AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010641

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010641 MtrunA17_Chr2g0327621 95.618 251 7 2 1 247 1 251 4.59e-177 486
MsaG010641 MtrunA17_Chr4g0030421 65.909 132 43 2 118 247 1 132 9.32e-50 159
MsaG010641 MtrunA17_Chr8g0387241 48.101 158 62 7 55 202 132 279 8.72e-29 110
MsaG010641 MtrunA17_Chr5g0397361 43.860 114 43 2 87 200 130 222 4.51e-21 89.0
MsaG010641 MtrunA17_Chr1g0186171 46.000 100 47 2 102 196 264 361 3.42e-20 88.6
MsaG010641 MtrunA17_Chr2g0311591 47.059 102 35 2 142 243 161 243 4.84e-20 86.7
MsaG010641 MtrunA17_Chr1g0168401 43.878 98 51 1 103 196 267 364 3.40e-19 85.9
MsaG010641 MtrunA17_Chr4g0030411 51.807 83 36 1 33 115 29 107 1.61e-17 76.3
MsaG010641 MtrunA17_Chr1g0147111 32.867 143 79 4 62 199 150 280 2.37e-16 76.6
MsaG010641 MtrunA17_Chr3g0126721 57.692 52 22 0 147 198 226 277 4.43e-15 72.8
MsaG010641 MtrunA17_Chr1g0150471 42.188 64 37 0 140 203 244 307 2.74e-11 62.4
MsaG010641 MtrunA17_Chr4g0072871 44.262 61 31 1 137 197 287 344 4.44e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010641 AT5G59990.1 52.899 138 52 2 66 203 91 215 1.70e-32 119
MsaG010641 AT5G41380.1 42.135 178 74 6 72 243 151 305 4.88e-30 114
MsaG010641 AT1G63820.1 47.581 124 56 2 103 221 139 258 8.62e-28 108
MsaG010641 AT1G04500.3 35.632 174 81 5 34 196 171 324 4.69e-24 99.4
MsaG010641 AT1G04500.4 35.632 174 81 5 34 196 180 333 5.06e-24 99.4
MsaG010641 AT1G04500.1 35.632 174 81 5 34 196 180 333 5.06e-24 99.4
MsaG010641 AT2G33350.4 46.535 101 47 2 103 196 244 344 2.56e-23 97.8
MsaG010641 AT2G33350.2 46.535 101 47 2 103 196 255 355 2.79e-23 97.8
MsaG010641 AT2G33350.5 46.535 101 47 2 103 196 264 364 3.65e-23 97.4
MsaG010641 AT2G33350.1 46.078 102 47 3 103 196 255 356 4.56e-22 94.4
MsaG010641 AT3G12890.1 54.651 86 38 1 131 215 119 204 1.01e-21 90.9
MsaG010641 AT5G53420.2 34.884 129 68 4 68 195 70 183 2.69e-16 75.1
MsaG010641 AT5G53420.5 34.884 129 68 4 68 195 70 183 2.69e-16 75.1
MsaG010641 AT5G53420.4 34.884 129 68 4 68 195 70 183 2.69e-16 75.1
MsaG010641 AT5G53420.1 34.884 129 68 4 68 195 149 262 4.49e-16 75.9
MsaG010641 AT5G59990.2 45.872 109 46 2 66 174 91 186 3.65e-15 72.0
MsaG010641 AT4G27900.1 32.787 122 59 3 100 198 140 261 1.21e-14 72.0
MsaG010641 AT4G27900.2 32.787 122 59 3 100 198 140 261 1.21e-14 72.0
MsaG010641 AT2G24790.1 43.056 72 37 1 125 192 199 270 4.58e-11 62.0
MsaG010641 AT5G15850.1 45.283 53 29 0 147 199 282 334 5.14e-11 62.4
MsaG010641 AT5G24930.1 43.333 60 34 0 139 198 283 342 8.15e-11 61.6

