AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG024619

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024619 MtrunA17_Chr8g0392151 97.510 241 6 0 1 241 1 241 5.25e-179 491
MsaG024619 MtrunA17_Chr1g0161601 48.889 90 45 1 14 103 49 137 4.23e-25 96.7
MsaG024619 MtrunA17_Chr4g0065041 33.793 145 74 3 15 158 10 133 4.99e-21 88.6
MsaG024619 MtrunA17_Chr2g0297251 35.172 145 72 4 15 158 39 162 2.36e-20 87.0
MsaG024619 MtrunA17_Chr7g0230511 30.345 145 78 4 15 158 11 133 4.19e-20 85.9
MsaG024619 MtrunA17_Chr1g0179781 35.374 147 71 6 15 158 9 134 5.20e-19 82.0
MsaG024619 MtrunA17_Chr5g0411151 35.616 146 71 5 15 158 37 161 2.00e-17 78.6
MsaG024619 MtrunA17_Chr7g0265291 33.974 156 77 6 15 165 9 143 5.59e-17 76.6
MsaG024619 MtrunA17_Chr4g0040071 34.932 146 72 5 15 158 17 141 6.50e-17 76.6
MsaG024619 MtrunA17_Chr8g0366581 34.932 146 72 5 15 158 35 159 3.74e-16 75.1
MsaG024619 MtrunA17_Chr5g0395181 32.877 146 75 5 15 158 23 147 9.13e-16 73.6
MsaG024619 MtrunA17_Chr2g0320551 31.788 151 86 5 13 159 4 141 4.90e-15 70.5
MsaG024619 MtrunA17_Chr2g0320561 29.936 157 93 5 13 165 4 147 2.71e-14 70.1
MsaG024619 MtrunA17_Chr2g0308401 29.936 157 92 6 13 164 4 147 3.53e-13 65.5
MsaG024619 MtrunA17_Chr4g0020811 29.936 157 92 6 13 164 6 149 3.57e-13 65.5
MsaG024619 MtrunA17_Chr2g0320521 34.021 97 60 3 13 105 6 102 1.52e-11 62.4
MsaG024619 MtrunA17_Chr8g0386511 31.250 112 54 3 50 158 4 95 1.95e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024619 AT2G01818.1 43.421 152 66 4 15 161 13 149 9.34e-36 127
MsaG024619 AT3G60670.1 33.333 147 76 3 15 160 9 134 4.33e-22 91.7
MsaG024619 AT2G12646.1 33.793 145 74 3 15 158 8 131 1.08e-20 88.2
MsaG024619 AT2G12646.2 33.793 145 74 3 15 158 8 131 1.08e-20 88.2
MsaG024619 AT2G12646.3 33.793 145 74 3 15 158 5 128 1.10e-20 88.2
MsaG024619 AT1G21000.1 36.735 147 70 5 15 159 18 143 1.75e-18 82.0
MsaG024619 AT1G21000.2 36.735 147 70 5 15 159 15 140 1.77e-18 82.0
MsaG024619 AT1G43000.2 31.760 233 122 11 15 237 18 223 5.59e-18 80.1
MsaG024619 AT1G43000.1 31.760 233 122 11 15 237 11 216 6.77e-18 79.7
MsaG024619 AT1G76590.1 38.060 134 61 4 27 159 33 145 2.41e-17 79.0
MsaG024619 AT4G17900.1 31.875 160 87 4 2 159 23 162 4.28e-17 77.8
MsaG024619 AT1G31040.1 30.675 163 90 3 15 176 21 161 6.88e-17 77.8
MsaG024619 AT4G17900.2 33.333 147 76 4 15 159 22 148 8.00e-17 77.0
MsaG024619 AT2G27930.3 33.333 150 85 5 15 161 6 143 5.72e-16 73.6
MsaG024619 AT2G27930.2 33.333 150 85 5 15 161 6 143 5.72e-16 73.6
MsaG024619 AT2G27930.1 33.333 147 83 5 15 158 6 140 2.07e-15 72.4
MsaG024619 AT2G27930.4 33.333 147 83 5 15 158 6 140 2.07e-15 72.4
MsaG024619 AT5G46710.2 31.902 163 84 5 1 161 21 158 2.39e-15 71.6
MsaG024619 AT2G01818.2 39.175 97 44 2 65 161 4 85 3.63e-15 71.2
MsaG024619 AT5G46710.1 31.677 161 83 5 1 159 21 156 8.37e-15 71.6
MsaG024619 AT1G32700.1 31.447 159 86 5 2 158 1 138 1.23e-14 70.9
MsaG024619 AT5G46710.3 31.447 159 82 5 3 159 7 140 2.12e-14 70.1
MsaG024619 AT1G32700.2 35.294 119 55 4 41 158 2 99 7.83e-12 62.4

