AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016904

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016904 MtrunA17_Chr3g0133791 99.537 216 1 0 1 216 16 231 5.36e-163 449
MsaG016904 MtrunA17_Chr2g0332121 43.519 216 114 5 3 212 22 235 1.84e-44 153
MsaG016904 MtrunA17_Chr8g0375001 48.000 125 65 0 92 216 21 145 1.80e-38 130
MsaG016904 MtrunA17_Chr4g0002411 49.565 115 58 0 93 207 54 168 1.22e-33 119
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016904 AT5G42700.1 55.450 211 87 2 1 210 17 221 2.16e-72 219
MsaG016904 AT3G19184.1 56.621 219 85 4 1 216 16 227 1.46e-71 219
MsaG016904 AT3G19184.2 56.621 219 85 4 1 216 16 227 1.66e-71 219
MsaG016904 AT5G42700.2 55.056 178 74 1 33 210 5 176 4.68e-62 192
MsaG016904 AT5G58280.3 37.019 208 121 4 11 212 49 252 3.72e-35 126
MsaG016904 AT5G58280.2 36.842 209 121 5 11 212 49 253 2.10e-33 122
MsaG016904 AT5G58280.1 35.945 217 123 5 1 211 13 219 8.46e-33 119

Find 53 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACCTTGAAATTCTATTTCT+AGG 0.204642 3:+103514872 None:intergenic
CTCATGTCACTGGTGGATTC+TGG 0.287144 3:-103514619 MsaT016904.1:CDS
TGAGTCTCCAACTACATATT+TGG 0.308296 3:-103512269 MsaT016904.1:CDS
ACAACGAGCTCTTTCTTGAT+AGG 0.331075 3:+103515058 None:intergenic
GTCATCACTTCGTCCCGTTT+TGG 0.333776 3:+103512313 None:intergenic
TTACAGACTTCTTTGTAAAC+AGG 0.370188 3:+103514998 None:intergenic
CTTGATAGGGGTGCGAGGTT+TGG 0.379420 3:+103515072 None:intergenic
TAGAGTGAATGAGGGTAAAC+AGG 0.402295 3:-103511674 MsaT016904.1:CDS
CTCGTTGTTGTTCGAAGATC+CGG 0.408143 3:-103515043 MsaT016904.1:CDS
TACCTAGAAATAGAATTTCA+AGG 0.423170 3:-103514874 MsaT016904.1:intron
ACATATTTGGCTCACAAAAC+AGG 0.425458 3:-103512256 MsaT016904.1:CDS
AGTTAAACGCACTGCATTCA+AGG 0.432696 3:-103512161 MsaT016904.1:intron
GGAAGAGAATCAAAAGAGAA+TGG 0.440339 3:-103515167 MsaT016904.1:CDS
ATTGCTCATAACCTTGTTGA+TGG 0.442206 3:-103512205 MsaT016904.1:CDS
AGCATTGACTTGACAAAAGT+TGG 0.443741 3:+103514647 None:intergenic
TGCGTCCGACGAAGCTAGAA+TGG 0.446516 3:-103514720 MsaT016904.1:CDS
CAACGAGCTCTTTCTTGATA+GGG 0.456259 3:+103515059 None:intergenic
ATCCACCAGTGACATGAGAT+TGG 0.459124 3:+103514624 None:intergenic
GCCTTCCAAATCATTTCTGC+AGG 0.472041 3:-103512345 MsaT016904.1:CDS
ATGACTTTAATTGATGAGGA+TGG 0.480177 3:-103512295 MsaT016904.1:CDS
GTGAAGTGATTGAGAGAGCT+TGG 0.490518 3:+103515129 None:intergenic
GTGGTGGATATGATAAGTAC+AGG 0.491955 3:-103514763 MsaT016904.1:CDS
TGCTTCCATTCTAGCTTCGT+CGG 0.496827 3:+103514715 None:intergenic
GTACATTATTAGAGTGAATG+AGG 0.501375 3:-103511683 MsaT016904.1:CDS
GTAAACAGGAGCAGGCATAT+TGG 0.504680 3:+103515012 None:intergenic
TGGATGATCAGAATCTAAAT+CGG 0.505469 3:+103514667 None:intergenic
GGTGCGAGGTTTGGAAGGTG+AGG 0.511953 3:+103515081 None:intergenic
CACAAAACAGGACTTAGTGC+TGG 0.519162 3:-103512244 MsaT016904.1:CDS
ATGCTCCAATCTCATGTCAC+TGG 0.520101 3:-103514629 MsaT016904.1:CDS
ACTTCTTTGTAAACAGGAGC+AGG 0.521856 3:+103515004 None:intergenic
CTCCAATCTCATGTCACTGG+TGG 0.526085 3:-103514626 MsaT016904.1:CDS
CGAAGCTAGAATGGAAGCAA+TGG 0.532880 3:-103514711 MsaT016904.1:CDS
TTGTGAGCCAAATATGTAGT+TGG 0.534295 3:+103512262 None:intergenic
TTGCTCATAACCTTGTTGAT+GGG 0.536210 3:-103512204 MsaT016904.1:CDS
GACTTTAATTGATGAGGATG+GGG 0.536969 3:-103512293 MsaT016904.1:CDS
AGGCATATTGGCGACACGAC+CGG 0.537317 3:+103515024 None:intergenic
TCCTGCAGAAATGATTTGGA+AGG 0.537387 3:+103512344 None:intergenic
GTGCGAGGTTTGGAAGGTGA+GGG 0.543398 3:+103515082 None:intergenic
TGACTTTAATTGATGAGGAT+GGG 0.546142 3:-103512294 MsaT016904.1:CDS
TGTCACTGGTGGATTCTGGC+TGG 0.546764 3:-103514615 MsaT016904.1:intron
TGCTCATAACCTTGTTGATG+GGG 0.557712 3:-103512203 MsaT016904.1:CDS
ATAGGGGTGCGAGGTTTGGA+AGG 0.572029 3:+103515076 None:intergenic
AACGAGCTCTTTCTTGATAG+GGG 0.578112 3:+103515060 None:intergenic
GGACTTAGTGCTGGATGGAG+AGG 0.579069 3:-103512235 MsaT016904.1:CDS
GTACAGGGATTATTCGAAGC+GGG 0.591336 3:-103514747 MsaT016904.1:CDS
TACATTATTAGAGTGAATGA+GGG 0.593532 3:-103511682 MsaT016904.1:CDS
AAACAGGACTTAGTGCTGGA+TGG 0.601864 3:-103512240 MsaT016904.1:CDS
AGTGATGACTTTAATTGATG+AGG 0.610611 3:-103512299 MsaT016904.1:CDS
TAGAATGGAAGCAATGGAGA+AGG 0.631866 3:-103514705 MsaT016904.1:CDS
TGGTGGATATGATAAGTACA+GGG 0.664434 3:-103514762 MsaT016904.1:CDS
TCTTTCTTGATAGGGGTGCG+AGG 0.664811 3:+103515067 None:intergenic
TTAAAGCATCCCCATCAACA+AGG 0.671282 3:+103512194 None:intergenic
AGTACAGGGATTATTCGAAG+CGG 0.715139 3:-103514748 MsaT016904.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 103511666 103515191 103511666 ID=MsaG016904
Chr3 mRNA 103511666 103515191 103511666 ID=MsaT016904.1;Parent=MsaG016904
Chr3 exon 103511666 103511707 103511666 ID=MsaT016904.1.exon5;Parent=MsaT016904.1
Chr3 CDS 103511666 103511707 103511666 ID=cds.MsaT016904.1;Parent=MsaT016904.1
Chr3 exon 103512162 103512368 103512162 ID=MsaT016904.1.exon4;Parent=MsaT016904.1
Chr3 CDS 103512162 103512368 103512162 ID=cds.MsaT016904.1;Parent=MsaT016904.1
Chr3 exon 103514616 103514787 103514616 ID=MsaT016904.1.exon3;Parent=MsaT016904.1
Chr3 CDS 103514616 103514787 103514616 ID=cds.MsaT016904.1;Parent=MsaT016904.1
Chr3 exon 103514875 103514918 103514875 ID=MsaT016904.1.exon2;Parent=MsaT016904.1
Chr3 CDS 103514875 103514918 103514875 ID=cds.MsaT016904.1;Parent=MsaT016904.1
Chr3 exon 103515006 103515191 103515006 ID=MsaT016904.1.exon1;Parent=MsaT016904.1
Chr3 CDS 103515006 103515191 103515006 ID=cds.MsaT016904.1;Parent=MsaT016904.1
Gene Sequence