Find 61 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCATCTCCTTCTCCATTTA+TGG 0.057189 2:-75902584 MsaT010641.1:CDS
CGGATAGGAGGCCACGAATT+AGG 0.208419 2:-75900727 MsaT010641.1:CDS
GAACTTTAACAAGAAAATTA+AGG 0.269338 2:-75901733 MsaT010641.1:intron
GGATAGGAGGCCACGAATTA+GGG 0.287165 2:-75900726 MsaT010641.1:CDS
AGGATGAAGAAGATGAAAAT+TGG 0.295769 2:-75900628 MsaT010641.1:CDS
AACAAGATTTGCAGCAACTA+TGG 0.316149 2:+75900589 None:intergenic
CATTCCCTTCAGTACAATAA+TGG 0.321357 2:-75902415 MsaT010641.1:CDS
TCAGGGATATGTTCCATAAA+TGG 0.329934 2:+75902571 None:intergenic
TTGCAGTACCGGCGATTTGC+AGG 0.339328 2:-75902320 MsaT010641.1:intron
TTTCAAGGAAGTTCTTCCTT+TGG 0.354729 2:-75900557 MsaT010641.1:CDS
GAGTCTAACTCATTGAAATC+AGG 0.374546 2:+75902553 None:intergenic
CTTGTTCATGATGAGTTTCA+AGG 0.385277 2:-75900572 MsaT010641.1:CDS
TCCTATCCGCCAATGTCTTT+CGG 0.395899 2:+75900741 None:intergenic
ATGTGGCTCCACTCGACTAT+AGG 0.414777 2:+75900668 None:intergenic
GAAAGTAGTATGATCATAGA+AGG 0.422699 2:-75901834 MsaT010641.1:CDS
ATTCCCTTCAGTACAATAAT+GGG 0.429789 2:-75902414 MsaT010641.1:CDS
TGCATCAAGATTGGAGTACT+TGG 0.434559 2:+75902454 None:intergenic
ATGCTCCTCTGCATCAAGAT+TGG 0.438379 2:+75902445 None:intergenic
CATTGGTGGTGGGGAGGAAG+AGG 0.451326 2:-75900648 MsaT010641.1:CDS
GAAGGAGATGGAAGAAGAAA+GGG 0.457613 2:+75902595 None:intergenic
AGAAGGAGATGGAAGAAGAA+AGG 0.460726 2:+75902594 None:intergenic
AGAAGAAAGGGTGTTGAGAA+TGG 0.469563 2:+75902607 None:intergenic
GAGTGGAGCCACATTGGTGG+TGG 0.477837 2:-75900659 MsaT010641.1:CDS
GTGAGGAAAGTTTGCAGTAC+CGG 0.479206 2:-75902331 MsaT010641.1:CDS
TTGAAAGATACAGAAGAAAG+AGG 0.482706 2:-75901764 MsaT010641.1:CDS
TGTTGAGAATGGAATATTGT+TGG 0.508851 2:+75902618 None:intergenic
AGTGGAGCCACATTGGTGGT+GGG 0.516680 2:-75900658 MsaT010641.1:CDS
GCTCGACTCAGACGATGCTC+CGG 0.525201 2:-75902353 MsaT010641.1:CDS
GCAAAACGTCCCCTAATTCG+TGG 0.530988 2:+75900716 None:intergenic
AGCAGTGGCTATAGTAGCTA+TGG 0.535103 2:-75902490 MsaT010641.1:CDS
AGTCTAACTCATTGAAATCA+GGG 0.536173 2:+75902554 None:intergenic
GAGTCCCATTATTGTACTGA+AGG 0.542232 2:+75902410 None:intergenic
GTCGAGTGGAGCCACATTGG+TGG 0.548825 2:-75900662 MsaT010641.1:CDS
GCCGAAAGACATTGGCGGAT+AGG 0.550818 2:-75900742 MsaT010641.1:CDS
ACAGAAGAAAGAGGAATCAG+AGG 0.553930 2:-75901755 MsaT010641.1:CDS
GTATGTTTGCCGAAAGACAT+TGG 0.562441 2:-75900750 MsaT010641.1:CDS
GAGCCACATTGGTGGTGGGG+AGG 0.566927 2:-75900654 MsaT010641.1:CDS
GAAAGACATTGGCGGATAGG+AGG 0.570627 2:-75900739 MsaT010641.1:CDS
TCCATAAATGGAGAAGGAGA+TGG 0.571408 2:+75902583 None:intergenic
GTGGAGCCACATTGGTGGTG+GGG 0.572282 2:-75900657 MsaT010641.1:CDS
TCAACTCCGAGTTATTCAGC+TGG 0.581544 2:+75902512 None:intergenic
TCAGCTGGGAGAGAGTGTCT+TGG 0.586821 2:+75902527 None:intergenic
GTACTCCAATCTTGATGCAG+AGG 0.591070 2:-75902450 MsaT010641.1:CDS
ATACTACTTTCACTAGACAA+TGG 0.602525 2:+75901846 None:intergenic
AAGATTGGAGTACTTGGAGA+AGG 0.605160 2:+75902460 None:intergenic
CAACTCCGAGTTATTCAGCT+GGG 0.608456 2:+75902513 None:intergenic
CTTCCTCCCCACCACCAATG+TGG 0.613096 2:+75900651 None:intergenic
ATATGTTCCATAAATGGAGA+AGG 0.614198 2:+75902577 None:intergenic
GTACTGCAAACTTTCCTCAC+CGG 0.616956 2:+75902334 None:intergenic
ATGGTGTACCTGCAAATCGC+CGG 0.623658 2:+75902312 None:intergenic
AGTCCCATTATTGTACTGAA+GGG 0.624751 2:+75902411 None:intergenic
ATTCTAATATAATAGACCAA+AGG 0.637951 2:+75900541 None:intergenic
GATAGGAGGCCACGAATTAG+GGG 0.642140 2:-75900725 MsaT010641.1:CDS
AGTGGCTATAGTAGCTATGG+TGG 0.656066 2:-75902487 MsaT010641.1:CDS
ATAGTCGAGTGGAGCCACAT+TGG 0.657395 2:-75900665 MsaT010641.1:CDS
TCTCTCCCAGCTGAATAACT+CGG 0.662391 2:-75902518 MsaT010641.1:CDS
ATAAGAAACCTATAGTCGAG+TGG 0.670337 2:-75900676 MsaT010641.1:CDS
ACTCAGACGATGCTCCGGTG+AGG 0.675434 2:-75902348 MsaT010641.1:CDS
AATAACTCGGAGTTGAGCAG+TGG 0.681830 2:-75902505 MsaT010641.1:CDS
TGTTTGCCGAAAGACATTGG+CGG 0.695673 2:-75900747 MsaT010641.1:CDS
GCAACATAATCATCATCACG+TGG 0.724747 2:-75901874 MsaT010641.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 75900544 75902659 75900544 ID=MsaG010641
Chr2 mRNA 75900544 75902659 75900544 ID=MsaT010641.1;Parent=MsaG010641
Chr2 exon 75900544 75900771 75900544 ID=MsaT010641.1.exon3;Parent=MsaT010641.1
Chr2 CDS 75900544 75900771 75900544 ID=cds.MsaT010641.1;Parent=MsaT010641.1
Chr2 exon 75901734 75901910 75901734 ID=MsaT010641.1.exon2;Parent=MsaT010641.1
Chr2 CDS 75901734 75901910 75901734 ID=cds.MsaT010641.1;Parent=MsaT010641.1
Chr2 exon 75902321 75902659 75902321 ID=MsaT010641.1.exon1;Parent=MsaT010641.1
Chr2 CDS 75902321 75902659 75902321 ID=cds.MsaT010641.1;Parent=MsaT010641.1
Gene Sequence

