AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1451160


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1451160 MtrunA17_Chr4g0072411 100.000 103 0 0 1 103 59 161 5.39e-69 203
Msa1451160 MtrunA17_Chr5g0425951 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1451160 MtrunA17_Chr4g0030431 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1451160 MtrunA17_Chr3g0100121 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1451160 MtrunA17_Chr3g0113681 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1451160 MtrunA17_Chr2g0327641 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1451160 MtrunA17_Chr3g0103351 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1451160 MtrunA17_Chr8g0352791 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1451160 MtrunA17_Chr3g0103821 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1451160 MtrunA17_Chr3g0104031 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1451160 MtrunA17_Chr7g0225731 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1451160 MtrunA17_Chr3g0103801 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1451160 MtrunA17_Chr3g0103881 100.000 103 0 0 1 103 1 103 2.26e-68 199
Msa1451160 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
Msa1451160 AT3G53730.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1451160 AT1G07820.2 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1451160 AT1G07820.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1451160 AT5G59690.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1451160 AT3G46320.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1451160 AT2G28740.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1451160 AT1G07660.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1451160 AT3G45930.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1451160 AT5G59970.1 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1451160 AT5G59970.2 100.000 103 0 0 1 103 1 103 3.11e-68 199
Msa1451160 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
CGGTGTTCTCAAGATCTTCT+TGG 0.300875 tig0033260:+2240 Msa1451160:CDS
GGAAGGACCCTTTACGGTTT+CGG 0.307868 tig0033260:+2355 Msa1451160:CDS
TGGAAAAGGTGGAAAAGGTT+TGG 0.419608 tig0033260:+2084 Msa1451160:CDS
GGAAAAGGTGGAAAAGGTTT+GGG 0.432725 tig0033260:+2085 Msa1451160:CDS
AGGCAGGGAAGGACCCTTTA+CGG 0.435749 tig0033260:+2349 Msa1451160:CDS
TCGCAGGCTTTGTTATGCCT+TGG 0.436279 tig0033260:-2153 None:intergenic
GGTGGAAAAGGTTTGGGAAA+GGG 0.442921 tig0033260:+2091 Msa1451160:CDS
TCAACCACCGAAACCGTAAA+GGG 0.488164 tig0033260:-2362 None:intergenic
CTGCGATTCGTCGTCTTGCA+AGG 0.502831 tig0033260:+2170 Msa1451160:CDS
TCAGTGCAAGCGAAAATGTC+AGG 0.509801 tig0033260:+2058 None:intergenic
TGTCTATGCTCTCAAGAGGC+AGG 0.510611 tig0033260:+2333 Msa1451160:CDS
AAAATGTCAGGTCGTGGAAA+AGG 0.512942 tig0033260:+2070 None:intergenic
GGAAAAGGTTTGGGAAAGGG+AGG 0.514769 tig0033260:+2094 Msa1451160:CDS
ATCAACCACCGAAACCGTAA+AGG 0.525393 tig0033260:-2363 None:intergenic
GGTCGTGGAAAAGGTGGAAA+AGG 0.536368 tig0033260:+2079 Msa1451160:CDS
TTACTTACACTGAGCACGCT+AGG 0.551062 tig0033260:+2284 Msa1451160:CDS
CAAGCGAAAATGTCAGGTCG+TGG 0.551935 tig0033260:+2064 None:intergenic
CTTGCAAGACGACGAATCGC+AGG 0.552192 tig0033260:-2169 None:intergenic
ATGCTCTCAAGAGGCAGGGA+AGG 0.564763 tig0033260:+2338 Msa1451160:CDS
AGGTGGAAAAGGTTTGGGAA+AGG 0.583555 tig0033260:+2090 Msa1451160:CDS
GTCTATGCTCTCAAGAGGCA+GGG 0.585715 tig0033260:+2334 Msa1451160:CDS
GAGAAAGACTGTTACCGCCA+TGG 0.588179 tig0033260:+2306 Msa1451160:CDS
ATGTCAGGTCGTGGAAAAGG+TGG 0.588325 tig0033260:+2073 Msa1451160:CDS
