AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010112


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010112 MtrunA17_Chr2g0320561 90.647 139 13 0 32 170 1 139 3.96e-93 270
MsaG010112 MtrunA17_Chr2g0320551 85.612 139 20 0 32 170 1 139 1.08e-85 249
MsaG010112 MtrunA17_Chr4g0020811 77.857 140 31 0 31 170 2 141 5.94e-78 229
MsaG010112 MtrunA17_Chr2g0308401 77.698 139 31 0 32 170 1 139 6.75e-77 226
MsaG010112 MtrunA17_Chr2g0320521 66.429 140 47 0 31 170 2 141 8.04e-67 203
MsaG010112 MtrunA17_Chr1g0179781 50.355 141 60 4 31 170 2 133 1.78e-37 127
MsaG010112 MtrunA17_Chr5g0411151 45.775 142 67 3 29 170 29 160 3.27e-37 128
MsaG010112 MtrunA17_Chr4g0040071 48.148 135 60 3 36 170 16 140 6.90e-37 126
MsaG010112 MtrunA17_Chr7g0265291 48.252 143 63 4 30 170 2 135 6.77e-36 124
MsaG010112 MtrunA17_Chr5g0395181 44.366 142 69 3 29 170 15 146 3.01e-35 122
MsaG010112 MtrunA17_Chr8g0366581 40.606 165 74 4 6 170 18 158 1.74e-34 121
MsaG010112 MtrunA17_Chr2g0297251 38.235 136 73 4 37 172 39 163 2.05e-23 92.8
MsaG010112 MtrunA17_Chr4g0065041 37.956 137 75 4 36 172 8 134 5.43e-23 91.7
MsaG010112 MtrunA17_Chr7g0230511 34.559 136 78 4 35 170 8 132 9.11e-22 88.6
MsaG010112 MtrunA17_Chr4g0052451 39.130 92 54 1 79 170 1 90 1.02e-15 68.9
MsaG010112 MtrunA17_Chr8g0392151 31.973 147 83 5 37 170 15 157 4.24e-14 67.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010112 AT1G43000.2 45.517 145 69 3 26 170 7 141 6.39e-37 127
MsaG010112 AT1G43000.1 46.809 141 65 3 30 170 4 134 6.82e-37 127
MsaG010112 AT4G17900.1 42.771 166 70 5 6 170 19 160 1.85e-36 126
MsaG010112 AT1G21000.2 48.611 144 64 5 27 170 5 138 7.98e-36 125
MsaG010112 AT1G21000.1 48.611 144 64 5 27 170 8 141 8.78e-36 125
MsaG010112 AT4G17900.2 48.529 136 59 4 36 170 21 146 9.57e-36 124
MsaG010112 AT1G32700.1 45.455 143 67 4 29 170 5 137 5.97e-33 117
MsaG010112 AT2G27930.1 48.175 137 65 3 37 170 6 139 1.36e-32 115
MsaG010112 AT2G27930.4 48.175 137 65 3 37 170 6 139 1.36e-32 115
MsaG010112 AT2G27930.3 48.175 137 65 3 37 170 6 139 2.38e-32 114
MsaG010112 AT2G27930.2 48.175 137 65 3 37 170 6 139 2.38e-32 114
MsaG010112 AT1G76590.1 44.218 147 69 6 27 170 7 143 3.58e-31 113
MsaG010112 AT1G32700.2 49.057 106 45 2 65 170 2 98 1.43e-27 102
MsaG010112 AT5G46710.2 43.704 135 65 4 37 170 30 154 5.80e-27 100
MsaG010112 AT5G46710.3 43.704 135 65 4 37 170 14 138 9.69e-27 100
MsaG010112 AT5G46710.1 43.704 135 65 4 37 170 30 154 1.44e-26 100
MsaG010112 AT2G12646.3 40.000 140 73 5 33 172 1 129 3.20e-24 95.5
MsaG010112 AT2G12646.1 40.441 136 70 5 37 172 8 132 8.04e-24 94.4
MsaG010112 AT2G12646.2 40.441 136 70 5 37 172 8 132 8.04e-24 94.4
MsaG010112 AT1G31040.1 36.765 136 74 4 37 172 21 144 8.51e-23 91.3
MsaG010112 AT3G60670.1 35.556 135 77 3 36 170 7 131 9.27e-20 83.6
MsaG010112 AT2G27930.5 51.190 84 36 2 90 170 61 142 4.67e-18 77.8
MsaG010112 AT2G27930.6 51.190 84 36 2 90 170 61 142 4.67e-18 77.8
MsaG010112 AT2G01818.1 33.333 150 87 6 25 170 5 145 2.88e-16 73.6

