AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780038642.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780038642.01.T01 MTR_7g059070 100.000 136 0 0 1 136 1 136 4.99e-96 272
MsG0780038642.01.T01 MTR_5g029820 100.000 136 0 0 1 136 1 136 4.99e-96 272
MsG0780038642.01.T01 MTR_5g029770 100.000 136 0 0 1 136 1 136 4.99e-96 272
MsG0780038642.01.T01 MTR_4g065990 100.000 136 0 0 1 136 1 136 4.99e-96 272
MsG0780038642.01.T01 MTR_4g088150 100.000 136 0 0 1 136 1 136 4.99e-96 272
MsG0780038642.01.T01 MTR_2g035230 100.000 136 0 0 1 136 1 136 4.99e-96 272
MsG0780038642.01.T01 MTR_8g092720 100.000 136 0 0 1 136 1 136 4.99e-96 272
MsG0780038642.01.T01 MTR_8g063500 100.000 136 0 0 1 136 1 136 4.99e-96 272
MsG0780038642.01.T01 MTR_8g103245 100.000 136 0 0 1 136 1 136 4.99e-96 272
MsG0780038642.01.T01 MTR_8g092820 100.000 136 0 0 1 136 1 136 4.99e-96 272
MsG0780038642.01.T01 MTR_7g013610 100.000 136 0 0 1 136 100 235 1.15e-95 275
MsG0780038642.01.T01 MTR_4g097175 97.059 136 4 0 1 136 1 136 3.42e-93 265
MsG0780038642.01.T01 MTR_1g023630 97.059 136 4 0 1 136 1 136 3.42e-93 265
MsG0780038642.01.T01 MTR_8g061940 97.059 136 4 0 1 136 1 136 3.42e-93 265
MsG0780038642.01.T01 MTR_8g099430 96.324 136 5 0 1 136 1 136 1.44e-92 264
MsG0780038642.01.T01 MTR_4g097170 96.324 136 5 0 1 136 42 177 2.38e-91 262
MsG0780038642.01.T01 MTR_2g082310 89.706 136 14 0 1 136 1 136 1.44e-86 248
MsG0780038642.01.T01 MTR_2g082340 89.706 136 14 0 1 136 1 136 1.44e-86 248
MsG0780038642.01.T01 MTR_2g082370 85.616 146 11 1 1 136 1 146 1.82e-82 238
MsG0780038642.01.T01 MTR_2g082400 84.559 136 19 2 1 135 1 135 6.64e-75 219
MsG0780038642.01.T01 MTR_7g013600 86.607 112 15 0 25 136 2 113 1.05e-65 195
MsG0780038642.01.T01 MTR_7g023830 67.164 134 43 1 1 134 1 133 6.74e-56 171
MsG0780038642.01.T01 MTR_1g023630 73.504 117 15 3 1 111 1 107 3.96e-52 160
MsG0780038642.01.T01 MTR_5g024630 67.241 116 35 2 1 116 1 113 1.69e-45 144
MsG0780038642.01.T01 MTR_7g023880 58.647 133 41 3 3 134 18 137 5.67e-43 139
MsG0780038642.01.T01 MTR_5g024530 68.182 110 12 2 19 128 68 154 4.74e-42 137
MsG0780038642.01.T01 MTR_0197s0100 100.000 66 0 0 1 66 1 66 1.50e-40 132
