197 305 197 8 9 306 13 302 3.33e-29 114
MsaG001457 MtrunA17_Chr7g0233561 29.373 303 171 10 13 292 16 298 6.41e-29 113
MsaG001457 MtrunA17_Chr3g0103181 28.065 310 179 11 7 306 4 279 1.35e-28 111
MsaG001457 MtrunA17_Chr1g0163261 28.620 297 182 9 15 305 9 281 1.64e-28 111
MsaG001457 MtrunA17_Chr1g0163251 30.314 287 173 10 24 305 14 278 2.44e-28 113
MsaG001457 MtrunA17_Chr1g0163181 30.100 299 171 13 24 305 14 291 3.07e-28 113
MsaG001457 MtrunA17_Chr1g0163201 29.514 288 171 8 31 300 19 292 5.30e-26 106
MsaG001457 MtrunA17_Chr1g0163231 27.241 290 170 8 15 294 9 267 5.34e-24 99.4
MsaG001457 MtrunA17_Chr3g0103191 27.843 255 150 8 13 261 10 236 1.40e-23 97.4
MsaG001457 MtrunA17_Chr7g0233541 27.698 278 172 8 31 292 2 266 4.70e-23 97.1
MsaG001457 MtrunA17_Chr1g0163101 33.149 181 95 7 1 167 1 169 3.25e-22 92.0
MsaG001457 MtrunA17_Chr7g0233521 27.612 268 168 7 31 292 2 249 3.29e-22 94.4
MsaG001457 MtrunA17_Chr3g0103151 38.000 150 81 7 13 153 10 156 3.75e-22 91.3
MsaG001457 MtrunA17_Chr3g0103171 28.421 285 170 9 31 306 6 265 8.19e-22 92.8
MsaG001457 MtrunA17_Chr1g0171611 26.923 286 164 8 15 294 9 255 1.05e-21 93.2
MsaG001457 MtrunA17_Chr7g0233531 27.509 269 167 7 31 292 2 249 1.74e-20 89.4
MsaG001457 MtrunA17_Chr7g0233571 38.261 115 70 1 13 127 8 121 4.53e-20 87.0
MsaG001457 MtrunA17_Chr5g0419201 34.574 188 104 6 1 174 1 183 5.26e-20 86.3
MsaG001457 MtrunA17_Chr1g0163121 35.156 128 69 4 29 146 9 132 9.26e-18 78.6
MsaG001457 MtrunA17_Chr6g0476181 35.036 137 73 5 31 164 2 125 4.62e-17 77.4
MsaG001457 MtrunA17_Chr1g0162161 35.172 145 68 6 31 162 4 135 7.63e-17 76.6
MsaG001457 MtrunA17_Chr1g0154131 27.097 310 161 13 13 292 182 456 7.10e-16 78.2
MsaG001457 MtrunA17_Chr1g0163191 37.838 111 59 3 24 127 14 121 8.18e-16 73.9
MsaG001457 MtrunA17_Chr3g0077451 26.481 287 139 11 29 306 10 233 5.70e-15 73.2
MsaG001457 MtrunA17_Chr1g0163081 36.458 96 57 2 31 126 6 97 1.09e-14 70.5
MsaG001457 MtrunA17_Chr1g0163241 32.143 112 73 2 31 142 23 131 1.42e-14 70.5
MsaG001457 MtrunA17_Chr3g0103201 27.049 244 140 8 74 306 4 220 2.41e-14 71.2
MsaG001457 MtrunA17_Chr1g0154151 26.962 293 174 11 30 292 19 301 7.00e-14 71.2
MsaG001457 MtrunA17_Chr5g0429931 27.899 276 154 10 31 306 11 241 7.25e-14 70.1
MsaG001457 MtrunA17_Chr1g0154161 24.923 325 177 15 13 311 28 311 8.95e-14 70.9
MsaG001457 MtrunA17_Chr3g0077411 22.397 317 151 10 2 304 12 247 1.72e-13 70.9
MsaG001457 MtrunA17_Chr3g0077411 25.087 287 167 11 12 292 259 503 1.92e-13 70.9
MsaG001457 MtrunA17_Chr1g0154191 25.369 339 178 13 13 292 20 342 2.08e-13 70.1
MsaG001457 MtrunA17_Chr3g0077461 29.070 172 108 4 14 174 236 404 4.46e-13 69.7
MsaG001457 MtrunA17_Chr3g0077461 24.012 329 203 13 31 319 23 344 3.09e-11 63.9
MsaG001457 MtrunA17_Chr3g0077431 26.800 250 118 9 63 306 4 194 2.08e-11 62.4
MsaG001457 MtrunA17_Chr1g0163141 29.197 137 92 3 29 164 9 141 2.89e-11 61.6
MsaG001457 MtrunA17_Chr4g0033961 34.234 111 70 2 15 123 6 115 3.49e-11 63.9
MsaG001457 MtrunA17_Chr1g0163161 35.780 109 53 5 43 139 1 104 4.99e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001457 AT4G33280.1 23.355 304 185 6 28 306 36 316 1.30e-14 73.9
MsaG001457 AT1G49475.1 35.135 111 70 2 15 125 34 142 2.46e-13 68.2
MsaG001457 AT3G18960.1 33.663 101 66 1 15 115 30 129 3.86e-13 67.8
MsaG001457 AT3G18960.2 33.663 101 66 1 15 115 30 129 4.57e-13 67.4
MsaG001457 AT4G01580.1 31.683 101 68 1 15 115 30 129 6.96e-12 63.9

