AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010064

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010064 MtrunA17_Chr2g0320211 98.571 140 2 0 1 140 1 140 9.42e-98 277
MsaG010064 MtrunA17_Chr4g0041301 92.754 138 10 0 3 140 5 142 2.10e-84 243
MsaG010064 MtrunA17_Chr6g0485281 50.000 114 57 0 3 116 10 123 3.53e-33 113
MsaG010064 MtrunA17_Chr6g0457491 90.909 55 5 0 86 140 1 55 3.81e-29 100
MsaG010064 MtrunA17_Chr7g0275831 95.000 40 2 0 90 129 1 40 1.54e-20 79.3
MsaG010064 MtrunA17_Chr4g0057871 55.844 77 21 1 30 93 9 85 1.94e-18 75.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010064 AT3G58680.1 81.159 138 26 0 3 140 5 142 7.55e-82 237
MsaG010064 AT2G42680.1 82.609 138 24 0 3 140 5 142 2.07e-81 236
MsaG010064 AT3G24500.1 51.799 139 65 1 3 139 7 145 2.42e-44 142
MsaG010064 AT3G24500.2 44.944 89 47 1 3 89 7 95 3.52e-17 72.0

Find 45 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGCCAATGATCTGCTGATT+TGG 0.246748 2:+68410866 None:intergenic
TTTCTTCATGGTTTCGATAT+CGG 0.259177 2:+68414142 None:intergenic
ATCCTTCCTGGCAGCGGCGG+TGG 0.288753 2:+68414199 None:intergenic
GACAGCTTTGTCATCCTTCC+TGG 0.316434 2:+68414187 None:intergenic
CAGGACCCGTTTCACAAGAT+TGG 0.366530 2:-68414250 MsaT010064.1:CDS
GACTTGTTTGCGCAGATGAT+CGG 0.384244 2:-68411111 MsaT010064.1:intron
GTGATCCAGGAGTACGAGTC+AGG 0.396136 2:-68410899 MsaT010064.1:CDS
TCCTTCCTGGCAGCGGCGGT+GGG 0.408929 2:+68414200 None:intergenic
AGAAGCTCAACGTTTCTTCA+TGG 0.430879 2:+68414130 None:intergenic
TCATTTCTTCCCACGCAGTT+TGG 0.431740 2:+68410823 None:intergenic
GCACTTCATTGAACACTAAG+AGG 0.438741 2:-68412649 MsaT010064.1:CDS
AGGACCCGTTTCACAAGATT+GGG 0.440017 2:-68414249 MsaT010064.1:CDS
GGCAAGTTGGAGAGAGCTCT+TGG 0.442294 2:-68410848 MsaT010064.1:CDS
AAGCTCCCACCGCCGCTGCC+AGG 0.442991 2:-68414205 MsaT010064.1:CDS
GTCAACGCCGCTCGTCGTGC+CGG 0.452741 2:-68414167 MsaT010064.1:CDS
AGTAAGCTTCTTGTCCATCC+TGG 0.456590 2:+68411054 None:intergenic
ACTTGTTTGCGCAGATGATC+GGG 0.459972 2:-68411110 MsaT010064.1:intron
CTTTCCCTGACTCGTACTCC+TGG 0.461120 2:+68410894 None:intergenic
ATTCCAAATCAGCAGATCAT+TGG 0.464427 2:-68410869 MsaT010064.1:CDS
GGTTCCCAATCTTGTGAAAC+GGG 0.465547 2:+68414245 None:intergenic
GCTTTCTTGCGGAGGACGAC+GGG 0.478528 2:+68414224 None:intergenic
ATAGCTTTCTTGAGTTCAGT+TGG 0.482895 2:+68411085 None:intergenic
TAGCTTTCTTGAGTTCAGTT+GGG 0.492776 2:+68411086 None:intergenic
TGAGAAGCCTCAAGTGATCC+AGG 0.497642 2:-68410912 MsaT010064.1:CDS
TCAGCAGATCATTGGCAAGT+TGG 0.510535 2:-68410861 MsaT010064.1:CDS
GGGTTCCCAATCTTGTGAAA+CGG 0.516848 2:+68414244 None:intergenic
TCCCACCGCCGCTGCCAGGA+AGG 0.517927 2:-68414201 MsaT010064.1:CDS
TTTGTCATCCTTCCTGGCAG+CGG 0.537196 2:+68414193 None:intergenic
AGAAAGCTATAATGCAAGCC+AGG 0.541759 2:-68411072 MsaT010064.1:CDS
AGCTTTCTTGCGGAGGACGA+CGG 0.546703 2:+68414223 None:intergenic
AATGATCTGCTGATTTGGAA+TGG 0.551980 2:+68410871 None:intergenic
AGCTATAATGCAAGCCAGGA+TGG 0.555000 2:-68411068 MsaT010064.1:CDS
CGGCGGTGGGAGCTTTCTTG+CGG 0.555292 2:+68414213 None:intergenic
CATGGTTTCGATATCGGCAC+CGG 0.557535 2:+68414148 None:intergenic
CTCTTGGTGCCAAACTGCGT+GGG 0.558179 2:-68410832 MsaT010064.1:CDS
TCAAACCATTCAACCATGGC+AGG 0.558509 2:-68414269 None:intergenic
GTCATCCTTCCTGGCAGCGG+CGG 0.565962 2:+68414196 None:intergenic
CGGTGGGAGCTTTCTTGCGG+AGG 0.580235 2:+68414216 None:intergenic
TTGTGAAACGGGTCCTGCCA+TGG 0.588651 2:+68414256 None:intergenic
ATCGGCACCGGCACGACGAG+CGG 0.589916 2:+68414160 None:intergenic
GCTCTTGGTGCCAAACTGCG+TGG 0.608518 2:-68410833 MsaT010064.1:CDS
TGATCCAGGAGTACGAGTCA+GGG 0.620671 2:-68410898 MsaT010064.1:CDS
TCGTACTCCTGGATCACTTG+AGG 0.629262 2:+68410905 None:intergenic
GAACACTAAGAGGCTTGATG+AGG 0.646364 2:-68412639 MsaT010064.1:CDS
GATGGACAAGAAGCTTACTC+AGG 0.656852 2:-68411050 MsaT010064.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 68410823 68414276 68410823 ID=MsaG010064
Chr2 mRNA 68410823 68414276 68410823 ID=MsaT010064.1;Parent=MsaG010064
Chr2 exon 68410823 68410942 68410823 ID=MsaT010064.1.exon4;Parent=MsaT010064.1
Chr2 CDS 68410823 68410942 68410823 ID=cds.MsaT010064.1;Parent=MsaT010064.1
Chr2 exon 68411036 68411118 68411036 ID=MsaT010064.1.exon3;Parent=MsaT010064.1
Chr2 CDS 68411036 68411118 68411036 ID=cds.MsaT010064.1;Parent=MsaT010064.1
Chr2 exon 68412621 68412704 68412621 ID=MsaT010064.1.exon2;Parent=MsaT010064.1
Chr2 CDS 68412621 68412704 68412621 ID=cds.MsaT010064.1;Parent=MsaT010064.1
Chr2 exon 68414141 68414276 68414141 ID=MsaT010064.1.exon1;Parent=MsaT010064.1
Chr2 CDS 68414141 68414276 68414141 ID=cds.MsaT010064.1;Parent=MsaT010064.1
Gene Sequence

