AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016098

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016098 MtrunA17_Chr3g0124921 98.471 327 5 0 1 327 1 327 0.0 674
MsaG016098 MtrunA17_Chr1g0159831 72.727 330 81 5 1 323 1 328 2.28e-173 484
MsaG016098 MtrunA17_Chr3g0103031 51.250 320 152 4 4 321 7 324 9.84e-116 337
MsaG016098 MtrunA17_Chr5g0447111 46.273 322 168 4 2 321 7 325 8.75e-97 289
MsaG016098 MtrunA17_Chr5g0447191 40.741 189 106 3 135 321 3 187 3.52e-38 134
MsaG016098 MtrunA17_Chr4g0029841 28.283 198 136 3 128 324 89 281 3.99e-17 80.1
MsaG016098 MtrunA17_Chr3g0125321 27.429 175 120 3 151 321 70 241 5.85e-12 65.1
MsaG016098 MtrunA17_Chr7g0259851 31.298 131 85 2 161 289 526 653 5.86e-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
MsaG016098 AT1G21780.2 67.890 327 102 3 1 326 1 325 1.41e-163 459
MsaG016098 AT1G21780.1 67.890 327 102 3 1 326 1 325 1.41e-163 459
MsaG016098 AT1G55760.1 48.297 323 162 4 2 322 5 324 9.27e-111 325
MsaG016098 AT2G39760.2 33.108 148 88 1 151 287 184 331 2.03e-14 73.6
MsaG016098 AT2G39760.4 33.108 148 88 1 151 287 184 331 2.10e-14 73.6
MsaG016098 AT2G39760.3 33.108 148 88 1 151 287 184 331 2.10e-14 73.6
MsaG016098 AT2G39760.1 33.108 148 88 1 151 287 184 331 3.86e-14 73.2
MsaG016098 AT5G13060.1 26.415 159 112 3 132 289 541 695 3.10e-11 64.7
MsaG016098 AT3G56230.1 27.219 169 117 4 157 321 107 273 8.70e-11 62.4

