AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016266

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016266 MtrunA17_Chr3g0126721 98.221 281 5 0 1 281 1 281 0.0 571
MsaG016266 MtrunA17_Chr1g0147111 72.028 286 70 5 1 280 1 282 4.86e-143 403
MsaG016266 MtrunA17_Chr8g0387241 49.412 85 41 1 192 274 185 269 6.37e-20 87.8
MsaG016266 MtrunA17_Chr4g0030421 45.783 83 41 2 192 274 1 79 1.84e-16 74.3
MsaG016266 MtrunA17_Chr1g0168401 42.268 97 42 2 192 274 267 363 9.94e-16 76.6
MsaG016266 MtrunA17_Chr5g0397361 41.573 89 48 1 192 280 139 223 2.87e-15 73.6
MsaG016266 MtrunA17_Chr1g0186171 65.306 49 17 0 226 274 312 360 3.57e-15 75.1
MsaG016266 MtrunA17_Chr2g0327621 57.692 52 22 0 226 277 151 202 1.26e-14 72.0
MsaG016266 MtrunA17_Chr2g0311591 58.000 50 21 0 226 275 166 215 1.21e-12 66.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016266 AT5G53420.1 49.291 282 115 10 1 274 1 262 7.56e-82 247
MsaG016266 AT4G27900.1 49.458 277 118 9 1 274 1 258 2.52e-80 243
MsaG016266 AT4G27900.2 49.458 277 118 9 1 274 1 258 2.52e-80 243
MsaG016266 AT5G53420.2 54.229 201 67 8 81 274 1 183 1.66e-59 187
MsaG016266 AT5G53420.5 54.229 201 67 8 81 274 1 183 1.66e-59 187
MsaG016266 AT5G53420.4 54.229 201 67 8 81 274 1 183 1.66e-59 187
MsaG016266 AT5G53420.3 41.364 220 106 8 1 212 1 205 2.52e-45 152
MsaG016266 AT1G63820.1 45.918 98 38 1 192 274 139 236 4.37e-19 85.5
MsaG016266 AT5G41380.1 47.253 91 36 2 192 274 173 259 5.41e-18 82.4
MsaG016266 AT1G04500.4 67.347 49 16 0 226 274 284 332 4.84e-16 77.8
MsaG016266 AT1G04500.1 67.347 49 16 0 226 274 284 332 4.84e-16 77.8
MsaG016266 AT1G04500.3 67.347 49 16 0 226 274 275 323 5.53e-16 77.4
MsaG016266 AT2G33350.2 41.000 100 42 2 192 274 255 354 6.54e-16 77.4
MsaG016266 AT2G33350.4 41.000 100 42 2 192 274 244 343 8.63e-16 77.0
MsaG016266 AT2G33350.5 41.000 100 42 2 192 274 264 363 8.89e-16 77.0
MsaG016266 AT2G33350.1 50.667 75 27 1 200 274 291 355 1.47e-15 76.6
MsaG016266 AT5G59990.1 59.091 44 18 0 237 280 170 213 8.00e-12 64.3
MsaG016266 AT3G12890.1 56.000 50 22 0 226 275 135 184 2.39e-11 62.8

