AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1123380


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1123380 MtrunA17_Chr4g0072411 100.000 103 0 0 1 103 59 161 5.39e-69 203
Msa1123380 MtrunA17_Chr5g0425951 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1123380 MtrunA17_Chr4g0030431 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1123380 MtrunA17_Chr3g0100121 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1123380 MtrunA17_Chr3g0113681 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1123380 MtrunA17_Chr2g0327641 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1123380 MtrunA17_Chr3g0103351 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1123380 MtrunA17_Chr8g0352791 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1123380 MtrunA17_Chr3g0103821 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1123380 MtrunA17_Chr3g0104031 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1123380 MtrunA17_Chr7g0225731 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1123380 MtrunA17_Chr3g0103801 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1123380 MtrunA17_Chr3g0103881 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1123380 MtrunA17_Chr7g0262791 100.000 103 0 0 1 103 1 103 2.26e-68 199
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1123380 AT3G53730.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1123380 AT1G07820.2 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1123380 AT1G07820.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1123380 AT5G59690.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1123380 AT3G46320.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1123380 AT2G28740.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1123380 AT1G07660.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1123380 AT3G45930.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1123380 AT5G59970.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1123380 AT5G59970.2 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1123380 AT1G07660.2 83.495 103 0 1 1 103 1 86 4.52e-51 155

