AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG043351

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG043351 MtrunA17_Chr8g0362641 81.362 279 44 2 1 274 1 276 9.88e-161 447
MsaG043351 MtrunA17_Chr8g0364231 51.685 89 43 0 188 276 332 420 1.45e-21 94.4
MsaG043351 MtrunA17_Chr8g0364231 52.439 82 39 0 106 187 334 415 1.71e-21 94.4
MsaG043351 MtrunA17_Chr6g0452001 46.237 93 50 0 182 274 332 424 1.67e-18 85.5
MsaG043351 MtrunA17_Chr6g0452001 46.753 77 41 0 111 187 345 421 2.94e-15 75.9
MsaG043351 MtrunA17_Chr6g0452021 51.351 74 36 0 193 266 276 349 4.46e-17 80.9
MsaG043351 MtrunA17_Chr6g0452021 51.351 74 36 0 111 184 278 351 1.56e-16 79.0
MsaG043351 MtrunA17_Chr5g0415031 47.674 86 43 1 190 273 320 405 6.62e-17 80.9
MsaG043351 MtrunA17_Chr5g0415031 50.000 78 36 2 113 187 327 404 1.97e-13 70.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG043351 AT5G15020.1 30.457 197 108 5 68 264 235 402 4.17e-16 79.0
MsaG043351 AT5G15020.1 38.835 103 61 1 91 191 313 415 5.11e-14 72.4
MsaG043351 AT5G15020.2 30.457 197 108 5 68 264 235 402 4.28e-16 78.6
MsaG043351 AT5G15020.2 38.835 103 61 1 91 191 313 415 5.40e-14 72.4
MsaG043351 AT1G24190.3 31.455 213 118 7 69 275 178 368 3.41e-15 76.3
MsaG043351 AT1G24190.2 31.455 213 118 7 69 275 178 368 4.85e-15 75.5
MsaG043351 AT3G01320.1 44.706 85 47 0 175 259 317 401 7.15e-15 75.1
MsaG043351 AT3G01320.1 38.938 113 64 4 98 206 323 434 1.79e-13 70.9
MsaG043351 AT3G01320.2 52.174 69 33 0 191 259 321 389 9.70e-15 74.7
MsaG043351 AT3G01320.2 40.404 99 55 3 111 206 325 422 7.28e-13 68.9
MsaG043351 AT1G24190.1 32.512 203 109 7 69 265 178 358 1.15e-14 74.3
MsaG043351 AT1G24190.1 38.144 97 56 2 95 188 270 365 5.86e-13 69.3
MsaG043351 AT1G70060.2 40.964 83 48 1 193 275 303 384 6.55e-13 69.3
MsaG043351 AT1G70060.1 40.964 83 48 1 193 275 303 384 6.55e-13 69.3