Find 65 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TACAATTAACTAAACTATTC+TGG 0.154757 3:-94151826 None:intergenic
TTAACATTCTTATTTGAATT+TGG 0.187991 3:+94151700 MsaT016098.1:CDS
TTAGAAACTTTAGAAGGTTC+TGG 0.232000 3:-94149376 None:intergenic
CCCTATCTGCGTGCTGAAAA+AGG 0.234948 3:-94151759 None:intergenic
AGAACCTTCTAAAGTTTCTA+AGG 0.261667 3:+94149378 MsaT016098.1:CDS
ATTCTTCGTGTCTCCGTTGC+CGG 0.263401 3:+94149424 MsaT016098.1:CDS
CATTCATATGGCATATCTTT+AGG 0.265199 3:-94150642 None:intergenic
CAATTAAACAAGTAGATTTC+AGG 0.285069 3:+94151515 MsaT016098.1:CDS
ATCCTTTCAAGCTCGGAATC+TGG 0.336252 3:+94149215 MsaT016098.1:CDS
CAAGTGACATGTCTTCAATA+TGG 0.337240 3:-94151456 None:intergenic
CGCAGATAGGGAGCTAGTTA+TGG 0.364760 3:+94151771 MsaT016098.1:CDS
ACAATTAACTAAACTATTCT+GGG 0.384725 3:-94151825 None:intergenic
AATAAACTTGCGGGAAGAAC+CGG 0.390041 3:-94149443 None:intergenic
CTCTCCAACCATGGCGGATA+GGG 0.391213 3:+94149123 None:intergenic
CGCAAGTTTATTGTTTCTCC+TGG 0.392552 3:+94149454 MsaT016098.1:CDS
TGCTCCTTAGAAACTTTAGA+AGG 0.406050 3:-94149382 None:intergenic
GCAGCTAATAAGTATGATAT+TGG 0.412726 3:+94151562 MsaT016098.1:CDS
GTCTATTGATACTGCTTTCG+TGG 0.421744 3:+94150588 MsaT016098.1:CDS
CAGTTTATGAAAGGCTGCTT+AGG 0.427187 3:+94150545 MsaT016098.1:intron
GCTTTGAAACACAGGAGAAC+TGG 0.434742 3:-94151392 None:intergenic
GCTCTTCGAAGTTACTTGTA+TGG 0.435203 3:+94151490 MsaT016098.1:CDS
GGACACAAGATGACTTTGTC+TGG 0.443732 3:+94150566 MsaT016098.1:CDS
AAACACTGTCTTGCATTGCT+TGG 0.456346 3:+94151538 MsaT016098.1:CDS
TAGCATCTCAAGAACATTGT+CGG 0.467745 3:-94151632 None:intergenic
CGGAGTTAATATCTTCAAGA+AGG 0.472730 3:-94151612 None:intergenic
CCTCATCGAGCATGCGGGAG+AGG 0.478741 3:-94151300 None:intergenic
TTAACTAAACTATTCTGGGT+TGG 0.479406 3:-94151821 None:intergenic
AGGAGAAACAATAAACTTGC+GGG 0.481416 3:-94149452 None:intergenic
CGAAGAATGAAACGAGCAAC+GGG 0.482830 3:-94149409 None:intergenic
ATTAGAAACTCACATTCATA+TGG 0.483383 3:-94150654 None:intergenic
TTGAGATGCTAAATGAGGCT+TGG 0.487814 3:+94151644 MsaT016098.1:CDS
CGAGCATGCGGGAGAGGCAA+TGG 0.488185 3:-94151294 None:intergenic
CAGTTACACAAGTTAAAGAA+AGG 0.488458 3:+94151673 MsaT016098.1:CDS
TCAAGCTCGGAATCTGGAAC+TGG 0.498675 3:+94149221 MsaT016098.1:CDS
AAATCTGATCCTTTCAAGCT+CGG 0.501085 3:+94149208 MsaT016098.1:CDS
TCTCTCCAACCATGGCGGAT+AGG 0.511002 3:+94149122 None:intergenic
CATCGGCAGTGACAATGGTT+AGG 0.526389 3:-94151336 None:intergenic
GTAACTTCGAAGAGCAGTGC+AGG 0.535264 3:-94151482 None:intergenic
TGTTCTTGAGATGCTAAATG+AGG 0.536700 3:+94151639 MsaT016098.1:CDS
TTCCAGATTCCGAGCTTGAA+AGG 0.545788 3:-94149217 None:intergenic
GCTAATAAGTATGATATTGG+TGG 0.561832 3:+94151565 MsaT016098.1:CDS
AGTTCTATATGGTCATCTGA+TGG 0.568409 3:+94151235 MsaT016098.1:CDS
GCTTGTATGCAGTTTATGAA+AGG 0.570227 3:+94150536 MsaT016098.1:intron
TCTATTGATACTGCTTTCGT+GGG 0.572445 3:+94150589 MsaT016098.1:CDS
GTGGTGAACCTAGTTCTATA+TGG 0.574017 3:+94151224 MsaT016098.1:CDS
TCAGATGACCATATAGAACT+AGG 0.576491 3:-94151232 None:intergenic
GTGAGCTCTCAATGTACCAT+CGG 0.581782 3:-94151353 None:intergenic
TGTACCATCGGCAGTGACAA+TGG 0.586089 3:-94151341 None:intergenic
TGGTACATTGAGAGCTCACA+AGG 0.587134 3:+94151357 MsaT016098.1:CDS
TATAGCCTCATCGAGCATGC+GGG 0.592694 3:-94151305 None:intergenic
ATTCAACATCAATGATGAAG+CGG 0.594685 3:-94150612 None:intergenic
TGAAACATGCTTTGAAACAC+AGG 0.596849 3:-94151400 None:intergenic
GTATAGCCTCATCGAGCATG+CGG 0.598283 3:-94151306 None:intergenic
CCTCTCCCGCATGCTCGATG+AGG 0.599409 3:+94151300 MsaT016098.1:CDS
CTAACCATTGTCACTGCCGA+TGG 0.602095 3:+94151337 MsaT016098.1:CDS
CTTGCGGGAAGAACCGGCAA+CGG 0.610737 3:-94149437 None:intergenic
CAATGGAAAATCGAAAACTT+CGG 0.614285 3:+94149169 MsaT016098.1:CDS
CATGTTTCATCACAACCTGA+AGG 0.618326 3:+94151414 MsaT016098.1:CDS
CAGGAGAAACAATAAACTTG+CGG 0.623649 3:-94149453 None:intergenic
AGAATGAAACGAGCAACGGG+TGG 0.627136 3:-94149406 None:intergenic
AGTGTCAACCCTATCCGCCA+TGG 0.645297 3:-94149131 None:intergenic
ACGAAGAATGAAACGAGCAA+CGG 0.645922 3:-94149410 None:intergenic
GAATGAAACGAGCAACGGGT+GGG 0.646859 3:-94149405 None:intergenic
CTGTTGCAAGATTAGCACAA+TGG 0.667299 3:+94149152 MsaT016098.1:CDS
TGGTCTGAAAGATTTATGTG+AGG 0.733733 3:+94151585 MsaT016098.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 94149133 94151834 94149133 ID=MsaG016098
Chr3 mRNA 94149133 94151834 94149133 ID=MsaT016098.1;Parent=MsaG016098
Chr3 exon 94149133 94149242 94149133 ID=MsaT016098.1.exon1;Parent=MsaT016098.1
Chr3 CDS 94149133 94149242 94149133 ID=cds.MsaT016098.1;Parent=MsaT016098.1
Chr3 exon 94149330 94149475 94149330 ID=MsaT016098.1.exon2;Parent=MsaT016098.1
Chr3 CDS 94149330 94149475 94149330 ID=cds.MsaT016098.1;Parent=MsaT016098.1
Chr3 exon 94150548 94150663 94150548 ID=MsaT016098.1.exon3;Parent=MsaT016098.1
Chr3 CDS 94150548 94150663 94150548 ID=cds.MsaT016098.1;Parent=MsaT016098.1
Chr3 exon 94151223 94151834 94151223 ID=MsaT016098.1.exon4;Parent=MsaT016098.1
Chr3 CDS 94151223 94151834 94151223 ID=cds.MsaT016098.1;Parent=MsaT016098.1
Gene Sequence