Find 33 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGGTGTTCTCAAAATCTTCT+TGG 0.286841 7_3:+74259345 Msa1123380:CDS
GGAAGGACCCTTTACGGTTT+CGG 0.307868 7_3:+74259460 Msa1123380:CDS
TGGAAAAGGTGGAAAAGGTT+TGG 0.419608 7_3:+74259189 Msa1123380:CDS
GGAAAAGGTGGAAAAGGTTT+GGG 0.432725 7_3:+74259190 Msa1123380:CDS
AGGCAGGGAAGGACCCTTTA+CGG 0.435749 7_3:+74259454 Msa1123380:CDS
TCGCAGGCTTTGTTATGCCT+TGG 0.436279 7_3:-74259258 None:intergenic
GGTGGAAAAGGTTTGGGAAA+GGG 0.442921 7_3:+74259196 Msa1123380:CDS
TCAACCACCGAAACCGTAAA+GGG 0.488164 7_3:-74259467 None:intergenic
CTGCGATTCGTCGTCTTGCA+AGG 0.502831 7_3:+74259275 Msa1123380:CDS
TCAGTGCAAGCGAAAATGTC+AGG 0.509801 7_3:+74259163 None:intergenic
TGTCTATGCTCTCAAGAGGC+AGG 0.510611 7_3:+74259438 Msa1123380:CDS
AAAATGTCAGGTCGTGGAAA+AGG 0.512942 7_3:+74259175 None:intergenic
GGAAAAGGTTTGGGAAAGGG+AGG 0.514769 7_3:+74259199 Msa1123380:CDS
ATCAACCACCGAAACCGTAA+AGG 0.525393 7_3:-74259468 None:intergenic
GGTCGTGGAAAAGGTGGAAA+AGG 0.536368 7_3:+74259184 Msa1123380:CDS
TTACTTACACTGAGCACGCT+AGG 0.551062 7_3:+74259389 Msa1123380:CDS
CAAGCGAAAATGTCAGGTCG+TGG 0.551935 7_3:+74259169 None:intergenic
CTTGCAAGACGACGAATCGC+AGG 0.552192 7_3:-74259274 None:intergenic
ATGCTCTCAAGAGGCAGGGA+AGG 0.564763 7_3:+74259443 Msa1123380:CDS
AGGTGGAAAAGGTTTGGGAA+AGG 0.583555 7_3:+74259195 Msa1123380:CDS
GTCTATGCTCTCAAGAGGCA+GGG 0.585715 7_3:+74259439 Msa1123380:CDS
GAGAAAGACTGTTACCGCCA+TGG 0.588179 7_3:+74259411 Msa1123380:CDS
ATGTCAGGTCGTGGAAAAGG+TGG 0.588325 7_3:+74259178 Msa1123380:CDS
AGGAGCAAAGAGACACAGAA+AGG 0.597296 7_3:+74259219 Msa1123380:CDS
AGGACCCTTTACGGTTTCGG+TGG 0.602372 7_3:+74259463 Msa1123380:CDS
CGTCGTCTTGCAAGGCGTGG+TGG 0.615268 7_3:+74259283 Msa1123380:CDS
ATTCGTCGTCTTGCAAGGCG+TGG 0.619919 7_3:+74259280 Msa1123380:CDS
GTTCTTCGCGATAACATCCA+AGG 0.633409 7_3:+74259241 Msa1123380:CDS
GAGAGCATAGACAACATCCA+TGG 0.645428 7_3:-74259428 None:intergenic
ATGTTGTCTATGCTCTCAAG+AGG 0.677658 7_3:+74259434 Msa1123380:CDS
GGTGGTGTGAAGAGAATCAG+CGG 0.689951 7_3:+74259301 Msa1123380:CDS
CTCATCTATGAAGAGACTCG+CGG 0.713431 7_3:+74259325 Msa1123380:CDS
AGCATAGACAACATCCATGG+CGG 0.735882 7_3:-74259425 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TGGAAAAGGTGGAAAAGGTT+TGG + chr7_3:74259189-74259208 Msa1123380:CDS 40.0%
GGAAAAGGTGGAAAAGGTTT+GGG + chr7_3:74259190-74259209 Msa1123380:CDS 40.0%
CGGTGTTCTCAAAATCTTCT+TGG + chr7_3:74259345-74259364 Msa1123380:CDS 40.0%
ATGTTGTCTATGCTCTCAAG+AGG + chr7_3:74259434-74259453 Msa1123380:CDS 40.0%
AGGTGGAAAAGGTTTGGGAA+AGG + chr7_3:74259195-74259214 Msa1123380:CDS 45.0%
GGTGGAAAAGGTTTGGGAAA+GGG + chr7_3:74259196-74259215 Msa1123380:CDS 45.0%
AGGAGCAAAGAGACACAGAA+AGG + chr7_3:74259219-74259238 Msa1123380:CDS 45.0%
GTTCTTCGCGATAACATCCA+AGG + chr7_3:74259241-74259260 Msa1123380:CDS 45.0%
CTCATCTATGAAGAGACTCG+CGG + chr7_3:74259325-74259344 Msa1123380:CDS 45.0%
TTACTTACACTGAGCACGCT+AGG + chr7_3:74259389-74259408 Msa1123380:CDS 45.0%
AGCATAGACAACATCCATGG+CGG - chr7_3:74259428-74259447 None:intergenic 45.0%
! GAGAGCATAGACAACATCCA+TGG - chr7_3:74259431-74259450 None:intergenic 45.0%
TCAACCACCGAAACCGTAAA+GGG - chr7_3:74259470-74259489 None:intergenic 45.0%
ATGTCAGGTCGTGGAAAAGG+TGG + chr7_3:74259178-74259197 Msa1123380:CDS 50.0%
GGTCGTGGAAAAGGTGGAAA+AGG + chr7_3:74259184-74259203 Msa1123380:CDS 50.0%
GGAAAAGGTTTGGGAAAGGG+AGG + chr7_3:74259199-74259218 Msa1123380:CDS 50.0%
!! TCGCAGGCTTTGTTATGCCT+TGG - chr7_3:74259261-74259280 None:intergenic 50.0%
GGTGGTGTGAAGAGAATCAG+CGG + chr7_3:74259301-74259320 Msa1123380:CDS 50.0%
GAGAAAGACTGTTACCGCCA+TGG + chr7_3:74259411-74259430 Msa1123380:CDS 50.0%
TGTCTATGCTCTCAAGAGGC+AGG + chr7_3:74259438-74259457 Msa1123380:CDS 50.0%
GTCTATGCTCTCAAGAGGCA+GGG + chr7_3:74259439-74259458 Msa1123380:CDS 50.0%
GGAAGGACCCTTTACGGTTT+CGG + chr7_3:74259460-74259479 Msa1123380:CDS 50.0%
CTTGCAAGACGACGAATCGC+AGG - chr7_3:74259277-74259296 None:intergenic 55.0%
CTGCGATTCGTCGTCTTGCA+AGG + chr7_3:74259275-74259294 Msa1123380:CDS 55.0%
ATTCGTCGTCTTGCAAGGCG+TGG + chr7_3:74259280-74259299 Msa1123380:CDS 55.0%
ATGCTCTCAAGAGGCAGGGA+AGG + chr7_3:74259443-74259462 Msa1123380:CDS 55.0%
AGGCAGGGAAGGACCCTTTA+CGG + chr7_3:74259454-74259473 Msa1123380:CDS 55.0%
AGGACCCTTTACGGTTTCGG+TGG + chr7_3:74259463-74259482 Msa1123380:CDS 55.0%
CGTCGTCTTGCAAGGCGTGG+TGG + chr7_3:74259283-74259302 Msa1123380:CDS 65.0%
Chromosome Type Strat End Strand Name
chr7_3 gene 74259178 74259489 74259178 ID=Msa1123380;Name=Msa1123380
chr7_3 mRNA 74259178 74259489 74259178 ID=Msa1123380-mRNA-1;Parent=Msa1123380;Name=Msa1123380-mRNA-1;_AED=0.25;_eAED=0.25;_QI=0|-1|0|1|-1|1|1|0|103
chr7_3 exon 74259178 74259489 74259178 ID=Msa1123380-mRNA-1:exon:19741;Parent=Msa1123380-mRNA-1
chr7_3 CDS 74259178 74259489 74259178 ID=Msa1123380-mRNA-1:cds;Parent=Msa1123380-mRNA-1
Gene Sequence

>Msa1123380

ATGTCAGGTCGTGGAAAAGGTGGAAAAGGTTTGGGAAAGGGAGGAGCAAAGAGACACAGAAAGGTTCTTCGCGATAACATCCAAGGCATAACAAAGCCTGCGATTCGTCGTCTTGCAAGGCGTGGTGGTGTGAAGAGAATCAGCGGTCTCATCTATGAAGAGACTCGCGGTGTTCTCAAAATCTTCTTGGAAAACGTGATTCGCGATGCTGTTACTTACACTGAGCACGCTAGGAGAAAGACTGTTACCGCCATGGATGTTGTCTATGCTCTCAAGAGGCAGGGAAGGACCCTTTACGGTTTCGGTGGTTGA

Protein sequence

>Msa1123380

MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGRTLYGFGG*