AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG035753

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG035753 MtrunA17_Chr7g0220371 94.888 313 14 1 36 348 1 311 0.0 538
MsaG035753 MtrunA17_Chr5g0420701 41.869 289 131 6 62 337 25 289 2.23e-60 197
MsaG035753 MtrunA17_Chr4g0061791 42.236 322 150 12 35 337 217 521 1.09e-54 188
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG035753 AT1G69010.1 41.615 322 137 9 38 348 2 283 4.71e-58 191
MsaG035753 AT5G38860.1 39.630 270 129 7 82 348 27 265 1.94e-49 168
MsaG035753 AT5G08130.3 36.808 307 156 7 36 338 103 375 8.24e-44 156
MsaG035753 AT5G08130.1 36.482 307 158 7 36 338 103 376 2.70e-43 155
MsaG035753 AT5G08130.7 36.808 307 156 7 36 338 223 495 7.58e-43 156
MsaG035753 AT5G08130.5 36.808 307 156 7 36 338 227 499 7.93e-43 156
MsaG035753 AT5G08130.2 36.482 307 158 7 36 338 223 496 1.81e-42 155
MsaG035753 AT5G08130.4 36.482 307 158 7 36 338 223 496 1.81e-42 155
MsaG035753 AT5G08130.8 36.482 307 158 7 36 338 227 500 1.99e-42 155
MsaG035753 AT5G08130.6 36.482 307 158 7 36 338 223 496 2.43e-42 154
MsaG035753 AT5G38860.2 43.915 189 96 3 82 260 27 215 1.34e-40 142

Find 85 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCATGTTTAAACAGAATATT+AGG 0.257906 7:+20496296 MsaT035753.1:intron
CATTCTCGAGCTATTCAAAA+TGG 0.263201 7:+20494289 MsaT035753.1:CDS
TGGAGGGGTCAGACATTATT+GGG 0.290265 7:-20494366 None:intergenic
CAACCAATTCTTCATCTTGA+TGG 0.291614 7:-20491966 None:intergenic
ATCAAGTACCTCCAATAAAA+AGG 0.295735 7:-20492982 None:intergenic
GTGGAGGGGTCAGACATTAT+TGG 0.312044 7:-20494367 None:intergenic
TTTGTTGAAGAAAAGGAAAA+TGG 0.316032 7:+20491927 MsaT035753.1:CDS
TGAGTATATTCATTTCTTAC+AGG 0.317013 7:+20493114 MsaT035753.1:CDS
ACAATATGATTGTCCTTGTT+TGG 0.394063 7:-20494574 None:intergenic
CAAATCTCCAGCCTCAAGTA+TGG 0.400754 7:+20494542 MsaT035753.1:CDS
ACCCATGGAATCAATTTAGT+TGG 0.403968 7:-20493184 None:intergenic
CATCCCATGGGATGATGATA+AGG 0.409949 7:+20490984 MsaT035753.1:CDS
AGGCCATCAAGATGAAGAAT+TGG 0.415929 7:+20491963 MsaT035753.1:CDS
ATTCAAAATGGGTCTGTTGA+TGG 0.420277 7:+20494301 MsaT035753.1:CDS
CCAATCGCATTTGCATGGTC+AGG 0.430055 7:-20494438 None:intergenic
ACCTGAAGATTGTAGCGCTT+GGG 0.439567 7:-20496327 None:intergenic
GAGGATTTGAAAATTGATAG+TGG 0.439987 7:+20494622 MsaT035753.1:CDS
GTTGGTAGACGAACAAATAC+TGG 0.440350 7:+20496389 MsaT035753.1:CDS
ATTCAGAAAGGTTGCATCCC+TGG 0.447634 7:+20494394 MsaT035753.1:CDS
ACCATACCACCGCTAACAAC+CGG 0.455738 7:-20494472 None:intergenic
TCCTGACTCCATCCTTCATA+AGG 0.459094 7:-20493160 None:intergenic
AACCTTTGAGCTATATTGAC+AGG 0.466561 7:-20496420 None:intergenic
CACCTGAAGATTGTAGCGCT+TGG 0.468612 7:-20496328 None:intergenic
TGGAGATTTGAAGCCATGTC+AGG 0.468800 7:-20494529 None:intergenic
ACCCAAGCGCTACAATCTTC+AGG 0.469010 7:+20496326 MsaT035753.1:CDS
GATGATGATAAGGGAATTCA+AGG 0.469351 7:+20490994 MsaT035753.1:CDS
AGCCAACTAAATTGATTCCA+TGG 0.470118 7:+20493182 MsaT035753.1:CDS
TTGAGAGAGGAAGATGTGTT+TGG 0.473751 7:-20492018 None:intergenic
ATTTATGAACATCCTTATGA+AGG 0.475064 7:+20493148 MsaT035753.1:CDS
TCCTTATGAAGGATGGAGTC+AGG 0.483776 7:+20493159 MsaT035753.1:CDS
TGCTAAGCCATACTTGAGGC+TGG 0.494117 7:-20494549 None:intergenic
TGAACCCATCAGAGGGAAAA+GGG 0.494552 7:+20492234 MsaT035753.1:CDS
ATCAATTTCCACCGAGACAT+TGG 0.500672 7:-20496366 None:intergenic
ATGAACCCATCAGAGGGAAA+AGG 0.501254 7:+20492233 MsaT035753.1:CDS
ATCCCATGGGATGATGATAA+GGG 0.503332 7:+20490985 MsaT035753.1:CDS
ACTACTTCTGTGGATGAACC+AGG 0.503685 7:-20494412 None:intergenic
ATTCTCGAGCTATTCAAAAT+GGG 0.508087 7:+20494290 MsaT035753.1:CDS
GCCATGTCAGGATTAGATAC+AGG 0.508965 7:-20494517 None:intergenic
CCTGACCATGCAAATGCGAT+TGG 0.517967 7:+20494438 MsaT035753.1:CDS
GCGATTGGACATGTTTGATC+CGG 0.526444 7:+20494453 MsaT035753.1:CDS
ATGAACATCCTTATGAAGGA+TGG 0.526473 7:+20493152 MsaT035753.1:CDS
TTTCCACCGAGACATTGGTC+TGG 0.526791 7:-20496361 None:intergenic
TCCGGTTGTTAGCGGTGGTA+TGG 0.531955 7:+20494471 MsaT035753.1:CDS
CAATCGCATTTGCATGGTCA+GGG 0.532625 7:-20494437 None:intergenic
ATGTTTGATCCGGTTGTTAG+CGG 0.533535 7:+20494463 MsaT035753.1:CDS
CTGAATGCTTAGAACGATGA+GGG 0.533904 7:-20492261 None:intergenic
TTGTGACTTGGCAGTGAAGG+TGG 0.545492 7:+20492210 MsaT035753.1:intron
GCAACCTTTCTGAATAGTTG+TGG 0.548890 7:-20494386 None:intergenic
TTCCACCGAGACATTGGTCT+GGG 0.553185 7:-20496360 None:intergenic
TCTCAAGTGCCTACTCTCAA+AGG 0.555019 7:+20494662 MsaT035753.1:CDS
ATGCTACCTCACACATCCCA+TGG 0.555978 7:+20490971 MsaT035753.1:CDS
ATTCCCTTATCATCATCCCA+TGG 0.563508 7:-20490988 None:intergenic
ATTATTGTTGTTGTTGAGAG+AGG 0.566468 7:-20492031 None:intergenic
ACCTTTCTGAATAGTTGTGG+AGG 0.568104 7:-20494383 None:intergenic
AAAATGGCTAGGTCTGCTAA+AGG 0.571124 7:+20491943 MsaT035753.1:CDS
TTCCCTTATCATCATCCCAT+GGG 0.571709 7:-20490987 None:intergenic
