AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005358

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005358 MtrunA17_Chr1g0207301 95.758 330 14 0 1 330 51 380 0.0 650
MsaG005358 MtrunA17_Chr5g0393721 49.398 332 132 10 9 329 9 315 4.16e-86 262
MsaG005358 MtrunA17_Chr1g0207311 42.284 324 145 7 1 324 1 282 7.29e-60 193
MsaG005358 MtrunA17_Chr3g0134741 52.147 163 77 1 161 323 153 314 4.06e-48 164
MsaG005358 MtrunA17_Chr1g0152651 50.617 162 70 2 152 313 198 349 6.73e-40 144
MsaG005358 MtrunA17_Chr5g0435021 62.857 70 26 0 237 306 217 286 6.14e-24 99.8
MsaG005358 MtrunA17_Chr8g0384141 53.623 69 32 0 234 302 110 178 2.97e-18 83.2
MsaG005358 MtrunA17_Chr4g0074161 43.333 90 49 1 214 301 180 269 6.71e-17 80.9
MsaG005358 MtrunA17_Chr3g0134001 49.254 67 34 0 234 300 167 233 8.74e-17 79.0
MsaG005358 MtrunA17_Chr7g0243041 58.182 55 23 0 245 299 33 87 2.46e-16 75.1
MsaG005358 MtrunA17_Chr1g0190731 47.059 68 36 0 234 301 189 256 3.60e-14 72.4
MsaG005358 MtrunA17_Chr1g0153241 43.548 62 35 0 254 315 101 162 1.18e-12 67.0
MsaG005358 MtrunA17_Chr5g0402031 42.105 76 44 0 254 329 121 196 2.44e-12 67.0
MsaG005358 MtrunA17_Chr1g0193321 50.000 48 24 0 254 301 478 525 8.74e-12 66.2
MsaG005358 MtrunA17_Chr3g0095391 36.264 91 46 3 224 307 288 373 2.17e-11 64.7
MsaG005358 MtrunA17_Chr1g0182791 37.349 83 45 1 226 301 298 380 5.03e-11 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005358 AT2G14760.1 36.932 352 151 12 10 324 6 323 2.73e-55 183
MsaG005358 AT2G14760.3 35.616 365 151 13 10 324 6 336 1.36e-51 174
MsaG005358 AT4G33880.1 77.174 92 21 0 229 320 257 348 3.32e-45 157
MsaG005358 AT5G43175.1 54.140 157 57 2 184 325 63 219 5.79e-45 153
MsaG005358 AT1G27740.1 53.642 151 52 3 176 325 121 254 1.37e-44 153
MsaG005358 AT1G66470.1 54.839 93 41 1 214 306 172 263 1.61e-24 101
MsaG005358 AT5G37800.1 61.039 77 27 1 230 306 196 269 1.66e-24 101
MsaG005358 AT4G30980.1 45.783 83 45 0 219 301 111 193 1.72e-17 82.0
MsaG005358 AT4G30980.2 45.783 83 45 0 219 301 159 241 1.85e-17 82.4
MsaG005358 AT2G24260.2 53.846 65 30 0 237 301 34 98 4.20e-17 80.1
MsaG005358 AT2G24260.1 53.846 65 30 0 237 301 137 201 9.97e-17 80.5
MsaG005358 AT5G01305.1 48.649 74 33 1 237 305 36 109 2.35e-16 76.3
MsaG005358 AT3G21330.1 39.394 99 59 1 202 300 234 331 3.47e-16 79.0