Find 52 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGAAGACAAAGAGGAATTT+TGG 0.219086 3:-96103677 MsaT016266.1:CDS
CCATTGAAGCATTGAACTTC+TGG 0.228558 3:+96105807 None:intergenic
CTCCTCACTGCTGCAGTTAC+TGG 0.304798 3:+96103730 None:intergenic
GCAGAAATGTATAGAGAAAA+TGG 0.320082 3:-96105902 None:intergenic
CTAACGCTCTTCGGTAATAA+TGG 0.351082 3:+96104108 None:intergenic
TTCGGTAATAATGGCATATC+AGG 0.371338 3:+96104117 None:intergenic
GACTCTTCAATCATCGGTTC+AGG 0.379136 3:+96104378 None:intergenic
TGTATTCTATGATTGCAAAA+AGG 0.379871 3:-96104247 MsaT016266.1:CDS
GTTGGTTTCAGTATGCTTGC+AGG 0.384533 3:-96103268 MsaT016266.1:intron
GCAAATCTTCCACGGACTCT+TGG 0.408686 3:+96103224 None:intergenic
CCTGCTTTCCTTGGTATCTC+AGG 0.411336 3:-96104033 MsaT016266.1:CDS
GAAGTTTAAGTTCGATGGAT+TGG 0.417320 3:-96104080 MsaT016266.1:CDS
CTCAGGAAGTTTAAGTTCGA+TGG 0.421168 3:-96104085 MsaT016266.1:CDS
ATTTAGTGAAGGAGATATAA+AGG 0.423299 3:-96103974 MsaT016266.1:intron
ACGGCCTCTCCACGGGAGAT+TGG 0.431556 3:+96103759 None:intergenic
CTTCCTGAGCTAACGCTCTT+CGG 0.432530 3:+96104099 None:intergenic
GCAATGAAGCCTGCTTTCCT+TGG 0.445883 3:-96104042 MsaT016266.1:CDS
CATTGAGATGGCTGCTGTCA+TGG 0.466318 3:+96104338 None:intergenic
AAAGAATGAAGAATCTGATC+AGG 0.470069 3:-96103201 MsaT016266.1:CDS
CTCTGAGATTCTAGAAATCA+AGG 0.483324 3:-96104190 MsaT016266.1:CDS
CATTCTTTGCAAATCTTCCA+CGG 0.485735 3:+96103216 None:intergenic
AGTTCGATGGATTGGATGCA+TGG 0.490181 3:-96104072 MsaT016266.1:CDS
TACAAAAGCTCTCTAGATAC+AGG 0.491032 3:-96103703 MsaT016266.1:CDS
CCAGAAGTTCAATGCTTCAA+TGG 0.493713 3:-96105807 MsaT016266.1:intron
AGAATCTGATCAGGCAAAGA+AGG 0.498079 3:-96103192 MsaT016266.1:CDS
TCTATTTGAAAAGGCGGGAA+TGG 0.501622 3:-96104223 MsaT016266.1:CDS
TGGCTGCTGTCATGGGATCA+AGG 0.522632 3:+96104346 None:intergenic
TTCTCGTCAATGTTCAGTAA+TGG 0.526652 3:+96104165 None:intergenic
CCTGAGATACCAAGGAAAGC+AGG 0.532865 3:+96104033 None:intergenic
ATGCCTGACTCTTCAATCAT+CGG 0.544939 3:+96104372 None:intergenic
AAGGATCTATTTGAAAAGGC+GGG 0.547844 3:-96104228 MsaT016266.1:CDS
GAACCGATGATTGAAGAGTC+AGG 0.548760 3:-96104375 MsaT016266.1:CDS
ATTGAGATGGCTGCTGTCAT+GGG 0.551127 3:+96104339 None:intergenic
TTACCGAAGAGCGTTAGCTC+AGG 0.557410 3:-96104102 MsaT016266.1:CDS
TTCTGCTGCAAAATCATACT+CGG 0.567600 3:+96104419 None:intergenic
GTTTCAGTATGCTTGCAGGA+AGG 0.571787 3:-96103264 MsaT016266.1:intron
AATAATGGCATATCAGGAAG+TGG 0.576682 3:+96104123 None:intergenic
ACAGGAACAAGAAGACAAAG+AGG 0.587806 3:-96103685 MsaT016266.1:CDS
GCCACAAGATATCATTGAGA+TGG 0.597336 3:+96104326 None:intergenic
AAAGGATCTATTTGAAAAGG+CGG 0.598414 3:-96104229 MsaT016266.1:CDS
GACAGTCAACCAAGAGTCCG+TGG 0.610591 3:-96103233 MsaT016266.1:CDS
AATCTATTCCTGAGATACCA+AGG 0.616072 3:+96104025 None:intergenic
GCCATCTCAATGATATCTTG+TGG 0.620490 3:-96104327 MsaT016266.1:CDS
TTGTCCAATCTCCCGTGGAG+AGG 0.631289 3:-96103763 MsaT016266.1:CDS
TTGAAGAATAGAAATATCTG+TGG 0.633420 3:+96104290 None:intergenic
ATGCGAAGATCATTTAGTGA+AGG 0.636958 3:-96103985 MsaT016266.1:CDS
GAACGTTGTCCAATCTCCCG+TGG 0.640756 3:-96103768 MsaT016266.1:CDS
AATTGTGTAGATAAGACCAT+GGG 0.640817 3:+96105870 None:intergenic
ATTTCTAGAATCTCAGAGAG+CGG 0.654213 3:+96104195 None:intergenic
ACATTGCAGAAAACTGAACA+AGG 0.668264 3:+96104442 None:intergenic
AAATTGTGTAGATAAGACCA+TGG 0.672601 3:+96105869 None:intergenic
TACCAGTAACTGCAGCAGTG+AGG 0.694981 3:-96103732 MsaT016266.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 96103187 96105918 96103187 ID=MsaG016266
Chr3 mRNA 96103187 96105918 96103187 ID=MsaT016266.1;Parent=MsaG016266
Chr3 exon 96103187 96103279 96103187 ID=MsaT016266.1.exon4;Parent=MsaT016266.1
Chr3 CDS 96103187 96103279 96103187 ID=cds.MsaT016266.1;Parent=MsaT016266.1
Chr3 exon 96103664 96103810 96103664 ID=MsaT016266.1.exon3;Parent=MsaT016266.1
Chr3 CDS 96103664 96103810 96103664 ID=cds.MsaT016266.1;Parent=MsaT016266.1
Chr3 exon 96103975 96104469 96103975 ID=MsaT016266.1.exon2;Parent=MsaT016266.1
Chr3 CDS 96103975 96104469 96103975 ID=cds.MsaT016266.1;Parent=MsaT016266.1
Chr3 exon 96105808 96105918 96105808 ID=MsaT016266.1.exon1;Parent=MsaT016266.1
Chr3 CDS 96105808 96105918 96105808 ID=cds.MsaT016266.1;Parent=MsaT016266.1
Gene Sequence