Find 44 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCTGATAAGTTGCTTTCTT+TGG 0.204312 4:-101474583 None:intergenic
ATGATTCCGGTTCCGAATTA+AGG 0.235495 4:-101474905 None:intergenic
CTTTGACTGCTCAAATATTC+AGG 0.261064 4:+101474076 MsaT024619.1:CDS
GTCCAAATCATCACTCAAAA+AGG 0.343718 4:+101474799 MsaT024619.1:CDS
AAGCTCATTCTATTCATAGA+AGG 0.351713 4:+101473994 MsaT024619.1:CDS
GATTTACAGATATTCCTATC+AGG 0.363443 4:+101474022 MsaT024619.1:CDS
CAATCTATATTCCTTTCCTT+TGG 0.367572 4:-101473852 None:intergenic
TGATTTGGACCTTGGCTTTG+AGG 0.368181 4:-101474786 None:intergenic
TTGAGTGATGATTTGGACCT+TGG 0.380468 4:-101474794 None:intergenic
TATGACTGATAACCTTAATT+CGG 0.380930 4:+101474893 MsaT024619.1:CDS
GCTTCAGAAATAGATGATTC+CGG 0.410307 4:-101474918 None:intergenic
CAAAGGAAAGGAATATAGAT+TGG 0.423544 4:+101473853 MsaT024619.1:CDS
CTTACATATCGAATAAAGAT+AGG 0.448689 4:+101474490 MsaT024619.1:CDS
TGATAACCTTAATTCGGAAC+CGG 0.455008 4:+101474899 MsaT024619.1:CDS
CATAGTAAAGTCAATAGCTT+CGG 0.480348 4:-101474874 None:intergenic
GACTTATAGATCGGAGGCCG+AGG 0.481284 4:-101474528 None:intergenic
ATGGCGGAAAACATCCTGAT+AGG 0.486299 4:-101474036 None:intergenic
GCTCTTATGAATAGTAGCTC+TGG 0.499499 4:+101473882 MsaT024619.1:CDS
TTATCAGCTAGATTTAAGTC+AGG 0.519647 4:+101474597 MsaT024619.1:CDS
CCGATCTATAAGTCTAAAGT+TGG 0.532512 4:+101474537 MsaT024619.1:CDS
TGAAGCTGAGCCATGTGGGC+GGG 0.537407 4:+101474935 MsaT024619.1:CDS
AGTGCTTCTGCAGCTCAGAA+TGG 0.561001 4:-101474055 None:intergenic
CCAACTTTAGACTTATAGAT+CGG 0.562220 4:-101474537 None:intergenic
GGCAGTACATGTGAAGAATG+TGG 0.570625 4:+101474621 MsaT024619.1:CDS
TAAGAAACGAAAACAAAGAC+AGG 0.585409 4:-101475008 None:intergenic
GCAGTACATGTGAAGAATGT+GGG 0.588854 4:+101474622 MsaT024619.1:CDS
CTGAAGCTGAGCCATGTGGG+CGG 0.592373 4:+101474934 MsaT024619.1:CDS
TCAGCTAGATTTAAGTCAGG+AGG 0.597898 4:+101474600 MsaT024619.1:CDS
AGGATCAATCACCAAAGGAA+AGG 0.601046 4:+101473841 MsaT024619.1:CDS
CTGGTGCTCAATTATATGCA+AGG 0.606595 4:+101474671 MsaT024619.1:CDS
GTTGACTCTTTCAACCAAAG+TGG 0.608258 4:+101474828 MsaT024619.1:CDS
GGATTGTGCATCTCAAACCT+CGG 0.608993 4:+101474511 MsaT024619.1:CDS
TACAAGATGAGCATAGTCGC+TGG 0.613510 4:+101474652 MsaT024619.1:CDS
ATAGGGGAGCCTCAAAGCCA+AGG 0.624380 4:+101474777 MsaT024619.1:CDS
TTTCTGAAGCTGAGCCATGT+GGG 0.625236 4:+101474931 MsaT024619.1:CDS
ACAACTTCAACCCGCCCACA+TGG 0.636500 4:-101474945 None:intergenic
AAAGACAGGCCTCTGAGGAG+TGG 0.638363 4:-101474994 None:intergenic
GCTTCTGCAGCTCAGAATGG+CGG 0.645960 4:-101474052 None:intergenic
TGATGATGCATCTACCACTT+TGG 0.646189 4:-101474842 None:intergenic
GGGGAAGGATCAATCACCAA+AGG 0.648113 4:+101473836 MsaT024619.1:CDS
ATTGTGCTGTTAGATTCTGT+AGG 0.654870 4:+101473961 MsaT024619.1:CDS
ATTTCTGAAGCTGAGCCATG+TGG 0.657682 4:+101474930 MsaT024619.1:CDS
ACTTTAGACTTATAGATCGG+AGG 0.659735 4:-101474534 None:intergenic
AAAACAAAGACAGGCCTCTG+AGG 0.661748 4:-101474999 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 101473357 101475031 101473357 ID=MsaG024619
Chr4 mRNA 101473357 101475031 101473357 ID=MsaT024619.1;Parent=MsaG024619
Chr4 exon 101473357 101473359 101473357 ID=MsaT024619.1.exon1;Parent=MsaT024619.1
Chr4 CDS 101473357 101473359 101473357 ID=cds.MsaT024619.1;Parent=MsaT024619.1
Chr4 exon 101473834 101474097 101473834 ID=MsaT024619.1.exon2;Parent=MsaT024619.1
Chr4 CDS 101473834 101474097 101473834 ID=cds.MsaT024619.1;Parent=MsaT024619.1
Chr4 exon 101474489 101474692 101474489 ID=MsaT024619.1.exon3;Parent=MsaT024619.1
Chr4 CDS 101474489 101474692 101474489 ID=cds.MsaT024619.1;Parent=MsaT024619.1
Chr4 exon 101474777 101475031 101474777 ID=MsaT024619.1.exon4;Parent=MsaT024619.1
Chr4 CDS 101474777 101475031 101474777 ID=cds.MsaT024619.1;Parent=MsaT024619.1
Gene Sequence