Find 36 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCTATCTTGGTCAACAAAA+AGG 0.165239 1:+20312266 None:intergenic
GAAGAGAATAATTTGAAATT+TGG 0.198679 1:-20312181 MsaT001457.1:CDS
ACTTGCAAATTATTTGTCTT+TGG 0.202067 1:-20313322 MsaT001457.1:CDS
CTCTTTAATTTGATTGTATT+CGG 0.245759 1:-20313258 MsaT001457.1:CDS
TTTGGAAACCTTAGAGTAAC+TGG 0.256715 1:+20313417 None:intergenic
CTTCATCATCACGCGGTAAA+AGG 0.264439 1:-20313146 MsaT001457.1:CDS
CTTGCAAATTATTTGTCTTT+GGG 0.314706 1:-20313321 MsaT001457.1:CDS
ATCAACTCAAATGAACTAAA+AGG 0.321588 1:-20313078 MsaT001457.1:CDS
AAGTAGCTGTAATGATATTA+AGG 0.342032 1:-20312886 MsaT001457.1:CDS
ATATAATTACCTTCAAAATA+AGG 0.343429 1:+20312070 None:intergenic
AACATGGTCATCAGAGTAAT+GGG 0.359782 1:-20313958 MsaT001457.1:CDS
TAACAAACCCAGTTACTCTA+AGG 0.363012 1:-20313425 MsaT001457.1:CDS
ATTTCAAATTATTCTCTTCA+CGG 0.368199 1:+20312185 None:intergenic
GAGAAAATAACAACTTGAAA+TGG 0.395512 1:+20312115 None:intergenic
TTTCTCTTTGGAAAAGGACT+TGG 0.399841 1:-20312098 MsaT001457.1:CDS
TGTTTCTTGACAAATTCATT+TGG 0.414955 1:+20312322 None:intergenic
TCTTCACTAGTTTCTCTTGA+AGG 0.416839 1:+20313210 None:intergenic
GCTTCACATTCCATCTATCT+TGG 0.431288 1:+20312254 None:intergenic
ATACATTGATAGAGATCTCT+TGG 0.475972 1:-20312781 MsaT001457.1:intron
CACACTTTCATAGACGGTGC+TGG 0.484435 1:+20313114 None:intergenic
CTTCACTAGTTTCTCTTGAA+GGG 0.485568 1:+20313211 None:intergenic
TCTAAGGTTTCCAAACATGA+TGG 0.492653 1:-20313409 MsaT001457.1:CDS
GAACATGGTCATCAGAGTAA+TGG 0.524277 1:-20313959 MsaT001457.1:CDS
CAAGAAACATATGCACATGA+TGG 0.529994 1:-20312308 MsaT001457.1:CDS
TTCTTACACACTTTCATAGA+CGG 0.530584 1:+20313108 None:intergenic
TTTGTGAAAAGGTATTGGAA+AGG 0.553882 1:-20313450 MsaT001457.1:CDS
AATCTGCACTAACTTGTGGT+TGG 0.573287 1:-20312216 MsaT001457.1:CDS
AAACATATGCACATGATGGA+AGG 0.582307 1:-20312304 MsaT001457.1:CDS
AAACAATCTGCACTAACTTG+TGG 0.589005 1:-20312220 MsaT001457.1:CDS
TTGATTGTATTCGGTAAATG+CGG 0.591323 1:-20313249 MsaT001457.1:CDS
ACCATGTTCTTGAGAAGACA+TGG 0.602247 1:+20313973 None:intergenic
TTGGAAACCTTAGAGTAACT+GGG 0.606122 1:+20313418 None:intergenic
AAGGATCTAAGCATGAGAAG+AGG 0.636807 1:-20313059 MsaT001457.1:CDS
ACCATGTCTTCTCAAGAACA+TGG 0.657917 1:-20313974 MsaT001457.1:CDS
ACATGGTCATCAGAGTAATG+GGG 0.717623 1:-20313957 MsaT001457.1:CDS
GAGAATCCTTCATCATCACG+CGG 0.748401 1:-20313153 MsaT001457.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 20311970 20313993 20311970 ID=MsaG001457
Chr1 mRNA 20311970 20313993 20311970 ID=MsaT001457.1;Parent=MsaG001457
Chr1 exon 20311970 20311980 20311970 ID=MsaT001457.1.exon5;Parent=MsaT001457.1
Chr1 CDS 20311970 20311980 20311970 ID=cds.MsaT001457.1;Parent=MsaT001457.1
Chr1 exon 20312080 20312350 20312080 ID=MsaT001457.1.exon4;Parent=MsaT001457.1
Chr1 CDS 20312080 20312350 20312080 ID=cds.MsaT001457.1;Parent=MsaT001457.1
Chr1 exon 20312782 20312909 20312782 ID=MsaT001457.1.exon3;Parent=MsaT001457.1
Chr1 CDS 20312782 20312909 20312782 ID=cds.MsaT001457.1;Parent=MsaT001457.1
Chr1 exon 20313019 20313487 20313019 ID=MsaT001457.1.exon2;Parent=MsaT001457.1
Chr1 CDS 20313019 20313487 20313019 ID=cds.MsaT001457.1;Parent=MsaT001457.1
Chr1 exon 20313907 20313993 20313907 ID=MsaT001457.1.exon1;Parent=MsaT001457.1
Chr1 CDS 20313907 20313993 20313907 ID=cds.MsaT001457.1;Parent=MsaT001457.1
Gene Sequence