Find 54 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCAACAGGTGGATGATTTAT+TGG 0.144756 8:+43763305 MsaT043351.1:intron
CCGAGAGGAATTACAATTAT+TGG 0.178616 8:+43762855 MsaT043351.1:CDS
ATCAAACCTTTGTTAATTTC+TGG 0.213353 8:-43756207 None:intergenic
ATCAAACCTTTGTTAAATTC+TGG 0.224271 8:-43756099 None:intergenic
GTCAGCAGCTTCATTATCTT+TGG 0.238299 8:-43754386 None:intergenic
GGGAAAAGATACCGATCTTA+TGG 0.275983 8:+43763326 MsaT043351.1:CDS
AAACAATCCTGAAAATTATC+AGG 0.286860 8:+43762789 MsaT043351.1:CDS
CTTCAAGGCTTTAACAAGTA+TGG 0.302654 8:-43763391 None:intergenic
AGTAGACAGCGTGGGGCGTT+TGG 0.314226 8:-43754422 None:intergenic
CAACAGGTGGATGATTTATT+GGG 0.325941 8:+43763306 MsaT043351.1:intron
GTAGACAGCGTGGGGCGTTT+GGG 0.348314 8:-43754421 None:intergenic
TTGCAAATCGTTGGCCTTCT+CGG 0.356912 8:-43756043 None:intergenic
CCTTTGTTAATTTCTGGATC+AGG 0.378179 8:-43756201 None:intergenic
AAAGATTTGACGACCCTTCA+AGG 0.382345 8:-43763406 None:intergenic
TCCCTACATAGCTACAGAAT+TGG 0.387098 8:+43756454 MsaT043351.1:CDS
CATACTTGTTAAAGCCTTGA+AGG 0.408957 8:+43763392 MsaT043351.1:CDS
TTCATTAGGAATTTGTTTGT+CGG 0.419300 8:+43756012 MsaT043351.1:intron
ACCTCTCCGTGACTTTGTTA+AGG 0.425146 8:-43756396 None:intergenic
CTTTCAGATAGGCGATTTGT+TGG 0.441089 8:+43761761 MsaT043351.1:intron
TTCCAATTCTGTAGCTATGT+AGG 0.450337 8:-43756456 None:intergenic
GGAAAAGATACCGATCTTAT+GGG 0.453450 8:+43763327 MsaT043351.1:CDS
TTCTTGAAACAGAAATGAAA+AGG 0.481600 8:+43754362 None:intergenic
AAGGGTCGTCAAATCTTTCA+CGG 0.481860 8:+43763411 MsaT043351.1:CDS
TCCAATTCTGTAGCTATGTA+GGG 0.485081 8:-43756455 None:intergenic
TTTCAGATAGGCGATTTGTT+GGG 0.503365 8:+43761762 MsaT043351.1:intron
CATGACACAAAGTGAAAAGA+AGG 0.508610 8:+43763365 MsaT043351.1:CDS
AACAAAGTCACGGAGAGGTT+AGG 0.509807 8:+43756400 MsaT043351.1:CDS
TTTGTTGTCTCAGGTATGTA+CGG 0.516082 8:+43762718 MsaT043351.1:intron
GTTAAATTCGCCCATAAGAT+CGG 0.518818 8:-43763337 None:intergenic
AGGTTTGATGAGTGCAAATG+AGG 0.530693 8:+43756221 MsaT043351.1:CDS
TTGTCTCAGGTATGTACGGT+TGG 0.541570 8:+43762722 MsaT043351.1:intron
CCAATAATTGTAATTCCTCT+CGG 0.548016 8:-43762855 None:intergenic
ATGATCACCTTGCAAATCGT+TGG 0.554360 8:-43756052 None:intergenic
AGGGTCGTCAAATCTTTCAC+GGG 0.558930 8:+43763412 MsaT043351.1:CDS
TTCTTACCTTAACAAAGTCA+CGG 0.564749 8:+43756390 MsaT043351.1:CDS
CTTGATCCAGAATTTAACAA+AGG 0.573154 8:+43756093 MsaT043351.1:CDS
GGGAAAACATTCTGATCTTG+TGG 0.578356 8:+43761782 MsaT043351.1:CDS
TCTTGTGTAGTAGACAGCGT+GGG 0.582235 8:-43754430 None:intergenic
TTGACACAATGTGAATCCAA+CGG 0.587030 8:+43761822 MsaT043351.1:CDS
ATACTTGTTAAAGCCTTGAA+GGG 0.587869 8:+43763393 MsaT043351.1:CDS
AAACATTCTGATCTTGTGGA+GGG 0.596716 8:+43761786 MsaT043351.1:CDS
GACATGACCATTGATACAAA+AGG 0.598695 8:+43756153 MsaT043351.1:CDS
CAAAGGTTTGATAAGTGCAG+AGG 0.606415 8:+43756110 MsaT043351.1:CDS
CCTGATCCAGAAATTAACAA+AGG 0.616646 8:+43756201 MsaT043351.1:CDS
AAGACAAGAACTACAAACAA+TGG 0.616882 8:+43756486 MsaT043351.1:CDS
AAAACATTCTGATCTTGTGG+AGG 0.627867 8:+43761785 MsaT043351.1:CDS
GTCTTGTGTAGTAGACAGCG+TGG 0.639850 8:-43754431 None:intergenic
GATCAGGATGTTCGACAATG+AGG 0.651290 8:-43756185 None:intergenic
TGTCGGACTGAGTACCGAGA+AGG 0.658623 8:+43756029 MsaT043351.1:CDS
GAGAAGGCCAACGATTTGCA+AGG 0.661652 8:+43756045 MsaT043351.1:CDS
CAGCAAAATAATTAACCGAG+AGG 0.664064 8:+43762840 MsaT043351.1:CDS
ACCTTAACAAAGTCACGGAG+AGG 0.667295 8:+43756395 MsaT043351.1:CDS
CTTGTGTAGTAGACAGCGTG+GGG 0.673923 8:-43754429 None:intergenic
GGAGAGGTTAGGAATACACG+AGG 0.778238 8:+43756411 MsaT043351.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 43754376 43763440 43754376 ID=MsaG043351
Chr8 mRNA 43754376 43763440 43754376 ID=MsaT043351.1;Parent=MsaG043351
Chr8 exon 43754376 43754455 43754376 ID=MsaT043351.1.exon1;Parent=MsaT043351.1
Chr8 CDS 43754376 43754455 43754376 ID=cds.MsaT043351.1;Parent=MsaT043351.1
Chr8 exon 43756020 43756273 43756020 ID=MsaT043351.1.exon2;Parent=MsaT043351.1
Chr8 CDS 43756020 43756273 43756020 ID=cds.MsaT043351.1;Parent=MsaT043351.1
Chr8 exon 43756386 43756507 43756386 ID=MsaT043351.1.exon3;Parent=MsaT043351.1
Chr8 CDS 43756386 43756507 43756386 ID=cds.MsaT043351.1;Parent=MsaT043351.1
Chr8 exon 43761768 43761843 43761768 ID=MsaT043351.1.exon4;Parent=MsaT043351.1
Chr8 CDS 43761768 43761843 43761768 ID=cds.MsaT043351.1;Parent=MsaT043351.1
Chr8 exon 43761933 43761962 43761933 ID=MsaT043351.1.exon5;Parent=MsaT043351.1
Chr8 CDS 43761933 43761962 43761933 ID=cds.MsaT043351.1;Parent=MsaT043351.1
Chr8 exon 43762731 43762876 43762731 ID=MsaT043351.1.exon6;Parent=MsaT043351.1
Chr8 CDS 43762731 43762876 43762731 ID=cds.MsaT043351.1;Parent=MsaT043351.1
Chr8 exon 43763312 43763440 43763312 ID=MsaT043351.1.exon7;Parent=MsaT043351.1
Chr8 CDS 43763312 43763440 43763312 ID=cds.MsaT043351.1;Parent=MsaT043351.1
Gene Sequence

