AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG012089

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG012089 MtrunA17_Chr3g0081161 97.701 261 6 0 1 261 18 278 1.04e-176 491
MsaG012089 MtrunA17_Chr8g0354151 68.015 272 70 6 1 256 18 288 2.68e-110 323
MsaG012089 MtrunA17_Chr5g0441241 50.178 281 102 8 1 256 1 268 3.19e-54 179
MsaG012089 MtrunA17_Chr5g0420401 84.270 89 14 0 154 242 51 139 6.46e-48 158
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG012089 AT3G12480.1 48.708 271 114 9 1 257 18 277 5.94e-65 207
MsaG012089 AT5G19490.1 60.000 120 40 4 1 119 18 130 2.30e-39 140

Find 83 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TACTGATGTTTCTGATAATC+AGG 0.299184 3:+18824335 MsaT012089.1:CDS
AGGGGAAGAGGAAGGGGTAG+AGG 0.303468 3:+18822896 MsaT012089.1:CDS
GCTGCAGCAGGCTCAGGCAA+TGG 0.331137 3:-18823193 None:intergenic
TTACAAATGCAATGCATTCA+TGG 0.332233 3:-18821681 None:intergenic
AGCAACTCACAAACTAAAAC+AGG 0.338422 3:-18821500 None:intergenic
TGGACTTCGAACCTTCTCTT+TGG 0.350657 3:-18822316 None:intergenic
AGAGGCTAAGCGGAGTAAAA+TGG 0.373594 3:+18822454 MsaT012089.1:CDS
CTGCAGCAGGCTCAGGCAAT+GGG 0.374383 3:-18823192 None:intergenic
TGAAGACAGTCCAATCATAT+TGG 0.385576 3:+18824404 MsaT012089.1:CDS
TTCTGATAATCAGGTTGAAA+AGG 0.397944 3:+18824344 MsaT012089.1:CDS
TGGCATTCAGATCAATGTTT+CGG 0.398272 3:-18823114 None:intergenic
ACAAGTATGGCAATAGATAA+TGG 0.399112 3:+18823028 MsaT012089.1:CDS
GTAGGAGACTTAGCAGGAAA+TGG 0.416468 3:+18824225 MsaT012089.1:intron
AGAGGAAGAGGCCGCGGTCG+AGG 0.425950 3:+18822914 MsaT012089.1:CDS
AGATTCAACCTGCTGATGTA+AGG 0.427032 3:-18822960 None:intergenic
AGACGTCCGCAATACAAGTA+TGG 0.427604 3:+18823015 MsaT012089.1:CDS
AGAGGAAGGGGTAGAGGAAG+AGG 0.428938 3:+18822902 MsaT012089.1:CDS
GGACTGTCTTCAAAGACAAC+AGG 0.429994 3:-18824393 None:intergenic
TGCATATCTGTTGCTGCAGC+AGG 0.433831 3:-18823205 None:intergenic
GTTTGATTACAGCTTGAGTT+GGG 0.437970 3:+18822854 MsaT012089.1:intron
TCAGGCAATGGGGCCTGAGC+AGG 0.439755 3:-18823181 None:intergenic
CCACACTGGCGGTACTGGTA+GGG 0.444180 3:+18822877 MsaT012089.1:CDS
AACTAGTAAGCTATTTCTCT+TGG 0.445646 3:-18824292 None:intergenic
TTGGGCCACACTGGCGGTAC+TGG 0.449291 3:+18822872 MsaT012089.1:CDS
GGCGGTACTGGTAGGGGAAG+AGG 0.449384 3:+18822884 MsaT012089.1:CDS
ATGCAACATGAAGAAATTCC+AGG 0.456390 3:+18823223 MsaT012089.1:CDS
TGTTTGATTACAGCTTGAGT+TGG 0.458715 3:+18822853 MsaT012089.1:intron
ACTGGTAGGGGAAGAGGAAG+GGG 0.463619 3:+18822890 MsaT012089.1:CDS
GTAGAGTTATTTCATAAGTC+CGG 0.468953 3:-18821643 None:intergenic
ATCATATTGGAGAAAAGTAA+TGG 0.470988 3:+18824417 MsaT012089.1:CDS
TCTGTTGCTGCAGCAGGCTC+AGG 0.476518 3:-18823199 None:intergenic
TCATATTGGAGAAAAGTAAT+GGG 0.479693 3:+18824418 MsaT012089.1:CDS
AGGGGTAGAGGAAGAGGCCG+CGG 0.479703 3:+18822908 MsaT012089.1:CDS
TCTGATAATCAGGTTGAAAA+GGG 0.493896 3:+18824345 MsaT012089.1:CDS
AAGAGAAACCTTACATCAGC+AGG 0.497349 3:+18822952 MsaT012089.1:CDS
GCCACACTGGCGGTACTGGT+AGG 0.501008 3:+18822876 MsaT012089.1:CDS
GGACATGGCCATTCTGAGGC+TGG 0.501930 3:+18822274 MsaT012089.1:CDS
CACACTGGCGGTACTGGTAG+GGG 0.503334 3:+18822878 MsaT012089.1:CDS
TTCAAAGACAACAGGGATGA+TGG 0.505223 3:-18824385 None:intergenic
GAGGAAGAGGCCGCGGTCGA+GGG 0.509630 3:+18822915 MsaT012089.1:CDS
TAGGAGACTTAGCAGGAAAT+GGG 0.512309 3:+18824226 MsaT012089.1:intron
CCATGTCCGTGGCTATAGTC+AGG 0.512389 3:-18822259 None:intergenic
CTGCAGCTTGCAGCAAACCT+TGG 0.517052 3:+18823286 MsaT012089.1:CDS
CATCAGCGCCAGCCTCAGAA+TGG 0.533148 3:-18822282 None:intergenic
CCATCTTGTCGACATCAGAA+AGG 0.538115 3:-18823252 None:intergenic
AAGCACAGATATACCTGCTC+AGG 0.539470 3:+18823168 MsaT012089.1:CDS