>MsaT024619.1

ATGGTGGGGAAGGATCAATCACCAAAGGAAAGGAATATAGATTGGATTAGAGCTCTTATGAATAGTAGCTCTGGCTATTGTGATGATCATCGTGATCTTCGATCTAATGAGAAGAATACTTTCTGTGTAGATTGTGCTGTTAGATTCTGTAGGCACTGTAAAGAAGCTCATTCTATTCATAGAAGGTTTCAGATTTACAGATATTCCTATCAGGATGTTTTCCGCCATTCTGAGCTGCAGAAGCACTTTGACTGCTCAAATATTCAGACTTACATATCGAATAAAGATAGGATTGTGCATCTCAAACCTCGGCCTCCGATCTATAAGTCTAAAGTTGGTGATCAATGCCCTGAATCAAAATCCAAAGAAAGCAACTTATCAGCTAGATTTAAGTCAGGAGGCAGTACATGTGAAGAATGTGGGAAACACTTACAAGATGAGCATAGTCGCTGGTGCTCAATTATATGCAAGATAGGGGAGCCTCAAAGCCAAGGTCCAAATCATCACTCAAAAAGGAGTTTAGTTGACTCTTTCAACCAAAGTGGTAGATGCATCATCACTCCGAAAACCGAAGCTATTGACTTTACTATGACTGATAACCTTAATTCGGAACCGGAATCATCTATTTCTGAAGCTGAGCCATGTGGGCGGGTTGAAGTTGTGAATTTCAGAAAGCGCCCGAGAAAAACCACTCCTCAGAGGCCTGTCTTTGTTTTCGTTTCTTAG
Protein sequence

>MsaT024619.1

MVGKDQSPKERNIDWIRALMNSSSGYCDDHRDLRSNEKNTFCVDCAVRFCRHCKEAHSIHRRFQIYRYSYQDVFRHSELQKHFDCSNIQTYISNKDRIVHLKPRPPIYKSKVGDQCPESKSKESNLSARFKSGGSTCEECGKHLQDEHSRWCSIICKIGEPQSQGPNHHSKRSLVDSFNQSGRCIITPKTEAIDFTMTDNLNSEPESSISEAEPCGRVEVVNFRKRPRKTTPQRPVFVFVS*