MsaG005358 AT5G58010.1 47.143 70 37 0 232 301 93 162 7.87e-16 77.0
MsaG005358 AT4G00120.1 37.975 79 49 0 222 300 96 174 3.23e-15 73.6
MsaG005358 AT4G36930.1 39.189 74 45 0 245 318 198 271 4.94e-12 66.6
MsaG005358 AT2G20180.7 40.244 82 38 2 254 326 223 302 5.48e-12 66.6
MsaG005358 AT2G20180.1 40.244 82 38 2 254 326 223 302 5.48e-12 66.6
MsaG005358 AT2G20180.5 40.244 82 38 2 254 326 223 302 5.48e-12 66.6
MsaG005358 AT1G09530.3 39.394 66 40 0 254 319 353 418 9.53e-12 66.2
MsaG005358 AT1G09530.2 39.394 66 40 0 254 319 353 418 9.53e-12 66.2
MsaG005358 AT1G09530.5 39.394 66 40 0 254 319 353 418 9.53e-12 66.2
MsaG005358 AT1G09530.1 39.394 66 40 0 254 319 353 418 9.53e-12 66.2
MsaG005358 AT1G09530.4 39.394 66 40 0 254 319 353 418 9.53e-12 66.2
MsaG005358 AT1G09530.6 39.394 66 40 0 254 319 353 418 9.53e-12 66.2
MsaG005358 AT2G20180.4 40.244 82 38 2 254 326 294 373 1.01e-11 66.2
MsaG005358 AT2G20180.6 40.244 82 38 2 254 326 294 373 1.01e-11 66.2
MsaG005358 AT2G20180.2 40.244 82 38 2 254 326 294 373 1.01e-11 66.2
MsaG005358 AT2G20180.3 40.244 82 38 2 254 326 294 373 1.01e-11 66.2
MsaG005358 AT5G67110.1 42.857 77 28 3 254 330 103 163 8.88e-11 61.2

Find 54 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCAACAGATTTGAAGTTAA+AGG 0.203807 1:-80527797 MsaT005358.1:CDS
TCAAATCTGTTGAATCATTC+TGG 0.235168 1:+80527806 None:intergenic
CATTAGGGACTAGGCTTTGC+AGG 0.277798 1:+80527549 None:intergenic
CTTGGAAGTTATTAAGTAAC+TGG 0.304266 1:+80528671 None:intergenic
AACACTATAAGTGCTAAAAT+TGG 0.312512 1:+80528402 None:intergenic
TTCATTCCATTGTAAGCAAT+TGG 0.326950 1:+80527189 None:intergenic
CAAGTTTCTGAGCACCATTA+TGG 0.327811 1:-80528652 MsaT005358.1:CDS
TCAACAGATTTGAAGTTAAA+GGG 0.332099 1:-80527796 MsaT005358.1:CDS
AGAGTTTGGTAAAGATGTTT+TGG 0.332649 1:-80528338 MsaT005358.1:CDS
CTAAATTGAAATTTCCATAA+TGG 0.336286 1:+80528638 None:intergenic
CCTTGGTTCCATTAGGGACT+AGG 0.345834 1:+80527540 None:intergenic
CATAATGGTGCTCAGAAACT+TGG 0.346093 1:+80528653 None:intergenic
GCAAGAGAAATGTGAAATCT+AGG 0.353020 1:-80527966 MsaT005358.1:CDS
GAAAACACTTCTGAAGAGTT+TGG 0.361815 1:-80528352 MsaT005358.1:CDS
CAAGGAAAGAAAATGGATTC+TGG 0.368940 1:-80528763 None:intergenic
TTTAGCACTTATAGTGTTCA+AGG 0.374420 1:-80528397 MsaT005358.1:CDS
AAAGCTACCTTGGTTCCATT+AGG 0.376583 1:+80527533 None:intergenic
GGATGAAAGTCATGATCTTC+AGG 0.377305 1:-80527905 MsaT005358.1:CDS
