AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG000130

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000130 MtrunA17_Chr1g0155811 97.080 274 7 1 1 274 1 273 0.0 551
MsaG000130 MtrunA17_Chr3g0142221 45.956 272 85 8 1 262 1 220 3.04e-65 203
MsaG000130 MtrunA17_Chr4g0035651 47.005 217 102 4 1 212 1 209 8.06e-62 194
MsaG000130 MtrunA17_Chr3g0145061 49.485 194 87 3 1 183 1 194 2.08e-58 186
MsaG000130 MtrunA17_Chr4g0033641 34.783 276 130 8 1 262 1 240 2.96e-39 137
MsaG000130 MtrunA17_Chr2g0329511 42.197 173 79 3 1 173 1 152 5.54e-38 134
MsaG000130 MtrunA17_Chr2g0314671 40.206 194 90 5 1 171 1 191 2.19e-37 134
MsaG000130 MtrunA17_Chr5g0405151 35.673 171 96 5 1 161 1 167 3.20e-24 96.3
MsaG000130 MtrunA17_Chr1g0150471 46.392 97 42 1 5 101 6 92 2.33e-23 97.1
MsaG000130 MtrunA17_Chr4g0072871 45.161 93 41 1 5 97 22 104 1.06e-20 90.5
MsaG000130 MtrunA17_Chr3g0136701 41.818 110 54 1 5 114 6 105 6.73e-19 84.3
MsaG000130 MtrunA17_Chr7g0220721 41.935 93 44 1 5 97 26 108 3.74e-18 83.6
MsaG000130 MtrunA17_Chr7g0268691 35.714 98 52 2 5 102 20 106 1.91e-13 69.7
MsaG000130 MtrunA17_Chr5g0429341 32.990 97 55 1 1 97 1 87 3.93e-13 68.9
MsaG000130 MtrunA17_Chr3g0120711 34.021 97 53 2 1 97 1 86 1.61e-11 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000130 AT1G75540.1 43.413 334 126 12 1 274 1 331 2.73e-70 220
MsaG000130 AT4G39070.1 47.783 203 79 2 1 176 1 203 3.96e-52 171
MsaG000130 AT1G06040.1 37.276 279 127 9 1 262 1 248 1.12e-43 149
MsaG000130 AT1G06040.2 42.473 186 75 4 1 177 1 163 3.23e-40 138
MsaG000130 AT2G31380.1 36.162 271 129 10 1 261 1 237 2.60e-37 132
MsaG000130 AT1G78600.1 46.575 146 73 3 1 146 1 141 2.02e-36 131
MsaG000130 AT4G10240.1 43.125 160 78 3 1 155 1 152 2.26e-36 127
MsaG000130 AT1G78600.2 42.105 171 93 4 1 170 1 166 3.79e-36 131
MsaG000130 AT2G24790.1 43.750 112 53 1 5 116 8 109 4.54e-23 96.3
MsaG000130 AT4G38960.1 46.667 105 52 2 1 105 1 101 4.62e-23 93.6
MsaG000130 AT4G38960.6 46.667 105 52 2 1 105 1 101 4.62e-23 93.6
MsaG000130 AT2G24790.2 43.750 112 53 1 5 116 8 109 5.01e-23 94.4
MsaG000130 AT2G21320.1 46.667 105 52 2 1 105 1 101 2.58e-22 91.3
MsaG000130 AT5G24930.1 43.299 97 45 1 5 101 6 92 1.22e-20 90.5
MsaG000130 AT5G15840.1 34.459 148 74 3 5 152 20 144 1.91e-18 84.3
MsaG000130 AT5G15840.2 34.459 148 74 3 5 152 20 144 4.35e-18 82.0
MsaG000130 AT3G02380.1 41.935 93 44 1 5 97 16 98 5.32e-18 82.8
MsaG000130 AT5G15850.1 41.935 93 44 1 5 97 12 94 1.52e-17 81.6
MsaG000130 AT5G57660.1 34.351 131 67 3 5 130 22 138 1.73e-15 75.9
MsaG000130 AT1G28050.1 36.634 101 54 1 2 102 6 96 5.75e-14 71.6
MsaG000130 AT2G33500.2 35.000 100 55 1 3 102 10 99 2.22e-13 70.1
MsaG000130 AT2G33500.1 35.000 100 55 1 3 102 10 99 2.27e-13 70.1
MsaG000130 AT2G47890.3 37.647 85 43 1 5 89 13 87 2.21e-12 66.2
MsaG000130 AT2G47890.2 37.647 85 43 1 5 89 13 87 2.25e-12 65.5
MsaG000130 AT2G47890.1 37.647 85 43 1 5 89 13 87 2.63e-12 66.2
MsaG000130 AT3G07650.3 34.884 86 46 1 1 86 1 76 1.69e-11 64.3
MsaG000130 AT3G07650.2 34.884 86 46 1 1 86 1 76 1.69e-11 64.3
MsaG000130 AT3G07650.4 34.884 86 46 1 1 86 1 76 1.69e-11 64.3
MsaG000130 AT3G07650.1 34.884 86 46 1 1 86 1 76 1.69e-11 64.3
MsaG000130 AT5G48250.1 29.648 199 105 6 1 187 1 176 2.39e-11 63.9

Find 56 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCAGATCCCCATATTATTAT+TGG 0.137675 1:+1724926 None:intergenic
ATTCTTTCCCAATAATAATA+TGG 0.175250 1:-1724934 MsaT000130.1:CDS
ATATCTTGTTCTCTTGGAAT+TGG 0.322098 1:+1724734 None:intergenic
TTCTTTCCCAATAATAATAT+GGG 0.326545 1:-1724933 MsaT000130.1:CDS
GAGGGTGTTGTTTAGGAGTT+GGG 0.330083 1:+1725799 None:intergenic
CAGATCCCCATATTATTATT+GGG 0.334863 1:+1724927 None:intergenic
AGAGGGTGTTGTTTAGGAGT+TGG 0.337165 1:+1725798 None:intergenic
CCAATAATAATATGGGGATC+TGG 0.340677 1:-1724926 MsaT000130.1:CDS
TCGCAGAGAGGGTGTTGTTT+AGG 0.344263 1:+1725792 None:intergenic
CCATAGATATCTTGTTCTCT+TGG 0.347739 1:+1724728 None:intergenic
TACTCCTTCACCAACATCTA+TGG 0.351518 1:-1725401 MsaT000130.1:CDS
CCAAGAGAACAAGATATCTA+TGG 0.390568 1:-1724728 MsaT000130.1:CDS
AAGAGCGAGACGGTGGTGTT+TGG 0.393267 1:+1725827 None:intergenic
GTTCTCTTGGAATTGGCAAC+AGG 0.403208 1:+1724741 None:intergenic
TTCATCTTCACAAATAATGA+TGG 0.443338 1:-1724874 MsaT000130.1:CDS
CCCTCTCTGCGATATTTGTC+AGG 0.457199 1:-1725781 MsaT000130.1:intron
TGTTCCATTTGCTTTCTCCA+AGG 0.462477 1:-1725290 MsaT000130.1:intron
AAATCATCAACTTGCCAGCC+AGG 0.463520 1:+1725328 None:intergenic
CAATAATAATATGGGGATCT+GGG 0.478272 1:-1724925 MsaT000130.1:CDS
CAGAGTGAGACAACAAAGAA+AGG 0.485986 1:-1724849 MsaT000130.1:CDS
AAAACCTTGGAGAAAGCAAA+TGG 0.494818 1:+1725286 None:intergenic
CATGATAGGTTTCTTCTCAC+TGG 0.500831 1:-1725535 MsaT000130.1:CDS
CTTCCTTCTTCCATAGATGT+TGG 0.505484 1:+1725391 None:intergenic
GTGTTTGGAAGCGAGTTTGT+TGG 0.511969 1:+1725842 None:intergenic
TCATCTTCACAAATAATGAT+GGG 0.520250 1:-1724873 MsaT000130.1:CDS
GGTGATGAATTGTTTAATGC+TGG 0.521388 1:-1724978 MsaT000130.1:CDS
AAAGCAGCATCAACAAATCA+AGG 0.524782 1:-1724812 MsaT000130.1:CDS
GCATCAACAAATCAAGGTTG+AGG 0.537392 1:-1724806 MsaT000130.1:CDS
CATCAACAAATCAAGGTTGA+GGG 0.537425 1:-1724805 MsaT000130.1:CDS
GATACATAAGGCGGCTTCGT+CGG 0.542061 1:+1725890 None:intergenic
AGAGAAGGTGGTGGTGCTTG+AGG 0.542822 1:+1724900 None:intergenic
GTGGTCACAGTCGATACATA+AGG 0.545496 1:+1725878 None:intergenic
TCACCAACATCTATGGAAGA+AGG 0.545672 1:-1725394 MsaT000130.1:CDS
TACTTGATTGAGACTCTACC+TGG 0.547419 1:-1725346 MsaT000130.1:CDS
GTTTGTTGGCGTGGTGGACA+CGG 0.549454 1:+1725856 None:intergenic
AGAGTGAGACAACAAAGAAA+GGG 0.571772 1:-1724848 MsaT000130.1:CDS
GACTTGATAGTTGCTGAAGA+AGG 0.578340 1:+1725463 None:intergenic
ACATAAGGCGGCTTCGTCGG+CGG 0.586855 1:+1725893 None:intergenic
TGATTGAGACTCTACCTGGC+TGG 0.592673 1:-1725342 MsaT000130.1:CDS
ACATCTATGGAAGAAGGAAG+TGG 0.599359 1:-1725388 MsaT000130.1:CDS
TGTGAAGATGAATATAGAGA+AGG 0.600444 1:+1724885 None:intergenic
GAAGATGAATATAGAGAAGG+TGG 0.603622 1:+1724888 None:intergenic
TCTTCCATAGATGTTGGTGA+AGG 0.607403 1:+1725397 None:intergenic
TGGAAGCGAGTTTGTTGGCG+TGG 0.613525 1:+1725847 None:intergenic
CCTGACAAATATCGCAGAGA+GGG 0.617757 1:+1725781 None:intergenic
TCTTTCCCAATAATAATATG+GGG 0.620377 1:-1724932 MsaT000130.1:CDS
AAGCGAGTTTGTTGGCGTGG+TGG 0.633769 1:+1725850 None:intergenic
CATCTTCACAAATAATGATG+GGG 0.650089 1:-1724872 MsaT000130.1:CDS
GATGAATATAGAGAAGGTGG+TGG 0.651333 1:+1724891 None:intergenic
TCTATGGAAGAAGGAAGTGG+TGG 0.656402 1:-1725385 MsaT000130.1:CDS
TTGGCAACAGGACTAATCTG+TGG 0.670590 1:+1724753 None:intergenic
TTGGGTTATGAAGAGCGAGA+CGG 0.678930 1:+1725817 None:intergenic
GGTTATGAAGAGCGAGACGG+TGG 0.682697 1:+1725820 None:intergenic
ACCTGACAAATATCGCAGAG+AGG 0.707817 1:+1725780 None:intergenic
GTCACAGTCGATACATAAGG+CGG 0.712524 1:+1725881 None:intergenic
TGTTGGCGTGGTGGACACGG+TGG 0.723732 1:+1725859 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 1724725 1725967 1724725 ID=MsaG000130
Chr1 mRNA 1724725 1725967 1724725 ID=MsaT000130.1;Parent=MsaG000130
Chr1 exon 1724725 1725000 1724725 ID=MsaT000130.1.exon3;Parent=MsaT000130.1
Chr1 CDS 1724725 1725000 1724725 ID=cds.MsaT000130.1;Parent=MsaT000130.1
Chr1 exon 1725291 1725653 1725291 ID=MsaT000130.1.exon2;Parent=MsaT000130.1
Chr1 CDS 1725291 1725653 1725291 ID=cds.MsaT000130.1;Parent=MsaT000130.1
Chr1 exon 1725782 1725967 1725782 ID=MsaT000130.1.exon1;Parent=MsaT000130.1
Chr1 CDS 1725782 1725967 1725782 ID=cds.MsaT000130.1;Parent=MsaT000130.1
Gene Sequence

>MsaT000130.1

ATGAAGATCCAGTGTGACGTATGCAACAAAAATGAGGCTTCATTATTCTGCACCGCCGACGAAGCCGCCTTATGTATCGACTGTGACCACCGTGTCCACCACGCCAACAAACTCGCTTCCAAACACCACCGTCTCGCTCTTCATAACCCAACTCCTAAACAACACCCTCTCTGCGATATTTGTCAGGAGAGAAGAGCTTTTGTGTTATGTAAACAAGACAGAGCAATTCTATGCAAAGATTGTGATTCATCTATTCATTCAGTGAATGAACTTACACAAAAACATGATAGGTTTCTTCTCACTGGTGTTAAGATTTCAACTACAAACTCATCTTCTTCATCTTCATCATCAACACCTTCTTCAGCAACTATCAAGTCAAATCATGTTCCTTCTTCTTCTTTGATTGAAAAATCTAGTACTCCTTCACCAACATCTATGGAAGAAGGAAGTGGTGGTTCTACTATATCTCAGTACTTGATTGAGACTCTACCTGGCTGGCAAGTTGATGATTTTCTTGATTCTTCTTCTGTTCCATTTGCTTTCTCCAAGGGTGATGAATTGTTTAATGCTGGTATTGAAGAAAATCTTGATTCATTCTTTCCCAATAATAATATGGGGATCTGGGTTCCTCAAGCACCACCACCTTCTCTATATTCATCTTCACAAATAATGATGGGGCAGAGTGAGACAACAAAGAAAGGGAACAACAACAACAAAAGCAGCATCAACAAATCAAGGTTGAGGGAAGATCATGATAGTAATATTTTCACAGTTCCACAGATTAGTCCTGTTGCCAATTCCAAGAGAACAAGATATCTATGGTAG
Protein sequence

>MsaT000130.1

MKIQCDVCNKNEASLFCTADEAALCIDCDHRVHHANKLASKHHRLALHNPTPKQHPLCDICQERRAFVLCKQDRAILCKDCDSSIHSVNELTQKHDRFLLTGVKISTTNSSSSSSSSTPSSATIKSNHVPSSSLIEKSSTPSPTSMEEGSGGSTISQYLIETLPGWQVDDFLDSSSVPFAFSKGDELFNAGIEENLDSFFPNNNMGIWVPQAPPPSLYSSSQIMMGQSETTKKGNNNNKSSINKSRLREDHDSNIFTVPQISPVANSKRTRYLW*