AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG045599

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG045599 MtrunA17_Chr4g0065041 96.032 252 7 2 1 249 1 252 0.0 496
MsaG045599 MtrunA17_Chr2g0297251 47.325 243 106 7 7 248 36 257 4.08e-62 195
MsaG045599 MtrunA17_Chr7g0230511 41.036 251 131 7 5 248 6 246 2.75e-57 182
MsaG045599 MtrunA17_Chr4g0040071 33.745 243 110 6 8 248 15 208 9.31e-38 131
MsaG045599 MtrunA17_Chr5g0395181 45.185 135 72 2 8 140 21 155 3.98e-37 130
MsaG045599 MtrunA17_Chr8g0366581 47.692 130 66 2 5 132 30 159 2.65e-36 128
MsaG045599 MtrunA17_Chr5g0411151 43.750 144 79 2 5 146 32 175 7.86e-35 124
MsaG045599 MtrunA17_Chr7g0265291 41.912 136 74 2 8 138 7 142 6.47e-31 113
MsaG045599 MtrunA17_Chr4g0052451 58.333 84 29 1 57 134 10 93 1.45e-28 104
MsaG045599 MtrunA17_Chr1g0179781 40.625 128 73 2 8 132 7 134 2.74e-27 104
MsaG045599 MtrunA17_Chr2g0320561 38.298 141 76 5 8 137 5 145 2.28e-22 92.0
MsaG045599 MtrunA17_Chr4g0052461 64.912 57 19 1 5 60 19 75 7.85e-21 83.6
MsaG045599 MtrunA17_Chr2g0320521 37.143 140 76 4 10 137 8 147 3.91e-20 85.9
MsaG045599 MtrunA17_Chr8g0392151 32.075 159 80 5 1 132 1 158 3.41e-19 83.6
MsaG045599 MtrunA17_Chr2g0320551 33.333 138 81 4 8 134 5 142 4.46e-18 79.0
MsaG045599 MtrunA17_Chr4g0020811 36.957 138 71 5 10 133 8 143 4.56e-18 78.6
MsaG045599 MtrunA17_Chr2g0308401 37.681 138 70 6 10 133 6 141 1.22e-17 77.4
MsaG045599 MtrunA17_Chr8g0386511 33.036 112 66 3 36 144 2 107 7.36e-12 61.6
MsaG045599 MtrunA17_Chr5g0434331 30.435 92 60 2 6 94 41 131 4.11e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG045599 AT2G12646.1 66.279 258 74 6 3 249 1 256 1.87e-114 328
MsaG045599 AT2G12646.2 66.279 258 74 6 3 249 1 256 1.87e-114 328
MsaG045599 AT2G12646.3 66.142 254 73 6 7 249 2 253 3.25e-112 323
MsaG045599 AT3G60670.1 45.059 253 112 5 8 248 7 244 1.21e-69 214
MsaG045599 AT1G31040.1 45.902 244 111 7 7 248 18 242 6.23e-59 187
MsaG045599 AT4G17900.1 32.271 251 108 6 5 248 31 226 9.17e-35 124
MsaG045599 AT4G17900.2 32.271 251 108 6 5 248 17 212 1.09e-34 124
MsaG045599 AT1G32700.1 47.727 132 67 2 8 137 12 143 1.45e-34 124
MsaG045599 AT1G76590.1 32.510 243 147 4 8 248 18 245 8.65e-33 120
MsaG045599 AT1G21000.2 33.984 256 129 7 8 248 13 243 1.04e-32 119
MsaG045599 AT1G21000.1 33.977 259 125 7 8 248 16 246 1.06e-32 119
MsaG045599 AT1G43000.2 42.308 130 73 2 8 135 16 145 2.40e-30 113
MsaG045599 AT1G43000.1 42.308 130 73 2 8 135 9 138 2.87e-30 112
MsaG045599 AT5G46710.2 41.221 131 74 3 5 132 25 155 1.08e-27 104
MsaG045599 AT5G46710.3 41.221 131 74 3 5 132 9 139 1.26e-27 105
MsaG045599 AT5G46710.1 41.221 131 74 3 5 132 25 155 1.78e-27 105
MsaG045599 AT2G27930.3 40.426 141 72 3 6 134 2 142 7.78e-27 102
MsaG045599 AT2G27930.2 40.426 141 72 3 6 134 2 142 7.78e-27 102
MsaG045599 AT2G27930.1 40.000 140 72 3 6 133 2 141 2.05e-26 102
MsaG045599 AT2G27930.4 40.000 140 72 3 6 133 2 141 2.05e-26 102
MsaG045599 AT2G01818.1 39.161 143 76 4 9 140 12 154 3.92e-26 102
MsaG045599 AT1G32700.2 48.039 102 51 2 38 137 3 104 3.67e-24 95.5
MsaG045599 AT2G27930.5 44.186 86 39 1 57 133 59 144 4.19e-17 77.4
MsaG045599 AT2G27930.6 44.186 86 39 1 57 133 59 144 4.19e-17 77.4
MsaG045599 AT2G01818.2 36.471 85 48 2 62 140 6 90 2.29e-12 63.5

Find 53 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACTTTATTGCTATTATTAT+TGG 0.112766 8:+74858652 None:intergenic
CCAAGAGAGCAATGGATAAA+AGG 0.296836 8:+74859457 None:intergenic
CTTCCAACCATGCAGGCTTT+TGG 0.312977 8:+74859980 None:intergenic
TATACAGAAAAGTTCTTTGT+TGG 0.345795 8:-74859952 MsaT045599.1:CDS
AAGACCTTTCACCCTACTTA+AGG 0.378382 8:-74858889 MsaT045599.1:CDS
GATCCAATGAGTTCATATTC+AGG 0.387250 8:-74858770 MsaT045599.1:CDS
TAAAGTTTCTGATGAAGATA+TGG 0.401550 8:-74858636 MsaT045599.1:CDS
GATAGTCAGGACTTAATTGT+AGG 0.404339 8:+74858855 None:intergenic
AGTATGATTAGTAGAAGAAA+AGG 0.404960 8:-74858608 MsaT045599.1:CDS
AGCAATGGATAAAAGGTTCT+TGG 0.405041 8:+74859464 None:intergenic
TTATCATGATGTTCTTAGAT+TGG 0.410755 8:-74859803 MsaT045599.1:CDS
TTCCTGATCCTTTGAATTGG+CGG 0.427487 8:+74859515 None:intergenic
TGGCATGCACAGAAATTGTT+AGG 0.429624 8:-74858718 MsaT045599.1:CDS
TCATATTCAGGATCATCATC+AGG 0.433500 8:-74858758 MsaT045599.1:CDS
TCTTGTGGAATTAGATAGTC+AGG 0.440473 8:+74858842 None:intergenic
AGTTTCCTGATCCTTTGAAT+TGG 0.442272 8:+74859512 None:intergenic
AAGTATGTGTGCAAAATTCA+TGG 0.453257 8:-74858675 MsaT045599.1:CDS
CTTCTTGATGAACACCACTT+TGG 0.453482 8:+74859549 None:intergenic
TTTGGCACTATTGATAGTAT+AGG 0.459040 8:+74859567 None:intergenic
AACCGCCAATTCAAAGGATC+AGG 0.462617 8:-74859517 MsaT045599.1:CDS
GATCCTGAATATGAACTCAT+TGG 0.472047 8:+74858767 None:intergenic
AGTCTTCATATATATGATCA+TGG 0.477545 8:-74860115 None:intergenic
AAACCAAAAGCCTGCATGGT+TGG 0.480103 8:-74859983 MsaT045599.1:CDS
GGTCTTGCATATCCTTAAGT+AGG 0.485067 8:+74858877 None:intergenic
ATTGTTAGGAAGAGAAGAAG+TGG 0.501836 8:-74858704 MsaT045599.1:CDS
CCATTGCTCTCTTGGATGCA+AGG 0.504085 8:-74859449 MsaT045599.1:intron
CTATCTAATTCCACAAGAGA+TGG 0.516025 8:-74858837 MsaT045599.1:CDS
TATCTAATTCCACAAGAGAT+GGG 0.519713 8:-74858836 MsaT045599.1:CDS
AATGACAAGGTCAACAATTG+TGG 0.532726 8:-74858801 MsaT045599.1:CDS
CCTCAAAACCGCCAATTCAA+AGG 0.532742 8:-74859523 MsaT045599.1:CDS
GTCTTGCATATCCTTAAGTA+GGG 0.540564 8:+74858878 None:intergenic
AATGGATAAAAGGTTCTTGG+AGG 0.548499 8:+74859467 None:intergenic
AGAAGGCGGTAGCGATGAGA+TGG 0.549993 8:+74859844 None:intergenic
ATAGTCAGGACTTAATTGTA+GGG 0.550330 8:+74858856 None:intergenic
TAAAGAGCTTCCAACCATGC+AGG 0.552228 8:+74859973 None:intergenic
TAACAAAGAGGAGATCTATG+AGG 0.552341 8:+74858581 None:intergenic
TATAGACTGCACCAATGTCC+AGG 0.557416 8:-74859764 MsaT045599.1:intron
TACTATCAATAGTGCCAAAG+TGG 0.558364 8:-74859563 MsaT045599.1:CDS
ATCTAATTCCACAAGAGATG+GGG 0.572263 8:-74858835 MsaT045599.1:CDS
TTAGGAAGAGAAGAAGTGGA+TGG 0.575841 8:-74858700 MsaT045599.1:CDS
AGGGAAACCAAAAGCCTGCA+TGG 0.579853 8:-74859987 MsaT045599.1:CDS
CATAACGACGAACTTGAAGA+AGG 0.581891 8:+74859827 None:intergenic
AACAAAGAGGAGATCTATGA+GGG 0.605762 8:+74858582 None:intergenic
GCTAACACTAATTAACAAAG+AGG 0.610407 8:+74858569 None:intergenic
ATATCCTTAAGTAGGGTGAA+AGG 0.612227 8:+74858885 None:intergenic
CCTTGCATCCAAGAGAGCAA+TGG 0.619111 8:+74859449 None:intergenic
CGATGAGATGGAAAGCAATG+AGG 0.624526 8:+74859856 None:intergenic
CATATTCAGGATCATCATCA+GGG 0.632732 8:-74858757 MsaT045599.1:CDS
AGGGTCAGAGAATATGAGCA+TGG 0.657131 8:-74858738 MsaT045599.1:CDS
TCTAATTCCACAAGAGATGG+GGG 0.658047 8:-74858834 MsaT045599.1:CDS
ATGTATATGTACCTGGACAT+TGG 0.663071 8:+74859753 None:intergenic
GGGATGAATTAGAAATGACA+AGG 0.706223 8:-74858814 MsaT045599.1:CDS
AACGACGAACTTGAAGAAGG+CGG 0.734968 8:+74859830 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 74858580 74860124 74858580 ID=MsaG045599
Chr8 mRNA 74858580 74860124 74858580 ID=MsaT045599.1;Parent=MsaG045599
Chr8 exon 74858580 74858936 74858580 ID=MsaT045599.1.exon4;Parent=MsaT045599.1
Chr8 CDS 74858580 74858936 74858580 ID=cds.MsaT045599.1;Parent=MsaT045599.1
Chr8 exon 74859450 74859590 74859450 ID=MsaT045599.1.exon3;Parent=MsaT045599.1
Chr8 CDS 74859450 74859590 74859450 ID=cds.MsaT045599.1;Parent=MsaT045599.1
Chr8 exon 74859765 74860007 74859765 ID=MsaT045599.1.exon2;Parent=MsaT045599.1
Chr8 CDS 74859765 74860007 74859765 ID=cds.MsaT045599.1;Parent=MsaT045599.1
Chr8 exon 74860116 74860124 74860116 ID=MsaT045599.1.exon1;Parent=MsaT045599.1
Chr8 CDS 74860116 74860124 74860116 ID=cds.MsaT045599.1;Parent=MsaT045599.1
Gene Sequence

>MsaT045599.1

ATGATCATGGGAAACCAAAAGCCTGCATGGTTGGAAGCTCTTTATACAGAAAAGTTCTTTGTTGGTTGTTCTTACCATGAGAATGCAAAAAAGAATGAGAAGAATGTTTGTTGCTTAGATTGTTGCACAAGTATTTGTCCTCATTGCTTTCCATCTCATCGCTACCGCCTTCTTCAAGTTCGTCGTTATGTTTATCATGATGTTCTTAGATTGGAAGAACTTGAGAAACTTATAGACTGCACCAATGTCCAGGCCTATACTATCAATAGTGCCAAAGTGGTGTTCATCAAGAAGAGACCTCAAAACCGCCAATTCAAAGGATCAGGAAACTACTGCACTTCATGTGATAGAATCCTCCAAGAACCTTTTATCCATTGCTCTCTTGGATGCAAGGTGGATTTTGTGCTGAAACACTACAAAGACCTTTCACCCTACTTAAGGATATGCAAGACCCTACAATTAAGTCCTGACTATCTAATTCCACAAGAGATGGGGGATGAATTAGAAATGACAAGGTCAACAATTGTGGATTGTGATGATCCAATGAGTTCATATTCAGGATCATCATCAGGGTCAGAGAATATGAGCATGGCATGCACAGAAATTGTTAGGAAGAGAAGAAGTGGATGGACAAGTATGTGTGCAAAATTCATGGCCAATAATAATAGCAATAAAGTTTCTGATGAAGATATGGCTACTAGTATGATTAGTAGAAGAAAAGGAGTCCCTCATAGATCTCCTCTTTGTTAA
Protein sequence

>MsaT045599.1

MIMGNQKPAWLEALYTEKFFVGCSYHENAKKNEKNVCCLDCCTSICPHCFPSHRYRLLQVRRYVYHDVLRLEELEKLIDCTNVQAYTINSAKVVFIKKRPQNRQFKGSGNYCTSCDRILQEPFIHCSLGCKVDFVLKHYKDLSPYLRICKTLQLSPDYLIPQEMGDELEMTRSTIVDCDDPMSSYSGSSSGSENMSMACTEIVRKRRSGWTSMCAKFMANNNSNKVSDEDMATSMISRRKGVPHRSPLC*