MsG0780038642.01.T01 MTR_8g027840 55.102 98 43 1 37 133 28 125 5.01e-30 105
MsG0780038642.01.T01 MTR_8g105150 53.846 91 10 1 37 127 11 69 1.48e-25 92.4
MsG0780038642.01.T01 MTR_8g092740 97.368 38 1 0 99 136 118 155 4.75e-20 80.9
MsG0780038642.01.T01 MTR_5g089120 76.190 42 10 0 82 123 6 47 6.26e-18 73.6
MsG0780038642.01.T01 MTR_5g024600 62.963 54 20 0 1 54 1 54 1.81e-15 66.2
MsG0780038642.01.T01 MTR_4g128040 75.676 37 9 0 79 115 20 56 3.48e-15 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780038642.01.T01 AT5G65360 99.265 136 1 0 1 136 1 136 1.62e-95 271
MsG0780038642.01.T01 AT5G10390 99.265 136 1 0 1 136 1 136 1.62e-95 271
MsG0780038642.01.T01 AT5G10400 99.265 136 1 0 1 136 1 136 1.62e-95 271
MsG0780038642.01.T01 AT3G27360 99.265 136 1 0 1 136 1 136 1.62e-95 271
MsG0780038642.01.T01 AT1G09200 99.265 136 1 0 1 136 1 136 1.62e-95 271
MsG0780038642.01.T01 AT5G10980 97.059 136 4 0 1 136 1 136 3.59e-93 265
MsG0780038642.01.T01 AT4G40040 97.059 136 4 0 1 136 1 136 3.59e-93 265
MsG0780038642.01.T01 AT4G40040 97.059 136 4 0 1 136 1 136 3.59e-93 265
MsG0780038642.01.T01 AT4G40040 97.059 136 4 0 1 136 1 136 3.59e-93 265
MsG0780038642.01.T01 AT4G40030 97.059 136 4 0 1 136 1 136 3.59e-93 265
MsG0780038642.01.T01 AT4G40030 97.059 136 4 0 1 136 1 136 3.59e-93 265
MsG0780038642.01.T01 AT4G40030 97.059 136 4 0 1 136 1 136 3.59e-93 265
MsG0780038642.01.T01 AT4G40030 97.059 136 4 0 1 136 29 164 7.04e-93 266
MsG0780038642.01.T01 AT5G65350 94.853 136 7 0 1 136 1 136 5.30e-91 260
MsG0780038642.01.T01 AT1G75600 93.382 136 9 0 1 136 1 136 1.25e-89 256
MsG0780038642.01.T01 AT1G13370 93.382 136 9 0 1 136 1 136 5.55e-89 254
MsG0780038642.01.T01 AT1G19890 89.781 137 13 1 1 136 1 137 1.07e-83 241
MsG0780038642.01.T01 AT5G12910 71.111 135 34 2 1 135 1 130 9.89e-67 198
MsG0780038642.01.T01 AT1G01370 53.982 113 49 2 24 134 63 174 2.97e-31 110
MsG0780038642.01.T01 AT1G01370 53.982 113 49 2 24 134 63 174 2.97e-31 110
MsG0780038642.01.T01 AT1G01370 53.982 113 49 2 24 134 63 174 2.97e-31 110
MsG0780038642.01.T01 AT1G01370 53.982 113 49 2 24 134 63 174 2.97e-31 110

