AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001941

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001941 MtrunA17_Chr1g0169561 88.217 314 37 0 1 314 1 314 0.0 544
MsaG001941 MtrunA17_Chr1g0169521 87.302 315 40 0 1 315 1 315 0.0 538
MsaG001941 MtrunA17_Chr1g0174001 74.742 194 36 2 135 315 1 194 4.49e-96 282
MsaG001941 MtrunA17_Chr7g0214511 56.596 235 76 8 94 316 67 287 1.18e-63 202
MsaG001941 MtrunA17_Chr1g0172861 37.690 329 117 13 5 310 12 275 5.01e-39 139
MsaG001941 MtrunA17_Chr1g0174871 35.811 296 135 11 37 316 29 285 1.19e-37 135
MsaG001941 MtrunA17_Chr1g0172961 35.231 281 118 11 5 268 12 245 2.09e-31 118
MsaG001941 MtrunA17_Chr1g0174861 37.611 226 94 7 63 281 39 224 9.61e-30 113
MsaG001941 MtrunA17_Chr4g0037041 40.000 175 57 5 13 184 10 139 2.76e-25 100
MsaG001941 MtrunA17_Chr1g0193731 36.140 285 112 13 71 315 16 270 1.34e-24 100
MsaG001941 MtrunA17_Chr1g0180581 33.929 224 87 9 94 316 57 220 6.26e-20 86.7
MsaG001941 MtrunA17_Chr1g0180571 53.333 75 19 2 236 310 13 71 1.57e-12 64.3
MsaG001941 MtrunA17_Chr5g0448221 30.622 209 83 9 14 210 46 204 2.35e-12 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 58 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTATCATCCACTGTATTTC+TGG 0.185344 1:-28913699 None:intergenic
ACATTGTTATATATGTCTTA+TGG 0.192869 1:+28913641 MsaT001941.1:CDS
AGCGAAGATGAAACTGAATT+AGG 0.276698 1:+28913887 MsaT001941.1:CDS
CATTGTTATATATGTCTTAT+GGG 0.313934 1:+28913642 MsaT001941.1:CDS
AGGTTGAAGAAGAGTGTTAG+AGG 0.343983 1:-28913222 None:intergenic
GTTATGAGGGATCAACTAAA+AGG 0.407447 1:+28913666 MsaT001941.1:CDS
GCGAAGATGAAACTGAATTA+GGG 0.408376 1:+28913888 MsaT001941.1:CDS
GACTTTGTTCCAAGGAAGAT+GGG 0.419216 1:-28913490 None:intergenic
CATAATCATGATCATGATGA+TGG 0.425720 1:+28913338 MsaT001941.1:CDS
AACAGAAAAGAAACACTAAC+TGG 0.431171 1:-28913972 None:intergenic
AGTGTTAGAGGAGCGGTGAA+TGG 0.433506 1:-28913210 None:intergenic
TGACTTTGTTCCAAGGAAGA+TGG 0.439982 1:-28913491 None:intergenic
ACCGACTGCCCCATCTTCCT+TGG 0.446430 1:+28913481 MsaT001941.1:CDS
TGTTACAAACATCACATGTA+TGG 0.446958 1:-28913373 None:intergenic
ATCAGCAATACACCTTCTCC+TGG 0.452896 1:-28913588 None:intergenic
AACTGTAGATTCTTGAACCT+GGG 0.459451 1:-28913133 None:intergenic
TCATCCAACAGTGCTTTGAA+TGG 0.470969 1:+28913404 MsaT001941.1:CDS
TATGAGATGGCATACTCAAA+AGG 0.486406 1:+28913430 MsaT001941.1:CDS
CAACTGTAGATTCTTGAACC+TGG 0.492609 1:-28913134 None:intergenic
TGTCACAAAACATTCACCTC+TGG 0.499496 1:+28913164 MsaT001941.1:CDS
TACTCAAAAGGGTTCGAAGA+AGG 0.504806 1:+28913442 MsaT001941.1:CDS
AATTAGGGTCAAGAGTTGTC+AGG 0.507473 1:+28913903 MsaT001941.1:CDS
CGTTATTCACAGCATGATCA+TGG 0.509884 1:-28913262 None:intergenic
TATCATCTTCAAGAGTCTGT+TGG 0.516591 1:-28913103 None:intergenic
CATGATCATGCTGTGAATAA+CGG 0.518528 1:+28913263 MsaT001941.1:CDS
AACAAGGTGTGCTGCTAACA+AGG 0.519240 1:+28913735 MsaT001941.1:CDS
ATGAGATGGCATACTCAAAA+GGG 0.526510 1:+28913431 MsaT001941.1:CDS
GGATCTAGCTGTGATATTGA+AGG 0.530396 1:+28913851 MsaT001941.1:CDS
TTGGTCTTATATGATATTGG+CGG 0.539661 1:-28913554 None:intergenic
CTCAAGTTGACTTTGTTCCA+AGG 0.540256 1:-28913498 None:intergenic
ATTGTTATATATGTCTTATG+GGG 0.542437 1:+28913643 MsaT001941.1:CDS
TCAAACATCGCAAGATTGCA+AGG 0.542865 1:+28913820 MsaT001941.1:CDS
TCAAACGAATGGTGAGAAGA+AGG 0.549246 1:-28913050 None:intergenic
ACTCAAAAGGGTTCGAAGAA+GGG 0.553906 1:+28913443 MsaT001941.1:CDS
ACCTCTGGTAAATCACTTGG+TGG 0.556710 1:+28913179 MsaT001941.1:CDS
GAAGAAGAGTGTTAGAGGAG+CGG 0.560783 1:-28913217 None:intergenic
CAAGATTGCAAGGAACCTGC+AGG 0.562783 1:+28913830 MsaT001941.1:CDS
ATGTCCATTCAAAGCACTGT+TGG 0.568123 1:-28913408 None:intergenic
TTCACCTCTGGTAAATCACT+TGG 0.575760 1:+28913176 MsaT001941.1:CDS
GGATGATAATGAGAAGATGA+AGG 0.579672 1:+28913712 MsaT001941.1:CDS
ATATCACAGCTAGATCCTGC+AGG 0.585006 1:-28913845 None:intergenic
AAGATGGGGCAGTCGGTGAG+TGG 0.586640 1:-28913475 None:intergenic
ATAATCATGATCATGATGAT+GGG 0.591510 1:+28913339 MsaT001941.1:CDS
TTGTTATATATGTCTTATGG+GGG 0.593530 1:+28913644 MsaT001941.1:CDS
TACTTTGACAAGTCAGTAGA+GGG 0.596234 1:-28913527 None:intergenic
TCATCTTCGAAATCATCACT+TGG 0.604104 1:-28913947 None:intergenic
AATGAGAAGATGAAGGAACA+AGG 0.607433 1:+28913719 MsaT001941.1:CDS
TCCAAGGAAGATGGGGCAGT+CGG 0.610571 1:-28913482 None:intergenic
TACATGTGATGTTTGTAACA+AGG 0.614171 1:+28913376 MsaT001941.1:CDS
TCTGTTGGTGATAATGATCA+TGG 0.616583 1:-28913088 None:intergenic
TCAGCAATACACCTTCTCCT+GGG 0.624121 1:-28913587 None:intergenic
GTACTTTGACAAGTCAGTAG+AGG 0.626015 1:-28913528 None:intergenic
ACTTTGTTCCAAGGAAGATG+GGG 0.644016 1:-28913489 None:intergenic
GAAGATTTCCAGAAATACAG+TGG 0.644126 1:+28913691 MsaT001941.1:CDS
GTGTATTGCTGATAATGATG+AGG 0.680032 1:+28913598 MsaT001941.1:CDS
CTTTGAATGGACATATGAGA+TGG 0.684064 1:+28913417 MsaT001941.1:CDS
ACCACCAAGTGATTTACCAG+AGG 0.717389 1:-28913180 None:intergenic
GATCATGCTGTGAATAACGG+CGG 0.741138 1:+28913266 MsaT001941.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 28913029 28913979 28913029 ID=MsaG001941
Chr1 mRNA 28913029 28913979 28913029 ID=MsaT001941.1;Parent=MsaG001941
Chr1 exon 28913029 28913979 28913029 ID=MsaT001941.1.exon1;Parent=MsaT001941.1
Chr1 CDS 28913029 28913979 28913029 ID=cds.MsaT001941.1;Parent=MsaT001941.1
Gene Sequence

>MsaT001941.1

ATGAACAAACACTATTCTTCACCTTCTTCTCACCATTCGTTTGATAAACCCAAAAACAGCCATGATCATTATCACCAACAGACTCTTGAAGATGATAAGAAAAACCCAGGTTCAAGAATCTACAGTTGTGAGTTTTGTCACAAAACATTCACCTCTGGTAAATCACTTGGTGGTCACAAAACCATTCACCGCTCCTCTAACACTCTTCTTCAACCTAAAACAAACAAACAGATCCATGATCATGCTGTGAATAACGGCGGCACCTTGAAGAAGACTACAAAAATTACTTGGGTTTTTTCTTCTTCTCTTCATAATCATGATCATGATGATGGGAAACTGAAGAACCATACATGTGATGTTTGTAACAAGGTTTTTTCATCCAACAGTGCTTTGAATGGACATATGAGATGGCATACTCAAAAGGGTTCGAAGAAGGGTGTGATTATCCACTCACCGACTGCCCCATCTTCCTTGGAACAAAGTCAACTTGAGTTTCTACCCTCTACTGACTTGTCAAAGTACTTGCCGCCAATATCATATAAGACCAAAAAACGGAGTCCCAGGAGAAGGTGTATTGCTGATAATGATGAGGAAATTACTATTGCTGCAAAAACATTGTTATATATGTCTTATGGGGGTTATGAGGGATCAACTAAAAGGCAGAAGATTTCCAGAAATACAGTGGATGATAATGAGAAGATGAAGGAACAAGGTGTGCTGCTAACAAGGTGTGTTTGCCACAACGAAAAAAACTTGGTGCTGAGGTTGAAGATTCCTAAAGACAAGATTTTTCAAACATCGCAAGATTGCAAGGAACCTGCAGGATCTAGCTGTGATATTGAAGGCAAGAAGAATATTAGCGAAGATGAAACTGAATTAGGGTCAAGAGTTGTCAGGAATTTTAATTTGAATGAGCTTCCAAGTGATGATTTCGAAGATGAAACCAGTTAG
Protein sequence

>MsaT001941.1

MNKHYSSPSSHHSFDKPKNSHDHYHQQTLEDDKKNPGSRIYSCEFCHKTFTSGKSLGGHKTIHRSSNTLLQPKTNKQIHDHAVNNGGTLKKTTKITWVFSSSLHNHDHDDGKLKNHTCDVCNKVFSSNSALNGHMRWHTQKGSKKGVIIHSPTAPSSLEQSQLEFLPSTDLSKYLPPISYKTKKRSPRRRCIADNDEEITIAAKTLLYMSYGGYEGSTKRQKISRNTVDDNEKMKEQGVLLTRCVCHNEKNLVLRLKIPKDKIFQTSQDCKEPAGSSCDIEGKKNISEDETELGSRVVRNFNLNELPSDDFEDETS*