AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001434


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001434 MtrunA17_Chr6g0476171 90.110 91 9 0 88 178 148 238 1.30e-55 176
MsaG001434 MtrunA17_Chr1g0163101 63.793 116 38 1 4 115 1 116 1.53e-43 143
MsaG001434 MtrunA17_Chr1g0163131 72.500 80 22 0 8 87 6 85 2.16e-37 131
MsaG001434 MtrunA17_Chr1g0163131 45.946 74 36 2 108 181 231 300 5.39e-12 63.2
MsaG001434 MtrunA17_Chr1g0162161 84.615 52 8 0 35 86 3 54 7.15e-25 95.1
MsaG001434 MtrunA17_Chr6g0476181 80.769 52 10 0 35 86 1 52 1.84e-24 94.0
MsaG001434 MtrunA17_Chr1g0163141 77.358 53 12 0 34 86 9 61 2.42e-23 91.7
MsaG001434 MtrunA17_Chr1g0163081 78.846 52 11 0 35 86 5 56 3.83e-22 87.4
MsaG001434 MtrunA17_Chr1g0163121 69.811 53 16 0 34 86 9 61 3.40e-21 85.1
MsaG001434 MtrunA17_Chr1g0171611 40.789 76 44 1 16 90 5 80 2.40e-16 75.1
MsaG001434 MtrunA17_Chr1g0163231 44.444 72 39 1 16 86 5 76 5.25e-16 74.3
MsaG001434 MtrunA17_Chr1g0163251 51.667 60 28 1 29 87 14 73 4.42e-15 72.4
MsaG001434 MtrunA17_Chr1g0163181 50.000 60 29 1 29 87 14 73 6.61e-15 72.0
MsaG001434 MtrunA17_Chr1g0163161 74.359 39 10 0 48 86 1 39 8.96e-14 65.5
MsaG001434 MtrunA17_Chr1g0163261 40.845 71 41 1 16 85 5 75 2.12e-13 67.0
MsaG001434 MtrunA17_Chr1g0163241 50.943 53 25 1 36 87 23 75 8.56e-13 63.5
MsaG001434 MtrunA17_Chr1g0163191 45.000 60 32 1 29 87 14 73 3.61e-12 61.6
MsaG001434 MtrunA17_Chr1g0163151 42.353 85 38 3 94 174 133 210 5.21e-12 62.4
MsaG001434 MtrunA17_Chr1g0163111 58.824 51 19 2 125 174 168 217 7.09e-12 62.0
MsaG001434 MtrunA17_Chr4g0067431 41.096 73 41 2 15 85 10 82 1.10e-11 62.4
MsaG001434 MtrunA17_Chr1g0163201 54.000 50 23 0 125 174 332 381 2.71e-11 61.6
MsaG001434 MtrunA17_Chr5g0419201 37.363 91 50 3 1 90 1 85 3.22e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 40 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAATTCACATGACAAATTTA+AGG 0.173779 1:-20080531 MsaT001434.1:CDS
TATAATCCATACCTCGATTA+TGG 0.210635 1:-20080299 MsaT001434.1:CDS
TTGCATTCTCTCACGAATTC+TGG 0.238243 1:+20080257 None:intergenic
GGAAATTCGTAGAGAGAAAT+TGG 0.261075 1:-20081571 MsaT001434.1:CDS
TTTGGAAGTCTAAGCGATAT+TGG 0.316363 1:+20081533 None:intergenic
GGTCTGAGTTCAAAATGAAT+TGG 0.350012 1:-20081508 MsaT001434.1:CDS
TACAACGCGGTGACGATGTT+TGG 0.370214 1:-20081484 MsaT001434.1:CDS
CAAAATCAATCATGTGTTCA+AGG 0.400866 1:-20080191 MsaT001434.1:CDS
AAGGTTTCAATTATTCTAGA+TGG 0.401711 1:-20080172 MsaT001434.1:CDS
ACGATGTTTGGCTTCAGAAT+TGG 0.404471 1:-20081472 MsaT001434.1:CDS
AGAGAATGCAAAGTAAAGAT+TGG 0.430681 1:-20080245 MsaT001434.1:CDS
TTTCTCTCTACGAATTTCCT+TGG 0.441633 1:+20081575 None:intergenic
ATAATCCATACCTCGATTAT+GGG 0.450089 1:-20080298 MsaT001434.1:CDS
GTCTGAGTTCAAAATGAATT+GGG 0.455385 1:-20081507 MsaT001434.1:CDS
ATTCAGTGGAGTTGAAAGTA+GGG 0.477979 1:-20080349 MsaT001434.1:CDS
AGGAACATGGTTTGTAGAGG+TGG 0.484845 1:-20080324 MsaT001434.1:CDS
GATTATGGGTGGTTCACTAA+AGG 0.486734 1:-20080284 MsaT001434.1:CDS
GGAACATGGTTTGTAGAGGT+GGG 0.494808 1:-20080323 MsaT001434.1:CDS
TGAAAGTAGGGGAAGGAACA+TGG 0.498346 1:-20080337 MsaT001434.1:CDS
GATTCAGTGGAGTTGAAAGT+AGG 0.514511 1:-20080350 MsaT001434.1:CDS
ATATCGCTTAGACTTCCAAA+TGG 0.516695 1:-20081530 MsaT001434.1:CDS
TTCAGTGGAGTTGAAAGTAG+GGG 0.529294 1:-20080348 MsaT001434.1:CDS
TTATGCCTCTTCAACAGACT+TGG 0.532458 1:+20080386 None:intergenic
TACTGCCAAGTCTGTTGAAG+AGG 0.535316 1:-20080391 MsaT001434.1:CDS
TATATTTAGCGGAGATTCAG+TGG 0.538001 1:-20080363 MsaT001434.1:CDS
AAGAGGCATAATATATTTAG+CGG 0.538890 1:-20080374 MsaT001434.1:CDS
AACCACCCATAATCGAGGTA+TGG 0.557688 1:+20080293 None:intergenic
TGTTCTTGCAGATGATTCCA+AGG 0.559130 1:-20081592 MsaT001434.1:intron
TTTGGCTTCAGAATTGGAAG+AGG 0.559399 1:-20081466 MsaT001434.1:CDS
TATCGCTTAGACTTCCAAAT+GGG 0.562651 1:-20081529 MsaT001434.1:CDS
ATGGGTGGTTCACTAAAGGT+TGG 0.570183 1:-20080280 MsaT001434.1:CDS
CTAACAACAATATTAGGGAG+TGG 0.599682 1:+20080145 None:intergenic
GGACGTGGCAGTGAAGCTCA+TGG 0.611140 1:-20082616 MsaT001434.1:CDS
GGAAGGAACATGGTTTGTAG+AGG 0.613086 1:-20080327 MsaT001434.1:CDS
TCGAGTGTTCACAATGGACG+TGG 0.628713 1:-20082631 MsaT001434.1:CDS
ATCCATACCTCGATTATGGG+TGG 0.639230 1:-20080295 MsaT001434.1:CDS
GTGGAGTTGAAAGTAGGGGA+AGG 0.644645 1:-20080344 MsaT001434.1:CDS
TAGTGAACCACCCATAATCG+AGG 0.694278 1:+20080288 None:intergenic
ATGATGTCGAGTGTTCACAA+TGG 0.758516 1:-20082637 MsaT001434.1:CDS
AAAATGAATTGGGTACAACG+CGG 0.771281 1:-20081497 MsaT001434.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 20080157 20082665 20080157 ID=MsaG001434
Chr1 mRNA 20080157 20082665 20080157 ID=MsaT001434.1;Parent=MsaG001434
Chr1 exon 20080157 20080420 20080157 ID=MsaT001434.1.exon4;Parent=MsaT001434.1
Chr1 CDS 20080157 20080420 20080157 ID=cds.MsaT001434.1;Parent=MsaT001434.1
Chr1 exon 20080508 20080566 20080508 ID=MsaT001434.1.exon3;Parent=MsaT001434.1
Chr1 CDS 20080508 20080566 20080508 ID=cds.MsaT001434.1;Parent=MsaT001434.1
Chr1 exon 20081447 20081603 20081447 ID=MsaT001434.1.exon2;Parent=MsaT001434.1
Chr1 CDS 20081447 20081603 20081447 ID=cds.MsaT001434.1;Parent=MsaT001434.1
Chr1 exon 20082564 20082665 20082564 ID=MsaT001434.1.exon1;Parent=MsaT001434.1
Chr1 CDS 20082564 20082665 20082564 ID=cds.MsaT001434.1;Parent=MsaT001434.1
Gene Sequence