TGCAGCAGGCTCAGGCAATG+GGG 0.544331 3:-18823191 None:intergenic
GGGCAACAAGAGTATAATCA+TGG 0.547401 3:+18824246 MsaT012089.1:CDS
TACTGGTAGGGGAAGAGGAA+GGG 0.550796 3:+18822889 MsaT012089.1:CDS
ATGCAAGCAGACGAGGATGT+TGG 0.554702 3:+18821458 MsaT012089.1:CDS
CCTTTCTGATGTCGACAAGA+TGG 0.555115 3:+18823252 MsaT012089.1:CDS
GTAATGGGTCTGCAGTTGAA+AGG 0.561918 3:+18824433 MsaT012089.1:CDS
CAGCTTGAGTTGGGCCACAC+TGG 0.562286 3:+18822863 MsaT012089.1:intron
CATCTTGTCGACATCAGAAA+GGG 0.562835 3:-18823251 None:intergenic
AGGAAGAGGCCGCGGTCGAG+GGG 0.567783 3:+18822916 MsaT012089.1:CDS
ATAATCAGGTTGAAAAGGGT+GGG 0.570259 3:+18824349 MsaT012089.1:CDS
CTATTGCCATACTTGTATTG+CGG 0.574433 3:-18823021 None:intergenic
AGATAATGGTTCAGAACCAA+AGG 0.574615 3:+18823042 MsaT012089.1:CDS
TTTGAGAGACATTGTCAGCA+GGG 0.585914 3:+18822234 MsaT012089.1:CDS
TTGCAATGACAGCGATGAAG+AGG 0.586083 3:+18822436 MsaT012089.1:CDS
GATAATCAGGTTGAAAAGGG+TGG 0.588220 3:+18824348 MsaT012089.1:CDS
ACATCAGAAAGGGACCAACC+TGG 0.595072 3:-18823241 None:intergenic
AACTGTGTAGGAGACTTAGC+AGG 0.596754 3:+18824219 MsaT012089.1:intron
GTACTGGTAGGGGAAGAGGA+AGG 0.602926 3:+18822888 MsaT012089.1:CDS
AGAACCAAAGGAGTTATCAA+AGG 0.605334 3:+18823054 MsaT012089.1:CDS
ATCGTGCTGTTCCAAAGAGA+AGG 0.608205 3:+18822305 MsaT012089.1:CDS
CCACGGACATGGCCATTCTG+AGG 0.617948 3:+18822270 MsaT012089.1:CDS
CCTGACTATAGCCACGGACA+TGG 0.621947 3:+18822259 MsaT012089.1:CDS
GAAGATAATGCAAGCAGACG+AGG 0.624666 3:+18821451 None:intergenic
CTTGAGTTGGGCCACACTGG+CGG 0.626402 3:+18822866 MsaT012089.1:CDS
GTTTGCTGAATAGAAGTGCA+AGG 0.627861 3:-18822986 None:intergenic
AAATAGCTTACTAGTTCATG+TGG 0.628773 3:+18824299 MsaT012089.1:CDS
GGATGTTGGAAAGATAGCAC+TGG 0.629786 3:+18821472 MsaT012089.1:CDS
ATGTTTGCCAGGAAAGCTGC+TGG 0.632479 3:+18822407 MsaT012089.1:intron
AGGGTTCCTGACTATAGCCA+CGG 0.641831 3:+18822253 MsaT012089.1:CDS
AACATGAAGAAATTCCAGGT+TGG 0.648140 3:+18823227 MsaT012089.1:CDS
CCTCAGAATGGCCATGTCCG+TGG 0.649675 3:-18822270 None:intergenic
CAGTTCGAGCCCCTCGACCG+CGG 0.651823 3:-18822925 None:intergenic
CCCTACCAGTACCGCCAGTG+TGG 0.652289 3:-18822877 None:intergenic
GACTGTCTTCAAAGACAACA+GGG 0.675424 3:-18824392 None:intergenic
GCAACTCACAAACTAAAACA+GGG 0.681922 3:-18821499 None:intergenic
ACAGCGATGAAGAGGCTAAG+CGG 0.705575 3:+18822444 MsaT012089.1:CDS
TATGAAATAACTCTACAGAG+AGG 0.731792 3:+18821650 MsaT012089.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 18821458 18824572 18821458 ID=MsaG012089
Chr3 mRNA 18821458 18824572 18821458 ID=MsaT012089.1;Parent=MsaG012089
Chr3 exon 18821458 18821512 18821458 ID=MsaT012089.1.exon1;Parent=MsaT012089.1
Chr3 CDS 18821458 18821512 18821458 ID=cds.MsaT012089.1;Parent=MsaT012089.1
Chr3 exon 18821606 18821699 18821606 ID=MsaT012089.1.exon2;Parent=MsaT012089.1
Chr3 CDS 18821606 18821699 18821606 ID=cds.MsaT012089.1;Parent=MsaT012089.1
Chr3 exon 18822198 18822326 18822198 ID=MsaT012089.1.exon3;Parent=MsaT012089.1
Chr3 CDS 18822198 18822326 18822198 ID=cds.MsaT012089.1;Parent=MsaT012089.1
Chr3 exon 18822418 18822475 18822418 ID=MsaT012089.1.exon4;Parent=MsaT012089.1
Chr3 CDS 18822418 18822475 18822418 ID=cds.MsaT012089.1;Parent=MsaT012089.1
Chr3 exon 18822866 18823307 18822866 ID=MsaT012089.1.exon5;Parent=MsaT012089.1
Chr3 CDS 18822866 18823307 18822866 ID=cds.MsaT012089.1;Parent=MsaT012089.1
Chr3 exon 18824229 18824454 18824229 ID=MsaT012089.1.exon6;Parent=MsaT012089.1
Chr3 CDS 18824229 18824454 18824229 ID=cds.MsaT012089.1;Parent=MsaT012089.1
Chr3 exon 18824560 18824572 18824560 ID=MsaT012089.1.exon7;Parent=MsaT012089.1
Chr3 CDS 18824560 18824572 18824560 ID=cds.MsaT012089.1;Parent=MsaT012089.1
Gene Sequence

>MsaT012089.1

ATGCAAGCAGACGAGGATGTTGGAAAGATAGCACTGGCAGTCCCTGTTTTAGTTTCGAAAGCTCTGGAATTATTTTTGCAAGATCTTTGTGACCGGACTTATGAAATAACTCTACAGAGAGGAGCAAAGACCATGAATGCATTGCATTTGAAACATTGTGTACAAAGCTACAACGTCTTTGACTTTTTGAGAGACATTGTCAGCAGGGTTCCTGACTATAGCCACGGACATGGCCATTCTGAGGCTGGCGCTGATGATCGTGCTGTTCCAAAGAGAAGGAAAGCTGCTGGTGATGATTGCAATGACAGCGATGAAGAGGCTAAGCGGAGTAAAATGCTTGAGTTGGGCCACACTGGCGGTACTGGTAGGGGAAGAGGAAGGGGTAGAGGAAGAGGCCGCGGTCGAGGGGCTCGAACTGCAGAAAGAGAAACCTTACATCAGCAGGTTGAATCTGAACCTTGCACTTCTATTCAGCAAACTAGCAAAGACGTCCGCAATACAAGTATGGCAATAGATAATGGTTCAGAACCAAAGGAGTTATCAAAGGAAAATATTGCAGCTCACGAAGAAAGTACTCAATCTCTCCGAAACATTGATCTGAATGCCAACTTGCATGAAAACGAAGACAAAAACAATACAAGCACAGATATACCTGCTCAGGCCCCATTGCCTGAGCCTGCTGCAGCAACAGATATGCAACATGAAGAAATTCCAGGTTGGTCCCTTTCTGATGTCGACAAGATGGCAATTGACACGCTGCAGCTTGCAGCAAACCTTGGAGACTTAGCAGGAAATGGGCAACAAGAGTATAATCATGGTCATGCTAAGAGTTCTATGACTGCCAAGAGAAATAGCTTACTAGTTCATGTGGCAGTGAATCAAGTTACTGATGTTTCTGATAATCAGGTTGAAAAGGGTGGGAATGTTGTTTCAACCATCATCCCTGTTGTCTTTGAAGACAGTCCAATCATATTGGAGAAAAGTAATGGGTCTGCAGTTGAAAGGAAAGTCAGCTAA
Protein sequence

>MsaT012089.1

MQADEDVGKIALAVPVLVSKALELFLQDLCDRTYEITLQRGAKTMNALHLKHCVQSYNVFDFLRDIVSRVPDYSHGHGHSEAGADDRAVPKRRKAAGDDCNDSDEEAKRSKMLELGHTGGTGRGRGRGRGRGRGRGARTAERETLHQQVESEPCTSIQQTSKDVRNTSMAIDNGSEPKELSKENIAAHEESTQSLRNIDLNANLHENEDKNNTSTDIPAQAPLPEPAAATDMQHEEIPGWSLSDVDKMAIDTLQLAANLGDLAGNGQQEYNHGHAKSSMTAKRNSLLVHVAVNQVTDVSDNQVEKGGNVVSTIIPVVFEDSPIILEKSNGSAVERKVS*