AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG002075

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002075 MtrunA17_Chr1g0170581 91.393 244 21 0 1 244 1 244 1.05e-164 455
MsaG002075 MtrunA17_Chr1g0170571 88.353 249 21 1 1 249 1 241 5.69e-154 427
MsaG002075 MtrunA17_Chr1g0170591 82.731 249 35 1 1 249 1 241 1.28e-151 422
MsaG002075 MtrunA17_Chr7g0256671 59.363 251 83 7 1 241 1 242 3.25e-68 211
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002075 AT3G56970.1 41.406 256 125 5 1 240 1 247 6.27e-57 182
MsaG002075 AT3G56980.1 41.065 263 125 6 1 242 1 254 4.78e-47 157
MsaG002075 AT2G41240.1 38.492 252 131 5 1 242 1 238 6.83e-46 154
MsaG002075 AT2G41240.2 38.095 252 131 6 1 242 1 237 1.85e-43 147
MsaG002075 AT5G04150.1 44.809 183 93 4 60 237 78 257 7.28e-37 131
MsaG002075 AT5G04150.2 46.012 163 83 2 60 219 78 238 1.60e-36 129

Find 52 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCACCTGTTTCTGTAATTC+TGG 0.155913 1:-31806627 None:intergenic
TGATGCTGGTTATGGGTTAT+TGG 0.230970 1:-31806249 None:intergenic
TGTAACTATGCTTCTTCCTT+TGG 0.251062 1:-31806728 None:intergenic
CTTCTATAATTTGCATTTCC+AGG 0.251812 1:+31806920 MsaT002075.1:CDS
GAGCTTCTCATTTAGAATTT+CGG 0.255939 1:-31809833 None:intergenic
TTCTGAGATCTTGATATGTT+TGG 0.287728 1:+31806839 MsaT002075.1:CDS
GTAACTATGCTTCTTCCTTT+GGG 0.307422 1:-31806727 None:intergenic
TGAGAAGCTCTTATCAATAA+TGG 0.319674 1:+31809846 MsaT002075.1:CDS
CTTTCTTCATCTCAGACCTT+TGG 0.339976 1:+31806888 MsaT002075.1:CDS
ATGAACTCTGATGCTGGTTA+TGG 0.359283 1:-31806257 None:intergenic
AGGACTCTTGAAATTGTTGC+TGG 0.367920 1:-31806594 None:intergenic
GATCGCGTTCACTAGCATTA+TGG 0.375108 1:-31806398 None:intergenic
TAGAATAACCTCTTCTACTT+GGG 0.395863 1:-31806694 None:intergenic
TCTTCATCTCAGACCTTTGG+AGG 0.399010 1:+31806891 MsaT002075.1:CDS
GTAACCATTTGATCTGAAAC+AGG 0.410609 1:-31806468 None:intergenic
CATACCAGAATTACAGAAAC+AGG 0.417584 1:+31806623 MsaT002075.1:CDS
TCTTCCTGTTTCAGATCAAA+TGG 0.432892 1:+31806464 MsaT002075.1:CDS
GCTCTTATCAATAATGGATA+AGG 0.434619 1:+31809852 MsaT002075.1:CDS
ATCTCAGACCTTTGGAGGGA+GGG 0.436300 1:+31806896 MsaT002075.1:CDS
TTAGAATAACCTCTTCTACT+TGG 0.448901 1:-31806695 None:intergenic
ATGGGTTATTGGCTCCTCAA+AGG 0.463079 1:-31806238 None:intergenic
AACAATTGGATGGCCCTTTG+AGG 0.464251 1:+31806224 MsaT002075.1:CDS
TGAACTCTGATGCTGGTTAT+GGG 0.477659 1:-31806256 None:intergenic
TGGGTTATTGGCTCCTCAAA+GGG 0.488564 1:-31806237 None:intergenic
CATATCAAGATCTCAGAAAG+TGG 0.493296 1:-31806834 None:intergenic
CATGCCAAGGTCACTGCTTG+TGG 0.499479 1:-31806361 None:intergenic
CATCTCAGACCTTTGGAGGG+AGG 0.501008 1:+31806895 MsaT002075.1:CDS
AAGAAAGATTAAGAAGCAAA+AGG 0.505181 1:-31806872 None:intergenic
CTTCATCTCAGACCTTTGGA+GGG 0.506754 1:+31806892 MsaT002075.1:CDS
ACAAATTATTGATCTTCTTG+CGG 0.529574 1:-31806422 None:intergenic
TTGATATGTTTGGAAAATGA+TGG 0.537710 1:+31806849 MsaT002075.1:CDS
AAGAAGCATAGTTACAACTC+TGG 0.551749 1:+31806735 MsaT002075.1:CDS
ACTTTCTCCCCAAGTAGAAG+AGG 0.556979 1:+31806686 MsaT002075.1:CDS
CATCCAATTGTTGAAAACAT+AGG 0.558093 1:-31806213 None:intergenic
TGTAGAATGAACTCTGATGC+TGG 0.560692 1:-31806263 None:intergenic
TTATCAATAATGGATAAGGA+AGG 0.562276 1:+31809856 MsaT002075.1:CDS
TCTCAGAAAGTGGAATCTTG+TGG 0.569417 1:-31806824 None:intergenic
CAATCCACAAGCAGTGACCT+TGG 0.569748 1:+31806357 MsaT002075.1:CDS
AGTGTAACATGATATCTGAA+TGG 0.570967 1:-31806799 None:intergenic
CCAATTGTTGAAAACATAGG+AGG 0.582074 1:-31806210 None:intergenic
AGAATAACCTCTTCTACTTG+GGG 0.586846 1:-31806693 None:intergenic
ACTAGTTAAGAGAAAAGAAG+AGG 0.589176 1:+31806653 MsaT002075.1:CDS
GTCACTGCTTGTGGATTGTG+AGG 0.591686 1:-31806352 None:intergenic
ATAGAAGACCCTCCCTCCAA+AGG 0.594272 1:-31806904 None:intergenic
TATCAATAATGGATAAGGAA+GGG 0.600012 1:+31809857 MsaT002075.1:CDS
CACAAGCAGTGACCTTGGCA+TGG 0.602895 1:+31806362 MsaT002075.1:CDS
TTCTAAGCAAAGAATCCCAA+AGG 0.620328 1:+31806712 MsaT002075.1:CDS
AGTTCATTCTACAAAGACAC+TGG 0.649793 1:+31806273 MsaT002075.1:CDS
CAAGCTTCTTAACCATGCCA+AGG 0.655760 1:-31806374 None:intergenic
ACCAGAATTACAGAAACAGG+TGG 0.656125 1:+31806626 MsaT002075.1:CDS
GAATTACAGAAACAGGTGGA+AGG 0.659206 1:+31806630 MsaT002075.1:CDS
TCACTGCTTGTGGATTGTGA+GGG 0.698792 1:-31806351 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 31806195 31809903 31806195 ID=MsaG002075
Chr1 mRNA 31806195 31809903 31806195 ID=MsaT002075.1;Parent=MsaG002075
Chr1 exon 31806195 31806485 31806195 ID=MsaT002075.1.exon1;Parent=MsaT002075.1
Chr1 CDS 31806195 31806485 31806195 ID=cds.MsaT002075.1;Parent=MsaT002075.1
Chr1 exon 31806579 31806941 31806579 ID=MsaT002075.1.exon2;Parent=MsaT002075.1
Chr1 CDS 31806579 31806941 31806579 ID=cds.MsaT002075.1;Parent=MsaT002075.1
Chr1 exon 31809808 31809903 31809808 ID=MsaT002075.1.exon3;Parent=MsaT002075.1
Chr1 CDS 31809808 31809903 31809808 ID=cds.MsaT002075.1;Parent=MsaT002075.1
Gene Sequence

