AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001903

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001903 MtrunA17_Chr1g0169171 60.559 322 106 4 31 351 1 302 4.22e-118 343
MsaG001903 MtrunA17_Chr1g0169081 91.716 169 13 1 184 351 156 324 2.52e-111 327
MsaG001903 MtrunA17_Chr1g0169161 72.674 172 45 1 179 350 164 333 2.00e-87 266
MsaG001903 MtrunA17_Chr3g0125151 69.291 127 37 1 225 351 1 125 2.46e-62 195
MsaG001903 MtrunA17_Chr3g0125161 74.359 117 30 0 2 118 16 132 2.21e-56 181
MsaG001903 MtrunA17_Chr1g0154191 26.380 163 114 3 9 167 22 182 2.45e-14 73.6
MsaG001903 MtrunA17_Chr1g0154111 27.692 130 90 2 9 136 26 153 5.04e-11 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001903 AT3G06160.5 23.256 344 222 6 6 349 8 309 3.81e-21 92.8
MsaG001903 AT3G06160.4 23.256 344 222 6 6 349 8 309 3.81e-21 92.8
MsaG001903 AT3G06160.3 23.256 344 222 6 6 349 8 309 3.81e-21 92.8
MsaG001903 AT3G06160.1 23.256 344 222 6 6 349 23 324 4.23e-21 92.8
MsaG001903 AT3G06160.2 23.256 344 222 6 6 349 67 368 9.11e-21 92.8
MsaG001903 AT5G57720.1 21.972 355 202 13 5 349 10 299 2.32e-14 73.2
MsaG001903 AT3G18960.1 37.624 101 59 3 8 107 30 127 7.81e-12 64.3
MsaG001903 AT3G18960.2 37.624 101 59 3 8 107 30 127 9.09e-12 63.9
MsaG001903 AT4G01580.1 36.364 99 59 3 8 105 30 125 2.94e-11 62.4
MsaG001903 AT5G66980.1 23.164 354 223 12 1 348 4 314 7.90e-11 63.2