>MsaT016266.1

ATGTATAGAGAAAATGGTCTTCTTTTCCCATGGTCTTATCTACACAATTTCTCTCAAGAGCTTCATCAACTTGAAGACTACTACAGAAACCAGAAGTTCAATGCTTCAATGAGTGACCTTGTTCAGTTTTCTGCAATGTCCGAGTATGATTTTGCAGCAGAAGGAGATCTGTTCAAAGCACCTGAACCGATGATTGAAGAGTCAGGCATTGACCTTGATCCCATGACAGCAGCCATCTCAATGATATCTTGTGGCGAAGATGTCAAGTCCACAGATATTTCTATTCTTCAAAACGAACAGCTTCTCAGCGATGTATTCTATGATTGCAAAAAGGATCTATTTGAAAAGGCGGGAATGGAGTCACCGCTCTCTGAGATTCTAGAAATCAAGGTTCCATTACTGAACATTGACGAGAACATAATTCAAGAAAACAAGCCACTTCCTGATATGCCATTATTACCGAAGAGCGTTAGCTCAGGAAGTTTAAGTTCGATGGATTGGATGCATGGATCTGCTGCAATGAAGCCTGCTTTCCTTGGTATCTCAGGAATAGATTTTGATGCGGTTTATGGCATGCGAAGATCATTTAGTGAAGGAGATATAAAGACTCTTGGCAATGCTAATATGAACGTTGTCCAATCTCCCGTGGAGAGGCCGTTTTTTACCAGTAACTGCAGCAGTGAGGAGCGCCTACAAAAGCTCTCTAGATACAGGAACAAGAAGACAAAGAGGAATTTTGGAAGGAAAATCAAGTATGCTTGCAGGAAGGCTCTAGCTGACAGTCAACCAAGAGTCCGTGGAAGATTTGCAAAGAATGAAGAATCTGATCAGGCAAAGAAGGACTGA
Protein sequence

>MsaT016266.1

MYRENGLLFPWSYLHNFSQELHQLEDYYRNQKFNASMSDLVQFSAMSEYDFAAEGDLFKAPEPMIEESGIDLDPMTAAISMISCGEDVKSTDISILQNEQLLSDVFYDCKKDLFEKAGMESPLSEILEIKVPLLNIDENIIQENKPLPDMPLLPKSVSSGSLSSMDWMHGSAAMKPAFLGISGIDFDAVYGMRRSFSEGDIKTLGNANMNVVQSPVERPFFTSNCSSEERLQKLSRYRNKKTKRNFGRKIKYACRKALADSQPRVRGRFAKNEESDQAKKD*