AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180001928.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180001928.01.T01 MTR_1g046680 80.556 108 21 0 1 108 124 231 6.30e-59 181
MsG0180001928.01.T01 MTR_5g007600 72.826 92 25 0 17 108 227 318 9.86e-44 145
MsG0180001928.01.T01 MTR_5g007600 63.889 108 39 0 1 108 109 216 3.07e-43 144
MsG0180001928.01.T01 MTR_2g094600 68.056 72 23 0 37 108 204 275 2.72e-31 112
MsG0180001928.01.T01 MTR_8g076340 79.661 59 12 0 50 108 219 277 2.02e-30 109
MsG0180001928.01.T01 MTR_8g013950 72.222 72 17 1 40 108 214 285 4.88e-30 109
MsG0180001928.01.T01 MTR_3g109760 74.286 70 15 1 42 108 197 266 1.38e-29 108
MsG0180001928.01.T01 MTR_1g006650 81.356 59 11 0 50 108 235 293 1.60e-29 108
MsG0180001928.01.T01 MTR_4g071590 63.750 80 24 1 34 108 191 270 2.97e-29 106
MsG0180001928.01.T01 MTR_4g471590 63.750 80 24 1 34 108 191 270 2.97e-29 106
MsG0180001928.01.T01 MTR_7g085410 72.727 66 18 0 43 108 182 247 5.82e-29 105
MsG0180001928.01.T01 MTR_1g094930 77.966 59 13 0 50 108 148 206 7.03e-29 104
MsG0180001928.01.T01 MTR_4g058910 76.271 59 14 0 50 108 315 373 1.92e-28 106
MsG0180001928.01.T01 MTR_6g032830 56.180 89 29 1 30 108 163 251 2.04e-28 103
MsG0180001928.01.T01 MTR_5g021340 76.271 59 14 0 50 108 301 359 2.04e-28 106
MsG0180001928.01.T01 MTR_1g116010 74.576 59 15 0 50 108 165 223 2.63e-28 103
MsG0180001928.01.T01 MTR_1g094930 68.056 72 21 1 37 108 232 301 1.37e-27 103
MsG0180001928.01.T01 MTR_3g117380 76.271 59 14 0 50 108 230 288 2.46e-27 102
MsG0180001928.01.T01 MTR_7g446110 59.649 57 23 0 51 107 189 245 8.11e-19 78.6
MsG0180001928.01.T01 MTR_7g445980 60.714 56 21 1 53 107 37 92 1.94e-18 73.9
MsG0180001928.01.T01 MTR_7g446070 44.318 88 47 2 23 108 104 191 7.69e-17 72.4
MsG0180001928.01.T01 MTR_7g445950 44.318 88 47 2 23 108 92 179 7.78e-17 72.0
MsG0180001928.01.T01 MTR_7g112330 64.706 34 12 0 51 84 24 57 4.29e-11 55.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180001928.01.T01 AT3G24050 82.258 62 11 0 47 108 192 253 4.15e-34 119
MsG0180001928.01.T01 AT4G34680 57.303 89 35 1 20 108 154 239 9.76e-30 107
MsG0180001928.01.T01 AT4G34680 57.303 89 35 1 20 108 154 239 9.76e-30 107
MsG0180001928.01.T01 AT5G66320 81.356 59 11 0 50 108 250 308 1.02e-29 108
MsG0180001928.01.T01 AT5G66320 81.356 59 11 0 50 108 250 308 1.02e-29 108
MsG0180001928.01.T01 AT4G32890 77.049 61 14 0 48 108 196 256 4.92e-29 106
MsG0180001928.01.T01 AT5G25830 68.000 75 20 1 38 108 204 278 6.62e-29 106
MsG0180001928.01.T01 AT4G36240 62.821 78 29 0 31 108 146 223 8.11e-29 104
