AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010106

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010106 MtrunA17_Chr2g0320521 91.176 238 15 1 1 238 1 232 1.05e-149 416
MsaG010106 MtrunA17_Chr2g0320561 61.224 245 84 3 3 238 1 243 1.36e-90 267
MsaG010106 MtrunA17_Chr4g0020811 67.105 152 50 0 1 152 1 152 1.88e-69 210
MsaG010106 MtrunA17_Chr2g0308401 66.000 150 51 0 3 152 1 150 6.25e-67 204
MsaG010106 MtrunA17_Chr2g0320551 58.940 151 61 1 3 153 1 150 1.04e-58 183
MsaG010106 MtrunA17_Chr1g0179781 40.081 247 92 8 1 237 1 201 2.23e-49 160
MsaG010106 MtrunA17_Chr7g0265291 41.152 243 96 11 1 237 1 202 2.86e-44 147
MsaG010106 MtrunA17_Chr5g0411151 36.364 242 106 7 2 237 31 230 9.71e-41 139
MsaG010106 MtrunA17_Chr5g0395181 35.169 236 108 5 2 237 17 207 7.23e-40 136
MsaG010106 MtrunA17_Chr4g0040071 34.335 233 115 6 5 237 14 208 3.17e-38 132
MsaG010106 MtrunA17_Chr8g0366581 45.652 138 65 3 5 142 32 159 7.48e-37 129
MsaG010106 MtrunA17_Chr2g0297251 32.340 235 138 8 8 237 39 257 6.55e-29 109
MsaG010106 MtrunA17_Chr7g0230511 31.452 248 140 10 8 237 11 246 8.33e-28 106
MsaG010106 MtrunA17_Chr4g0065041 38.571 140 75 5 8 147 10 138 2.06e-20 87.0
MsaG010106 MtrunA17_Chr8g0392151 29.139 151 84 6 8 142 15 158 4.69e-12 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010106 AT1G43000.1 37.083 240 119 7 2 237 5 216 7.00e-46 152
MsaG010106 AT1G43000.2 37.083 240 119 7 2 237 12 223 7.94e-46 152
MsaG010106 AT1G21000.2 35.366 246 138 8 2 237 9 243 1.05e-40 140
MsaG010106 AT1G21000.1 35.366 246 138 8 2 237 12 246 1.20e-40 140
MsaG010106 AT1G76590.1 35.565 239 134 7 7 237 19 245 1.52e-39 137
MsaG010106 AT4G17900.1 48.921 139 60 4 5 142 33 161 4.35e-38 132
MsaG010106 AT1G32700.1 47.857 140 63 3 8 147 14 143 1.33e-37 131
MsaG010106 AT4G17900.2 48.921 139 60 4 5 142 19 147 1.43e-37 131
MsaG010106 AT2G27930.1 46.763 139 68 3 8 143 6 141 7.86e-36 125
MsaG010106 AT2G27930.4 46.763 139 68 3 8 143 6 141 7.86e-36 125
MsaG010106 AT2G27930.3 46.715 137 67 3 8 141 6 139 7.34e-35 122
MsaG010106 AT2G27930.2 46.715 137 67 3 8 141 6 139 7.34e-35 122
MsaG010106 AT1G32700.2 48.673 113 49 2 35 147 1 104 3.80e-30 110
MsaG010106 AT5G46710.3 34.483 232 114 8 8 237 14 209 2.74e-29 109
MsaG010106 AT5G46710.1 34.483 232 114 8 8 237 30 225 6.02e-29 109
MsaG010106 AT5G46710.2 43.704 135 65 4 8 141 30 154 9.54e-28 104
MsaG010106 AT1G31040.1 29.362 235 148 8 8 237 21 242 1.10e-23 95.9
MsaG010106 AT3G60670.1 29.084 251 150 9 5 238 6 245 3.05e-22 92.0
MsaG010106 AT2G12646.1 38.571 140 75 5 8 147 8 136 1.66e-21 90.1
MsaG010106 AT2G12646.2 38.571 140 75 5 8 147 8 136 1.66e-21 90.1
MsaG010106 AT2G12646.3 38.571 140 75 5 8 147 5 133 1.71e-21 90.1
MsaG010106 AT2G01818.1 29.787 235 136 9 8 238 13 222 4.56e-18 80.5
MsaG010106 AT2G27930.5 45.349 86 42 2 61 143 61 144 6.84e-17 76.6
MsaG010106 AT2G27930.6 45.349 86 42 2 61 143 61 144 6.84e-17 76.6