Find 33 sgRNAs with CRISPR-Local

Find 35 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCTGATTTCCGTGCGGCTT+TGG 0.327301 7:-50328907 None:intergenic
TTCACGAAGCGCGACGGTTC+CGG 0.341493 7:-50328970 None:intergenic
TCACGAAGCGCGACGGTTCC+GGG 0.353522 7:-50328969 None:intergenic
GCTGCTGAAGCTTATCTTGT+TGG 0.357332 7:+50329125 MsG0780038642.01.T01:CDS
CTTGCAAGTTGAATATCCTT+AGG 0.413826 7:-50329203 None:intergenic
GAGCAGAAACAGCACTGCTC+TGG 0.422418 7:-50329094 None:intergenic
GGATTTGCGTGCTGTTTGTT+TGG 0.426439 7:-50328850 None:intergenic
TGATTTCCGTGCGGCTTTGG+TGG 0.441149 7:-50328904 None:intergenic
TTCTTCACTCCTCCGGTCGC+CGG 0.442119 7:-50328930 None:intergenic
CGGAAATCAGCTCCGGCGAC+CGG 0.469854 7:+50328918 MsG0780038642.01.T01:CDS
CAGTGCTCTTCTGATACTTA+CGG 0.470671 7:-50328995 None:intergenic
AGCCGCACGGAAATCAGCTC+CGG 0.497667 7:+50328911 MsG0780038642.01.T01:CDS
CAACTTGCAAGAAGAATTCG+TGG 0.509427 7:+50329215 MsG0780038642.01.T01:CDS
CGACGGTTCCGGGACGGAAA+CGG 0.513929 7:-50328959 None:intergenic
GAGAGTTACTATTATGCCTA+AGG 0.517685 7:+50329187 MsG0780038642.01.T01:CDS
AAGAAGAATTCGTGGCGAAA+GGG 0.518867 7:+50329223 MsG0780038642.01.T01:CDS
CAAGAAGAATTCGTGGCGAA+AGG 0.521306 7:+50329222 MsG0780038642.01.T01:CDS
GTGTGGCTTCTTCACTCCTC+CGG 0.526132 7:-50328937 None:intergenic
AGAGCACTGAGCTTCTGATA+AGG 0.532730 7:+50329009 MsG0780038642.01.T01:CDS
AAGCCACACCGTTTCCGTCC+CGG 0.544193 7:+50328951 MsG0780038642.01.T01:CDS
CAAACAGCACGCAAATCCAC+CGG 0.549355 7:+50328855 MsG0780038642.01.T01:CDS
TCTTGTTCGTGAAATCGCTC+AGG 0.549771 7:+50329049 MsG0780038642.01.T01:CDS
TCACGAACAAGACGTTGGAA+TGG 0.598115 7:-50329038 None:intergenic
ACTGCTCTGGAATCTGAGAT+CGG 0.602457 7:-50329081 None:intergenic
AAATCAGCTCCGGCGACCGG+AGG 0.606043 7:+50328921 MsG0780038642.01.T01:CDS
CGATTTCACGAACAAGACGT+TGG 0.613448 7:-50329043 None:intergenic
ACGGATTTCACGAAGCGCGA+CGG 0.624291 7:-50328976 None:intergenic
AACTCGCCACCAAAGCCGCA+CGG 0.635817 7:+50328898 MsG0780038642.01.T01:CDS
GAAGCGCGACGGTTCCGGGA+CGG 0.640203 7:-50328965 None:intergenic
GTTCCGGGACGGAAACGGTG+TGG 0.652674 7:-50328954 None:intergenic
TTGGTGGCGAGTTGTTTGCG+TGG 0.686020 7:-50328888 None:intergenic
ACAGCACGCAAATCCACCGG+CGG 0.691035 7:+50328858 MsG0780038642.01.T01:CDS
CGCCGGAGCTGATTTCCGTG+CGG 0.701307 7:-50328913 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
GAGAGTTACTATTATGCCTA+AGG + Chr7:50329187-50329206 MsG0780038642.01.T01:CDS 35.0%
! CTTGCAAGTTGAATATCCTT+AGG - Chr7:50329206-50329225 None:intergenic 35.0%
AAGAAGAATTCGTGGCGAAA+GGG + Chr7:50329223-50329242 MsG0780038642.01.T01:CDS 40.0%
CAACTTGCAAGAAGAATTCG+TGG + Chr7:50329215-50329234 MsG0780038642.01.T01:CDS 40.0%
CAGTGCTCTTCTGATACTTA+CGG - Chr7:50328998-50329017 None:intergenic 40.0%
CAAGAAGAATTCGTGGCGAA+AGG + Chr7:50329222-50329241 MsG0780038642.01.T01:CDS 45.0%
CGATTTCACGAACAAGACGT+TGG - Chr7:50329046-50329065 None:intergenic 45.0%
GCTGCTGAAGCTTATCTTGT+TGG + Chr7:50329125-50329144 MsG0780038642.01.T01:CDS 45.0%
TCACGAACAAGACGTTGGAA+TGG - Chr7:50329041-50329060 None:intergenic 45.0%
TCTTGTTCGTGAAATCGCTC+AGG + Chr7:50329049-50329068 MsG0780038642.01.T01:CDS 45.0%
