AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG013017

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013017 MtrunA17_Chr5g0404321 68.724 243 27 3 1 196 1 241 3.91e-105 308
MsaG013017 MtrunA17_Chr8g0373001 51.037 241 71 3 1 196 1 239 6.04e-76 233
MsaG013017 MtrunA17_Chr8g0373361 52.841 176 71 4 28 196 72 242 1.66e-56 183
MsaG013017 MtrunA17_Chr1g0155301 51.685 178 75 4 28 196 84 259 1.37e-52 174
MsaG013017 MtrunA17_Chr1g0156151 44.860 214 69 4 1 167 1 212 8.21e-52 166
MsaG013017 MtrunA17_Chr2g0286441 44.550 211 97 3 4 196 17 225 4.19e-48 161
MsaG013017 MtrunA17_Chr2g0278511 47.191 178 83 4 28 196 68 243 1.41e-45 155
MsaG013017 MtrunA17_Chr1g0201891 43.750 208 100 4 4 196 35 240 2.07e-45 155
MsaG013017 MtrunA17_Chr2g0315641 44.706 170 86 2 28 191 56 223 4.08e-41 142
MsaG013017 MtrunA17_Chr1g0196071 45.143 175 87 3 23 191 59 230 8.78e-40 140
MsaG013017 MtrunA17_Chr3g0091401 68.750 96 24 1 51 146 9 98 1.48e-36 123
MsaG013017 MtrunA17_Chr2g0315651 41.176 170 87 3 28 190 51 214 8.44e-35 126
MsaG013017 MtrunA17_Chr8g0373331 42.614 176 50 5 28 196 66 197 1.49e-33 122
MsaG013017 MtrunA17_Chr8g0373341 45.752 153 36 5 28 156 64 193 2.86e-26 102
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013017 AT2G18280.2 47.034 236 80 4 1 196 1 231 9.13e-64 202
MsaG013017 AT2G18280.1 47.034 236 80 4 1 196 1 231 9.13e-64 202
MsaG013017 AT1G76900.2 47.283 184 85 4 23 196 66 247 1.48e-45 156
MsaG013017 AT1G76900.1 47.283 184 85 4 23 196 66 247 1.48e-45 156
MsaG013017 AT1G76900.3 47.283 184 85 4 23 196 66 247 1.48e-45 156
MsaG013017 AT1G47270.3 48.701 154 71 3 28 174 58 210 2.12e-45 154
MsaG013017 AT1G47270.2 48.701 154 71 3 28 174 82 234 2.87e-45 155
MsaG013017 AT1G47270.1 48.701 154 71 3 28 174 83 235 3.06e-45 154
MsaG013017 AT2G47900.3 48.087 183 83 4 23 196 61 240 6.21e-45 154
MsaG013017 AT2G47900.2 48.352 182 83 4 23 196 61 239 9.70e-45 153
MsaG013017 AT2G47900.1 48.352 182 83 4 23 196 61 239 9.70e-45 153
MsaG013017 AT1G53320.1 45.143 175 88 2 28 196 58 230 4.44e-44 151
MsaG013017 AT1G25280.1 48.352 182 82 4 25 196 70 249 2.34e-42 147
MsaG013017 AT3G06380.1 46.023 176 82 4 28 196 47 216 4.33e-40 140
MsaG013017 AT1G43640.1 41.209 182 97 4 23 196 64 243 2.80e-39 139
MsaG013017 AT1G43640.2 41.243 177 94 4 28 196 3 177 6.33e-39 137
MsaG013017 AT5G18680.1 44.103 195 94 3 2 196 46 225 2.25e-37 133
MsaG013017 AT3G06380.2 45.238 126 63 2 71 196 5 124 1.06e-25 100
MsaG013017 AT5G18680.2 46.154 130 67 1 67 196 7 133 1.79e-25 100
MsaG013017 AT1G61940.2 41.975 81 41 1 23 97 7 87 4.31e-16 74.7