Find 34 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTCCCTTTCTTCTTGAATT+TGG 0.126179 2:+68793790 None:intergenic
TTTATGCAAGATCCACAAAA+TGG 0.300604 2:+68794798 None:intergenic
AATCGAAATTTACAAGCATT+TGG 0.312437 2:-68794536 MsaT010106.1:CDS
TTCTTCGTAGGTTGGGAATA+AGG 0.331085 2:+68794451 None:intergenic
TACAAGCATTTGGATATTCT+AGG 0.347196 2:-68794526 MsaT010106.1:CDS
AAGAAGACGATAGGTATAAT+TGG 0.364201 2:-68794433 MsaT010106.1:CDS
AGTTGCTAATCACATAGGTT+TGG 0.394909 2:+68794500 None:intergenic
TGCAAAGGAGACAGAAGAAA+TGG 0.410636 2:-68793998 MsaT010106.1:CDS
AGAAGAAATGGAAAGATTGT+TGG 0.417250 2:-68793986 MsaT010106.1:CDS
TATCGTCTTCTTCGTAGGTT+GGG 0.419261 2:+68794444 None:intergenic
GCCAGAGAGCAAAAGTAATA+AGG 0.422528 2:+68794361 None:intergenic
CTTCTGTCTCCTTTGCACTT+AGG 0.432332 2:+68794004 None:intergenic
AAAGCCAAATTCAAGAAGAA+AGG 0.446839 2:-68793794 MsaT010106.1:CDS
CTATCGTCTTCTTCGTAGGT+TGG 0.485528 2:+68794443 None:intergenic
ATATGTCAAAGGAATCTTGT+AGG 0.494888 2:-68794385 MsaT010106.1:CDS
AAGCCAAATTCAAGAAGAAA+GGG 0.497702 2:-68793793 MsaT010106.1:CDS
AATCGAAAATTAAATGAAGC+AGG 0.499594 2:-68793907 MsaT010106.1:CDS
AGGATATGATGTTCGTGCCC+TGG 0.529076 2:-68794926 MsaT010106.1:CDS
TTTGAATGCATAAAGAAGGA+TGG 0.531033 2:-68794036 MsaT010106.1:CDS
TGTAAAGTTGCTAATCACAT+AGG 0.533475 2:+68794495 None:intergenic
AGAAATGGAAAGATTGTTGG+AGG 0.534953 2:-68793983 MsaT010106.1:CDS
TCACATCATGTGAAGTTCAT+CGG 0.536804 2:-68794872 MsaT010106.1:CDS
CAAGTTTGAATGCATAAAGA+AGG 0.541080 2:-68794040 MsaT010106.1:intron
AACTTCACATGATGTGAAGA+AGG 0.546693 2:+68794878 None:intergenic
TTGAATGCATAAAGAAGGAT+GGG 0.549402 2:-68794035 MsaT010106.1:CDS
AAGAAAGGGAATACCTCGTA+GGG 0.554824 2:-68793779 MsaT010106.1:CDS
ATTGTTGGAGGAATCAATCA+AGG 0.555066 2:-68793971 MsaT010106.1:CDS
ATACCTATCGTCTTCTTCGT+AGG 0.556131 2:+68794439 None:intergenic
CAGTTGTATTCATAAACAAG+AGG 0.585618 2:-68794474 MsaT010106.1:CDS
GAAGAAAGGGAATACCTCGT+AGG 0.613671 2:-68793780 MsaT010106.1:CDS
CAACCTACGAAGAAGACGAT+AGG 0.637898 2:-68794442 MsaT010106.1:CDS
ATCTTTGTAAGATATGTCAA+AGG 0.646257 2:-68794396 MsaT010106.1:CDS
TGAATGCATAAAGAAGGATG+GGG 0.648201 2:-68794034 MsaT010106.1:CDS
GAATGCATAAAGAAGGATGG+GGG 0.668084 2:-68794033 MsaT010106.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 68793765 68795029 68793765 ID=MsaG010106
Chr2 mRNA 68793765 68795029 68793765 ID=MsaT010106.1;Parent=MsaG010106
Chr2 exon 68793765 68794058 68793765 ID=MsaT010106.1.exon4;Parent=MsaT010106.1
Chr2 CDS 68793765 68794058 68793765 ID=cds.MsaT010106.1;Parent=MsaT010106.1
Chr2 exon 68794354 68794593 68794354 ID=MsaT010106.1.exon3;Parent=MsaT010106.1
Chr2 CDS 68794354 68794593 68794354 ID=cds.MsaT010106.1;Parent=MsaT010106.1
Chr2 exon 68794767 68794946 68794767 ID=MsaT010106.1.exon2;Parent=MsaT010106.1
Chr2 CDS 68794767 68794946 68794767 ID=cds.MsaT010106.1;Parent=MsaT010106.1
Chr2 exon 68795027 68795029 68795027 ID=MsaT010106.1.exon1;Parent=MsaT010106.1
Chr2 CDS 68795027 68795029 68795027 ID=cds.MsaT010106.1;Parent=MsaT010106.1
Gene Sequence