CCTTTCTGAATAGTTGTGGA+GGG 0.573907 7:-20494382 None:intergenic
CATGTCCAATCGCATTTGCA+TGG 0.574061 7:-20494443 None:intergenic
GCCAACTAAATTGATTCCAT+GGG 0.575605 7:+20493183 MsaT035753.1:CDS
TATGGTGACTCAACAGATGC+TGG 0.576277 7:+20494489 MsaT035753.1:CDS
TTTGATCCGGTTGTTAGCGG+TGG 0.584063 7:+20494466 MsaT035753.1:CDS
TGAAGAAAAGGAAAATGGCT+AGG 0.598883 7:+20491932 MsaT035753.1:CDS
CCCTCCACAACTATTCAGAA+AGG 0.598886 7:+20494382 MsaT035753.1:CDS
ACCTTTGAGCTATATTGACA+GGG 0.600389 7:-20496419 None:intergenic
GAAGAAGTAAAATTAATGAG+AGG 0.600769 7:+20492299 MsaT035753.1:CDS
CCCCTGTCAATATAGCTCAA+AGG 0.601053 7:+20496418 MsaT035753.1:CDS
CTTTCTGAATAGTTGTGGAG+GGG 0.603614 7:-20494381 None:intergenic
AGGTGGATGAACCCATCAGA+GGG 0.603757 7:+20492227 MsaT035753.1:CDS
TCTGAATGCTTAGAACGATG+AGG 0.614104 7:-20492262 None:intergenic
ATGGCTTAGCAAACCAAACA+AGG 0.619238 7:+20494561 MsaT035753.1:CDS
GCCTGTATCTAATCCTGACA+TGG 0.619504 7:+20494516 MsaT035753.1:CDS
AACAACAACAATAATAACAA+TGG 0.621353 7:+20492039 MsaT035753.1:CDS
GTCTCGGTGGAAATTGATGT+TGG 0.623639 7:+20496371 MsaT035753.1:CDS
TGCTACCTCACACATCCCAT+GGG 0.630815 7:+20490972 MsaT035753.1:CDS
TTTGTCCCAGACCAATGTCT+CGG 0.633388 7:+20496355 MsaT035753.1:CDS
GGTCAGGGGAACTACTTCTG+TGG 0.634643 7:-20494422 None:intergenic
GGTTTGCTAAGCCATACTTG+AGG 0.640701 7:-20494553 None:intergenic
AAGGTGGATGAACCCATCAG+AGG 0.649580 7:+20492226 MsaT035753.1:CDS
AATCGCATTTGCATGGTCAG+GGG 0.653290 7:-20494436 None:intergenic
CTTTGAGCTATATTGACAGG+GGG 0.658543 7:-20496417 None:intergenic
ATGGTGTATTGACAGTGGTG+GGG 0.679210 7:+20498392 MsaT035753.1:intron
CCTTTGAGCTATATTGACAG+GGG 0.682925 7:-20496418 None:intergenic
ATCATCCCATGGGATGTGTG+AGG 0.687838 7:-20490977 None:intergenic
CTACTTCTGTGGATGAACCA+GGG 0.695417 7:-20494411 None:intergenic
GTCCCAGACCAATGTCTCGG+TGG 0.716299 7:+20496358 MsaT035753.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 20490952 20498424 20490952 ID=MsaG035753
Chr7 mRNA 20490952 20498424 20490952 ID=MsaT035753.1;Parent=MsaG035753
Chr7 exon 20490952 20491015 20490952 ID=MsaT035753.1.exon1;Parent=MsaT035753.1
Chr7 CDS 20490952 20491015 20490952 ID=cds.MsaT035753.1;Parent=MsaT035753.1
Chr7 exon 20491905 20492060 20491905 ID=MsaT035753.1.exon2;Parent=MsaT035753.1
Chr7 CDS 20491905 20492060 20491905 ID=cds.MsaT035753.1;Parent=MsaT035753.1
Chr7 exon 20492224 20492320 20492224 ID=MsaT035753.1.exon3;Parent=MsaT035753.1
