AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG041038

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG041038 MtrunA17_Chr8g0335131 98.366 306 4 1 1 306 1 305 0.0 620
MsaG041038 MtrunA17_Chr5g0399491 58.387 310 96 11 3 304 4 288 1.91e-98 291
MsaG041038 MtrunA17_Chr4g0055851 58.249 297 90 11 1 297 3 265 4.26e-95 282
MsaG041038 MtrunA17_Chr7g0258831 64.706 187 51 4 78 260 98 273 2.54e-70 219
MsaG041038 MtrunA17_Chr1g0175651 70.625 160 28 4 103 262 129 269 1.28e-67 213
MsaG041038 MtrunA17_Chr2g0308611 74.648 142 31 2 129 270 187 323 6.19e-66 210
MsaG041038 MtrunA17_Chr4g0054421 74.809 131 27 2 129 259 115 239 5.13e-64 202
MsaG041038 MtrunA17_Chr5g0400781 76.667 120 27 1 140 259 117 235 3.52e-62 198
MsaG041038 MtrunA17_Chr1g0151971 54.913 173 64 6 91 260 84 245 4.04e-53 175
MsaG041038 MtrunA17_Chr4g0044091 63.710 124 40 1 140 258 59 182 6.92e-50 164
MsaG041038 MtrunA17_Chr2g0299031 57.031 128 48 1 132 259 75 195 5.18e-43 147
MsaG041038 MtrunA17_Chr3g0135331 64.516 124 42 2 145 268 144 265 6.30e-43 149
MsaG041038 MtrunA17_Chr4g0071411 62.281 114 40 1 148 258 90 203 9.43e-38 133
MsaG041038 MtrunA17_Chr6g0450991 43.519 108 61 0 143 250 64 171 2.37e-19 86.3
MsaG041038 MtrunA17_Chr7g0217111 47.222 108 48 2 132 235 71 173 2.80e-19 85.9
MsaG041038 MtrunA17_Chr5g0416391 47.059 102 48 1 132 233 69 164 5.07e-19 85.1
MsaG041038 MtrunA17_Chr6g0453021 40.164 122 73 0 112 233 62 183 1.55e-18 83.6
MsaG041038 MtrunA17_Chr4g0060031 45.690 116 61 1 120 233 67 182 2.40e-18 84.0
MsaG041038 MtrunA17_Chr8g0362151 45.545 101 49 1 132 232 69 163 3.30e-18 82.8
MsaG041038 MtrunA17_Chr5g0415941 48.515 101 44 2 146 239 87 186 8.26e-18 82.4
MsaG041038 MtrunA17_Chr3g0123691 40.152 132 68 4 136 257 49 179 6.91e-17 79.3
MsaG041038 MtrunA17_Chr7g0265521 36.806 144 87 3 140 280 56 198 8.43e-17 78.2
MsaG041038 MtrunA17_Chr3g0119291 38.519 135 78 2 146 276 59 192 2.83e-16 77.0
MsaG041038 MtrunA17_Chr8g0381741 37.838 148 79 4 133 273 43 184 2.85e-16 77.8
MsaG041038 MtrunA17_Chr1g0179581 46.988 83 44 0 146 228 28 110 7.11e-16 72.4
MsaG041038 MtrunA17_Chr8g0362751 46.809 94 43 1 146 232 89 182 7.12e-16 76.3
MsaG041038 MtrunA17_Chr5g0403691 42.593 108 59 2 135 240 43 149 1.26e-12 66.2
MsaG041038 MtrunA17_Chr5g0403701 41.667 108 57 2 133 240 41 142 1.47e-12 65.5
MsaG041038 MtrunA17_Chr3g0127511 41.667 96 43 2 149 234 41 133 1.82e-11 63.2
MsaG041038 MtrunA17_Chr8g0346251 33.588 131 74 2 150 280 45 162 5.11e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG041038 AT3G60390.1 59.396 298 93 9 16 303 30 309 6.84e-102 301
MsaG041038 AT5G47370.1 53.674 313 87 14 1 301 3 269 5.44e-90 270
MsaG041038 AT2G44910.1 55.183 328 111 12 1 304 1 316 5.87e-88 266
MsaG041038 AT4G17460.1 52.769 307 98 11 1 299 3 270 4.42e-85 257
MsaG041038 AT4G16780.1 55.738 305 86 10 1 296 2 266 1.86e-83 253
MsaG041038 AT5G06710.1 66.138 189 49 5 90 271 134 314 6.76e-73 228
MsaG041038 AT4G37790.1 60.795 176 59 3 120 295 106 271 1.55e-65 207
MsaG041038 AT2G22800.1 75.833 120 28 1 140 259 107 225 3.82e-61 196
MsaG041038 AT2G01430.1 50.538 186 80 5 91 274 88 263 1.10e-49 166
MsaG041038 AT1G70920.1 56.028 141 48 2 130 270 59 185 4.04e-41 142
MsaG041038 AT1G70920.2 56.028 141 48 2 130 270 29 155 4.29e-41 141