>MsaT010106.1

ATGGATATGATGTTCGTGCCCTGGCTCAAAAATTTGCTTGCAATCACGGCCTTCTTCACATCATGTGAAGTTCATCGGAATGAGTCAAAAAATGAACGCAACATGTTCTGTCTCGAATGCAATGACAATCCATTTTGTGGATCTTGCATAAATTCTCATCACAAAGATCATCGAGTAATCCAAGTGAGGAGATCATCTTATACAAACGTCATTAAGACAATCGAAATTTACAAGCATTTGGATATTCTAGGAATCCAAACCTATGTGATTAGCAACTTTACAGTTGTATTCATAAACAAGAGGCCTTATTCCCAACCTACGAAGAAGACGATAGGTATAATTGGTTGCAGTAGCGACTATCTTTGTAAGATATGTCAAAGGAATCTTGTAGGACCTTATTACTTTTGCTCTCTGGCATGCAAGTTTGAATGCATAAAGAAGGATGGGGGCTTTTTCCTAAGTGCAAAGGAGACAGAAGAAATGGAAAGATTGTTGGAGGAATCAATCAAGGCACCAAAACAAAAAGCCAAAAAATCGCGTGAACAAAATCTAAATCGAAAATTAAATGAAGCAGGAATCAACAATGAAGAAAACGAAGAGAATGAAGAAAAAAGGGAGGAAGAAGAAAATGAACAAGAAAAAAGAGAAAACATGCTTCCTATCAAAAAGCCAAATTCAAGAAGAAAGGGAATACCTCGTAGGGCACCCTTTTTTTAA
Protein sequence

>MsaT010106.1

MDMMFVPWLKNLLAITAFFTSCEVHRNESKNERNMFCLECNDNPFCGSCINSHHKDHRVIQVRRSSYTNVIKTIEIYKHLDILGIQTYVISNFTVVFINKRPYSQPTKKTIGIIGCSSDYLCKICQRNLVGPYYFCSLACKFECIKKDGGFFLSAKETEEMERLLEESIKAPKQKAKKSREQNLNRKLNEAGINNEENEENEEKREEEENEQEKRENMLPIKKPNSRRKGIPRRAPFF*