AAGCTACCTTGGTTCCATTA+GGG 0.399329 1:+80527534 None:intergenic
GCTATATATCTATGGTAGTT+CGG 0.420297 1:+80527137 None:intergenic
CTGCAAAGCCTAGTCCCTAA+TGG 0.420311 1:-80527548 MsaT005358.1:CDS
TATATTGCTAGTATCAGAAA+TGG 0.424213 1:+80528492 None:intergenic
GAAGAATGGAGTTCTCTTAG+TGG 0.449677 1:-80528727 MsaT005358.1:CDS
ACTATTGTGGATTCATGTCC+TGG 0.460970 1:+80528595 None:intergenic
TATATCTATGGTAGTTCGGT+TGG 0.463306 1:+80527141 None:intergenic
TAGAAATTCCATCTACATCA+TGG 0.473913 1:-80528618 MsaT005358.1:CDS
AATATATTTCATAATACAAA+TGG 0.474972 1:-80528475 MsaT005358.1:CDS
TGTCCTGGCCATGATGTAGA+TGG 0.481256 1:+80528610 None:intergenic
GCTATTCATGCTCACTATTG+TGG 0.481463 1:+80528582 None:intergenic
AAGGGAAAATCAAAATGTAA+TGG 0.488727 1:-80527778 MsaT005358.1:CDS
GGCATTCATGTAGCCAATGT+TGG 0.502539 1:+80528423 None:intergenic
ATATCTATGGTAGTTCGGTT+GGG 0.502830 1:+80527142 None:intergenic
AAGATCTAGGAGCTCGATGA+AGG 0.519130 1:-80528269 MsaT005358.1:intron
TTCTGAGCTCTGATGATCAC+TGG 0.521996 1:-80527221 MsaT005358.1:CDS
GCTTACAATGGAATGAACAT+TGG 0.525606 1:-80527183 MsaT005358.1:CDS
GTGAGCAAAGTTGTGAAGAA+TGG 0.531367 1:-80528741 MsaT005358.1:CDS
GTTCGGTTGGGATAATGTTG+AGG 0.541601 1:+80527154 None:intergenic
AATGATCATGTAGCCAACAT+TGG 0.547548 1:-80528436 MsaT005358.1:CDS
ATTCCATCTACATCATGGCC+AGG 0.561187 1:-80528613 MsaT005358.1:CDS
GTTCAAAAGCAACGCTGACG+AGG 0.565933 1:-80527926 MsaT005358.1:CDS
GTTCTTGATACACTCTTTCG+CGG 0.570482 1:+80528312 None:intergenic
TCAGGAGCAGAATTTGAGCT+CGG 0.588142 1:-80527887 MsaT005358.1:CDS
GCTTTAAAGAAGCTAAATGC+AGG 0.589797 1:-80527847 MsaT005358.1:CDS
GGATATCAGCACCATGCTTG+AGG 0.592275 1:-80527430 MsaT005358.1:CDS
TATGCTCCAATTGCTTACAA+TGG 0.606083 1:-80527195 MsaT005358.1:CDS
GGAAAATCAAAATGTAATGG+AGG 0.608687 1:-80527775 MsaT005358.1:CDS
ATATTTCATAATACAAATGG+TGG 0.608776 1:-80528472 MsaT005358.1:CDS
TTGCACAGCTTCCTCAAGCA+TGG 0.610000 1:+80527419 None:intergenic
ATAGACACCTTGTGGATCAG+AGG 0.616647 1:+80527747 None:intergenic
ATCTAGGAAGAAACCAAAGT+CGG 0.617908 1:-80527950 MsaT005358.1:CDS
CCTAGTCCCTAATGGAACCA+AGG 0.646129 1:-80527540 MsaT005358.1:intron
GGTTCTGCCTCTGATCCACA+AGG 0.648330 1:-80527754 MsaT005358.1:CDS
GGAGCAGAATTTGAGCTCGG+AGG 0.653936 1:-80527884 MsaT005358.1:CDS
AGAGTGTATCAAGAACAACC+TGG 0.703200 1:-80528305 MsaT005358.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 80527146 80528773 80527146 ID=MsaG005358