>MsaT010641.1

ATGTACGCACACTCTAATTCCAACAATATTCCATTCTCAACACCCTTTCTTCTTCCATCTCCTTCTCCATTTATGGAACATATCCCTGATTTCAATGAGTTAGACTCATTCCAAGACACTCTCTCCCAGCTGAATAACTCGGAGTTGAGCAGTGGCTATAGTAGCTATGGTGGATCACCTTCTCCAAGTACTCCAATCTTGATGCAGAGGAGCATTAGCAGTCATTCCCTTCAGTACAATAATGGGACTCACCATTATCCCCTCTCCGCTTTTTTTGCTGAATTGCTCGACTCAGACGATGCTCCGGTGAGGAAAGTTTGCAGTACCGGCGATTTGCAGAGGATTAACGGAATGCAACATAATCATCATCACGTGGATAGTCCATTGTCTAGTGAAAGTAGTATGATCATAGAAGGTATGAGCAGAGTTTGTCCATATAGCCCAGAAGAAAAGAAAGTGAGAATTGAAAGATACAGAAGAAAGAGGAATCAGAGGAACTTTAACAAGAAAATTAAGTATGTTTGCCGAAAGACATTGGCGGATAGGAGGCCACGAATTAGGGGACGTTTTGCGAGAAATGATGAAATTGATAAGAAACCTATAGTCGAGTGGAGCCACATTGGTGGTGGGGAGGAAGAGGATGAAGAAGATGAAAATTGGAATAATATCTTTAATTCCATAGTTGCTGCAAATCTTGTTCATGATGAGTTTCAAGGAAGTTCTTCCTTTGGTCTATTATATTAG
Protein sequence

>MsaT010641.1

MYAHSNSNNIPFSTPFLLPSPSPFMEHIPDFNELDSFQDTLSQLNNSELSSGYSSYGGSPSPSTPILMQRSISSHSLQYNNGTHHYPLSAFFAELLDSDDAPVRKVCSTGDLQRINGMQHNHHHVDSPLSSESSMIIEGMSRVCPYSPEEKKVRIERYRRKRNQRNFNKKIKYVCRKTLADRRPRIRGRFARNDEIDKKPIVEWSHIGGGEEEDEEDENWNNIFNSIVAANLVHDEFQGSSSFGLLY*