>MsaT001434.1

ATGAGCATGATGTCGAGTGTTCACAATGGACGTGGCAGTGAAGCTCATGGAATGCATTTCTATCTAACTATTCAACTTCGTCAGTTGCAAGATGCAGAGTTTATGATTCCAAGGAAATTCGTAGAGAGAAATTGGAAAGATGTATCAAATCCAATATCGCTTAGACTTCCAAATGGGTCTGAGTTCAAAATGAATTGGGTACAACGCGGTGACGATGTTTGGCTTCAGAATTGGAAGAGGTTTGCGCGCTCTCTCAGATATTCTGTAAGTACGAATTCACATGACAAATTTAAGGTTTTTGTGACATCATTAGACAAGCTGGTTGTACTGCCAAGTCTGTTGAAGAGGCATAATATATTTAGCGGAGATTCAGTGGAGTTGAAAGTAGGGGAAGGAACATGGTTTGTAGAGGTGGGTTATAATCCATACCTCGATTATGGGTGGTTCACTAAAGGTTGGCCAGAATTCGTGAGAGAATGCAAAGTAAAGATTGGAGACACTTGTTTGTTTGAGATGATTGATGTTCAAAATCAATCATGTGTTCAAGGTTTCAATTATTCTAGATGGAAAGCCACTCCCTAA

Protein sequence

>MsaT001434.1

MSMMSSVHNGRGSEAHGMHFYLTIQLRQLQDAEFMIPRKFVERNWKDVSNPISLRLPNGSEFKMNWVQRGDDVWLQNWKRFARSLRYSVSTNSHDKFKVFVTSLDKLVVLPSLLKRHNIFSGDSVELKVGEGTWFVEVGYNPYLDYGWFTKGWPEFVRECKVKIGDTCLFEMIDVQNQSCVQGFNYSRWKATP*