>MsaT001457.1

ATGTCTTCTCAAGAACATGGTCATCAGAGTAATGGGGTCCACTTTTTTAAGGTTATTCGTCAAAGTACCCTTCAAGAAGAAAAACTGAGTGTACCCATAACTTTTGTGAAAAGGTATTGGAAAGGAATAACAAACCCAGTTACTCTAAGGTTTCCAAACATGATGGAAAAGAAAGTTTTTTGGGAGAAAACTAGTGATAATGAAGTTATGTTTTGCAATGGTTGGAAAGAACTTGCAAATTATTTGTCTTTGGGTGAATCACAATTTTTGGTGTTTCAATATCAAGAAAAGTCTCTCTTTAATTTGATTGTATTCGGTAAATGCGGATTAGAAATAAAATACCCTTCAAGAGAAACTAGTGAAGAATCTGAAGAGAGTGATTGTTCTTTGAAAATTATTGAGAATCCTTCATCATCACGCGGTAAAAGGCTAAAATCTCCAGCACCGTCTATGAAAGTGTGTAAGAAGATGAAAATCAACTCAAATGAACTAAAAGGATCTAAGCATGAGAAGAGGATAGTCCCTAAATTTCATGTTTTTGAGCATGTGAACAATGGAAGTAGCTGTAATGATATTAAGGAGAGAAGTAGAATTTTGTGCCAGAAAGTGAAGAAATTTTTTGTCTCTGATAACGACTTTTTTGCATGTATGATGCTAAAGACATACATTGATAGAGATCTCTTGGTCATACCAAATGAATTTGTCAAGAAACATATGCACATGATGGAAGGAAGAGATGATGCTACCCTTTTTGTTGACCAAGATAGATGGAATGTGAAGCTCACTTTAAATAAACAATCTGCACTAACTTGTGGTTGGAGAGAATTCCGTGAAGAGAATAATTTGAAATTTGGTGATGTTTGTGTTTTTGTGCTAAACAAAGGCAAAGAAACAGTTCCATTTCAAGTTGTTATTTTCTCTTTGGAAAAGGACTTGGAAACTCCTTATTTTGAAGGGTTGGCTTGA
Protein sequence

>MsaT001457.1

MSSQEHGHQSNGVHFFKVIRQSTLQEEKLSVPITFVKRYWKGITNPVTLRFPNMMEKKVFWEKTSDNEVMFCNGWKELANYLSLGESQFLVFQYQEKSLFNLIVFGKCGLEIKYPSRETSEESEESDCSLKIIENPSSSRGKRLKSPAPSMKVCKKMKINSNELKGSKHEKRIVPKFHVFEHVNNGSSCNDIKERSRILCQKVKKFFVSDNDFFACMMLKTYIDRDLLVIPNEFVKKHMHMMEGRDDATLFVDQDRWNVKLTLNKQSALTCGWREFREENNLKFGDVCVFVLNKGKETVPFQVVIFSLEKDLETPYFEGLA*