AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG008986

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG008986 MtrunA17_Chr2g0308321 85.985 528 29 7 1 486 1 525 0.0 787
MsaG008986 MtrunA17_Chr4g0061651 55.907 474 143 16 51 486 11 456 2.31e-140 412
MsaG008986 MtrunA17_Chr5g0420051 38.922 334 170 10 1 312 1 322 2.92e-54 188
MsaG008986 MtrunA17_Chr3g0132091 35.514 321 151 13 125 425 18 302 1.16e-33 130
MsaG008986 MtrunA17_Chr8g0386271 48.667 150 64 4 125 262 45 193 3.46e-29 118
MsaG008986 MtrunA17_Chr7g0224821 46.154 130 56 2 169 284 72 201 2.75e-26 109
MsaG008986 MtrunA17_Chr7g0258471 50.000 114 49 2 165 270 133 246 6.48e-25 106
MsaG008986 MtrunA17_Chr1g0162871 54.455 101 38 2 150 242 79 179 6.60e-25 108
MsaG008986 MtrunA17_Chr7g0231911 53.608 97 35 2 168 254 143 239 1.49e-24 103
MsaG008986 MtrunA17_Chr7g0270541 45.161 124 59 3 124 240 97 218 2.23e-24 107
MsaG008986 MtrunA17_Chr8g0334671 61.842 76 22 1 174 242 187 262 1.15e-23 101
MsaG008986 MtrunA17_Chr2g0302791 56.977 86 28 2 172 248 137 222 3.45e-23 103
MsaG008986 MtrunA17_Chr1g0194121 55.682 88 32 1 160 240 133 220 1.09e-22 102
MsaG008986 MtrunA17_Chr4g0046991 53.763 93 35 2 159 243 57 149 1.14e-22 94.4
MsaG008986 MtrunA17_Chr3g0122411 41.722 151 69 4 106 242 95 240 1.48e-22 100
MsaG008986 MtrunA17_Chr2g0282521 57.500 80 27 1 174 246 64 143 3.53e-22 92.4
MsaG008986 MtrunA17_Chr8g0360361 58.108 74 24 1 174 240 65 138 1.31e-20 89.4
MsaG008986 MtrunA17_Chr8g0377421 43.820 89 42 2 160 240 117 205 1.58e-16 80.5
MsaG008986 MtrunA17_Chr8g0377401 47.945 73 31 1 174 239 162 234 1.50e-14 73.6
MsaG008986 MtrunA17_Chr2g0286661 40.860 93 48 1 158 243 87 179 1.87e-14 76.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG008986 AT1G69170.1 51.807 166 59 4 125 278 83 239 9.20e-42 154
MsaG008986 AT5G50570.1 37.131 237 113 8 125 332 42 271 1.73e-29 119
MsaG008986 AT5G50570.2 37.131 237 113 8 125 332 42 271 1.73e-29 119
MsaG008986 AT5G50670.1 37.131 237 113 8 125 332 42 271 1.73e-29 119
MsaG008986 AT5G50670.2 37.131 237 113 8 125 332 42 271 1.73e-29 119
MsaG008986 AT1G20980.1 49.219 128 52 4 125 240 67 193 4.20e-26 112
MsaG008986 AT3G57920.1 55.238 105 39 2 146 242 30 134 1.37e-24 105
MsaG008986 AT1G27370.6 51.546 97 36 2 157 242 155 251 1.61e-24 104
MsaG008986 AT2G42200.1 51.818 110 41 3 159 256 57 166 1.83e-24 105
MsaG008986 AT2G47070.1 52.336 107 35 3 144 240 79 179 2.15e-24 107
MsaG008986 AT1G27370.1 51.546 97 36 2 157 242 155 251 3.28e-24 104
MsaG008986 AT1G27370.5 51.546 97 36 2 157 242 155 251 3.28e-24 104
MsaG008986 AT1G27370.3 51.546 97 36 2 157 242 155 251 3.28e-24 104
MsaG008986 AT1G27370.2 51.546 97 36 2 157 242 155 251 3.28e-24 104
MsaG008986 AT1G27370.4 51.546 97 36 2 157 242 155 251 3.28e-24 104
MsaG008986 AT1G27370.7 51.546 97 36 2 157 242 155 251 3.28e-24 104
MsaG008986 AT5G43270.3 43.284 134 67 2 120 244 113 246 5.01e-24 104
MsaG008986 AT5G43270.1 43.284 134 67 2 120 244 113 246 5.01e-24 104
MsaG008986 AT5G43270.2 43.284 134 67 2 120 244 113 246 5.01e-24 104
MsaG008986 AT1G02065.1 63.514 74 20 1 174 240 188 261 2.13e-23 101
MsaG008986 AT1G76580.3 55.102 98 31 2 158 242 92 189 5.15e-23 103
MsaG008986 AT1G76580.2 55.102 98 31 2 158 242 92 189 5.20e-23 103
MsaG008986 AT1G76580.1 55.102 98 31 2 158 242 92 189 8.92e-23 102
MsaG008986 AT3G60030.1 58.025 81 27 1 167 240 120 200 9.17e-23 102
MsaG008986 AT2G33810.1 56.757 74 25 1 174 240 54 127 8.07e-22 91.7
MsaG008986 AT1G27360.2 52.222 90 35 2 171 253 172 260 4.07e-21 95.5
MsaG008986 AT1G27360.1 52.222 90 35 2 171 253 172 260 4.07e-21 95.5
MsaG008986 AT1G27360.3 52.222 90 35 2 171 253 172 260 4.07e-21 95.5
MsaG008986 AT1G27360.4 52.222 90 35 2 171 253 172 260 4.07e-21 95.5
MsaG008986 AT1G53160.2 52.174 92 33 2 171 251 51 142 5.02e-21 90.5
MsaG008986 AT1G53160.1 52.174 92 33 2 171 251 51 142 5.02e-21 90.5
MsaG008986 AT1G53160.3 52.174 92 33 2 171 251 51 142 7.46e-21 90.1
MsaG008986 AT3G15270.1 50.000 96 35 3 174 256 63 158 3.07e-20 88.6
MsaG008986 AT5G18830.2 47.778 90 36 3 160 241 127 213 7.11e-15 77.8
MsaG008986 AT5G18830.3 47.778 90 36 3 160 241 127 213 7.14e-15 77.8
MsaG008986 AT5G18830.1 47.778 90 36 3 160 241 127 213 7.50e-15 77.8
MsaG008986 AT1G02065.2 63.415 41 15 0 174 214 188 228 3.50e-11 63.9

Find 105 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCCTTTCCTTCAAGAAAA+TGG 0.189331 2:+51474593 MsaT008986.1:CDS
TCGATTGGCTTGAAGAGTTT+TGG 0.194521 2:-51474824 None:intergenic
ACTATCCAGGTTTCATTTAC+TGG 0.225322 2:+51472820 MsaT008986.1:intron
TGAGGATGTGCATTTATAAT+TGG 0.243639 2:-51474533 None:intergenic
CCACAAGTTGGTATTCATTC+TGG 0.255651 2:+51472911 MsaT008986.1:CDS
AGAACCAAAGGTTCAATCTT+AGG 0.265075 2:+51471476 MsaT008986.1:CDS
ACCTATTGAGTTTGAATGCT+TGG 0.311089 2:-51471738 None:intergenic
GGGAGGTTGCTTCAGTCATA+TGG 0.315390 2:+51472941 MsaT008986.1:CDS
GCATCAGAGGCGAGCCTTGC+AGG 0.317553 2:+51475137 MsaT008986.1:CDS
AAACATGACTCATGCTATAA+TGG 0.320615 2:-51474893 None:intergenic
TTACTGTTTGATATCAATAT+AGG 0.332199 2:-51474981 None:intergenic
TCTCTTTCTGAAAATGCATT+TGG 0.333291 2:-51471692 None:intergenic
TATTGTTGTACGAAGGAAAC+AGG 0.337560 2:-51474565 None:intergenic
ATTGCTTACTGCCAAGTATA+TGG 0.338603 2:+51471923 MsaT008986.1:CDS
GCTTTCTACGACGCTCATTA+TGG 0.341005 2:-51472889 None:intergenic
CCAAGTATATGGATGTAATA+AGG 0.348075 2:+51471934 MsaT008986.1:CDS
CCAACCTAAGATTGAACCTT+TGG 0.348079 2:-51471480 None:intergenic
CCTATTGAGTTTGAATGCTT+GGG 0.355993 2:-51471737 None:intergenic
AGCTGTCATAAGCGTCTTGC+AGG 0.358377 2:+51472866 MsaT008986.1:CDS
GGAGGTTGCTTCAGTCATAT+GGG 0.364253 2:+51472942 MsaT008986.1:CDS
CCTTATTACATCCATATACT+TGG 0.392117 2:-51471934 None:intergenic
CACTTCCTAAGGAGGTATCT+TGG 0.394888 2:-51474707 None:intergenic
TGAGTTTGAATGCTTGGGCT+TGG 0.395759 2:-51471732 None:intergenic
GATGATGTTGATGTTGTTGT+TGG 0.405974 2:+51471629 MsaT008986.1:CDS
CAAAGGTTCAATCTTAGGTT+GGG 0.407849 2:+51471481 MsaT008986.1:CDS
ATCGTGGTCCCCTTAGAAAA+TGG 0.413161 2:-51471836 None:intergenic
CCTAAAACCGGTTCCGCCTT+CGG 0.416837 2:-51474495 None:intergenic
ATAAAAGCCGAAGGCGGAAC+CGG 0.423047 2:+51474488 MsaT008986.1:CDS
GATTTGAAGCTTGGTAGATT+TGG 0.426241 2:+51471788 MsaT008986.1:CDS
TCACTCATTGATTTGAAGCT+TGG 0.440222 2:+51471779 MsaT008986.1:CDS
ATCAGCTGTTCAAGGATTAT+CGG 0.450349 2:+51474755 MsaT008986.1:CDS
ATCGAAGAGGGTGAGGTCTT+CGG 0.459977 2:+51471886 MsaT008986.1:CDS
GGTATTCATTCTGGAAGAGC+TGG 0.460050 2:+51472920 MsaT008986.1:CDS
TTATTCCAAGATACCTCCTT+AGG 0.463781 2:+51474702 MsaT008986.1:CDS
TGATCCGAATTGAGCCTCCT+TGG 0.466971 2:-51474673 None:intergenic
CCAAAGGTTCAATCTTAGGT+TGG 0.470404 2:+51471480 MsaT008986.1:CDS
GAAACATACCCTTTATCTTG+TGG 0.475491 2:-51471434 None:intergenic
ATTGAAGTCTTCACTTCCTA+AGG 0.476688 2:-51474718 None:intergenic
GAAACAGAATCAGCTGTTCA+AGG 0.477684 2:+51474747 MsaT008986.1:CDS
AGAAATGTGGAAATAGTAAC+TGG 0.480981 2:+51474456 MsaT008986.1:CDS
CCCAAGCATTCAAACTCAAT+AGG 0.481003 2:+51471737 MsaT008986.1:CDS
CTATCCAAGGAGGCTCAATT+CGG 0.482431 2:+51474669 MsaT008986.1:CDS
AATGGTCGTGCCATCTTCAC+AGG 0.486457 2:-51475076 None:intergenic
ATGAGTCATGTTTCTGAAAG+TGG 0.489233 2:+51474903 MsaT008986.1:CDS
GACCGTCTTTCCTGTGAAGA+TGG 0.490853 2:+51475066 MsaT008986.1:CDS
CTGAAAGTGGCGTCTCGGAT+AGG 0.491794 2:+51474916 MsaT008986.1:CDS
TCAGCTGTTCAAGGATTATC+GGG 0.494261 2:+51474756 MsaT008986.1:CDS
GCATGGGAATTCCTGTCGAT+TGG 0.495766 2:-51474839 None:intergenic
ACTTCTAAAGTAATAGTGAA+TGG 0.503268 2:+51472016 MsaT008986.1:CDS
CCTCACCGGGGAGTATCTCT+TGG 0.503402 2:-51474421 None:intergenic
ATAATTGGAATAGAAGAAAG+AGG 0.509513 2:-51474518 None:intergenic
CTATAATGGCTGTGGCTGCT+CGG 0.513604 2:-51474879 None:intergenic
GGCAGTAAGCAATCTGAGAA+TGG 0.521246 2:-51471913 None:intergenic
TTACTGGCTGAATTTGATGA+TGG 0.521596 2:+51472836 MsaT008986.1:CDS
GAAAATGACAACAATAATCA+AGG 0.521619 2:+51471545 MsaT008986.1:CDS
AGAAGAAAGAGGCCTAAAAC+CGG 0.523177 2:-51474507 None:intergenic
AACTCTTCAAGCCAATCGAC+AGG 0.529123 2:+51474828 MsaT008986.1:CDS
CGACAGTTGAAGCAAGTCAA+TGG 0.529505 2:-51475094 None:intergenic
CGAATTGAGCCTCCTTGGAT+AGG 0.530727 2:-51474668 None:intergenic
TTGATCTTGTGATGGAGTCA+TGG 0.531002 2:+51471402 None:intergenic
AATAACTAAATGACCAGGCA+TGG 0.532105 2:-51474856 None:intergenic
TCGACAGGAATTCCCATGCC+TGG 0.536060 2:+51474843 MsaT008986.1:CDS
TCAGAAGATAAGACCTCACC+GGG 0.542752 2:-51474434 None:intergenic
GAGGTTGCTTCAGTCATATG+GGG 0.543950 2:+51472943 MsaT008986.1:CDS
CGACACCATCGAAGAGGGTG+AGG 0.555818 2:+51471879 MsaT008986.1:CDS
AGATTTGGTGATCATAGAGA+TGG 0.560484 2:+51471803 MsaT008986.1:CDS
GTATTCATTCTGGAAGAGCT+GGG 0.561734 2:+51472921 MsaT008986.1:CDS
TCTGAGTTAAATCATACAGA+TGG 0.562489 2:+51474945 MsaT008986.1:CDS
TTCAGCATGTTGAGCATCAG+AGG 0.563551 2:+51475124 MsaT008986.1:CDS
GAAGACCTCACCCTCTTCGA+TGG 0.563679 2:-51471884 None:intergenic
TGTTTCTGAAAGTGGCGTCT+CGG 0.565635 2:+51474911 MsaT008986.1:CDS
AATTGTTTATTGTTGTACGA+AGG 0.567910 2:-51474572 None:intergenic
GAAGTCTTCACTTCCTAAGG+AGG 0.571303 2:-51474715 None:intergenic
ATTGAGCCTCCTTGGATAGG+AGG 0.575056 2:-51474665 None:intergenic
CTCAGAAGATAAGACCTCAC+CGG 0.577587 2:-51474435 None:intergenic
ATATGCCAAGAGATACTCCC+CGG 0.578163 2:+51474416 MsaT008986.1:CDS
CTCGGAATAACTAAATGACC+AGG 0.578215 2:-51474861 None:intergenic
GGAAACAGGGTTCTTGAATG+AGG 0.578570 2:-51474551 None:intergenic
GACTCATGCTATAATGGCTG+TGG 0.580953 2:-51474887 None:intergenic
TGCCATCTTCACAGGAAAGA+CGG 0.587669 2:-51475068 None:intergenic
TCTGTATGATTTAACTCAGA+CGG 0.594329 2:-51474942 None:intergenic
AGTCAATATCCTCCTATCCA+AGG 0.597117 2:+51474656 MsaT008986.1:intron
AAAAGATGCTGATGTTAGCA+TGG 0.597201 2:-51474393 None:intergenic
TAGTGAATGGAATTGAACAA+AGG 0.600144 2:+51472029 MsaT008986.1:CDS
CGTCGTAGAAAGCCACAAGT+TGG 0.607871 2:+51472899 MsaT008986.1:CDS
CCAGAATGAATACCAACTTG+TGG 0.611115 2:-51472911 None:intergenic
ATAACTAAATGACCAGGCAT+GGG 0.613150 2:-51474855 None:intergenic
GTCTTATCTTCTGAGAAATG+TGG 0.623862 2:+51474443 MsaT008986.1:CDS
GTTGTAAAGATTATCACAAG+AGG 0.629804 2:+51471966 MsaT008986.1:CDS
ACACTTGGTAGTAGAACCAA+AGG 0.641812 2:+51471464 MsaT008986.1:CDS
ATCGTCGACACCATCGAAGA+GGG 0.642893 2:+51471874 MsaT008986.1:CDS
GATCGTCGACACCATCGAAG+AGG 0.649184 2:+51471873 MsaT008986.1:CDS
TATGTTTCAAATGACACACT+TGG 0.649632 2:+51471449 MsaT008986.1:CDS
TGCAGACCTATAAAAGCCGA+AGG 0.654610 2:+51474479 MsaT008986.1:CDS
GGATTATCGGGAGTATCAGA+CGG 0.658305 2:+51474768 MsaT008986.1:CDS
ATTGTTGTACGAAGGAAACA+GGG 0.661617 2:-51474564 None:intergenic
TCCAGACGACGACAAAATCG+TGG 0.669160 2:-51471852 None:intergenic
CCAAGAGATACTCCCCGGTG+AGG 0.681967 2:+51474421 MsaT008986.1:CDS
GGATGTAATAAGGATTTGAG+TGG 0.689862 2:+51471944 MsaT008986.1:CDS
CAATATCCTCCTATCCAAGG+AGG 0.696180 2:+51474659 MsaT008986.1:CDS
TTCATTCTGGAAGAGCTGGG+AGG 0.705305 2:+51472924 MsaT008986.1:CDS
AGACCTATAAAAGCCGAAGG+CGG 0.722914 2:+51474482 MsaT008986.1:CDS
AGGTTGCTTCAGTCATATGG+GGG 0.727655 2:+51472944 MsaT008986.1:CDS
TTATCGGGAGTATCAGACGG+TGG 0.745082 2:+51474771 MsaT008986.1:CDS
CAGAAGATAAGACCTCACCG+GGG 0.863209 2:-51474433 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 51471413 51475158 51471413 ID=MsaG008986
Chr2 mRNA 51471413 51475158 51471413 ID=MsaT008986.1;Parent=MsaG008986
Chr2 exon 51471413 51472050 51471413 ID=MsaT008986.1.exon1;Parent=MsaT008986.1
Chr2 CDS 51471413 51472050 51471413 ID=cds.MsaT008986.1;Parent=MsaT008986.1
Chr2 exon 51472829 51472965 51472829 ID=MsaT008986.1.exon2;Parent=MsaT008986.1
Chr2 CDS 51472829 51472965 51472829 ID=cds.MsaT008986.1;Parent=MsaT008986.1
Chr2 exon 51474390 51474614 51474390 ID=MsaT008986.1.exon3;Parent=MsaT008986.1
Chr2 CDS 51474390 51474614 51474390 ID=cds.MsaT008986.1;Parent=MsaT008986.1
Chr2 exon 51474658 51474999 51474658 ID=MsaT008986.1.exon4;Parent=MsaT008986.1
Chr2 CDS 51474658 51474999 51474658 ID=cds.MsaT008986.1;Parent=MsaT008986.1
Chr2 exon 51475043 51475158 51475043 ID=MsaT008986.1.exon5;Parent=MsaT008986.1
Chr2 CDS 51475043 51475158 51475043 ID=cds.MsaT008986.1;Parent=MsaT008986.1
Gene Sequence

>MsaT008986.1

ATGGAGTCATGGAGTTTTGATCCACAAGATAAAGGGTATGTTTCAAATGACACACTTGGTAGTAGAACCAAAGGTTCAATCTTAGGTTGGGATTTGAAAACCCCATCTAGTTTTTTACCTCAACAAAACATAGAAAATGACAACAATAATCAAGGTTTTGAGGAATTGGGTTTTCATGGTTTGTTGGGAAAACAATTGTCTAATGTTGTTGATGATGATGATGTTGATGTTGTTGTTGGTAGCAAAATTGTCACTAGTAGTTCTTTTGTTATGGCTGCACCAAATGCATTTTCAGAAAGAGAACAACAACACTTCAATTCCAAGCCCAAGCATTCAAACTCAATAGGTGACACTAATAGTTCTAATTCACTCATTGATTTGAAGCTTGGTAGATTTGGTGATCATAGAGATGGAATTGATACACCATTTTCTAAGGGGACCACGATTTTGTCGTCGTCTGGATCGTCGACACCATCGAAGAGGGTGAGGTCTTCGGCAGTCCATTCTCAGATTGCTTACTGCCAAGTATATGGATGTAATAAGGATTTGAGTGGTTGTAAAGATTATCACAAGAGGCATAAAGTTTGTGAAGTTCATTCAAAGACTTCTAAAGTAATAGTGAATGGAATTGAACAAAGGTTTCATTTACTGGCTGAATTTGATGATGGTAAGCGTAGCTGTCATAAGCGTCTTGCAGGCCATAATGAGCGTCGTAGAAAGCCACAAGTTGGTATTCATTCTGGAAGAGCTGGGAGGTTGCTTCAGTCATATGGGGGAACCATGCTAACATCAGCATCTTTTATATGCCAAGAGATACTCCCCGGTGAGGTCTTATCTTCTGAGAAATGTGGAAATAGTAACTGGTGCAGACCTATAAAAGCCGAAGGCGGAACCGGTTTTAGGCCTCTTTCTTCTATTCCAATTATAAATGCACATCCTCATTCAAGAACCCTGTTTCCTTCGTACAACAATAAACAATTTCCTTTCCTTCAAGAAAATGTCAATATCCTCCTATCCAAGGAGGCTCAATTCGGATCACAATCATTATTCCAAGATACCTCCTTAGGAAGTGAAGACTTCAATGTTTTTGAAACAGAATCAGCTGTTCAAGGATTATCGGGAGTATCAGACGGTGGTTGTGCTCTCTCTCTTCTGTCATCTCAATCCCAAAACTCTTCAAGCCAATCGACAGGAATTCCCATGCCTGGTCATTTAGTTATTCCGAGCAGCCACAGCCATTATAGCATGAGTCATGTTTCTGAAAGTGGCGTCTCGGATAGGTTTCCGTCTGAGTTAAATCATACAGATGGAAGTCATCTTAGTCCTATATTGATATCAAACAGGTCGGATTTTGTCAGCGTGAAAGACCGTCTTTCCTGTGAAGATGGCACGACCATTGACTTGCTTCAACTGTCGTCACAACTTCAGCATGTTGAGCATCAGAGGCGAGCCTTGCAG
Protein sequence

>MsaT008986.1

MESWSFDPQDKGYVSNDTLGSRTKGSILGWDLKTPSSFLPQQNIENDNNNQGFEELGFHGLLGKQLSNVVDDDDVDVVVGSKIVTSSSFVMAAPNAFSEREQQHFNSKPKHSNSIGDTNSSNSLIDLKLGRFGDHRDGIDTPFSKGTTILSSSGSSTPSKRVRSSAVHSQIAYCQVYGCNKDLSGCKDYHKRHKVCEVHSKTSKVIVNGIEQRFHLLAEFDDGKRSCHKRLAGHNERRRKPQVGIHSGRAGRLLQSYGGTMLTSASFICQEILPGEVLSSEKCGNSNWCRPIKAEGGTGFRPLSSIPIINAHPHSRTLFPSYNNKQFPFLQENVNILLSKEAQFGSQSLFQDTSLGSEDFNVFETESAVQGLSGVSDGGCALSLLSSQSQNSSSQSTGIPMPGHLVIPSSHSHYSMSHVSESGVSDRFPSELNHTDGSHLSPILISNRSDFVSVKDRLSCEDGTTIDLLQLSSQLQHVEHQRRALQ