>MsaT016904.1

ATGGAAGAGAATCAAAAGAGAATGGAAGCTCTCAATCTTACCAAGCTCTCTCAATCACTTCACAAATCATCTTCCCCCATTTCAAAACCCTCACCTTCCAAACCTCGCACCCCTATCAAGAAAGAGCTCGTTGTTGTTCGAAGATCCGGTCGTGTCGCCAATATGCCTGCTCCTGTTTACAAAGAAATTCTTATTGATTCCGTTAAAATACCTAGAAATAGAATTTCAAGATGTGGTGGATATGATAAGTACAGGGATTATTCGAAGCGGGTGTATGCGTCCGACGAAGCTAGAATGGAAGCAATGGAGAAGGCTGATAAGTTGCTCTCCGATTTAGATTCTGATCATCCAACTTTTGTCAAGTCAATGCTCCAATCTCATGTCACTGGTGGATTCTGGCTGGGCCTTCCAAATCATTTCTGCAGGAAAAACCTTCCAAAACGGGACGAAGTGATGACTTTAATTGATGAGGATGGGGATGAGTCTCCAACTACATATTTGGCTCACAAAACAGGACTTAGTGCTGGATGGAGAGGTTTCGCTATTGCTCATAACCTTGTTGATGGGGATGCTTTAATTTTTGAGTTAGTTAAACGCACTGCATTCAAGGTGTACATTATTAGAGTGAATGAGGGTAAACAGGACGATTGA
Protein sequence

>MsaT016904.1

MEENQKRMEALNLTKLSQSLHKSSSPISKPSPSKPRTPIKKELVVVRRSGRVANMPAPVYKEILIDSVKIPRNRISRCGGYDKYRDYSKRVYASDEARMEAMEKADKLLSDLDSDHPTFVKSMLQSHVTGGFWLGLPNHFCRKNLPKRDEVMTLIDEDGDESPTTYLAHKTGLSAGWRGFAIAHNLVDGDALIFELVKRTAFKVYIIRVNEGKQDD*