AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG004481

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004481 MtrunA17_Chr1g0197261 92.308 156 12 0 1 156 1 156 5.06e-104 294
MsaG004481 MtrunA17_Chr1g0197321 71.338 157 44 1 1 156 1 157 1.83e-79 232
MsaG004481 MtrunA17_Chr5g0420351 60.000 155 62 0 1 155 1 155 1.78e-63 191
MsaG004481 MtrunA17_Chr1g0197461 61.039 154 60 0 3 156 2 155 2.05e-62 189
MsaG004481 MtrunA17_Chr1g0193311 63.871 155 56 0 1 155 1 155 6.15e-61 185
MsaG004481 MtrunA17_Chr1g0188661 61.290 155 60 0 1 155 1 155 3.63e-59 181
MsaG004481 MtrunA17_Chr1g0188681 57.419 155 66 0 1 155 1 155 1.12e-58 179
MsaG004481 MtrunA17_Chr4g0012761 60.000 155 62 0 1 155 1 155 1.00e-56 174
MsaG004481 MtrunA17_Chr7g0218151 60.000 155 62 0 1 155 1 155 1.16e-56 174
MsaG004481 MtrunA17_Chr1g0188651 56.129 155 66 1 1 155 1 153 1.20e-47 151
MsaG004481 MtrunA17_Chr3g0107331 43.226 155 87 1 3 156 2 156 1.82e-39 130
MsaG004481 MtrunA17_Chr3g0107351 43.871 155 86 1 3 156 2 156 1.99e-39 130
MsaG004481 MtrunA17_Chr3g0107361 41.935 155 89 1 3 156 2 156 3.20e-37 125
MsaG004481 MtrunA17_Chr3g0107341 41.290 155 90 1 3 156 2 156 6.14e-37 124
MsaG004481 MtrunA17_Chr4g0014321 36.709 158 98 2 1 156 1 158 8.95e-36 123
MsaG004481 MtrunA17_Chr3g0110131 41.667 156 90 1 1 155 1 156 2.58e-34 120
MsaG004481 MtrunA17_Chr3g0107381 35.714 154 98 1 1 153 1 154 3.26e-34 119
MsaG004481 MtrunA17_Chr4g0013041 36.364 154 94 3 1 152 1 152 1.66e-33 117
MsaG004481 MtrunA17_Chr4g0014031 41.139 158 91 2 1 156 1 158 4.74e-32 114
MsaG004481 MtrunA17_Chr2g0283941 41.026 156 90 2 1 154 1 156 2.81e-31 112
MsaG004481 MtrunA17_Chr8g0351751 36.250 160 98 3 1 156 1 160 6.23e-31 111
MsaG004481 MtrunA17_Chr5g0432691 34.395 157 102 1 1 156 1 157 2.25e-29 105
MsaG004481 MtrunA17_Chr2g0296831 42.149 121 69 1 1 120 1 121 3.86e-27 98.6
MsaG004481 MtrunA17_Chr4g0014121 40.385 156 91 2 1 154 29 184 4.51e-27 100
MsaG004481 MtrunA17_Chr4g0014131 39.873 158 93 2 1 156 1 158 4.83e-25 95.9
MsaG004481 MtrunA17_Chr3g0107461 28.662 157 110 2 1 155 1 157 3.19e-20 81.6
MsaG004481 MtrunA17_Chr2g0296861 29.032 155 109 1 1 154 1 155 4.10e-18 76.3
MsaG004481 MtrunA17_Chr4g0008701 31.288 163 94 5 1 145 1 163 8.12e-18 79.3
MsaG004481 MtrunA17_Chr7g0267601 32.317 164 91 7 1 145 1 163 3.29e-17 77.4
MsaG004481 MtrunA17_Chr1g0162261 46.809 94 49 1 64 156 22 115 3.78e-17 72.8
MsaG004481 MtrunA17_Chr3g0128721 29.677 155 108 1 3 156 6 160 1.15e-16 75.9
MsaG004481 MtrunA17_Chr4g0031421 30.469 128 83 3 29 152 1 126 2.62e-16 71.2
MsaG004481 MtrunA17_Chr3g0106501 31.538 130 87 2 29 156 1 130 6.61e-16 70.5
MsaG004481 MtrunA17_Chr3g0106421 31.008 129 87 2 29 155 1 129 1.91e-15 70.5
MsaG004481 MtrunA17_Chr1g0161931 38.776 98 59 1 60 156 24 121 2.21e-15 68.2
MsaG004481 MtrunA17_Chr3g0105791 28.906 128 85 3 29 152 1 126 4.39e-14 65.5
MsaG004481 MtrunA17_Chr1g0162181 43.617 94 52 1 64 156 22 115 6.98e-14 64.3
MsaG004481 MtrunA17_Chr6g0449861 30.469 128 76 4 1 115 9 136 5.26e-12 62.4
MsaG004481 MtrunA17_Chr6g0457851 24.845 161 108 6 1 155 11 164 2.49e-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
MsaG004481 AT3G05860.2 41.611 149 86 1 1 148 1 149 1.10e-32 115
MsaG004481 AT3G05860.3 41.611 149 86 1 1 148 1 149 5.99e-32 114
MsaG004481 AT3G05860.1 41.611 149 86 1 1 148 1 149 7.77e-32 114
MsaG004481 AT1G65300.1 35.714 154 98 1 3 155 2 155 6.44e-31 112
MsaG004481 AT5G48670.1 42.949 156 88 1 1 155 1 156 2.15e-30 112
MsaG004481 AT1G65330.1 35.714 154 98 1 3 155 2 155 1.74e-28 106
MsaG004481 AT5G26630.1 37.821 156 96 1 1 155 1 156 3.32e-28 104
MsaG004481 AT1G22590.2 37.975 158 92 3 1 156 1 154 4.92e-27 99.8
MsaG004481 AT1G31640.1 35.333 150 95 2 3 151 2 150 3.83e-24 97.4
MsaG004481 AT5G26650.1 33.987 153 100 1 4 155 2 154 5.48e-24 95.9
MsaG004481 AT1G31630.1 30.464 151 103 2 3 152 2 151 1.90e-23 94.4
MsaG004481 AT5G27960.1 32.680 153 102 1 4 155 2 154 1.98e-22 91.3
MsaG004481 AT5G27810.1 40.625 96 56 1 29 123 1 96 8.39e-20 79.7
MsaG004481 AT2G28700.1 32.283 127 79 2 1 123 1 124 1.22e-19 84.0
MsaG004481 AT5G06500.1 35.526 152 84 5 1 145 1 145 5.27e-19 80.9
MsaG004481 AT5G26580.1 28.387 155 98 1 1 155 1 142 1.73e-15 72.4
MsaG004481 AT2G40210.1 32.143 140 89 3 1 137 1 137 4.90e-12 62.8