MsG0180001928.01.T01 AT3G60530 77.966 59 13 0 50 108 159 217 2.13e-28 103
MsG0180001928.01.T01 AT1G08010 74.194 62 16 0 47 108 218 279 4.20e-28 103
MsG0180001928.01.T01 AT1G08010 74.194 62 16 0 47 108 218 279 4.20e-28 103
MsG0180001928.01.T01 AT1G08010 74.194 62 16 0 47 108 218 279 4.20e-28 103
MsG0180001928.01.T01 AT3G51080 77.966 59 13 0 50 108 222 280 5.05e-28 103
MsG0180001928.01.T01 AT2G45050 72.727 66 15 1 46 108 173 238 1.15e-27 102
MsG0180001928.01.T01 AT1G08000 77.586 58 13 0 51 108 220 277 1.34e-27 102
MsG0180001928.01.T01 AT1G08000 77.586 58 13 0 51 108 220 277 1.34e-27 102
MsG0180001928.01.T01 AT3G54810 77.966 59 13 0 50 108 230 288 3.89e-27 101
MsG0180001928.01.T01 AT3G54810 77.966 59 13 0 50 108 230 288 3.89e-27 101
MsG0180001928.01.T01 AT3G45170 65.517 58 20 0 51 108 117 174 2.01e-24 92.4
MsG0180001928.01.T01 AT2G28340 68.966 58 18 0 51 108 193 250 6.18e-24 92.8

Find 36 sgRNAs with CRISPR-Local

Find 41 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTATTTGCAGGACGGTATTC+AGG 0.302785 1:+29476442 None:intergenic
CGAAAAGTTGGGCTATTTGC+AGG 0.311001 1:+29476430 None:intergenic
CATGCATTACAAAGTGTCTT+TGG 0.315428 1:+29476496 None:intergenic
CAAAGTGTCTTTGGACCATT+TGG 0.337970 1:+29476505 None:intergenic
GTTGTTTCCACGGGAATTGT+AGG 0.379623 1:+29476629 None:intergenic
TTTGTAATGCATGTGGGGTT+AGG 0.415099 1:-29476486 MsG0180001928.01.T01:CDS
TGAAACAAACCCCAACCATT+GGG 0.437189 1:-29476579 MsG0180001928.01.T01:CDS
TGCATGTCACTGCGAAAAGT+TGG 0.440834 1:+29476418 None:intergenic
GTGAAACAAACCCCAACCAT+TGG 0.483004 1:-29476580 MsG0180001928.01.T01:CDS
AGACTTGCTCCGTGCACGAC+AGG 0.493274 1:+29476691 None:intergenic
CTCATCTCCACTACTTCCTG+TGG 0.500658 1:+29476386 None:intergenic
TTGTACTGCTGTTGTTTCCA+CGG 0.502841 1:+29476619 None:intergenic
GCATGTCACTGCGAAAAGTT+GGG 0.502991 1:+29476419 None:intergenic
CAATGGCGTGCAGGTCCAAA+TGG 0.508669 1:-29476520 MsG0180001928.01.T01:CDS
TGTGGGGTTAGGTATAAGTC+TGG 0.520333 1:-29476475 MsG0180001928.01.T01:CDS
TGTACTGCTGTTGTTTCCAC+GGG 0.524002 1:+29476620 None:intergenic
TTGAGGCATCAGCAAGGCCA+AGG 0.531893 1:+29476654 None:intergenic
TCTCGTAGCAAGCCTCGCCT+TGG 0.534627 1:-29476671 MsG0180001928.01.T01:CDS
GATACTCCACAATGGCGTGC+AGG 0.539263 1:-29476529 MsG0180001928.01.T01:CDS
ATGAAGTTCCCTGTCGTGCA+CGG 0.571256 1:-29476700 MsG0180001928.01.T01:CDS
TTTGGACCTGCACGCCATTG+TGG 0.572595 1:+29476523 None:intergenic
CTAATTCCCACAGGAAGTAG+TGG 0.579288 1:-29476393 None:intergenic
TCATCTCCACTACTTCCTGT+GGG 0.588090 1:+29476387 None:intergenic