>MsaT002075.1

ATGTTAGCGATATCTCCTCCTATGTTTTCAACAATTGGATGGCCCTTTGAGGAGCCAATAACCCATAACCAGCATCAGAGTTCATTCTACAAAGACACTGGTGATCAATTATTTAATTTTCATGATCAAGTTGAGGCAGAAATTAATTCAAAAGATCCCTCACAATCCACAAGCAGTGACCTTGGCATGGTTAAGAAGCTTGTCCATAATGCTAGTGAACGCGATCGCCGCAAGAAGATCAATAATTTGTATTCATCACTTCGTTCACTTCTTCCTGTTTCAGATCAAATGAAGAAATTGAGCATTCCAGCAACAATTTCAAGAGTCCTAAAATACATACCAGAATTACAGAAACAGGTGGAAGGACTAGTTAAGAGAAAAGAAGAGGTCTTATTGAGACTTTCTCCCCAAGTAGAAGAGGTTATTCTAAGCAAAGAATCCCAAAGGAAGAAGCATAGTTACAACTCTGGTTTTGTAGTTTCAACAAGTAGGCTCAATGATAGTGAAATTACCATTCAGATATCATGTTACACTGTCCACAAGATTCCACTTTCTGAGATCTTGATATGTTTGGAAAATGATGGCCTTTTGCTTCTTAATCTTTCTTCATCTCAGACCTTTGGAGGGAGGGTCTTCTATAATTTGCATTTCCAGGTAGATAAAACACAAAGATTAGAATCCGAAATTCTAAATGAGAAGCTCTTATCAATAATGGATAAGGAAGGGATATTTGAAGTCAACAATGATTAG
Protein sequence

>MsaT002075.1

MLAISPPMFSTIGWPFEEPITHNQHQSSFYKDTGDQLFNFHDQVEAEINSKDPSQSTSSDLGMVKKLVHNASERDRRKKINNLYSSLRSLLPVSDQMKKLSIPATISRVLKYIPELQKQVEGLVKRKEEVLLRLSPQVEEVILSKESQRKKHSYNSGFVVSTSRLNDSEITIQISCYTVHKIPLSEILICLENDGLLLLNLSSSQTFGGRVFYNLHFQVDKTQRLESEILNEKLLSIMDKEGIFEVNND*