AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG025364

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025364 MtrunA17_Chr5g0400781 97.059 272 5 3 1 271 1 270 0.0 528
MsaG025364 MtrunA17_Chr4g0054421 64.360 289 67 9 1 271 1 271 3.11e-98 288
MsaG025364 MtrunA17_Chr2g0308611 70.548 146 40 2 94 237 169 313 1.68e-64 205
MsaG025364 MtrunA17_Chr1g0175651 72.388 134 36 1 104 237 135 267 1.84e-63 201
MsaG025364 MtrunA17_Chr1g0151971 57.868 197 73 6 73 266 83 272 2.61e-63 200
MsaG025364 MtrunA17_Chr5g0399491 59.067 193 66 5 47 237 69 250 1.11e-62 199
MsaG025364 MtrunA17_Chr7g0258831 70.455 132 39 0 106 237 142 273 1.21e-62 199
MsaG025364 MtrunA17_Chr4g0055851 64.242 165 48 5 74 237 80 234 3.67e-61 194
MsaG025364 MtrunA17_Chr8g0335131 61.765 170 55 3 74 235 91 258 5.39e-60 192
MsaG025364 MtrunA17_Chr3g0135331 57.222 180 67 4 93 266 117 292 1.39e-50 168
MsaG025364 MtrunA17_Chr4g0044091 58.955 134 49 1 123 250 64 197 6.30e-48 158
MsaG025364 MtrunA17_Chr2g0299031 52.349 149 67 2 91 238 52 197 9.31e-41 140
MsaG025364 MtrunA17_Chr4g0071411 64.655 116 33 3 126 235 90 203 9.37e-38 132
MsaG025364 MtrunA17_Chr5g0416391 38.411 151 79 2 73 215 24 168 7.42e-20 86.7
MsaG025364 MtrunA17_Chr7g0217111 45.833 96 52 0 115 210 71 166 1.02e-18 83.6
MsaG025364 MtrunA17_Chr8g0362151 42.500 120 62 1 96 215 56 168 1.12e-18 83.6
MsaG025364 MtrunA17_Chr6g0453021 45.794 107 51 1 111 210 83 189 1.51e-18 83.2
MsaG025364 MtrunA17_Chr6g0450991 48.913 92 47 0 124 215 67 158 3.07e-18 82.4
MsaG025364 MtrunA17_Chr5g0415941 40.559 143 72 4 78 211 43 181 8.69e-18 81.6
MsaG025364 MtrunA17_Chr7g0265521 40.187 107 63 1 105 210 43 149 1.66e-16 76.6
MsaG025364 MtrunA17_Chr8g0362751 46.809 94 43 1 124 210 89 182 1.95e-16 77.4
MsaG025364 MtrunA17_Chr3g0119291 47.368 95 43 1 124 211 59 153 4.15e-16 75.9
MsaG025364 MtrunA17_Chr4g0060031 45.833 96 52 0 116 211 87 182 5.20e-16 76.6
MsaG025364 MtrunA17_Chr3g0123691 42.718 103 52 1 116 211 52 154 1.04e-15 75.5
MsaG025364 MtrunA17_Chr8g0381741 46.392 97 45 1 122 211 52 148 1.59e-15 75.1
MsaG025364 MtrunA17_Chr1g0179581 44.186 86 48 0 121 206 25 110 6.61e-15 69.3
MsaG025364 MtrunA17_Chr8g0346251 35.878 131 72 3 128 251 45 170 1.01e-12 66.2
MsaG025364 MtrunA17_Chr3g0127511 43.617 94 52 1 127 220 41 133 5.14e-12 64.3
MsaG025364 MtrunA17_Chr5g0403701 44.000 100 51 1 119 218 48 142 2.07e-11 62.0
MsaG025364 MtrunA17_Chr5g0403691 44.086 93 52 0 119 211 48 140 3.25e-11 61.6
MsaG025364 MtrunA17_Chr5g0410711 32.500 120 81 0 101 220 69 188 4.49e-11 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025364 AT4G37790.1 60.690 290 83 9 1 271 1 278 5.83e-93 276
MsaG025364 AT2G22800.1 57.093 289 91 8 1 271 1 274 1.14e-83 252
MsaG025364 AT5G06710.1 68.707 147 42 2 96 240 162 306 2.52e-65 207
