AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG038324

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038324 MtrunA17_Chr7g0245211 91.031 223 15 2 1 221 28 247 7.32e-148 411
MsaG038324 MtrunA17_Chr1g0152491 44.295 149 72 3 73 218 44 184 7.62e-32 114
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038324 AT1G32070.3 69.124 217 54 3 17 220 40 256 5.52e-103 298
MsaG038324 AT1G32070.1 68.349 218 55 3 17 220 39 256 6.90e-102 295
MsaG038324 AT1G32070.2 68.349 218 55 3 17 220 40 257 7.14e-102 295
MsaG038324 AT1G26220.1 41.353 133 67 2 87 218 67 189 2.04e-27 103

Find 51 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAAAACTTCCTTATCAATT+TGG 0.118919 7:-75019216 None:intergenic
ATGCCTTCAATGCCACAATT+TGG 0.217116 7:+75017954 MsaT038324.1:CDS
TTCAGCTCAAGGCTGGATTT+TGG 0.218238 7:+75016360 MsaT038324.1:CDS
CTGAAAAGTCCTCAACTTTC+TGG 0.221139 7:-75016342 None:intergenic
AATGAACAAAAGATATTAAT+TGG 0.255156 7:+75017908 MsaT038324.1:CDS
GAGCAAATATTGTTCTCTTC+AGG 0.294940 7:+75017156 MsaT038324.1:CDS
GAAAACTTCCTTATCAATTT+GGG 0.297922 7:-75019215 None:intergenic
GCTGACCCAGAGGGCATAAA+AGG 0.303809 7:+75019180 MsaT038324.1:CDS
TGCCTTCAATGCCACAATTT+GGG 0.345095 7:+75017955 MsaT038324.1:CDS
ATTCTATAGGGCCAAGGTCT+TGG 0.389671 7:+75018942 MsaT038324.1:intron
GCAGCAGCTAATTTCGATAA+TGG 0.399700 7:-75017685 None:intergenic
ATTTGCTCAATTGTTCCATC+AGG 0.431467 7:-75017141 None:intergenic
AGGGCATAAAAGGCATGTTC+TGG 0.444015 7:+75019190 MsaT038324.1:CDS
TACTCAAACAGTTACACAAT+AGG 0.444808 7:+75012573 MsaT038324.1:CDS
ATCCCAAATTGTGGCATTGA+AGG 0.446021 7:-75017957 None:intergenic
TGCCAAAGTACCTGGTAGCC+TGG 0.451629 7:-75017992 None:intergenic
CCTAGTTGATCCAGGCTACC+AGG 0.486692 7:+75017982 MsaT038324.1:CDS
ATAAGAAAGTCACCAGGGTC+AGG 0.499788 7:+75017745 MsaT038324.1:CDS
TGGGATGTCCTAGTTGATCC+AGG 0.505992 7:+75017974 MsaT038324.1:CDS
TTTGGGAGTCAATTAAATCT+GGG 0.516563 7:+75016378 MsaT038324.1:CDS
TCTTCTTCTTCTGTTAACTC+CGG 0.520081 7:-75017072 None:intergenic
CAAATATTGTTCTCTTCAGG+TGG 0.543956 7:+75017159 MsaT038324.1:CDS
CACCACACAGGTCATCGATC+CGG 0.544650 7:+75017053 MsaT038324.1:CDS
GATTTGATTCTATAGGGCCA+AGG 0.548964 7:+75018936 MsaT038324.1:intron
CAAGAGCTTTACCAAGACCT+TGG 0.549605 7:-75018953 None:intergenic
AGCACAAACTCTTGAGGTAG+AGG 0.550148 7:-75017102 None:intergenic
GTTTGTGCTTGTTGAAAAGA+CGG 0.552027 7:+75017116 MsaT038324.1:CDS
CCTGGTAGCCTGGATCAACT+AGG 0.553781 7:-75017982 None:intergenic
ACAAAAGATATTAATTGGCA+TGG 0.555166 7:+75017913 MsaT038324.1:CDS
AAATTGTGGCATTGAAGGCA+TGG 0.561363 7:-75017952 None:intergenic
GGCATGGTCTGATGTAGCAC+GGG 0.584570 7:-75017936 None:intergenic
GGGTTTGAAGCTGACCCAGA+GGG 0.584967 7:+75019171 MsaT038324.1:CDS
GATACGCACCTTGTCACAGA+GGG 0.585718 7:-75017208 None:intergenic
TCAACAAGCACAAACTCTTG+AGG 0.586333 7:-75017108 None:intergenic
GTTGAAAAGACGGAACCTGA+TGG 0.591303 7:+75017126 MsaT038324.1:CDS
ACTTTGTTCGCAGATAGTAA+AGG 0.599684 7:+75019023 MsaT038324.1:CDS
AACTAGGACATCCCAAATTG+TGG 0.601622 7:-75017966 None:intergenic
TCTTCAAGCCCTCTGTGACA+AGG 0.604383 7:+75017200 MsaT038324.1:CDS
ATATTATTATTACCTGACCC+TGG 0.611994 7:-75017757 None:intergenic
AGGCATGGTCTGATGTAGCA+CGG 0.613503 7:-75017937 None:intergenic
TATTCTATAAGAAAGTCACC+AGG 0.624420 7:+75017739 MsaT038324.1:CDS
TTTCAGCTACCAGAAAGTTG+AGG 0.631114 7:+75016333 MsaT038324.1:intron
CATCTCTTTAACAGGTAGGG+TGG 0.637083 7:+75017653 MsaT038324.1:intron
AACAGGTAGGGTGGCCTCGT+AGG 0.640562 7:+75017662 MsaT038324.1:intron
AATTTCGATAATGGCCTACG+AGG 0.672834 7:-75017676 None:intergenic
AGGGTTTGAAGCTGACCCAG+AGG 0.695850 7:+75019170 MsaT038324.1:CDS
ATTCTATAAGAAAGTCACCA+GGG 0.724149 7:+75017740 MsaT038324.1:CDS
GATGAAGAATAACACCACAC+AGG 0.731975 7:+75017041 MsaT038324.1:CDS
CTCCGGATCGATGACCTGTG+TGG 0.735613 7:-75017055 None:intergenic
AGATACGCACCTTGTCACAG+AGG 0.742856 7:-75017209 None:intergenic
CTTTCTTATAGAATACAGAG+AGG 0.746297 7:-75017731 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 75012546 75019224 75012546 ID=MsaG038324
Chr7 mRNA 75012546 75019224 75012546 ID=MsaT038324.1;Parent=MsaG038324
Chr7 exon 75012546 75012594 75012546 ID=MsaT038324.1.exon1;Parent=MsaT038324.1
Chr7 CDS 75012546 75012594 75012546 ID=cds.MsaT038324.1;Parent=MsaT038324.1
Chr7 exon 75016339 75016399 75016339 ID=MsaT038324.1.exon2;Parent=MsaT038324.1
Chr7 CDS 75016339 75016399 75016339 ID=cds.MsaT038324.1;Parent=MsaT038324.1
Chr7 exon 75017038 75017221 75017038 ID=MsaT038324.1.exon3;Parent=MsaT038324.1
Chr7 CDS 75017038 75017221 75017038 ID=cds.MsaT038324.1;Parent=MsaT038324.1
Chr7 exon 75017667 75017766 75017667 ID=MsaT038324.1.exon4;Parent=MsaT038324.1
Chr7 CDS 75017667 75017766 75017667 ID=cds.MsaT038324.1;Parent=MsaT038324.1
Chr7 exon 75017903 75018003 75017903 ID=MsaT038324.1.exon5;Parent=MsaT038324.1
Chr7 CDS 75017903 75018003 75017903 ID=cds.MsaT038324.1;Parent=MsaT038324.1
Chr7 exon 75018951 75019044 75018951 ID=MsaT038324.1.exon6;Parent=MsaT038324.1
Chr7 CDS 75018951 75019044 75018951 ID=cds.MsaT038324.1;Parent=MsaT038324.1
Chr7 exon 75019148 75019224 75019148 ID=MsaT038324.1.exon7;Parent=MsaT038324.1
Chr7 CDS 75019148 75019224 75019148 ID=cds.MsaT038324.1;Parent=MsaT038324.1
Gene Sequence

>MsaT038324.1

ATGGCTCCAATAAAACTCATTAGTCATTACTCAAACAGTTACACAATAGCTACCAGAAAGTTGAGGACTTTTCAGCTCAAGGCTGGATTTTGGGAGTCAATTAAATCTGGGTTGATGAAGAATAACACCACACAGGTCATCGATCCGGAGTTAACAGAAGAAGAAGACGAAGAACCTCTACCTCAAGAGTTTGTGCTTGTTGAAAAGACGGAACCTGATGGAACAATTGAGCAAATATTGTTCTCTTCAGGTGGAGATCTTGATGTTTATGATCTTCAAGCCCTCTGTGACAAGGTAGGGTGGCCTCGTAGGCCATTATCGAAATTAGCTGCTGCTTTGAAAAATAGCTATATGGTGGCCTCTCTGTATTCTATAAGAAAGTCACCAGGGTCAGAGGGGAATGAACAAAAGATATTAATTGGCATGGCCCGTGCTACATCAGACCATGCCTTCAATGCCACAATTTGGGATGTCCTAGTTGATCCAGGCTACCAGGGCCAAGGTCTTGGTAAAGCTCTTGTAGAGAAACTCATTCGAGCTCTTTTGCAAAGGGACATCGGTAATATTACTTTGTTCGCAGATAGTAAAGTCGTGGAATTTTATCGCAATTTAGGGTTTGAAGCTGACCCAGAGGGCATAAAAGGCATGTTCTGGTACCCAAATTGA
Protein sequence

>MsaT038324.1

MAPIKLISHYSNSYTIATRKLRTFQLKAGFWESIKSGLMKNNTTQVIDPELTEEEDEEPLPQEFVLVEKTEPDGTIEQILFSSGGDLDVYDLQALCDKVGWPRRPLSKLAAALKNSYMVASLYSIRKSPGSEGNEQKILIGMARATSDHAFNATIWDVLVDPGYQGQGLGKALVEKLIRALLQRDIGNITLFADSKVVEFYRNLGFEADPEGIKGMFWYPN*