AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG006672

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006672 MtrunA17_Chr2g0283941 92.593 243 18 0 1 243 1 243 1.63e-168 464
MsaG006672 MtrunA17_Chr3g0107381 46.369 179 93 2 1 177 1 178 4.33e-48 158
MsaG006672 MtrunA17_Chr3g0106421 41.872 203 109 3 29 227 1 198 7.32e-47 155
MsaG006672 MtrunA17_Chr3g0107461 44.231 156 87 0 5 160 5 160 3.21e-42 141
MsaG006672 MtrunA17_Chr8g0351751 45.000 160 86 1 1 158 1 160 1.73e-39 137
MsaG006672 MtrunA17_Chr5g0432691 37.975 158 97 1 1 158 1 157 1.74e-38 131
MsaG006672 MtrunA17_Chr3g0105791 44.681 141 78 0 29 169 1 141 1.49e-37 128
MsaG006672 MtrunA17_Chr4g0014321 37.500 200 111 2 1 200 1 186 3.58e-37 130
MsaG006672 MtrunA17_Chr4g0031421 44.604 139 77 0 29 167 1 139 4.01e-37 127
MsaG006672 MtrunA17_Chr3g0110131 45.860 157 84 1 1 157 1 156 4.03e-36 128
MsaG006672 MtrunA17_Chr4g0014031 42.308 156 90 0 1 156 1 156 2.68e-34 122
MsaG006672 MtrunA17_Chr4g0013041 37.662 154 94 1 1 154 1 152 1.22e-31 115
MsaG006672 MtrunA17_Chr3g0106501 43.704 135 76 0 29 163 1 135 2.50e-30 110
MsaG006672 MtrunA17_Chr1g0188681 37.736 159 97 2 1 159 1 157 1.83e-29 108
MsaG006672 MtrunA17_Chr2g0296861 41.772 158 87 2 1 156 1 155 2.03e-29 108
MsaG006672 MtrunA17_Chr4g0014131 40.741 162 96 0 1 162 1 162 3.67e-29 109
MsaG006672 MtrunA17_Chr3g0107331 39.456 147 88 1 4 150 3 148 5.12e-29 107
MsaG006672 MtrunA17_Chr1g0197261 39.623 159 92 3 1 158 1 156 5.71e-29 107
MsaG006672 MtrunA17_Chr5g0420351 35.669 157 99 2 1 157 1 155 4.83e-28 104
MsaG006672 MtrunA17_Chr4g0014121 40.385 156 93 0 1 156 29 184 4.89e-28 105
MsaG006672 MtrunA17_Chr3g0107351 37.671 146 90 1 5 150 4 148 1.49e-26 100
MsaG006672 MtrunA17_Chr3g0107361 36.364 154 97 1 5 158 4 156 5.27e-26 99.4
MsaG006672 MtrunA17_Chr2g0296831 44.444 117 65 0 1 117 1 117 9.62e-26 97.4
MsaG006672 MtrunA17_Chr1g0197461 36.129 155 97 2 4 158 3 155 1.62e-25 98.2
MsaG006672 MtrunA17_Chr1g0197321 34.810 158 102 1 1 158 1 157 2.08e-25 97.8
MsaG006672 MtrunA17_Chr1g0188661 39.375 160 93 3 1 159 1 157 5.39e-25 96.7
MsaG006672 MtrunA17_Chr7g0218151 38.994 159 95 2 1 159 1 157 4.64e-24 94.4
MsaG006672 MtrunA17_Chr3g0107341 33.766 154 101 1 5 158 4 156 5.55e-24 94.4
MsaG006672 MtrunA17_Chr4g0012761 37.736 159 97 2 1 159 1 157 8.50e-23 90.9
MsaG006672 MtrunA17_Chr1g0193311 35.669 157 99 2 1 157 1 155 1.56e-21 87.8
MsaG006672 MtrunA17_Chr3g0128721 31.613 155 105 1 4 158 7 160 1.66e-21 92.8