Find 36 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGCTCATTTCTGAACTTGTT+TGG 0.226434 2:+68843358 None:intergenic
TTTCCAATGTTGAACCTCTT+AGG 0.309596 2:+68842956 None:intergenic
TCTATACAAAATTCACATAA+TGG 0.333459 2:+68843304 None:intergenic
CATTTCTGAACTTGTTTGGA+TGG 0.368188 2:+68843362 None:intergenic
ACCTTGGCTTGTAAACTTGC+TGG 0.395128 2:-68843416 MsaT010112.1:CDS
AATGTTGAACCTCTTAGGTT+GGG 0.427697 2:+68842961 None:intergenic
ATTTCTGAACTTGTTTGGAT+GGG 0.453864 2:+68843363 None:intergenic
CAATGTTGAACCTCTTAGGT+TGG 0.476236 2:+68842960 None:intergenic
CACATGTTTGTAAATTTCGT+TGG 0.484536 2:+68843054 None:intergenic
GAGCTCATGCCCAACCTAAG+AGG 0.493266 2:-68842970 MsaT010112.1:CDS
GTGCCACAGTGGGAGGTTCA+CGG 0.501717 2:-68844618 MsaT010112.1:CDS
AGGTTCACGGCGGCGGAAGG+AGG 0.507187 2:-68844605 MsaT010112.1:CDS
GCCAGCAAGTTTACAAGCCA+AGG 0.514131 2:+68843415 None:intergenic
GGGAGGTTCACGGCGGCGGA+AGG 0.519189 2:-68844608 MsaT010112.1:CDS
CAGTGGGAGGTTCACGGCGG+CGG 0.522116 2:-68844612 MsaT010112.1:CDS
AAAAGAGTCCCTATTGTGAC+CGG 0.541668 2:+68842931 None:intergenic
GTATGATCGTAAGAGAGAAG+AGG 0.547232 2:-68844552 MsaT010112.1:intron
TACAAACATGTGGATATCCT+CGG 0.556715 2:-68843043 MsaT010112.1:CDS
CCAAAGAGCAAAAGTAGGTA+GGG 0.559658 2:+68842879 None:intergenic
AGGATATGATGAGTGTACCT+TGG 0.561440 2:-68843432 MsaT010112.1:CDS
AAAGGATGTGCCACAGTGGG+AGG 0.569024 2:-68844625 None:intergenic
TCACGTAGGTTTGAATTCCG+AGG 0.586677 2:+68843026 None:intergenic
GCCAAAGAGCAAAAGTAGGT+AGG 0.587378 2:+68842878 None:intergenic
AAGAAGATCATCATATAATG+AGG 0.589252 2:-68843086 MsaT010112.1:CDS
GAGGTTCACGACAACATGCT+AGG 0.596872 2:-68844586 MsaT010112.1:CDS
CAACGAAATTTACAAACATG+TGG 0.600716 2:-68843053 MsaT010112.1:CDS
TTCACGACAACATGCTAGGT+GGG 0.604310 2:-68844582 MsaT010112.1:CDS
CAACCTAAGAGGTTCAACAT+TGG 0.618975 2:-68842959 MsaT010112.1:CDS
GCATGCCAAAGAGCAAAAGT+AGG 0.621061 2:+68842874 None:intergenic
TGTATAGAATCTCGTCACAA+AGG 0.625069 2:-68843289 MsaT010112.1:CDS
AAGATCATCATATAATGAGG+TGG 0.649716 2:-68843083 MsaT010112.1:CDS
GTTCACGACAACATGCTAGG+TGG 0.671066 2:-68844583 MsaT010112.1:CDS
ACTAGAGCTATTAATCACGT+AGG 0.680389 2:+68843012 None:intergenic
CCGCCGTGAACCTCCCACTG+TGG 0.717055 2:+68844615 None:intergenic
CAAACAAGTTCAGAAATGAG+CGG 0.722844 2:-68843357 MsaT010112.1:CDS
CCACAGTGGGAGGTTCACGG+CGG 0.779521 2:-68844615 MsaT010112.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 68842640 68844642 68842640 ID=MsaG010112
Chr2 mRNA 68842640 68844642 68842640 ID=MsaT010112.1;Parent=MsaG010112
Chr2 exon 68842640 68842648 68842640 ID=MsaT010112.1.exon4;Parent=MsaT010112.1
Chr2 CDS 68842640 68842648 68842640 ID=cds.MsaT010112.1;Parent=MsaT010112.1
Chr2 exon 68842871 68843110 68842871 ID=MsaT010112.1.exon3;Parent=MsaT010112.1
Chr2 CDS 68842871 68843110 68842871 ID=cds.MsaT010112.1;Parent=MsaT010112.1
Chr2 exon 68843273 68843452 68843273 ID=MsaT010112.1.exon2;Parent=MsaT010112.1
Chr2 CDS 68843273 68843452 68843273 ID=cds.MsaT010112.1;Parent=MsaT010112.1
Chr2 exon 68844553 68844642 68844553 ID=MsaT010112.1.exon1;Parent=MsaT010112.1
Chr2 CDS 68844553 68844642 68844553 ID=cds.MsaT010112.1;Parent=MsaT010112.1
Gene Sequence

>MsaT010112.1

ATGTGCCACAGTGGGAGGTTCACGGCGGCGGAAGGAGGTTCACGACAACATGCTAGGTGGGAGAGAAAGTATGATCGTAAGAGAGAAGAGGATATGATGAGTGTACCTTGGCTTGTAAACTTGCTGGCAATCACTTCGTTTTTCACAACATGTGAAGCCCATCCAAACAAGTTCAGAAATGAGCGGAACAAGTTCTGCCTCGACTGCAATGAAAATCCATTATGTGAATTTTGTATAGAATCTCGTCACAAAGGTCATAGAGTAATCCAAATAAGAAGATCATCATATAATGAGGTGGTTAAGACCAACGAAATTTACAAACATGTGGATATCCTCGGAATTCAAACCTACGTGATTAATAGCTCTAGTGTTGTATTCTTAAGCAAGAGAGCTCATGCCCAACCTAAGAGGTTCAACATTGGAAAAACCGGTCACAATAGGGACTCTTTTTGTAAGAGATGTGATAGAAATCTTGCAGACCCTACCTACTTTTGCTCTTTGGCATGCAAGAATGATTAA

Protein sequence

>MsaT010112.1

MCHSGRFTAAEGGSRQHARWERKYDRKREEDMMSVPWLVNLLAITSFFTTCEAHPNKFRNERNKFCLDCNENPLCEFCIESRHKGHRVIQIRRSSYNEVVKTNEIYKHVDILGIQTYVINSSSVVFLSKRAHAQPKRFNIGKTGHNRDSFCKRCDRNLADPTYFCSLACKND*