AGGAGCAAAGAGACACAGAA+AGG 0.597296 tig0033260:+2114 Msa1451160:CDS
AGGACCCTTTACGGTTTCGG+TGG 0.602372 tig0033260:+2358 Msa1451160:CDS
CGTCGTCTTGCAAGGCGTGG+TGG 0.615268 tig0033260:+2178 Msa1451160:CDS
ATTCGTCGTCTTGCAAGGCG+TGG 0.619919 tig0033260:+2175 Msa1451160:CDS
GTTCTTCGCGATAACATCCA+AGG 0.633409 tig0033260:+2136 Msa1451160:CDS
GAGAGCATAGACAACATCCA+TGG 0.645428 tig0033260:-2323 None:intergenic
ATGTTGTCTATGCTCTCAAG+AGG 0.677658 tig0033260:+2329 Msa1451160:CDS
GGTGGTGTGAAGAGAATCAG+CGG 0.689951 tig0033260:+2196 Msa1451160:CDS
CTCATCTATGAAGAGACTCG+CGG 0.713431 tig0033260:+2220 Msa1451160:CDS
AGCATAGACAACATCCATGG+CGG 0.735882 tig0033260:-2320 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TGGAAAAGGTGGAAAAGGTT+TGG + tig0033260:2084-2103 Msa1451160:CDS 40.0%
GGAAAAGGTGGAAAAGGTTT+GGG + tig0033260:2085-2104 Msa1451160:CDS 40.0%
ATGTTGTCTATGCTCTCAAG+AGG + tig0033260:2329-2348 Msa1451160:CDS 40.0%
AGGTGGAAAAGGTTTGGGAA+AGG + tig0033260:2090-2109 Msa1451160:CDS 45.0%
GGTGGAAAAGGTTTGGGAAA+GGG + tig0033260:2091-2110 Msa1451160:CDS 45.0%
AGGAGCAAAGAGACACAGAA+AGG + tig0033260:2114-2133 Msa1451160:CDS 45.0%
GTTCTTCGCGATAACATCCA+AGG + tig0033260:2136-2155 Msa1451160:CDS 45.0%
CTCATCTATGAAGAGACTCG+CGG + tig0033260:2220-2239 Msa1451160:CDS 45.0%
CGGTGTTCTCAAGATCTTCT+TGG + tig0033260:2240-2259 Msa1451160:CDS 45.0%
TTACTTACACTGAGCACGCT+AGG + tig0033260:2284-2303 Msa1451160:CDS 45.0%
AGCATAGACAACATCCATGG+CGG - tig0033260:2323-2342 None:intergenic 45.0%
! GAGAGCATAGACAACATCCA+TGG - tig0033260:2326-2345 None:intergenic 45.0%
TCAACCACCGAAACCGTAAA+GGG - tig0033260:2365-2384 None:intergenic 45.0%
ATGTCAGGTCGTGGAAAAGG+TGG + tig0033260:2073-2092 Msa1451160:CDS 50.0%
GGTCGTGGAAAAGGTGGAAA+AGG + tig0033260:2079-2098 Msa1451160:CDS 50.0%
GGAAAAGGTTTGGGAAAGGG+AGG + tig0033260:2094-2113 Msa1451160:CDS 50.0%
!! TCGCAGGCTTTGTTATGCCT+TGG - tig0033260:2156-2175 None:intergenic 50.0%
GGTGGTGTGAAGAGAATCAG+CGG + tig0033260:2196-2215 Msa1451160:CDS 50.0%
GAGAAAGACTGTTACCGCCA+TGG + tig0033260:2306-2325 Msa1451160:CDS 50.0%
TGTCTATGCTCTCAAGAGGC+AGG + tig0033260:2333-2352 Msa1451160:CDS 50.0%
GTCTATGCTCTCAAGAGGCA+GGG + tig0033260:2334-2353 Msa1451160:CDS 50.0%
GGAAGGACCCTTTACGGTTT+CGG + tig0033260:2355-2374 Msa1451160:CDS 50.0%
CTTGCAAGACGACGAATCGC+AGG - tig0033260:2172-2191 None:intergenic 55.0%
CTGCGATTCGTCGTCTTGCA+AGG + tig0033260:2170-2189 Msa1451160:CDS 55.0%
ATTCGTCGTCTTGCAAGGCG+TGG + tig0033260:2175-2194 Msa1451160:CDS 55.0%
ATGCTCTCAAGAGGCAGGGA+AGG + tig0033260:2338-2357 Msa1451160:CDS 55.0%
AGGCAGGGAAGGACCCTTTA+CGG + tig0033260:2349-2368 Msa1451160:CDS 55.0%
AGGACCCTTTACGGTTTCGG+TGG + tig0033260:2358-2377 Msa1451160:CDS 55.0%
CGTCGTCTTGCAAGGCGTGG+TGG + tig0033260:2178-2197 Msa1451160:CDS 65.0%
Chromosome Type Strat End Strand Name
tig0033260 gene 2073 2384 2073 ID=Msa1451160;Name=Msa1451160
tig0033260 mRNA 2073 2384 2073 ID=Msa1451160-mRNA-1;Parent=Msa1451160;Name=Msa1451160-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|103
tig0033260 exon 2073 2384 2073 ID=Msa1451160-mRNA-1:exon:17877;Parent=Msa1451160-mRNA-1
tig0033260 CDS 2073 2384 2073 ID=Msa1451160-mRNA-1:cds;Parent=Msa1451160-mRNA-1
Gene Sequence

>Msa1451160

ATGTCAGGTCGTGGAAAAGGTGGAAAAGGTTTGGGAAAGGGAGGAGCAAAGAGACACAGAAAGGTTCTTCGCGATAACATCCAAGGCATAACAAAGCCTGCGATTCGTCGTCTTGCAAGGCGTGGTGGTGTGAAGAGAATCAGCGGTCTCATCTATGAAGAGACTCGCGGTGTTCTCAAGATCTTCTTGGAAAACGTGATTCGCGATGCTGTTACTTACACTGAGCACGCTAGGAGAAAGACTGTTACCGCCATGGATGTTGTCTATGCTCTCAAGAGGCAGGGAAGGACCCTTTACGGTTTCGGTGGTTGA

Protein sequence

>Msa1451160

MSGRGKGGKGLGKGGAKRHRKVLRDNIQGITKPAIRRLARRGGVKRISGLIYEETRGVLKIFLENVIRDAVTYTEHARRKTVTAMDVVYALKRQGRTLYGFGG*