Find 58 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCAATGAAGTGTGGATTTC+CGG 0.187944 1:+28412307 None:intergenic
AAATCCTTGATAACATTCTT+TGG 0.259575 1:+28411968 None:intergenic
TGTTAAGGGTGCACATTGTT+AGG 0.310846 1:-28411567 MsaT001903.1:CDS
TGCTGCTGATGATGATATTA+TGG 0.325258 1:-28412667 MsaT001903.1:CDS
GCATCAATTTCGTCGTCTTC+AGG 0.326868 1:+28412347 None:intergenic
CTTACCAGCTTTGCACTTGC+AGG 0.327904 1:+28412506 None:intergenic
AAGAATTGTACCAATTCATT+AGG 0.342988 1:+28412266 None:intergenic
TAGAGACGAAAATTCTTTAG+AGG 0.344242 1:-28412889 MsaT001903.1:CDS
AGATCATGATGATGATATTA+TGG 0.349539 1:-28412634 MsaT001903.1:CDS
ATCAAGTTCACAAAAGCATT+AGG 0.355825 1:+28413032 None:intergenic
TGAACTTGATGCGTTCAAAA+AGG 0.358189 1:-28413019 MsaT001903.1:CDS
CTCTTCCTCTACGATCTCTT+AGG 0.378241 1:+28412976 None:intergenic
TTGTACCAATTCATTAGGTC+TGG 0.410085 1:+28412271 None:intergenic
GCAATGAAGTGTGGATTTCC+GGG 0.417877 1:+28412308 None:intergenic
ATATTGAAAATAACATATTC+AGG 0.423216 1:-28412842 MsaT001903.1:CDS
ATATGTGTTCTGCTTATTTG+TGG 0.425629 1:+28411733 None:intergenic
TCAAGTTCACAAAAGCATTA+GGG 0.428525 1:+28413033 None:intergenic
TCATTCCAGACCTAATGAAT+TGG 0.430343 1:-28412276 MsaT001903.1:intron
CCTTGCAGTGGCAACATTCA+AGG 0.435374 1:+28411918 None:intergenic
CATGGAGGAAAATAACAATA+TGG 0.446533 1:-28412769 MsaT001903.1:CDS
CATCTCTCCACGTACGTACT+TGG 0.449196 1:+28411698 None:intergenic
CATGTCAAAGCTCGTCGTAT+TGG 0.455772 1:-28412948 MsaT001903.1:CDS
TATTCCAAAGAATGTTATCA+AGG 0.458986 1:-28411972 MsaT001903.1:CDS
GATGGTCGAGTACGTGTGCT+AGG 0.481978 1:-28411679 MsaT001903.1:CDS
TTGTGGCAAGATGTGATGAT+AGG 0.486090 1:+28411750 None:intergenic
GAGATCGTAGAGGAAGAGAT+TGG 0.486399 1:-28412971 MsaT001903.1:CDS
GAAGAAATCTGGGTAATCCT+TGG 0.489215 1:+28413269 None:intergenic
CAATATGGAGGATGAGGAAG+AGG 0.500994 1:-28412754 MsaT001903.1:CDS
GTCGAGTACGTGTGCTAGGG+TGG 0.503803 1:-28411675 MsaT001903.1:CDS
AGAACCTGCAAGTGCAAAGC+TGG 0.504053 1:-28412510 MsaT001903.1:intron
AAATAACAATATGGAGGATG+AGG 0.505646 1:-28412760 MsaT001903.1:CDS
AGAAAAGCACACTGAAAGAA+TGG 0.515189 1:-28413232 MsaT001903.1:intron
ATCAATGTGTGAAAAGAAGA+AGG 0.520397 1:-28412799 MsaT001903.1:CDS
AAGGGTGCACATTGTTAGGA+AGG 0.552584 1:-28411563 MsaT001903.1:CDS
GATGAGGAAGAGGACGGTGA+TGG 0.556360 1:-28412744 MsaT001903.1:CDS
CGAGAATGAAAGAATGTACA+AGG 0.558420 1:-28412562 MsaT001903.1:CDS
TGATGATGATATTATGGCAG+AGG 0.566025 1:-28412628 MsaT001903.1:CDS
AGACGAAAATTCTTTAGAGG+AGG 0.570120 1:-28412886 MsaT001903.1:CDS
GAGATTGTGCTGCGTGAAGA+TGG 0.578226 1:-28411601 MsaT001903.1:CDS
CTTGCAGTGGCAACATTCAA+GGG 0.578433 1:+28411919 None:intergenic
CAAGTACGTACGTGGAGAGA+TGG 0.582116 1:-28411697 MsaT001903.1:CDS
CCTTGAATGTTGCCACTGCA+AGG 0.583961 1:-28411918 MsaT001903.1:intron
AAAGAAGAAGGTAAGTGACA+TGG 0.601455 1:-28412787 MsaT001903.1:CDS
AATTGTAACTAAGATGGCCA+AGG 0.605912 1:-28413286 None:intergenic
GAAGAAGGTAAGTGACATGG+AGG 0.606864 1:-28412784 MsaT001903.1:CDS
CATGATACCGATGATGATGA+TGG 0.612164 1:-28412597 MsaT001903.1:CDS
ATGGTCGAGTACGTGTGCTA+GGG 0.616130 1:-28411678 MsaT001903.1:CDS
TCGAGTACGTGTGCTAGGGT+GGG 0.622095 1:-28411674 MsaT001903.1:CDS
GTCATCACCATCATCATCAT+CGG 0.626181 1:+28412590 None:intergenic
TGATGATGATATTATGGCAG+AGG 0.627493 1:-28412661 MsaT001903.1:CDS
AATTATACTATACCTTGCAG+TGG 0.634623 1:+28411906 None:intergenic
GGAGGAAAATAACAATATGG+AGG 0.639547 1:-28412766 MsaT001903.1:CDS
AGAGAGGCCAAGTACGTACG+TGG 0.642453 1:-28411705 MsaT001903.1:CDS
GCTGAAATGTATATTCAACC+CGG 0.655563 1:-28412326 MsaT001903.1:CDS
ATGGAGGATGAGGAAGAGGA+CGG 0.656729 1:-28412750 MsaT001903.1:CDS
AGAACACATATCGAAAAGAG+AGG 0.666945 1:-28411721 MsaT001903.1:CDS
TGATGATGATGACGATGACG+AGG 0.734080 1:-28412718 MsaT001903.1:CDS
TTCATCCTAAGAGATCGTAG+AGG 0.754677 1:-28412981 MsaT001903.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 28411558 28413295 28411558 ID=MsaG001903
Chr1 mRNA 28411558 28413295 28411558 ID=MsaT001903.1;Parent=MsaG001903
Chr1 exon 28411558 28411797 28411558 ID=MsaT001903.1.exon5;Parent=MsaT001903.1
Chr1 CDS 28411558 28411797 28411558 ID=cds.MsaT001903.1;Parent=MsaT001903.1
Chr1 exon 28411919 28411996 28411919 ID=MsaT001903.1.exon4;Parent=MsaT001903.1
Chr1 CDS 28411919 28411996 28411919 ID=cds.MsaT001903.1;Parent=MsaT001903.1
Chr1 exon 28412277 28412401 28412277 ID=MsaT001903.1.exon3;Parent=MsaT001903.1
Chr1 CDS 28412277 28412401 28412277 ID=cds.MsaT001903.1;Parent=MsaT001903.1
Chr1 exon 28412511 28413060 28412511 ID=MsaT001903.1.exon2;Parent=MsaT001903.1
Chr1 CDS 28412511 28413060 28412511 ID=cds.MsaT001903.1;Parent=MsaT001903.1
Chr1 exon 28413233 28413295 28413233 ID=MsaT001903.1.exon1;Parent=MsaT001903.1
Chr1 CDS 28413233 28413295 28413233 ID=cds.MsaT001903.1;Parent=MsaT001903.1
Gene Sequence