MsaG006672 MtrunA17_Chr1g0188651 36.478 159 97 3 1 159 1 155 2.49e-20 84.3
MsaG006672 MtrunA17_Chr4g0008701 31.655 139 94 1 4 142 7 144 7.50e-19 85.1
MsaG006672 MtrunA17_Chr7g0267601 30.216 139 96 1 4 142 7 144 1.86e-18 84.0
MsaG006672 MtrunA17_Chr4g0022641 25.641 156 106 2 1 154 1 148 1.12e-13 69.7
MsaG006672 MtrunA17_Chr1g0212151 33.333 108 64 4 3 103 2 108 2.79e-13 68.2
MsaG006672 MtrunA17_Chr4g0059631 22.222 216 150 4 3 208 2 209 3.11e-12 64.7
MsaG006672 MtrunA17_Chr6g0457851 25.490 204 132 7 3 197 12 204 3.68e-12 65.1
MsaG006672 MtrunA17_Chr6g0449851 27.044 159 100 5 3 154 2 151 1.07e-11 63.5
MsaG006672 MtrunA17_Chr1g0212471 36.000 100 57 4 3 96 2 100 2.25e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006672 AT5G48670.1 43.871 155 86 1 1 155 1 154 2.16e-31 118
MsaG006672 AT3G05860.3 36.158 177 108 2 1 175 1 174 4.14e-30 112
MsaG006672 AT3G05860.2 36.158 177 108 2 1 175 1 174 4.61e-30 111
MsaG006672 AT3G05860.1 36.158 177 108 2 1 175 1 174 6.13e-30 112
MsaG006672 AT1G65300.1 35.065 154 99 1 4 157 3 155 1.63e-28 109
MsaG006672 AT5G27960.1 34.839 155 100 1 4 158 2 155 2.74e-27 107
MsaG006672 AT5G26650.1 35.484 155 99 1 4 158 2 155 3.43e-27 107
MsaG006672 AT1G65330.1 35.065 154 99 1 5 158 4 156 2.57e-25 100
MsaG006672 AT2G28700.1 32.895 152 97 2 1 150 1 149 1.24e-22 94.7
MsaG006672 AT1G31640.1 33.775 151 94 3 5 153 4 150 4.23e-22 94.7
MsaG006672 AT1G31630.1 31.293 147 99 2 5 151 4 148 1.23e-21 92.0
MsaG006672 AT1G22590.2 31.013 158 105 1 1 158 1 154 7.56e-21 86.3
MsaG006672 AT5G27810.1 40.860 93 55 0 29 121 1 93 1.24e-19 82.0
MsaG006672 AT2G40210.1 35.915 142 89 1 1 142 1 140 1.09e-18 84.3
MsaG006672 AT5G26580.1 29.114 158 97 2 1 158 1 143 1.65e-16 77.8
MsaG006672 AT5G06500.1 29.560 159 104 3 1 156 1 154 4.40e-16 75.5
MsaG006672 AT5G26630.1 32.278 158 106 1 1 158 1 157 6.37e-16 74.7
MsaG006672 AT5G55690.1 45.455 77 34 3 3 71 2 78 4.05e-15 73.2
MsaG006672 AT5G55690.2 45.455 77 34 3 3 71 2 78 4.05e-15 73.2
MsaG006672 AT5G58890.1 42.308 78 38 2 1 71 1 78 8.58e-14 69.7

Find 62 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAAATACTTTAGTAATAAAT+TGG 0.162034 2:-8279181 None:intergenic
CTTCAGATTGTTGTCTAAAA+AGG 0.184609 2:-8279261 None:intergenic
AATAGGTAATGAGGGTAATA+AGG 0.250530 2:+8279361 MsaT006672.1:CDS
AGGAGATATGCAAGCTAATA+TGG 0.251220 2:+8279409 MsaT006672.1:CDS
TTGGATAGCAACATGAATTA+TGG 0.300972 2:+8279455 MsaT006672.1:CDS
TTGATCATCGTTGTCATGAC+TGG 0.312663 2:+8278483 None:intergenic
GATAACACATTTCTTGTTGC+AGG 0.342611 2:-8279023 None:intergenic
GGTAATAAGGGTGATGCATC+AGG 0.346713 2:+8279374 MsaT006672.1:CDS
TGCCTTCCTGCTCGATGAAT+TGG 0.351091 2:-8278532 None:intergenic
ATACGGACATAAATGGTCTT+TGG 0.354339 2:+8279540 MsaT006672.1:CDS
TTCAATAGGTTTGCTAAAGA+AGG 0.384024 2:+8278911 MsaT006672.1:intron
GCAGAAGATATGAATGGAAT+AGG 0.400967 2:+8279344 MsaT006672.1:CDS
AGCATTTCATGATGTTAATA+CGG 0.402387 2:+8279523 MsaT006672.1:CDS
GAAGCATGCGCAATAATCTT+TGG 0.415897 2:+8278963 MsaT006672.1:CDS
ATTGTTGTTGAAGAAACAAA+TGG 0.421492 2:+8279133 MsaT006672.1:CDS
ACAATCTGAAGGAAATTGAT+TGG 0.429161 2:+8279273 MsaT006672.1:CDS
ATTGAGATTTCGCTATACTT+TGG 0.431628 2:-8279112 None:intergenic
GATGTTAATACGGACATAAA+TGG 0.434993 2:+8279533 MsaT006672.1:CDS
GGACCTTGTGGCCAAACCTC+TGG 0.435290 2:-8279002 None:intergenic
TGGTGCTGAGGTTCAAGGTT+TGG 0.437569 2:+8279436 MsaT006672.1:CDS
TCTCAAGAGGAAGCTGGAAA+TGG 0.439401 2:+8279320 MsaT006672.1:CDS
ACAATGCTCAACCAGAGGTT+TGG 0.442796 2:+8278991 MsaT006672.1:CDS
TTCAGGCAAGTGTAGGAACT+TGG 0.447788 2:-8279045 None:intergenic
AAATACTTTAGTAATAAATT+GGG 0.448846 2:-8279180 None:intergenic
CTCATTCACGTTCACATCCT+CGG 0.451043 2:-8279222 None:intergenic
ATAGGTAATGAGGGTAATAA+GGG 0.483783 2:+8279362 MsaT006672.1:CDS
GGACATGGTGCTGAGGTTCA+AGG 0.490486 2:+8279431 MsaT006672.1:CDS
ATTACTAAAGTATTTAGTAC+TGG 0.490777 2:+8279188 MsaT006672.1:CDS
TATGAATGGAATAGGTAATG+AGG 0.512938 2:+8279352 MsaT006672.1:CDS
TCATTCACGTTCACATCCTC+GGG 0.514972 2:-8279221 None:intergenic
TGATTGGAGGTTGCAATCGA+TGG 0.516726 2:+8279289 MsaT006672.1:CDS
ATTCAATCTCAAGAGGAAGC+TGG 0.518424 2:+8279314 MsaT006672.1:CDS
CAACCAGAGGTTTGGCCACA+AGG 0.519368 2:+8278999 MsaT006672.1:CDS
TGATCATCGTTGTCATGACT+GGG 0.524662 2:+8278484 None:intergenic
ATGAATGGAATAGGTAATGA+GGG 0.529671 2:+8279353 MsaT006672.1:CDS
AATGGAGCAGAAGATATGAA+TGG 0.530854 2:+8279338 MsaT006672.1:CDS
GGAGATATGCAAGCTAATAT+GGG 0.532480 2:+8279410 MsaT006672.1:CDS
CGTTGTCATGACTGGGAGGA+AGG 0.534161 2:+8278491 None:intergenic
GTTCGATTTCAGGCAAGTGT+AGG 0.534412 2:-8279052 None:intergenic
TTTCTTGTTGCAGGACCTTG+TGG 0.537057 2:-8279014 None:intergenic
ACATAGCCAATTCATCGAGC+AGG 0.541522 2:+8278526 MsaT006672.1:CDS
ATCTGAAGGAAATTGATTGG+AGG 0.552242 2:+8279276 MsaT006672.1:CDS
TAAGGGTGATGCATCAGGGC+TGG 0.558559 2:+8279379 MsaT006672.1:CDS
TGATTATCAAGATCCACCTT+GGG 0.562050 2:+8279487 MsaT006672.1:CDS
GTGATTATCAAGATCCACCT+TGG 0.566592 2:+8279486 MsaT006672.1:CDS
GATGGAAATTCAATCTCAAG+AGG 0.602763 2:+8279307 MsaT006672.1:CDS
TAGCAACATGAATTATGGCA+TGG 0.605759 2:+8279460 MsaT006672.1:CDS
ATGAAATCAGCACTCTATGT+GGG 0.608529 2:+8278937 MsaT006672.1:CDS
AATGAAATCAGCACTCTATG+TGG 0.614486 2:+8278936 MsaT006672.1:CDS
GCATCAGGGCTGGTGAATGT+AGG 0.618345 2:+8279389 MsaT006672.1:CDS
TAATATGGGACATGGTGCTG+AGG 0.638411 2:+8279424 MsaT006672.1:CDS
GAATGAGCTGAATGACCTGA+TGG 0.641130 2:+8279238 MsaT006672.1:CDS
ATGCAAGCTAATATGGGACA+TGG 0.644357 2:+8279416 MsaT006672.1:CDS
AACATCATGAAATGCTAACA+TGG 0.649787 2:-8279516 None:intergenic
GTAATAAGGGTGATGCATCA+GGG 0.652229 2:+8279375 MsaT006672.1:CDS
GTTGTTGAAGAAACAAATGG+AGG 0.654091 2:+8279136 MsaT006672.1:CDS
AGCCAATTCATCGAGCAGGA+AGG 0.659357 2:+8278530 MsaT006672.1:CDS
TACTGGACAATATTGTCCCG+AGG 0.664224 2:+8279205 MsaT006672.1:CDS
GCTAACATGGAGAAGTCCCA+AGG 0.667501 2:-8279503 None:intergenic
TGAAAACAATGCTCAACCAG+AGG 0.685492 2:+8278986 MsaT006672.1:CDS
AACATGGAGAAGTCCCAAGG+TGG 0.697499 2:-8279500 None:intergenic
TCATCGTTGTCATGACTGGG+AGG 0.723014 2:+8278487 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 8278498 8279571 8278498 ID=MsaG006672
Chr2 mRNA 8278498 8279571 8278498 ID=MsaT006672.1;Parent=MsaG006672
Chr2 exon 8278498 8278576 8278498 ID=MsaT006672.1.exon1;Parent=MsaT006672.1
Chr2 CDS 8278498 8278576 8278498 ID=cds.MsaT006672.1;Parent=MsaT006672.1
Chr2 exon 8278919 8279571 8278919 ID=MsaT006672.1.exon2;Parent=MsaT006672.1
Chr2 CDS 8278919 8279571 8278919 ID=cds.MsaT006672.1;Parent=MsaT006672.1
Gene Sequence

>MsaT006672.1

ATGACTGGGAGGAAGGTTAAACTTGCATACATAGCCAATTCATCGAGCAGGAAGGCAAGCTACAAAAAAAGGAAAGCTGGTTTGCTAAAGAAGGTTAATGAAATCAGCACTCTATGTGGGATAGAAGCATGCGCAATAATCTTTGGTGAAAACAATGCTCAACCAGAGGTTTGGCCACAAGGTCCTGCAACAAGAAATGTGTTATCCAAGTTCCTACACTTGCCTGAAATCGAACGAAGCAAAAATATGGTGGATTTGACAGCTTACTTAAACCAAAGTATAGCGAAATCTCAATTGTTGTTGAAGAAACAAATGGAGGCAAACAAGAAGAATGAATTCGCCCAATTTATTACTAAAGTATTTAGTACTGGACAATATTGTCCCGAGGATGTGAACGTGAATGAGCTGAATGACCTGATGGCCTTTTTAGACAACAATCTGAAGGAAATTGATTGGAGGTTGCAATCGATGGAAATTCAATCTCAAGAGGAAGCTGGAAATGGAGCAGAAGATATGAATGGAATAGGTAATGAGGGTAATAAGGGTGATGCATCAGGGCTGGTGAATGTAGGAGATATGCAAGCTAATATGGGACATGGTGCTGAGGTTCAAGGTTTGGATAGCAACATGAATTATGGCATGGAAAGTGATTATCAAGATCCACCTTGGGACTTCTCCATGTTAGCATTTCATGATGTTAATACGGACATAAATGGTCTTTGGTCTAACTAG
Protein sequence

>MsaT006672.1

MTGRKVKLAYIANSSSRKASYKKRKAGLLKKVNEISTLCGIEACAIIFGENNAQPEVWPQGPATRNVLSKFLHLPEIERSKNMVDLTAYLNQSIAKSQLLLKKQMEANKKNEFAQFITKVFSTGQYCPEDVNVNELNDLMAFLDNNLKEIDWRLQSMEIQSQEEAGNGAEDMNGIGNEGNKGDASGLVNVGDMQANMGHGAEVQGLDSNMNYGMESDYQDPPWDFSMLAFHDVNTDINGLWSN*