Find 25 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTACCTTCTTGGCTTCTTC+TGG 0.189716 1:+70061548 None:intergenic
ATACCTCTCAATTACCTTCT+TGG 0.215921 1:+70061538 None:intergenic
TGCCTTCCTTGCCGCGTTAT+CGG 0.274204 1:+70061694 None:intergenic
GACAACACTTTGTGATATTC+CGG 0.300516 1:-70061624 MsaT004481.1:CDS
TTCTTGGCTTCTTCTGGATT+CGG 0.341741 1:+70061554 None:intergenic
TCTGCAGAATGTATCTTTCA+TGG 0.389169 1:+70061477 None:intergenic
TTGATTCTCAGACTGAGGTT+TGG 0.414602 1:-70061577 MsaT004481.1:CDS
TGCCGCGTTATCGGAGATAA+AGG 0.416769 1:+70061703 None:intergenic
CTCCGATAACGCGGCAAGGA+AGG 0.449540 1:-70061696 MsaT004481.1:CDS
AAGCTACAATAAAAGAAAGA+AGG 0.492405 1:-70061672 MsaT004481.1:CDS
TTTCACCTTCCTTCTCGTCA+TGG 0.502842 1:+70061730 None:intergenic
ACCTCAGTCTGAGAATCAAA+AGG 0.514840 1:+70061581 None:intergenic
GCATGTTGAGAAGAAGTTGA+AGG 0.520532 1:-70061312 MsaT004481.1:CDS
AGTCTGAGAATCAAAAGGAC+TGG 0.521393 1:+70061586 None:intergenic
TGCAGATGATTGCTAAAGCA+AGG 0.540172 1:-70061460 MsaT004481.1:CDS
AAAGAAGGGTCTCATAAAGA+AGG 0.555375 1:-70061657 MsaT004481.1:CDS
AGCTACAATAAAAGAAAGAA+GGG 0.567899 1:-70061671 MsaT004481.1:CDS
TGTTGAGAAGAAGTTGAAGG+AGG 0.578028 1:-70061309 MsaT004481.1:CDS
TGCAACCATGACGAGAAGGA+AGG 0.595441 1:-70061735 None:intergenic
GAATCCAGAAGAAGCCAAGA+AGG 0.598410 1:-70061552 MsaT004481.1:CDS
TGCCTTTATCTCCGATAACG+CGG 0.613273 1:-70061705 MsaT004481.1:CDS
TTATCTCCGATAACGCGGCA+AGG 0.616944 1:-70061700 MsaT004481.1:CDS
CTGGAAATTATAGCACAAGC+CGG 0.619015 1:+70061605 None:intergenic
GCAGATGATTGCTAAAGCAA+GGG 0.625022 1:-70061459 MsaT004481.1:CDS
AAGCCAAGAAGGTAATTGAG+AGG 0.625836 1:-70061541 MsaT004481.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 70061280 70061750 70061280 ID=MsaG004481
Chr1 mRNA 70061280 70061750 70061280 ID=MsaT004481.1;Parent=MsaG004481
Chr1 exon 70061280 70061750 70061280 ID=MsaT004481.1.exon1;Parent=MsaT004481.1
Chr1 CDS 70061280 70061750 70061280 ID=cds.MsaT004481.1;Parent=MsaT004481.1
Gene Sequence