GCATCAGCAAGGCCAAGGCG+AGG 0.601336 1:+29476659 None:intergenic
GACACTTTGTAATGCATGTG+GGG 0.601729 1:-29476491 MsG0180001928.01.T01:CDS
AAGACACTTTGTAATGCATG+TGG 0.602236 1:-29476493 MsG0180001928.01.T01:CDS
GACTTGCTCCGTGCACGACA+GGG 0.602518 1:+29476692 None:intergenic
AGACACTTTGTAATGCATGT+GGG 0.608576 1:-29476492 MsG0180001928.01.T01:CDS
GAAACAAACCCCAACCATTG+GGG 0.620849 1:-29476578 MsG0180001928.01.T01:CDS
AACAAACCCCAACCATTGGG+GGG 0.626421 1:-29476576 MsG0180001928.01.T01:CDS
ACATGCATTCTAATTCCCAC+AGG 0.630282 1:-29476402 MsG0180001928.01.T01:CDS
GACGGTATTCAGGTACAAGT+CGG 0.649278 1:+29476452 None:intergenic
AAACAAACCCCAACCATTGG+GGG 0.651277 1:-29476577 MsG0180001928.01.T01:CDS
AAGTTGGGCTATTTGCAGGA+CGG 0.658089 1:+29476434 None:intergenic
CTCAAAACCTACAATTCCCG+TGG 0.662680 1:-29476636 MsG0180001928.01.T01:CDS
GAGTTGATGATACTCCACAA+TGG 0.801331 1:-29476537 MsG0180001928.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! GGTTTGTTTCACTTTTTCTT+TGG + Chr1:29476508-29476527 None:intergenic 30.0%
AAGACACTTTGTAATGCATG+TGG - Chr1:29476603-29476622 MsG0180001928.01.T01:CDS 35.0%
AGACACTTTGTAATGCATGT+GGG - Chr1:29476604-29476623 MsG0180001928.01.T01:CDS 35.0%
! CATGCATTACAAAGTGTCTT+TGG + Chr1:29476603-29476622 None:intergenic 35.0%
ACATGCATTCTAATTCCCAC+AGG - Chr1:29476694-29476713 MsG0180001928.01.T01:CDS 40.0%
GACACTTTGTAATGCATGTG+GGG - Chr1:29476605-29476624 MsG0180001928.01.T01:CDS 40.0%
TGAAACAAACCCCAACCATT+GGG - Chr1:29476517-29476536 MsG0180001928.01.T01:CDS 40.0%
TTTGTAATGCATGTGGGGTT+AGG - Chr1:29476610-29476629 MsG0180001928.01.T01:CDS 40.0%
! CAAAGTGTCTTTGGACCATT+TGG + Chr1:29476594-29476613 None:intergenic 40.0%
!! GAGTTGATGATACTCCACAA+TGG - Chr1:29476559-29476578 MsG0180001928.01.T01:CDS 40.0%
!! TTGTACTGCTGTTGTTTCCA+CGG + Chr1:29476480-29476499 None:intergenic 40.0%
AAACAAACCCCAACCATTGG+GGG - Chr1:29476519-29476538 MsG0180001928.01.T01:CDS 45.0%
AAGTTGGGCTATTTGCAGGA+CGG + Chr1:29476665-29476684 None:intergenic 45.0%
ATGATGACATTTCCCCCCAA+TGG + Chr1:29476535-29476554 None:intergenic 45.0%
CGAAAAGTTGGGCTATTTGC+AGG + Chr1:29476669-29476688 None:intergenic 45.0%
CTATTTGCAGGACGGTATTC+AGG + Chr1:29476657-29476676 None:intergenic 45.0%
CTCAAAACCTACAATTCCCG+TGG - Chr1:29476460-29476479 MsG0180001928.01.T01:CDS 45.0%
GAAACAAACCCCAACCATTG+GGG - Chr1:29476518-29476537 MsG0180001928.01.T01:CDS 45.0%
GACGGTATTCAGGTACAAGT+CGG + Chr1:29476647-29476666 None:intergenic 45.0%
GCATGTCACTGCGAAAAGTT+GGG + Chr1:29476680-29476699 None:intergenic 45.0%
GTGAAACAAACCCCAACCAT+TGG - Chr1:29476516-29476535 MsG0180001928.01.T01:CDS 45.0%