>MsaT001903.1

ATGGCCAAGGATTACCCAGATTTCTTCAAAGTTTTTTCTACAGAAAAGCACACTGAAAGAATGCGTATCCCTAATGCTTTTGTGAACTTGATGCGTTCAAAAAGGAAGGTCATAAAGGATTTCATCCTAAGAGATCGTAGAGGAAGAGATTGGCATGTCAAAGCTCGTCGTATTGGCGATGAGCTTTATTTTGACGATGGTTGGAAGCAATTTAGAGACGAAAATTCTTTAGAGGAGGATGATTTCCTTGTTTTTACACATATTGAAAATAACATATTCAGGTTCAAAATTCTTGAACTATCATCAATGTGTGAAAAGAAGAAGGTAAGTGACATGGAGGAAAATAACAATATGGAGGATGAGGAAGAGGACGGTGATGGTGATGATGATGATGACGATGACGAGGATGATGATTATGATTTTGATGCTGCTGCTGCTGCTGATGATGATATTATGGCAGAGGAAGAAGATCATGATGATGATATTATGGCAGAGGAAGAACATCATGATACCGATGATGATGATGGTGATGACGACGACGAGAATGAAAGAATGTACAAGGAAATTAGTAGAAGTAAACATCAACATTGTAGAACCTGCAAGTGCAAAGCTGCGGACATTGGGAGCAGCTCTGCACATTCAAAACCTGAAGACGACGAAATTGATGCTGAAATGTATATTCAACCCGGAAATCCACACTTCATTGCAAAATATATTCATTCCAGACCTAATGAATTGTTTATTCCAAAGAATGTTATCAAGGATTTCTGCCTCTGCTTCACAAAACATGTCACCCTTGAATGTTGCCACTGCAAGGACATTCAGAGCAATGACTTAGCAGCCTATCATCACATCTTGCCACAAATAAGCAGAACACATATCGAAAAGAGAGGCCAAGTACGTACGTGGAGAGATGGTCGAGTACGTGTGCTAGGGTGGGAAGATTTTTGTAGAAAGTGCAATATCACAGAAAATGATAGTTGCTTATGCGAGATTGTGCTGCGTGAAGATGGAAAAATCGAAATGTTAAGGGTGCACATTGTTAGGAAGGAATGA
Protein sequence

>MsaT001903.1

MAKDYPDFFKVFSTEKHTERMRIPNAFVNLMRSKRKVIKDFILRDRRGRDWHVKARRIGDELYFDDGWKQFRDENSLEEDDFLVFTHIENNIFRFKILELSSMCEKKKVSDMEENNNMEDEEEDGDGDDDDDDDEDDDYDFDAAAAADDDIMAEEEDHDDDIMAEEEHHDTDDDDGDDDDENERMYKEISRSKHQHCRTCKCKAADIGSSSAHSKPEDDEIDAEMYIQPGNPHFIAKYIHSRPNELFIPKNVIKDFCLCFTKHVTLECCHCKDIQSNDLAAYHHILPQISRTHIEKRGQVRTWRDGRVRVLGWEDFCRKCNITENDSCLCEIVLREDGKIEMLRVHIVRKE*