>MsaT004481.1

ATGACGAGAAGGAAGGTGAAAATTGCCTTTATCTCCGATAACGCGGCAAGGAAGGCAAGCTACAATAAAAGAAAGAAGGGTCTCATAAAGAAGGTAACTGAACTGACAACACTTTGTGATATTCCGGCTTGTGCTATAATTTCCAGTCCTTTTGATTCTCAGACTGAGGTTTGGCCGAATCCAGAAGAAGCCAAGAAGGTAATTGAGAGGTATCAAAGTTATTCTTTGATAGATGAAAACAAGAATGTGAGCCATGAAAGATACATTCTGCAGATGATTGCTAAAGCAAGGGACAAACTAAGAAAGTTGAAGCATGACAATCGTGAGCAAGAGCTGAATCTTTTTATGCTACGGAACTTGAAAAATAACAATTTGTATGAAGACCTAACTGCTGAAGAACTGAAAAATCTTGCTAAGCATGTTGAGAAGAAGTTGAAGGAGGTTGATGACAAGATTGATACACTTGATTGA
Protein sequence

>MsaT004481.1

MTRRKVKIAFISDNAARKASYNKRKKGLIKKVTELTTLCDIPACAIISSPFDSQTEVWPNPEEAKKVIERYQSYSLIDENKNVSHERYILQMIAKARDKLRKLKHDNREQELNLFMLRNLKNNNLYEDLTAEELKNLAKHVEKKLKEVDDKIDTLD*