>MsaT016098.1

ATGGCGGATAGGGTTGACACTGTTGCAAGATTAGCACAATGGAAAATCGAAAACTTCGGTCCTTGTTCTTACAAAAAATCTGATCCTTTCAAGCTCGGAATCTGGAACTGGTACTTTTCAATAGTAAGGAATAGGTTTTTCTCCATTCATCTTTTTCCAGAACCTTCTAAAGTTTCTAAGGAGCACCCACCCGTTGCTCGTTTCATTCTTCGTGTCTCCGTTGCCGGTTCTTCCCGCAAGTTTATTGTTTCTCCTGTTTATGAAAGGCTGCTTAGGACACAAGATGACTTTGTCTGGTCTATTGATACTGCTTTCGTGGGCCGCTTCATCATTGATGTTGAATTTCTTGACCTAAAGATATGCCATATGAATGGTGGTGAACCTAGTTCTATATGGTCATCTGATGGAACTTCGCAATGCAATGAAGCTCAAAGAAGTACTCTCCATTGCCTCTCCCGCATGCTCGATGAGGCTATACATGCTGACCTAACCATTGTCACTGCCGATGGTACATTGAGAGCTCACAAGGCAATTTTGTCTGCCAGTTCTCCTGTGTTTCAAAGCATGTTTCATCACAACCTGAAGGAAAAAGAGTCGTCAACAATCCATATTGAAGACATGTCACTTGAATCCTGCACTGCTCTTCGAAGTTACTTGTATGGAGCAATTAAACAAGTAGATTTCAGGAAACACTGTCTTGCATTGCTTGGAGCAGCTAATAAGTATGATATTGGTGGTCTGAAAGATTTATGTGAGGAAAACCTTCTTGAAGATATTAACTCCGACAATGTTCTTGAGATGCTAAATGAGGCTTGGCTTTATCAGTTACACAAGTTAAAGAAAGGATGTTTAACATTCTTATTTGAATTTGGTAAAATATATGATGTTAAAACTGATGAAATAAATAACCTTTTTCAGCACGCAGATAGGGAGCTAGTTATGGAGATGTTTCATGTGATGCTTACAATTTCCAACCCAGAATAG
Protein sequence

>MsaT016098.1

MADRVDTVARLAQWKIENFGPCSYKKSDPFKLGIWNWYFSIVRNRFFSIHLFPEPSKVSKEHPPVARFILRVSVAGSSRKFIVSPVYERLLRTQDDFVWSIDTAFVGRFIIDVEFLDLKICHMNGGEPSSIWSSDGTSQCNEAQRSTLHCLSRMLDEAIHADLTIVTADGTLRAHKAILSASSPVFQSMFHHNLKEKESSTIHIEDMSLESCTALRSYLYGAIKQVDFRKHCLALLGAANKYDIGGLKDLCEENLLEDINSDNVLEMLNEAWLYQLHKLKKGCLTFLFEFGKIYDVKTDEINNLFQHADRELVMEMFHVMLTISNPE*