TGCATGTCACTGCGAAAAGT+TGG + Chr1:29476681-29476700 None:intergenic 45.0%
TGTGGGGTTAGGTATAAGTC+TGG - Chr1:29476621-29476640 MsG0180001928.01.T01:CDS 45.0%
! CACGGGAATTGTAGGTTTTG+AGG + Chr1:29476462-29476481 None:intergenic 45.0%
! GTTGTTTCCACGGGAATTGT+AGG + Chr1:29476470-29476489 None:intergenic 45.0%
!! TGTACTGCTGTTGTTTCCAC+GGG + Chr1:29476479-29476498 None:intergenic 45.0%
!!! TAGGTTTTGAGGCATCAGCA+AGG + Chr1:29476451-29476470 None:intergenic 45.0%
AACAAACCCCAACCATTGGG+GGG - Chr1:29476520-29476539 MsG0180001928.01.T01:CDS 50.0%
ACATTTCCCCCCAATGGTTG+GGG + Chr1:29476529-29476548 None:intergenic 50.0%
ATGAAGTTCCCTGTCGTGCA+CGG - Chr1:29476396-29476415 MsG0180001928.01.T01:CDS 50.0%
GACATTTCCCCCCAATGGTT+GGG + Chr1:29476530-29476549 None:intergenic 50.0%
GGGGGGAAATGTCATCATTG+TGG - Chr1:29476537-29476556 MsG0180001928.01.T01:CDS 50.0%
TGACATTTCCCCCCAATGGT+TGG + Chr1:29476531-29476550 None:intergenic 50.0%
CAATGGCGTGCAGGTCCAAA+TGG - Chr1:29476576-29476595 MsG0180001928.01.T01:CDS 55.0%
GATACTCCACAATGGCGTGC+AGG - Chr1:29476567-29476586 MsG0180001928.01.T01:CDS 55.0%
TTTGGACCTGCACGCCATTG+TGG + Chr1:29476576-29476595 None:intergenic 55.0%
! TTGAGGCATCAGCAAGGCCA+AGG + Chr1:29476445-29476464 None:intergenic 55.0%
TCTCGTAGCAAGCCTCGCCT+TGG - Chr1:29476425-29476444 MsG0180001928.01.T01:CDS 60.0%
! AGACTTGCTCCGTGCACGAC+AGG + Chr1:29476408-29476427 None:intergenic 60.0%
! GACTTGCTCCGTGCACGACA+GGG + Chr1:29476407-29476426 None:intergenic 60.0%
GCATCAGCAAGGCCAAGGCG+AGG + Chr1:29476440-29476459 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
Chr1 gene 29476396 29476722 29476396 ID=MsG0180001928.01;Name=MsG0180001928.01
Chr1 mRNA 29476396 29476722 29476396 ID=MsG0180001928.01.T01;Parent=MsG0180001928.01;Name=MsG0180001928.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|108
Chr1 exon 29476396 29476722 29476396 ID=MsG0180001928.01.T01:exon:42253;Parent=MsG0180001928.01.T01
Chr1 CDS 29476396 29476722 29476396 ID=MsG0180001928.01.T01:cds;Parent=MsG0180001928.01.T01
Gene Sequence

>MsG0180001928.01.T01

ATGAAGTTCCCTGTCGTGCACGGAGCAAGTCTCGTAGCAAGCCTCGCCTTGGCCTTGCTGATGCCTCAAAACCTACAATTCCCGTGGAAACAACAGCAGTACAAAACTTCCAAAGAAAAAGTGAAACAAACCCCAACCATTGGGGGGAAATGTCATCATTGTGGAGTTGATGATACTCCACAATGGCGTGCAGGTCCAAATGGTCCAAAGACACTTTGTAATGCATGTGGGGTTAGGTATAAGTCTGGCCGACTTGTACCTGAATACCGTCCTGCAAATAGCCCAACTTTTCGCAGTGACATGCATTCTAATTCCCACAGGAAGTAG
Protein sequence

>MsG0180001928.01.T01

MKFPVVHGASLVASLALALLMPQNLQFPWKQQQYKTSKEKVKQTPTIGGKCHHCGVDDTPQWRAGPNGPKTLCNACGVRYKSGRLVPEYRPANSPTFRSDMHSNSHRK*