MsaG025364 AT3G60390.1 59.091 176 58 3 74 235 99 274 8.47e-60 192
MsaG025364 AT4G16780.1 66.901 142 45 2 96 236 102 242 1.46e-59 191
MsaG025364 AT2G44910.1 54.822 197 76 4 49 236 84 276 2.78e-57 186
MsaG025364 AT5G47370.1 51.659 211 73 8 74 271 72 266 8.70e-56 181
MsaG025364 AT4G17460.1 55.747 174 66 5 74 237 77 249 3.18e-52 172
MsaG025364 AT2G01430.1 55.556 126 54 1 115 240 130 253 7.36e-41 142
MsaG025364 AT1G70920.2 51.852 135 54 2 116 246 27 154 2.28e-36 127
MsaG025364 AT1G70920.1 53.846 130 49 2 116 241 57 179 2.54e-36 129
MsaG025364 AT5G06710.4 70.732 82 20 2 96 175 162 241 4.40e-29 111
MsaG025364 AT2G01430.2 57.692 78 31 1 115 192 130 205 1.53e-21 90.1
MsaG025364 AT1G26960.1 41.593 113 66 0 116 228 63 175 1.89e-18 82.8
MsaG025364 AT1G69780.1 45.833 96 52 0 116 211 77 172 6.06e-18 82.0
MsaG025364 AT5G15150.1 42.500 120 62 2 98 213 92 208 9.89e-18 81.6
MsaG025364 AT3G01220.1 40.984 122 64 2 96 213 63 180 4.85e-17 79.3
MsaG025364 AT3G01470.1 47.312 93 42 1 124 209 68 160 8.73e-17 78.6
MsaG025364 AT5G65310.1 43.000 100 50 1 119 211 67 166 2.63e-15 74.7
MsaG025364 AT5G65310.2 43.000 100 50 1 119 211 49 148 2.92e-15 74.3
MsaG025364 AT4G40060.1 43.299 97 51 1 122 214 57 153 3.91e-15 74.3
MsaG025364 AT2G22430.1 44.792 96 49 1 122 213 60 155 2.17e-14 72.4
MsaG025364 AT5G03790.1 32.653 147 96 2 124 267 77 223 4.19e-14 70.5
MsaG025364 AT1G27045.4 46.875 96 44 1 124 212 68 163 4.96e-14 70.5
MsaG025364 AT1G27045.1 50.000 88 44 0 124 211 68 155 5.66e-14 69.7
MsaG025364 AT2G46680.1 42.424 99 53 1 121 215 29 127 7.52e-14 70.1
MsaG025364 AT2G46680.2 40.625 96 57 0 121 216 29 124 8.02e-14 70.1
MsaG025364 AT1G27045.5 57.576 66 28 0 124 189 25 90 9.47e-14 68.6
MsaG025364 AT1G27045.3 57.576 66 28 0 124 189 25 90 9.47e-14 68.6
MsaG025364 AT1G27045.2 57.576 66 28 0 124 189 17 82 1.21e-13 67.8
MsaG025364 AT2G18550.1 44.000 100 55 1 112 210 48 147 3.78e-13 67.4
MsaG025364 AT2G36610.1 42.857 98 48 2 123 212 70 167 4.70e-13 66.6
MsaG025364 AT5G03790.2 37.931 116 64 2 124 231 77 192 1.24e-11 62.8
MsaG025364 AT4G36740.1 43.678 87 49 0 124 210 55 141 1.25e-11 63.2
MsaG025364 AT4G36740.2 43.678 87 49 0 124 210 56 142 1.27e-11 63.2
MsaG025364 AT3G61890.1 42.353 85 49 0 127 211 33 117 2.72e-11 62.4

Find 66 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGTACCTGGCTCTCCGATTC+TGG 0.186509 5:+7370549 None:intergenic
GATTCTCTTCACCTTGTTCT+AGG 0.242496 5:-7371159 MsaT025364.1:CDS
AAACATTAACAGACGAAAAT+AGG 0.283618 5:-7369736 MsaT025364.1:CDS
GGATTGTAGAAATGAGTATT+TGG 0.305343 5:+7369548 None:intergenic
AAGCAATAGTGATTGTTCTT+TGG 0.306534 5:+7370795 None:intergenic
TGGCTCGTTGGAGGTGGAAT+AGG 0.345900 5:+7371074 None:intergenic
CGAAAATAGGAGGCTCAAAA+AGG 0.353329 5:-7369723 MsaT025364.1:CDS