Find 54 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAACTCAGGTCTAACATTT+TGG 0.098131 3:-39232990 MsaT013017.1:CDS
CTCCTACTGGACTGGCTATT+TGG 0.208856 3:+39232908 None:intergenic
TCTGCGTATCTATTGTATTA+TGG 0.232029 3:-39233145 MsaT013017.1:CDS
CACAGACTTAATCATATCTT+TGG 0.265182 3:-39233053 MsaT013017.1:CDS
CCAGTAGGAGATGTCTTTCT+AGG 0.335606 3:-39232895 MsaT013017.1:CDS
CGTCAACCTTCCACACTCTT+CGG 0.358084 3:+39233243 None:intergenic
GTCAACCTTCCACACTCTTC+GGG 0.361120 3:+39233244 None:intergenic
TCATATTTCGTTAAATCAGC+TGG 0.364782 3:-39233218 MsaT013017.1:CDS
TAGAAGAGACTGAGACTTCT+TGG 0.372030 3:-39233327 MsaT013017.1:CDS
TAGTTATATGCTTGAACTCT+TGG 0.377661 3:+39232863 None:intergenic
TCACTATATACGACATTGAT+AGG 0.397265 3:-39232958 MsaT013017.1:CDS
CGAGGAGAGGTGTGGGTAGT+AGG 0.403397 3:-39233474 MsaT013017.1:intron
AGGCAACCTCCACACGGATC+TGG 0.420898 3:-39232938 MsaT013017.1:CDS
CTCCGATACAATGCTTCATC+AGG 0.436765 3:-39233183 MsaT013017.1:CDS
ATATGAGCAATTCAGCTCAT+AGG 0.461752 3:+39232824 None:intergenic
AACTCAAGGAGATGAGGGAT+GGG 0.484739 3:-39233510 MsaT013017.1:CDS
CGTTCCAGCAATGCGTATGT+TGG 0.488866 3:-39233013 MsaT013017.1:CDS
GAACTCAAGGAGATGAGGGA+TGG 0.505860 3:-39233511 MsaT013017.1:CDS
CATATTTCGTTAAATCAGCT+GGG 0.507372 3:-39233217 MsaT013017.1:CDS
GTACTCCTGTGTGTGAATCA+TGG 0.512410 3:-39233297 MsaT013017.1:CDS
TGTTGTTGAGAAGCATAGTA+CGG 0.514474 3:-39233534 MsaT013017.1:CDS
CCTAGAAAGACATCTCCTAC+TGG 0.527258 3:+39232895 None:intergenic
TAGGAGATGTCTTTCTAGGC+AGG 0.531736 3:-39232891 MsaT013017.1:CDS
GTATTATGGACTGGTGCCAT+TGG 0.546205 3:-39233131 MsaT013017.1:CDS
AAGCATAGTACGGGAACTCA+AGG 0.555180 3:-39233524 MsaT013017.1:CDS
AAGGAGATGAGGGATGGGAT+TGG 0.557067 3:-39233505 MsaT013017.1:CDS
AGATATGATTAAGTCTGTGC+CGG 0.568041 3:+39233057 None:intergenic
CGATACAATGCTTCATCAGG+AGG 0.568935 3:-39233180 MsaT013017.1:CDS
AAAGACATCTCCTACTGGAC+TGG 0.569298 3:+39232900 None:intergenic
GTATCTATTGTATTATGGAC+TGG 0.570769 3:-39233140 MsaT013017.1:CDS
AATGTCGTATATAGTGAACT+TGG 0.574240 3:+39232964 None:intergenic
GTTGTTGAGAAGCATAGTAC+GGG 0.578798 3:-39233533 MsaT013017.1:CDS
TACGGGAACTCAAGGAGATG+AGG 0.591073 3:-39233516 MsaT013017.1:CDS
CTCCTGATGAAGCATTGTAT+CGG 0.592254 3:+39233181 None:intergenic
CTGAACAATCTCTTGTGTAA+CGG 0.594307 3:+39233270 None:intergenic
ACGGGAACTCAAGGAGATGA+GGG 0.594362 3:-39233515 MsaT013017.1:CDS
ATGCGTATGTTGGAAAACTC+AGG 0.599772 3:-39233003 MsaT013017.1:CDS
AGCAATTCAGCTCATAGGAA+TGG 0.600877 3:+39232829 None:intergenic
AGACTCCCGAAGAGTGTGGA+AGG 0.609764 3:-39233249 MsaT013017.1:CDS
AATACGTCGAGGAGAGGTGT+GGG 0.614611 3:-39233481 MsaT013017.1:CDS
TCCTGTGTGTGAATCATGGA+GGG 0.622280 3:-39233293 MsaT013017.1:CDS
TAATACGTCGAGGAGAGGTG+TGG 0.637398 3:-39233482 MsaT013017.1:CDS
TCACACACAGGAGTACAAGA+AGG 0.639441 3:+39233304 None:intergenic
CATTGTATCGGAGAATCACA+AGG 0.642254 3:+39233193 None:intergenic
GTTCAGACTCCCGAAGAGTG+TGG 0.642949 3:-39233253 MsaT013017.1:CDS
ATTGGTAATACGTCGAGGAG+AGG 0.649495 3:-39233487 MsaT013017.1:CDS
GCCCTCCATGATTCACACAC+AGG 0.656658 3:+39233292 None:intergenic
TGAATTCCAGATCCGTGTGG+AGG 0.662267 3:+39232932 None:intergenic
AACCAAATAGCCAGTCCAGT+AGG 0.666658 3:-39232910 MsaT013017.1:CDS
CTCCTGTGTGTGAATCATGG+AGG 0.667171 3:-39233294 MsaT013017.1:CDS
GATACAATGCTTCATCAGGA+GGG 0.667883 3:-39233179 MsaT013017.1:CDS
ATTGATAGGCAACCTCCACA+CGG 0.686893 3:-39232944 MsaT013017.1:CDS
ATGGGATTGGTAATACGTCG+AGG 0.700501 3:-39233492 MsaT013017.1:CDS
GGTTGAATTCCAGATCCGTG+TGG 0.703459 3:+39232929 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 39232835 39233557 39232835 ID=MsaG013017
Chr3 mRNA 39232835 39233557 39232835 ID=MsaT013017.1;Parent=MsaG013017
Chr3 exon 39232835 39233351 39232835 ID=MsaT013017.1.exon2;Parent=MsaT013017.1
Chr3 CDS 39232835 39233351 39232835 ID=cds.MsaT013017.1;Parent=MsaT013017.1
Chr3 exon 39233475 39233557 39233475 ID=MsaT013017.1.exon1;Parent=MsaT013017.1
Chr3 CDS 39233475 39233557 39233475 ID=cds.MsaT013017.1;Parent=MsaT013017.1
Gene Sequence