>MsaT010064.1

ATGGCAGGACCCGTTTCACAAGATTGGGAACCCGTCGTCCTCCGCAAGAAAGCTCCCACCGCCGCTGCCAGGAAGGATGACAAAGCTGTCAACGCCGCTCGTCGTGCCGGTGCCGATATCGAAACCATGAAGAAACATAATGCTGCGACAAACAAAGCTGCTTCTAGCAGCACTTCATTGAACACTAAGAGGCTTGATGAGGATACAGAGAATTTAGCTCATGATCGGGTCCCAACTGAACTCAAGAAAGCTATAATGCAAGCCAGGATGGACAAGAAGCTTACTCAGGCACAACTTGCTCAAATTATCAATGAGAAGCCTCAAGTGATCCAGGAGTACGAGTCAGGGAAAGCCATTCCAAATCAGCAGATCATTGGCAAGTTGGAGAGAGCTCTTGGTGCCAAACTGCGTGGGAAGAAATGA
Protein sequence

>MsaT010064.1

MAGPVSQDWEPVVLRKKAPTAAARKDDKAVNAARRAGADIETMKKHNAATNKAASSSTSLNTKRLDEDTENLAHDRVPTELKKAIMQARMDKKLTQAQLAQIINEKPQVIQEYESGKAIPNQQIIGKLERALGAKLRGKK*