TAGCGAGACAGTTGAATCTA+AGG 0.358273 5:-7370595 MsaT025364.1:CDS
GTGGTGGTAGTTATTTCCTT+TGG 0.358754 5:+7371111 None:intergenic
ATAGGGATTCATGGTGGTGG+TGG 0.418056 5:+7371092 None:intergenic
AAGTTCCTCACCATAACCTT+TGG 0.418493 5:+7370993 None:intergenic
GGGATTCATGGTGGTGGTGG+TGG 0.429866 5:+7371095 None:intergenic
AAACAAGCTCCCAAAGGTTA+TGG 0.433046 5:-7371003 MsaT025364.1:CDS
AAGAAGAAGTAGAAGAAGAG+AGG 0.435022 5:-7370882 MsaT025364.1:CDS
GGCTCGTTGGAGGTGGAATA+GGG 0.435231 5:+7371075 None:intergenic
GGCCGCGACAAGTTGAAGTA+TGG 0.440361 5:-7370574 MsaT025364.1:CDS
GTTAATTCATCTTTCTCAAG+TGG 0.450640 5:-7370940 MsaT025364.1:CDS
TCCTTAACGTTAGGACTCTC+TGG 0.452116 5:-7371051 MsaT025364.1:CDS
ACCAGAGAGTCCTAACGTTA+AGG 0.454957 5:+7371050 None:intergenic
TTGAAGTATGGTTCCAGAAT+CGG 0.456231 5:-7370562 MsaT025364.1:CDS
CGCAAGAAGGGCAGATGGAG+AGG 0.458550 5:+7369636 None:intergenic
CGCGTCGCCGACGGTGGTGG+TGG 0.459139 5:-7369602 MsaT025364.1:CDS
AGTTCCTCACCATAACCTTT+GGG 0.463230 5:+7370994 None:intergenic
CAGATGGAGAGGGTGGCTGC+AGG 0.465048 5:+7369647 None:intergenic
GGCCGCGTCGCCGACGGTGG+TGG 0.477523 5:-7369605 MsaT025364.1:CDS
GGTTCCAGAATCGGAGAGCC+AGG 0.479376 5:-7370553 MsaT025364.1:intron
TAAGGATGGCTCGTTGGAGG+TGG 0.501094 5:+7371068 None:intergenic
CAAATGCTAGAAAGAAACTT+AGG 0.503490 5:-7370822 MsaT025364.1:CDS
GAGAGGGTGGCTGCAGGCAT+AGG 0.510721 5:+7369653 None:intergenic
GGAGGTGGAATAGGGATTCA+TGG 0.513429 5:+7371083 None:intergenic
CGTTAAGGATGGCTCGTTGG+AGG 0.516004 5:+7371065 None:intergenic
AGAAGAAGTAGAAGAAGAGA+GGG 0.516839 5:-7370881 MsaT025364.1:CDS
CGGCCGAGTCTTTCGCAAGA+AGG 0.519322 5:+7369623 None:intergenic
CACCACCACCGTCGGCGACG+CGG 0.531823 5:+7369603 None:intergenic
AACGAGCCATCCTTAACGTT+AGG 0.533980 5:-7371060 MsaT025364.1:CDS
GGCCGAGTCTTTCGCAAGAA+GGG 0.542654 5:+7369624 None:intergenic
TTTGTTTAACATGCTGCAGA+AGG 0.543158 5:+7369515 None:intergenic
GAGAGTGCTGCAAGTGAAGA+GGG 0.544213 5:-7370917 MsaT025364.1:CDS
TTAATTCATCTTTCTCAAGT+GGG 0.546761 5:-7370939 MsaT025364.1:CDS
AGACTCGGCCGCGTCGCCGA+CGG 0.550522 5:-7369611 MsaT025364.1:CDS
GATGAATTAACAACACTATG+AGG 0.550657 5:+7370952 None:intergenic
CTCGGCCGCGTCGCCGACGG+TGG 0.550736 5:-7369608 MsaT025364.1:CDS
GAATACTTCTACTACTCCAA+AGG 0.557339 5:-7371127 MsaT025364.1:CDS
GGAGAGTGCTGCAAGTGAAG+AGG 0.575107 5:-7370918 MsaT025364.1:CDS
GAGCTTGTTTGTGATTTGTA+CGG 0.578033 5:+7371016 None:intergenic
GGAATAGGGATTCATGGTGG+TGG 0.578972 5:+7371089 None:intergenic
GAAATGAGTATTTGGAGCCA+TGG 0.579663 5:+7369556 None:intergenic
ATTAGAACCACCACCACCGT+CGG 0.589643 5:+7369595 None:intergenic
TCTTTCGCAAGAAGGGCAGA+TGG 0.591761 5:+7369631 None:intergenic
GCTGCAGAAGGATTGTTGAA+AGG 0.593411 5:+7369527 None:intergenic
GCAAGAAGGGCAGATGGAGA+GGG 0.596727 5:+7369637 None:intergenic