>MsaT013017.1

ATGTTGTTGAGAAGCATAGTACGGGAACTCAAGGAGATGAGGGATGGGATTGGTAATACGTCGAGGAGAGGTGTGGGTAGTAGGGTAGAAGAGACTGAGACTTCTTGGCCTTCTTGTACTCCTGTGTGTGAATCATGGAGGGCCGTTACACAAGAGATTGTTCAGACTCCCGAAGAGTGTGGAAGGTTGACGTTTCATATTTCGTTAAATCAGCTGGGTCCTTGTGATTCTCCGATACAATGCTTCATCAGGAGGGATAGAGAAACTTCTGCGTATCTATTGTATTATGGACTGGTGCCATTGGAAAATGAGACTGATAAGATGTTATTAGCTGCCAAAAAGATAAGGAAGACAGCCGGCACAGACTTAATCATATCTTTGGTTGCAGTCGATTTTTCTCGTTCCAGCAATGCGTATGTTGGAAAACTCAGGTCTAACATTTTGGGAACCAAGTTCACTATATACGACATTGATAGGCAACCTCCACACGGATCTGGAATTCAACCAAATAGCCAGTCCAGTAGGAGATGTCTTTCTAGGCAGGTGTCTCCAAGAGTTCAAGCATATAACTATATTGTTAGCACCATTCCTATGAGCTGA
Protein sequence

>MsaT013017.1

MLLRSIVRELKEMRDGIGNTSRRGVGSRVEETETSWPSCTPVCESWRAVTQEIVQTPEECGRLTFHISLNQLGPCDSPIQCFIRRDRETSAYLLYYGLVPLENETDKMLLAAKKIRKTAGTDLIISLVAVDFSRSSNAYVGKLRSNILGTKFTIYDIDRQPPHGSGIQPNSQSSRRCLSRQVSPRVQAYNYIVSTIPMS*