AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005716

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005716 MtrunA17_Chr1g0211941 97.308 260 3 2 1 259 1 257 0.0 506
MsaG005716 MtrunA17_Chr1g0164881 61.111 252 53 7 17 257 16 233 1.81e-79 239
MsaG005716 MtrunA17_Chr5g0416581 65.217 115 28 3 8 114 39 149 7.37e-42 147
MsaG005716 MtrunA17_Chr2g0277361 74.737 95 21 1 26 117 121 215 3.41e-41 146
MsaG005716 MtrunA17_Chr7g0224581 56.800 125 40 3 1 118 12 129 7.75e-38 134
MsaG005716 MtrunA17_Chr4g0060601 75.309 81 15 1 26 101 86 166 2.19e-36 134
MsaG005716 MtrunA17_Chr1g0180911 73.418 79 17 2 19 94 34 111 7.81e-35 124
MsaG005716 MtrunA17_Chr1g0204001 62.626 99 31 2 10 106 40 134 1.06e-32 122
MsaG005716 MtrunA17_Chr8g0350941 70.130 77 23 0 28 104 76 152 1.30e-31 119
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005716 AT5G23280.1 64.961 254 56 9 12 257 20 248 2.66e-96 283
MsaG005716 AT5G08330.1 55.351 271 75 8 1 259 1 237 6.15e-77 233
MsaG005716 AT1G58100.1 77.907 86 19 0 33 118 61 146 6.52e-41 145
MsaG005716 AT1G35560.1 74.444 90 23 0 29 118 52 141 2.76e-39 139
MsaG005716 AT1G72010.1 78.571 84 17 1 26 109 58 140 2.87e-39 140
MsaG005716 AT3G47620.1 76.829 82 14 1 25 101 105 186 1.93e-37 137
MsaG005716 AT1G69690.1 75.949 79 14 1 28 101 43 121 8.15e-37 132
MsaG005716 AT3G27010.2 75.342 73 18 0 21 93 67 139 2.28e-33 123
MsaG005716 AT3G27010.1 75.342 73 18 0 21 93 67 139 2.28e-33 123
MsaG005716 AT5G51910.1 65.517 87 30 0 18 104 43 129 5.66e-33 122
MsaG005716 AT5G51910.2 65.517 87 30 0 18 104 43 129 5.66e-33 122
MsaG005716 AT2G45680.1 62.366 93 28 1 27 119 70 155 5.16e-32 120
MsaG005716 AT5G41030.1 66.176 68 23 0 28 95 64 131 9.30e-28 107
MsaG005716 AT2G37000.1 76.271 59 14 0 33 91 44 102 7.87e-27 103
MsaG005716 AT3G45150.1 42.742 124 47 4 21 122 8 129 7.07e-21 87.0
MsaG005716 AT1G58100.2 54.651 86 15 1 33 118 61 122 1.44e-19 87.4

Find 79 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCAACACCGGCGGCTCTT+TGG 0.201653 1:-84559924 MsaT005716.1:CDS
AGGAGAAGGGAGAGAGTTAT+TGG 0.218287 1:+84560074 None:intergenic
TTACCTGCACGGCCTGATTT+TGG 0.227364 1:-84559898 MsaT005716.1:CDS
TTCAACACCGGCGGCTCTTT+GGG 0.244327 1:-84559923 MsaT005716.1:CDS
CGGCTAGTTGTTGTCGGTTT+GGG 0.288031 1:+84560334 None:intergenic
TCTCCTACGCCGTTCATTCT+CGG 0.325836 1:-84560018 MsaT005716.1:CDS
AATTTGCTTGCTTCGTTGTC+TGG 0.328042 1:-84559676 MsaT005716.1:CDS
TTCCAGCTCACACGCGAATT+AGG 0.343017 1:-84560222 MsaT005716.1:CDS
ACGGCTAGTTGTTGTCGGTT+TGG 0.352057 1:+84560333 None:intergenic
AGCTTTGCTGCTGCTGCCGC+CGG 0.352446 1:-84559865 MsaT005716.1:CDS
TCTCTCTCCGTTTCACTTCG+TGG 0.367948 1:-84560099 MsaT005716.1:CDS
TCTGGTGGACATGGAAATTC+TGG 0.390225 1:-84559658 MsaT005716.1:CDS
TGCTCCTCCGCCGGAAATGA+TGG 0.394211 1:-84559842 MsaT005716.1:CDS
ACAACAGCATCAACAAGTTA+TGG 0.406472 1:-84559746 MsaT005716.1:CDS
GGTACCGGTGGCGGCGATGA+TGG 0.418821 1:+84560146 None:intergenic
AAAGACTGAACCATCATTTC+CGG 0.426674 1:+84559832 None:intergenic
ACACGTGCGGCGCATATGAT+TGG 0.431664 1:+84560246 None:intergenic
GTGAAGTGGAGGAAGGAGAA+GGG 0.432577 1:+84560061 None:intergenic
CTCCAAATTTGACCAAAATC+AGG 0.435338 1:+84559886 None:intergenic
CTCTTTGGGCTTTACCTGCA+CGG 0.438680 1:-84559909 MsaT005716.1:CDS
CGCCGGAGTTGTGCCGGTAC+CGG 0.440402 1:+84560131 None:intergenic
TGCCGCCGGTGCTCCTCCGC+CGG 0.444737 1:-84559851 MsaT005716.1:CDS
AAAGATGATGCTCTTTCTGT+TGG 0.447514 1:-84559952 MsaT005716.1:CDS
CAACAGCATCAACAAGTTAT+GGG 0.456904 1:-84559745 MsaT005716.1:CDS
AGTGAAGTGGAGGAAGGAGA+AGG 0.462868 1:+84560060 None:intergenic
ATCATCGCCGCCACCGGTAC+CGG 0.463092 1:-84560144 MsaT005716.1:CDS
TTTGTCTCAGCAGCAACATC+AGG 0.466168 1:-84559812 MsaT005716.1:CDS
ATATGATTGGCATACGAATA+CGG 0.468808 1:+84560259 None:intergenic
AGAGTTGGGAATTATCTTCC+TGG 0.477725 1:-84559706 MsaT005716.1:CDS
AGTTGTGCCGGTACCGGTGG+CGG 0.478006 1:+84560137 None:intergenic
GTTGTTGTTGTGTTTCCGTC+GGG 0.482911 1:+84560381 None:intergenic
CACAGTAAAGTCGACGGCCG+TGG 0.489495 1:-84560285 MsaT005716.1:CDS
ACCGGTGGCGGCGATGATGG+AGG 0.492286 1:+84560149 None:intergenic
TGGTCGAGTGAAGTGGAGGA+AGG 0.494112 1:+84560054 None:intergenic
GACCTAATTCGCGTGTGAGC+TGG 0.494851 1:+84560220 None:intergenic
CATTTCCGGCGGAGGAGCAC+CGG 0.501079 1:+84559846 None:intergenic
GCTTCGTTGTCTGGTGGACA+TGG 0.503221 1:-84559667 MsaT005716.1:CDS
CCCTCCATCATCGCCGCCAC+CGG 0.503587 1:-84560150 MsaT005716.1:CDS
GAAGCTTCAGCTGCTAGAGT+TGG 0.504823 1:-84559721 MsaT005716.1:CDS
AAGCTTCAGCTGCTAGAGTT+GGG 0.504829 1:-84559720 MsaT005716.1:CDS
TGATGGAGGGTTCAGCTTGA+CGG 0.505105 1:+84560163 None:intergenic
CACCGGTACCGGCACAACTC+CGG 0.512438 1:-84560133 MsaT005716.1:CDS
TGACCAAAATCAGGCCGTGC+AGG 0.513660 1:+84559895 None:intergenic
TAGGAGAGAGAAGCGGTTTG+TGG 0.517147 1:+84560034 None:intergenic
TTGCTTGCTTCGTTGTCTGG+TGG 0.525229 1:-84559673 MsaT005716.1:CDS
TGAACCATCATTTCCGGCGG+AGG 0.529418 1:+84559838 None:intergenic
CCATTCGATGGTTTGACCGT+CGG 0.532798 1:+84560191 None:intergenic
GTTTCCGTCGGGGTTAGACA+TGG 0.533278 1:+84560392 None:intergenic
CCGGTGGCGGCGATGATGGA+GGG 0.534932 1:+84560150 None:intergenic
TGTTGGTTCTCTTTCAACAC+CGG 0.535689 1:-84559935 MsaT005716.1:CDS
GTCAATGATTGAACCGTTCG+TGG 0.543005 1:+84560356 None:intergenic
GGTTGTTGTTGTGTTTCCGT+CGG 0.546317 1:+84560380 None:intergenic
ATTGGAGCCACGAAGTGAAA+CGG 0.550877 1:+84560092 None:intergenic
TTCCGGCGGAGGAGCACCGG+CGG 0.553371 1:+84559849 None:intergenic
GAAACTCGCCGGAGTTGTGC+CGG 0.558752 1:+84560125 None:intergenic
CGGTTTGTGGTCGAGTGAAG+TGG 0.560737 1:+84560047 None:intergenic
GCAAGCAAATTGAGATGACC+AGG 0.567406 1:+84559688 None:intergenic
GCATACGAATACGGCGTCCA+CGG 0.572506 1:+84560268 None:intergenic
TTGACGGAGGAGCCATTCGA+TGG 0.578156 1:+84560179 None:intergenic
CGGAGTTGTGCCGGTACCGG+TGG 0.579827 1:+84560134 None:intergenic
ACAACAACAACCACCACGAA+CGG 0.583850 1:-84560369 MsaT005716.1:CDS
GGTAAAGCCCAAAGAGCCGC+CGG 0.587790 1:+84559916 None:intergenic
ATACGTTTACCGAGAATGAA+CGG 0.599547 1:+84560009 None:intergenic
GGCCGTCGACTTTACTGTGA+CGG 0.604244 1:+84560289 None:intergenic
GAGAGAGAAGAGAAACTCGC+CGG 0.605189 1:+84560114 None:intergenic
CCGACGGTCAAACCATCGAA+TGG 0.640967 1:-84560191 MsaT005716.1:CDS
TTTGTGGTCGAGTGAAGTGG+AGG 0.647959 1:+84560050 None:intergenic
TTACCGAGAATGAACGGCGT+AGG 0.649539 1:+84560015 None:intergenic
TTGTTGTTGTGTTTCCGTCG+GGG 0.653569 1:+84560382 None:intergenic
GACTGAACCATCATTTCCGG+CGG 0.662606 1:+84559835 None:intergenic
GACCGTCACAGTAAAGTCGA+CGG 0.664072 1:-84560291 MsaT005716.1:CDS
TGGTTCTCTTTCAACACCGG+CGG 0.671866 1:-84559932 MsaT005716.1:CDS
GTGGACATGGAAATTCTGGT+CGG 0.673965 1:-84559654 MsaT005716.1:CDS
AATGATTGAACCGTTCGTGG+TGG 0.682160 1:+84560359 None:intergenic
TGTGAGCTGGAAGACACGTG+CGG 0.686113 1:+84560233 None:intergenic
AAAACCATGTCTAACCCCGA+CGG 0.687631 1:-84560396 None:intergenic
TGGAGGGTTCAGCTTGACGG+AGG 0.697001 1:+84560166 None:intergenic
GAATTAGGTCACAAATCCGA+CGG 0.701084 1:-84560207 MsaT005716.1:CDS
AACGGCGTAGGAGAGAGAAG+CGG 0.760443 1:+84560027 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 84559633 84560412 84559633 ID=MsaG005716
Chr1 mRNA 84559633 84560412 84559633 ID=MsaT005716.1;Parent=MsaG005716
Chr1 exon 84559633 84560412 84559633 ID=MsaT005716.1.exon1;Parent=MsaT005716.1
Chr1 CDS 84559633 84560412 84559633 ID=cds.MsaT005716.1;Parent=MsaT005716.1
Gene Sequence

>MsaT005716.1

ATGTCTAACCCCGACGGAAACACAACAACAACCACCACGAACGGTTCAATCATTGACCCAAACCGACAACAACTAGCCGTCAAAAAACCGCCGGCAAAAGACCGTCACAGTAAAGTCGACGGCCGTGGACGCCGTATTCGTATGCCAATCATATGCGCCGCACGTGTCTTCCAGCTCACACGCGAATTAGGTCACAAATCCGACGGTCAAACCATCGAATGGCTCCTCCGTCAAGCTGAACCCTCCATCATCGCCGCCACCGGTACCGGCACAACTCCGGCGAGTTTCTCTTCTCTCTCCGTTTCACTTCGTGGCTCCAATAACTCTCTCCCTTCTCCTTCCTCCACTTCACTCGACCACAAACCGCTTCTCTCTCCTACGCCGTTCATTCTCGGTAAACGTATTCGCACTGATGATGATTCTTCTTCTTCTTCTGCTAAAGATGATGCTCTTTCTGTTGGTTCTCTTTCAACACCGGCGGCTCTTTGGGCTTTACCTGCACGGCCTGATTTTGGTCAAATTTGGAGCTTTGCTGCTGCTGCCGCCGGTGCTCCTCCGCCGGAAATGATGGTTCAGTCTTTGTCTCAGCAGCAACATCAGGTTCAAGCTAATTTCTTCGCTCATCATCATCAGCAGCAACAGCAACAACAGCATCAACAAGTTATGGGTGAAGCTTCAGCTGCTAGAGTTGGGAATTATCTTCCTGGTCATCTCAATTTGCTTGCTTCGTTGTCTGGTGGACATGGAAATTCTGGTCGGAGAGATGATGAACATCATTGA
Protein sequence

>MsaT005716.1

MSNPDGNTTTTTTNGSIIDPNRQQLAVKKPPAKDRHSKVDGRGRRIRMPIICAARVFQLTRELGHKSDGQTIEWLLRQAEPSIIAATGTGTTPASFSSLSVSLRGSNNSLPSPSSTSLDHKPLLSPTPFILGKRIRTDDDSSSSSAKDDALSVGSLSTPAALWALPARPDFGQIWSFAAAAAGAPPPEMMVQSLSQQQHQVQANFFAHHHQQQQQQQHQQVMGEASAARVGNYLPGHLNLLASLSGGHGNSGRRDDEHH*