Chr7 CDS 20492224 20492320 20492224 ID=cds.MsaT035753.1;Parent=MsaT035753.1
Chr7 exon 20492926 20492995 20492926 ID=MsaT035753.1.exon4;Parent=MsaT035753.1
Chr7 CDS 20492926 20492995 20492926 ID=cds.MsaT035753.1;Parent=MsaT035753.1
Chr7 exon 20493109 20493204 20493109 ID=MsaT035753.1.exon5;Parent=MsaT035753.1
Chr7 CDS 20493109 20493204 20493109 ID=cds.MsaT035753.1;Parent=MsaT035753.1
Chr7 exon 20494253 20494683 20494253 ID=MsaT035753.1.exon6;Parent=MsaT035753.1
Chr7 CDS 20494253 20494683 20494253 ID=cds.MsaT035753.1;Parent=MsaT035753.1
Chr7 exon 20496310 20496439 20496310 ID=MsaT035753.1.exon7;Parent=MsaT035753.1
Chr7 CDS 20496310 20496439 20496310 ID=cds.MsaT035753.1;Parent=MsaT035753.1
Chr7 exon 20498407 20498424 20498407 ID=MsaT035753.1.exon8;Parent=MsaT035753.1
Chr7 CDS 20498407 20498424 20498407 ID=cds.MsaT035753.1;Parent=MsaT035753.1
Gene Sequence

>MsaT035753.1

ATGGTTAGAGTAAGAGAAAATGCTACCTCACACATCCCATGGGATGATGATAAGGGAATTCAAGCTTTGGATTTTCTCGAGAAAATTTTGTTGAAGAAAAGGAAAATGGCTAGGTCTGCTAAAGGCCATCAAGATGAAGAATTGGTTGATGATGATGACGATCAAGACATCTTCACACCAAACACATCTTCCTCTCTCAACAACAACAATAATAACAATGTGAAGGTGGATGAACCCATCAGAGGGAAAAGGGCTAACCCTCATCGTTCTAAGCATTCAGAAACTGAGCAGCGTAGAAGAAGTAAAATTAATGAGAGATTTCAGGCTCTGAGAGATCTCATTCCTGAAAATGATTCAAAAAGAGATAAAGCTTCCTTTTTATTGGAGGTTATTGAGTATATTCATTTCTTACAGGAAAAGTTACAAATTTATGAACATCCTTATGAAGGATGGAGTCAGGAGCCAACTAAATTGATTCCATGGAGAAATCATCACGGACCTTCCGAAAATACTACAGATCATTCTCGAGCTATTCAAAATGGGTCTGTTGATGGAAAAAATAACGTCTCTCCATCATTGCCTAAAAATGTACAGAACCCAATAATGTCTGACCCCTCCACAACTATTCAGAAAGGTTGCATCCCTGGTTCATCCACAGAAGTAGTTCCCCTGACCATGCAAATGCGATTGGACATGTTTGATCCGGTTGTTAGCGGTGGTATGGTGACTCAACAGATGCTGGAGTTGCCTGTATCTAATCCTGACATGGCTTCAAATCTCCAGCCTCAAGTATGGCTTAGCAAACCAAACAAGGACAATCATATTGTTTCAGATAATACATTGAGAGAAAAAGAGGATTTGAAAATTGATAGTGGATCAGAATCAGATAGCATCTCAAGTGCCTACTCTCAAAGAATATTAGGTACTCTCACCCAAGCGCTACAATCTTCAGGTGTAGATTTGTCCCAGACCAATGTCTCGGTGGAAATTGATGTTGGTAGACGAACAAATACTGGATTTACCCCCTGTCAATATAGCTCAAAGTGGTGGGGTGTCCCTTAA
Protein sequence

>MsaT035753.1

MVRVRENATSHIPWDDDKGIQALDFLEKILLKKRKMARSAKGHQDEELVDDDDDQDIFTPNTSSSLNNNNNNNVKVDEPIRGKRANPHRSKHSETEQRRRSKINERFQALRDLIPENDSKRDKASFLLEVIEYIHFLQEKLQIYEHPYEGWSQEPTKLIPWRNHHGPSENTTDHSRAIQNGSVDGKNNVSPSLPKNVQNPIMSDPSTTIQKGCIPGSSTEVVPLTMQMRLDMFDPVVSGGMVTQQMLELPVSNPDMASNLQPQVWLSKPNKDNHIVSDNTLREKEDLKIDSGSESDSISSAYSQRILGTLTQALQSSGVDLSQTNVSVEIDVGRRTNTGFTPCQYSSKWWGVP*