>MsaT043351.1

ATGAAAAGGTCCAAAGATAATGAAGCTGCTGACATTGATTCACAACCCAAACGCCCCACGCTGTCTACTACACAAGACTCGAATTTGTTTGTCGGACTGAGTACCGAGAAGGCCAACGATTTGCAAGGTGATCATGATCTCATTGTCAAAAATCTTGATCCAGAATTTAACAAAGGTTTGATAAGTGCAGAGGTGTCTGATGAACGAAACAGTGACATGACCATTGATACAAAAGGTGATCGTGACCTCATTGTCGAACATCCTGATCCAGAAATTAACAAAGGTTTGATGAGTGCAAATGAGGAGCGTGATGAAAAAAAGAAGTGTCATAAAGCATTTTCTTACCTTAACAAAGTCACGGAGAGGTTAGGAATACACGAGGATTACCAAAAATTTGAGAAGTCCCTACATAGCTACAGAATTGGAACAATTACAAGACAAGAACTACAAACAATGATAGGCGATTTGTTGGGAAAACATTCTGATCTTGTGGAGGGATTTAATGAGTTTTTGACACAATGTGAATCCAACGAAGGATTATTTGCTCATGTCTTGAATAAAAGTATGTACGGTTGGTACAGTGAAGAACTTGCCTTCCTTGAAAAAGTCAAAGAGAAATTAAACAATCCTGAAAATTATCAGGTTTTTTTGAAGTGCCTACATATCCATGCCAGCAAAATAATTAACCGAGAGGAATTACAATTATTGGTGGATGATTTATTGGGAAAAGATACCGATCTTATGGGCGAATTTAACGACTTCATGACACAAAGTGAAAAGAAGGATGCCATACTTGTTAAAGCCTTGAAGGGTCGTCAAATCTTTCACGGGTTGTAA
Protein sequence

>MsaT043351.1

MKRSKDNEAADIDSQPKRPTLSTTQDSNLFVGLSTEKANDLQGDHDLIVKNLDPEFNKGLISAEVSDERNSDMTIDTKGDRDLIVEHPDPEINKGLMSANEERDEKKKCHKAFSYLNKVTERLGIHEDYQKFEKSLHSYRIGTITRQELQTMIGDLLGKHSDLVEGFNEFLTQCESNEGLFAHVLNKSMYGWYSEELAFLEKVKEKLNNPENYQVFLKCLHIHASKIINREELQLLVDDLLGKDTDLMGEFNDFMTQSEKKDAILVKALKGRQIFHGL*