!! ACTGCTCTGGAATCTGAGAT+CGG - Chr7:50329084-50329103 None:intergenic 45.0%
!! AGAGCACTGAGCTTCTGATA+AGG + Chr7:50329009-50329028 MsG0780038642.01.T01:CDS 45.0%
!! GGATTTGCGTGCTGTTTGTT+TGG - Chr7:50328853-50328872 None:intergenic 45.0%
CAAACAGCACGCAAATCCAC+CGG + Chr7:50328855-50328874 MsG0780038642.01.T01:CDS 50.0%
ACGGATTTCACGAAGCGCGA+CGG - Chr7:50328979-50328998 None:intergenic 55.0%
GAGCAGAAACAGCACTGCTC+TGG - Chr7:50329097-50329116 None:intergenic 55.0%
GTGTGGCTTCTTCACTCCTC+CGG - Chr7:50328940-50328959 None:intergenic 55.0%
! AGCTGATTTCCGTGCGGCTT+TGG - Chr7:50328910-50328929 None:intergenic 55.0%
! TGATTTCCGTGCGGCTTTGG+TGG - Chr7:50328907-50328926 None:intergenic 55.0%
! TTTGCGTGGTGCTTTTCCGC+CGG - Chr7:50328877-50328896 None:intergenic 55.0%
!! TTGGTGGCGAGTTGTTTGCG+TGG - Chr7:50328891-50328910 None:intergenic 55.0%
AACTCGCCACCAAAGCCGCA+CGG + Chr7:50328898-50328917 MsG0780038642.01.T01:CDS 60.0%
AAGCCACACCGTTTCCGTCC+CGG + Chr7:50328951-50328970 MsG0780038642.01.T01:CDS 60.0%
ACAGCACGCAAATCCACCGG+CGG + Chr7:50328858-50328877 MsG0780038642.01.T01:CDS 60.0%
AGCCGCACGGAAATCAGCTC+CGG + Chr7:50328911-50328930 MsG0780038642.01.T01:CDS 60.0%
TTCACGAAGCGCGACGGTTC+CGG - Chr7:50328973-50328992 None:intergenic 60.0%
TTCTTCACTCCTCCGGTCGC+CGG - Chr7:50328933-50328952 None:intergenic 60.0%
AAATCAGCTCCGGCGACCGG+AGG + Chr7:50328921-50328940 MsG0780038642.01.T01:CDS 65.0%
CGACGGTTCCGGGACGGAAA+CGG - Chr7:50328962-50328981 None:intergenic 65.0%
CGGAAATCAGCTCCGGCGAC+CGG + Chr7:50328918-50328937 MsG0780038642.01.T01:CDS 65.0%
GTTCCGGGACGGAAACGGTG+TGG - Chr7:50328957-50328976 None:intergenic 65.0%
TCACGAAGCGCGACGGTTCC+GGG - Chr7:50328972-50328991 None:intergenic 65.0%
! CGCCGGAGCTGATTTCCGTG+CGG - Chr7:50328916-50328935 None:intergenic 65.0%
GAAGCGCGACGGTTCCGGGA+CGG - Chr7:50328968-50328987 None:intergenic 70.0%
! GCGTGGTGCTTTTCCGCCGG+TGG - Chr7:50328874-50328893 None:intergenic 70.0%
Chromosome Type Strat End Strand Name
Chr7 gene 50328840 50329250 50328840 ID=MsG0780038642.01;Name=MsG0780038642.01
Chr7 mRNA 50328840 50329250 50328840 ID=MsG0780038642.01.T01;Parent=MsG0780038642.01;Name=MsG0780038642.01.T01;_AED=0.29;_eAED=0.29;_QI=0|-1|0|1|-1|1|1|0|136
Chr7 exon 50328840 50329250 50328840 ID=MsG0780038642.01.T01:exon:14720;Parent=MsG0780038642.01.T01
Chr7 CDS 50328840 50329250 50328840 ID=MsG0780038642.01.T01:cds;Parent=MsG0780038642.01.T01
Gene Sequence

>MsG0780038642.01.T01

ATGGCACGAACCAAACAAACAGCACGCAAATCCACCGGCGGAAAAGCACCACGCAAACAACTCGCCACCAAAGCCGCACGGAAATCAGCTCCGGCGACCGGAGGAGTGAAGAAGCCACACCGTTTCCGTCCCGGAACCGTCGCGCTTCGTGAAATCCGTAAGTATCAGAAGAGCACTGAGCTTCTGATAAGGAAACTTCCATTCCAACGTCTTGTTCGTGAAATCGCTCAGGATTTCAAAACCGATCTCAGATTCCAGAGCAGTGCTGTTTCTGCTCTTCAAGAAGCTGCTGAAGCTTATCTTGTTGGTTTGTTTGAAGATACGAATCTTTGCGCTATTCATGCTAAGAGAGTTACTATTATGCCTAAGGATATTCAACTTGCAAGAAGAATTCGTGGCGAAAGGGCTTAG

Protein sequence

>MsG0780038642.01.T01

MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRFRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVSALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA*