AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG037281

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG037281 MtrunA17_Chr7g0218151 93.082 159 11 0 1 159 1 159 2.27e-101 288
MsaG037281 MtrunA17_Chr4g0012761 92.453 159 12 0 1 159 1 159 5.36e-99 281
MsaG037281 MtrunA17_Chr1g0188661 85.535 159 23 0 1 159 1 159 6.85e-92 263
MsaG037281 MtrunA17_Chr5g0420351 71.795 156 44 0 1 156 1 156 3.02e-78 229
MsaG037281 MtrunA17_Chr1g0188681 70.701 157 46 0 1 157 1 157 2.62e-77 226
MsaG037281 MtrunA17_Chr1g0193311 76.923 156 36 0 1 156 1 156 4.10e-77 226
MsaG037281 MtrunA17_Chr1g0188651 75.472 159 37 1 1 159 1 157 3.21e-74 219
MsaG037281 MtrunA17_Chr1g0197461 56.863 153 66 0 3 155 2 154 1.27e-58 179
MsaG037281 MtrunA17_Chr1g0197261 54.839 155 70 0 1 155 1 155 1.38e-58 179
MsaG037281 MtrunA17_Chr1g0197321 51.923 156 74 1 1 155 1 156 3.77e-55 171
MsaG037281 MtrunA17_Chr3g0107381 45.752 153 82 1 1 152 1 153 2.89e-41 137
MsaG037281 MtrunA17_Chr4g0014321 40.645 155 90 2 1 153 1 155 6.04e-41 137
MsaG037281 MtrunA17_Chr3g0110131 47.771 157 81 1 1 156 1 157 6.48e-39 132
MsaG037281 MtrunA17_Chr4g0013041 39.103 156 91 3 1 154 1 154 1.71e-36 125
MsaG037281 MtrunA17_Chr8g0351751 40.252 159 91 2 1 155 1 159 2.06e-34 120
MsaG037281 MtrunA17_Chr5g0432691 36.538 156 98 1 1 155 1 156 5.01e-34 117
MsaG037281 MtrunA17_Chr3g0107331 41.401 157 91 1 3 158 2 158 4.70e-33 114
MsaG037281 MtrunA17_Chr3g0107351 42.208 154 88 1 3 155 2 155 7.50e-33 114
MsaG037281 MtrunA17_Chr3g0107361 40.260 154 91 1 3 155 2 155 7.84e-31 109
MsaG037281 MtrunA17_Chr3g0107341 39.610 154 92 1 3 155 2 155 5.68e-30 107
MsaG037281 MtrunA17_Chr4g0014031 40.667 150 87 2 1 148 1 150 8.88e-30 108
MsaG037281 MtrunA17_Chr3g0107461 34.591 159 102 2 1 157 1 159 2.53e-29 105
MsaG037281 MtrunA17_Chr2g0283941 38.365 159 96 2 1 157 1 159 3.59e-29 107
MsaG037281 MtrunA17_Chr4g0014121 40.000 160 94 2 1 158 29 188 4.15e-28 102
MsaG037281 MtrunA17_Chr4g0014131 37.888 161 98 2 1 159 1 161 2.76e-26 99.4
MsaG037281 MtrunA17_Chr2g0296831 41.525 118 68 1 1 117 1 118 1.64e-25 94.4
MsaG037281 MtrunA17_Chr2g0296861 34.194 155 101 1 1 154 1 155 9.83e-24 90.9
MsaG037281 MtrunA17_Chr4g0031421 34.351 131 84 2 29 157 1 131 1.77e-21 84.7
MsaG037281 MtrunA17_Chr3g0105791 35.115 131 83 2 29 157 1 131 2.93e-21 84.0
MsaG037281 MtrunA17_Chr4g0008701 34.091 132 83 2 1 128 1 132 3.22e-17 77.8
MsaG037281 MtrunA17_Chr3g0106501 32.824 131 86 2 29 157 1 131 2.38e-16 71.6
MsaG037281 MtrunA17_Chr7g0267601 34.259 108 70 1 3 109 6 113 4.71e-16 74.3
MsaG037281 MtrunA17_Chr3g0106421 33.077 130 83 3 29 155 1 129 1.83e-15 70.5
MsaG037281 MtrunA17_Chr1g0161931 45.745 94 50 1 64 156 28 121 9.90e-15 66.6
MsaG037281 MtrunA17_Chr1g0162261 41.837 98 56 1 62 158 20 117 1.53e-14 66.2
MsaG037281 MtrunA17_Chr1g0162181 38.938 113 62 2 53 158 5 117 1.69e-13 63.2
MsaG037281 MtrunA17_Chr6g0449861 32.031 128 74 5 1 115 9 136 4.97e-12 62.4
MsaG037281 MtrunA17_Chr3g0128721 32.292 96 63 1 3 98 6 99 2.41e-11 60.8
MsaG037281 MtrunA17_Chr6g0457851 32.500 80 48 3 1 74 11 90 2.99e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG037281 AT5G48670.1 46.405 153 81 1 1 152 1 153 1.51e-34 123
MsaG037281 AT3G05860.2 39.597 149 89 1 1 148 1 149 2.76e-32 114
MsaG037281 AT3G05860.3 39.597 149 89 1 1 148 1 149 1.33e-31 114
MsaG037281 AT3G05860.1 39.597 149 89 1 1 148 1 149 2.23e-31 113
MsaG037281 AT5G26630.1 38.750 160 97 1 1 159 1 160 3.28e-29 107
MsaG037281 AT1G65300.1 36.620 142 89 1 3 143 2 143 1.00e-27 104
MsaG037281 AT1G65330.1 36.735 147 92 1 3 148 2 148 3.96e-27 103
MsaG037281 AT5G26650.1 34.641 153 99 1 4 155 2 154 4.65e-25 99.0
MsaG037281 AT5G27960.1 33.987 153 100 1 4 155 2 154 8.73e-24 95.1
MsaG037281 AT1G31630.1 29.677 155 107 2 3 156 2 155 6.68e-22 90.1
MsaG037281 AT2G28700.1 33.557 149 98 1 1 148 1 149 7.18e-22 90.1
MsaG037281 AT5G27810.1 43.750 96 53 1 29 123 1 96 4.69e-21 83.2
MsaG037281 AT1G22590.2 29.012 162 99 3 1 155 1 153 2.74e-20 82.4
MsaG037281 AT1G31640.1 32.000 150 100 2 3 151 2 150 4.28e-19 83.2
MsaG037281 AT5G26580.1 32.258 155 92 1 1 155 1 142 1.12e-17 78.6
MsaG037281 AT2G40210.1 37.815 119 69 2 1 116 1 117 4.21e-15 71.6
MsaG037281 AT5G06500.1 30.818 159 106 3 1 157 1 157 1.04e-14 69.3
MsaG037281 AT5G58890.1 35.417 96 55 2 1 89 1 96 7.59e-13 65.1

Find 28 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCCTTTCTTGTTGAATCAT+TGG 0.233760 7:+55228127 None:intergenic
TGTTGAATCATTGGAAATAA+AGG 0.251603 7:+55228136 None:intergenic
TTTGCAAAAGGAAACTTTCT+TGG 0.282244 7:+55227910 None:intergenic
ACCTTTCCTCCTCCTCTTGT+AGG 0.282788 7:+55228103 None:intergenic
AGTTGAACATTCTTATGTTT+TGG 0.291264 7:-55227830 MsaT037281.1:CDS
TGTTTGGCTTCCTTTAGATT+TGG 0.353502 7:+55227987 None:intergenic
ATACCTCTCAATCACCTGTT+TGG 0.354870 7:+55227971 None:intergenic
TTCCAATGATTCAACAAGAA+AGG 0.389550 7:-55228129 MsaT037281.1:CDS
TCAGAAACAGTCACATCATC+TGG 0.393115 7:+55227786 None:intergenic
AAATCTAAAGGAAGCCAAAC+AGG 0.425294 7:-55227985 MsaT037281.1:CDS
CTTTAGTAATCATTTGCAAA+AGG 0.447168 7:+55227898 None:intergenic
TGTTTCTGATTTGAAAGACT+TGG 0.473410 7:-55227772 MsaT037281.1:CDS
TGCAAATGATTACTAAAGCT+AGG 0.481563 7:-55227893 MsaT037281.1:CDS
TTTCACCTTCTTCCTAGTCA+TGG 0.490416 7:+55228163 None:intergenic
GCAAATGATTACTAAAGCTA+GGG 0.492435 7:-55227892 MsaT037281.1:CDS
ACCTCTGTTTCAGAATCAAA+AGG 0.516061 7:+55228014 None:intergenic
ACCTACAAGAGGAGGAGGAA+AGG 0.522508 7:-55228104 MsaT037281.1:CDS
AGAGGTGTGGCCAAATCTAA+AGG 0.522555 7:-55227997 MsaT037281.1:CDS
AGAGAACTCACTATTCTTTG+TGG 0.526508 7:-55228065 MsaT037281.1:CDS
CAAAGCCATGACTAGGAAGA+AGG 0.543154 7:-55228168 None:intergenic
AGGAGACCTACAAGAGGAGG+AGG 0.545154 7:-55228109 MsaT037281.1:CDS
GAAGGAAATTGATGACAAGA+TGG 0.549956 7:-55227727 MsaT037281.1:CDS
GAAAGGAGACCTACAAGAGG+AGG 0.592612 7:-55228112 MsaT037281.1:CDS
TACATTGCAAAGCCATGACT+AGG 0.609749 7:-55228175 None:intergenic
GAGGAAAGGTATCATCAAGA+AGG 0.620547 7:-55228090 MsaT037281.1:CDS
TTGATTCTGAAACAGAGGTG+TGG 0.630350 7:-55228010 MsaT037281.1:CDS
AAGCCAAACAGGTGATTGAG+AGG 0.637552 7:-55227974 MsaT037281.1:CDS
CAAGAAAGGAGACCTACAAG+AGG 0.685284 7:-55228115 MsaT037281.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 55227704 55228183 55227704 ID=MsaG037281
Chr7 mRNA 55227704 55228183 55227704 ID=MsaT037281.1;Parent=MsaG037281
Chr7 exon 55227704 55228183 55227704 ID=MsaT037281.1.exon1;Parent=MsaT037281.1
Chr7 CDS 55227704 55228183 55227704 ID=cds.MsaT037281.1;Parent=MsaT037281.1
Gene Sequence

>MsaT037281.1

ATGACTAGGAAGAAGGTGAAACTCGCCTTTATTTCCAATGATTCAACAAGAAAGGAGACCTACAAGAGGAGGAGGAAAGGTATCATCAAGAAGGTGAGAGAACTCACTATTCTTTGTGGTATTTCAGCATGTGCTATAATTTCTGATCCTTTTGATTCTGAAACAGAGGTGTGGCCAAATCTAAAGGAAGCCAAACAGGTGATTGAGAGGTATCAAAACTCATATATGAAAGATGAGAGAAAAAATGTGAACCAAGAAAGTTTCCTTTTGCAAATGATTACTAAAGCTAGGGAACAACTGAGAATGCAAAGACACGACAATCATGAGAATGAGTTGAACATTCTTATGTTTTGGTACATGCAAAACAACAAGCTTCCAGATGATGTGACTGTTTCTGATTTGAAAGACTTGGATAAGTTAATTGAAAAAAATATGAAGGAAATTGATGACAAGATGGCTTCACTTAGTTTATCAAACTGA
Protein sequence

>MsaT037281.1

MTRKKVKLAFISNDSTRKETYKRRRKGIIKKVRELTILCGISACAIISDPFDSETEVWPNLKEAKQVIERYQNSYMKDERKNVNQESFLLQMITKAREQLRMQRHDNHENELNILMFWYMQNNKLPDDVTVSDLKDLDKLIEKNMKEIDDKMASLSLSN*