Chr1 mRNA 80527146 80528773 80527146 ID=MsaT005358.1;Parent=MsaG005358
Chr1 exon 80527146 80527244 80527146 ID=MsaT005358.1.exon5;Parent=MsaT005358.1
Chr1 CDS 80527146 80527244 80527146 ID=cds.MsaT005358.1;Parent=MsaT005358.1
Chr1 exon 80527389 80527454 80527389 ID=MsaT005358.1.exon4;Parent=MsaT005358.1
Chr1 CDS 80527389 80527454 80527389 ID=cds.MsaT005358.1;Parent=MsaT005358.1
Chr1 exon 80527541 80527606 80527541 ID=MsaT005358.1.exon3;Parent=MsaT005358.1
Chr1 CDS 80527541 80527606 80527541 ID=cds.MsaT005358.1;Parent=MsaT005358.1
Chr1 exon 80527741 80527998 80527741 ID=MsaT005358.1.exon2;Parent=MsaT005358.1
Chr1 CDS 80527741 80527998 80527741 ID=cds.MsaT005358.1;Parent=MsaT005358.1
Chr1 exon 80528270 80528773 80528270 ID=MsaT005358.1.exon1;Parent=MsaT005358.1
Chr1 CDS 80528270 80528773 80528270 ID=cds.MsaT005358.1;Parent=MsaT005358.1
Gene Sequence

>MsaT005358.1

ATGGATTCTGGTGAGCAAAGTTGTGAAGAATGGAGTTCTCTTAGTGGATTTTACACAGCTGAGGAAGCTGATTTTATGGGCCAGTTACTTAATAACTTCCAAGTTTCTGAGCACCATTATGGAAATTTCAATTTAGAAATTCCATCTACATCATGGCCAGGACATGAATCCACAATAGTGAGCATGAATAGCAGTTCACATTTTCCTCAAAATGCTGATAATAGTAACACTGATGTTTTTAGTTTTTCACAAAGTAGCTCCATTTCTGATACTAGCAATATATTTCATAATACAAATGGTGGTAACATCTGTTTGAATGATCATGTAGCCAACATTGGCTACATGAATGCCAATTTTAGCACTTATAGTGTTCAAGGTCATGACAGCCAACAGATAACTGAAAACACTTCTGAAGAGTTTGGTAAAGATGTTTTGGAATCCGCGAAAGAGTGTATCAAGAACAACCTGGAAAAATCAGGAAAAAGATCTAGGAGCTCGATGAAGGTACAAAAGAGCAAGAGAAATGTGAAATCTAGGAAGAAACCAAAGTCGGAGTTCAAAAGCAACGCTGACGAGGATGAAAGTCATGATCTTCAGGAGCAGAATTTGAGCTCGGAGGATGATGATATCAATGCTTTAAAGAAGCTAAATGCAGGAACATCTTCAATCTTGAACCAGAATGATTCAACAGATTTGAAGTTAAAGGGAAAATCAAAATGTAATGGAGGTTCTGCCTCTGATCCACAAGGTGTCTATGCAAAAAAAAGAAGAGAAAGAATAAATGAAAGATTGAAAATCCTGCAAAGCCTAGTCCCTAATGGAACCAAGGTGGATATCAGCACCATGCTTGAGGAAGCTGTGCAATATGTGAAGTTTTTACAGGTCCAAATTAAGCTTCTGAGCTCTGATGATCACTGGATGTATGCTCCAATTGCTTACAATGGAATGAACATTGGACTAAACCTCAACATTATCCCAACCGAACTACCATAG
Protein sequence

>MsaT005358.1

MDSGEQSCEEWSSLSGFYTAEEADFMGQLLNNFQVSEHHYGNFNLEIPSTSWPGHESTIVSMNSSSHFPQNADNSNTDVFSFSQSSSISDTSNIFHNTNGGNICLNDHVANIGYMNANFSTYSVQGHDSQQITENTSEEFGKDVLESAKECIKNNLEKSGKRSRSSMKVQKSKRNVKSRKKPKSEFKSNADEDESHDLQEQNLSSEDDDINALKKLNAGTSSILNQNDSTDLKLKGKSKCNGGSASDPQGVYAKKRRERINERLKILQSLVPNGTKVDISTMLEEAVQYVKFLQVQIKLLSSDDHWMYAPIAYNGMNIGLNLNIIPTELP*