TGCCCTTCTTGCGAAAGACT+CGG 0.599355 5:-7369626 MsaT025364.1:CDS
AGTATTTGGAGCCATGGTGA+AGG 0.599655 5:+7369562 None:intergenic
AACCATACTTCAACTTGTCG+CGG 0.615090 5:+7370572 None:intergenic
GAGAGTCCTAACGTTAAGGA+TGG 0.616116 5:+7371054 None:intergenic
TAACGTTAAGGATGGCTCGT+TGG 0.618624 5:+7371062 None:intergenic
AGAAGGGCAGATGGAGAGGG+TGG 0.620648 5:+7369640 None:intergenic
CATTAACAGACGAAAATAGG+AGG 0.634319 5:-7369733 MsaT025364.1:CDS
TAAAATCACTGCCTTCACCA+TGG 0.649046 5:-7369573 MsaT025364.1:CDS
AAAGCTGAAACAAACAGAGG+TGG 0.651647 5:-7369786 MsaT025364.1:CDS
AGCTCCCAAAGGTTATGGTG+AGG 0.658770 5:-7370998 MsaT025364.1:CDS
AATCACAAACAAGCTCCCAA+AGG 0.673939 5:-7371009 MsaT025364.1:CDS
GGTGGAATAGGGATTCATGG+TGG 0.677474 5:+7371086 None:intergenic
TCAAAGATAAACCTAGAACA+AGG 0.685669 5:+7371148 None:intergenic
GCAGGCATAGGCATGTACAA+AGG 0.695698 5:+7369665 None:intergenic
AACAAAGCTGAAACAAACAG+AGG 0.748355 5:-7369789 MsaT025364.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 7369520 7371202 7369520 ID=MsaG025364
Chr5 mRNA 7369520 7371202 7369520 ID=MsaT025364.1;Parent=MsaG025364
Chr5 exon 7369520 7369811 7369520 ID=MsaT025364.1.exon3;Parent=MsaT025364.1
Chr5 CDS 7369520 7369811 7369520 ID=cds.MsaT025364.1;Parent=MsaT025364.1
Chr5 exon 7370554 7370633 7370554 ID=MsaT025364.1.exon2;Parent=MsaT025364.1
Chr5 CDS 7370554 7370633 7370554 ID=cds.MsaT025364.1;Parent=MsaT025364.1
Chr5 exon 7370759 7371202 7370759 ID=MsaT025364.1.exon1;Parent=MsaT025364.1
Chr5 CDS 7370759 7371202 7370759 ID=cds.MsaT025364.1;Parent=MsaT025364.1
Gene Sequence

>MsaT025364.1

ATGGGTCTTAATAATGATCAAGATTCTCTTCACCTTGTTCTAGGTTTATCTTTGAATACTTCTACTACTCCAAAGGAAATAACTACCACCACCACCACCATGAATCCCTATTCCACCTCCAACGAGCCATCCTTAACGTTAGGACTCTCTGGTGAGAGTTATAACCGTACAAATCACAAACAAGCTCCCAAAGGTTATGGTGAGGAACTTTGTAGACAAACTTCATCACCTCATAGTGTTGTTAATTCATCTTTCTCAAGTGGGAGAGTGCTGCAAGTGAAGAGGGAGAGAGATGAAGAAGAAGAAGTAGAAGAAGAGAGGGTTTCTTCAAGAGTTAGTGATGAAGATGAAGATGCTACAAATGCTAGAAAGAAACTTAGGCTTACCAAAGAACAATCACTATTGCTTGAAGAAAGCTTCAAACTACATAGCACTCTCAATCCTAAACAAAAACAAGCTTTAGCGAGACAGTTGAATCTAAGGCCGCGACAAGTTGAAGTATGGTTCCAGAATCGGAGAGCCAGAACAAAGCTGAAACAAACAGAGGTGGATTGCGAGTTCTTGAAGAAATGTTGTGAAACATTAACAGACGAAAATAGGAGGCTCAAAAAGGAGTTGCAAGAGTTGAAATCATTGAAAGTAGCACAACCTTTGTACATGCCTATGCCTGCAGCCACCCTCTCCATCTGCCCTTCTTGCGAAAGACTCGGCCGCGTCGCCGACGGTGGTGGTGGTTCTAATAAAATCACTGCCTTCACCATGGCTCCAAATACTCATTTCTACAATCCTTTCAACAATCCTTCTGCAGCATGTTAA
Protein sequence

>MsaT025364.1

MGLNNDQDSLHLVLGLSLNTSTTPKEITTTTTTMNPYSTSNEPSLTLGLSGESYNRTNHKQAPKGYGEELCRQTSSPHSVVNSSFSSGRVLQVKRERDEEEEVEEERVSSRVSDEDEDATNARKKLRLTKEQSLLLEESFKLHSTLNPKQKQALARQLNLRPRQVEVWFQNRRARTKLKQTEVDCEFLKKCCETLTDENRRLKKELQELKSLKVAQPLYMPMPAATLSICPSCERLGRVADGGGGSNKITAFTMAPNTHFYNPFNNPSAAC*