MsaG041038 AT5G06710.4 59.649 114 32 4 91 197 135 241 6.25e-30 114
MsaG041038 AT2G01430.2 53.846 91 39 2 109 197 101 190 7.76e-22 91.7
MsaG041038 AT1G69780.1 37.079 178 88 3 70 233 5 172 7.83e-22 93.6
MsaG041038 AT1G26960.1 44.444 117 56 2 120 233 48 158 5.43e-19 85.1
MsaG041038 AT3G01470.1 48.387 93 41 1 146 231 68 160 1.51e-17 81.3
MsaG041038 AT5G65310.1 42.478 113 58 1 128 233 54 166 5.17e-17 80.5
MsaG041038 AT5G65310.2 42.478 113 58 1 128 233 36 148 5.76e-17 80.1
MsaG041038 AT5G15150.1 47.872 94 45 1 146 235 115 208 5.02e-16 77.4
MsaG041038 AT3G01220.1 45.745 94 47 1 146 235 87 180 2.23e-15 75.5
MsaG041038 AT5G03790.1 43.820 89 50 0 146 234 77 165 3.00e-15 74.3
MsaG041038 AT2G18550.1 43.137 102 53 1 140 241 55 151 8.71e-15 72.4
MsaG041038 AT4G40060.1 43.299 97 48 1 144 233 57 153 1.40e-14 73.2
MsaG041038 AT1G27045.4 45.833 96 45 1 146 234 68 163 2.75e-14 71.6
MsaG041038 AT1G27045.1 56.061 66 29 0 146 211 68 133 3.68e-14 70.9
MsaG041038 AT1G27045.5 56.061 66 29 0 146 211 25 90 5.17e-14 69.7
MsaG041038 AT1G27045.3 56.061 66 29 0 146 211 25 90 5.17e-14 69.7
MsaG041038 AT2G22430.1 45.833 96 48 1 144 235 60 155 5.41e-14 71.6
MsaG041038 AT1G27045.2 56.061 66 29 0 146 211 17 82 5.67e-14 69.3
MsaG041038 AT2G36610.1 36.937 111 58 2 136 234 57 167 2.19e-13 67.8
MsaG041038 AT2G46680.1 42.105 95 51 1 149 239 35 129 5.22e-13 68.2
MsaG041038 AT2G46680.2 42.045 88 51 0 149 236 35 122 6.81e-13 67.8
MsaG041038 AT4G36740.2 40.385 104 55 2 138 241 50 146 6.84e-13 67.0
MsaG041038 AT4G36740.1 40.385 104 55 2 138 241 49 145 7.07e-13 67.0
MsaG041038 AT5G03790.2 41.758 91 53 0 146 236 77 167 2.51e-12 65.1
MsaG041038 AT3G61890.1 33.333 126 84 0 149 274 33 158 1.71e-11 63.5
MsaG041038 AT5G06710.2 45.000 100 41 4 91 183 135 227 2.47e-11 63.2
MsaG041038 AT5G06710.3 45.000 100 41 4 91 183 135 227 2.47e-11 63.2

Find 91 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCATGGTCGGGAACGATTT+TGG 0.169525 8:-1035063 None:intergenic
GAAAGATGATGAATTTAGTT+TGG 0.275241 8:+1032762 MsaT041038.1:CDS
CACTTCAGTTTGCTTCAACT+TGG 0.366945 8:-1034756 None:intergenic
TTAAGCTTGAGTTTAGGATT+TGG 0.367633 8:+1032787 MsaT041038.1:CDS
AAAGATGATGAATTTAGTTT+GGG 0.373079 8:+1032763 MsaT041038.1:CDS
CTTTGGTTTGTAACCGTTTG+AGG 0.393528 8:-1032868 None:intergenic
TGCGGCGGCCGTCGCCGCCA+TGG 0.395192 8:-1033450 None:intergenic
AAAAGGAAGTGCAAGAGCTT+AGG 0.411234 8:+1034837 MsaT041038.1:CDS
TTGGGTTTAAGCTTGAGTTT+AGG 0.412484 8:+1032781 MsaT041038.1:CDS
TCTGCTTCAGCCAACCAGTC+AGG 0.412655 8:+1034989 MsaT041038.1:CDS
GGCCAACACCTGTCAACCCT+TGG 0.414534 8:+1035026 MsaT041038.1:CDS
GAGTCACCTTCAAAGGAGTT+TGG 0.430355 8:-1032831 None:intergenic
AACCACACCTCCACTTGTCT+TGG 0.434860 8:-1034052 None:intergenic
AAAGGAAGTGCAAGAGCTTA+GGG 0.439484 8:+1034838 MsaT041038.1:CDS
AGTTATTGAAGGAAACCCTT+TGG 0.441554 8:-1032885 None:intergenic
AACACTTGGGCCTGACTGGT+TGG 0.442499 8:-1034999 None:intergenic
GGTGTTGGCCGTTGAACACT+TGG 0.442745 8:-1035013 None:intergenic
GTTGAACACTTGGGCCTGAC+TGG 0.443989 8:-1035003 None:intergenic
CAACAACCAAACTCCTTTGA+AGG 0.444372 8:+1032825 MsaT041038.1:CDS
GTTGTTGGAAGAAACTTTCA+AGG 0.454317 8:+1033688 MsaT041038.1:CDS
ATGCTTGACACGGTGCTGTT+CGG 0.456039 8:-1033500 None:intergenic
AGCAGCAGCAGCTGCTGATG+AGG 0.465286 8:-1034960 None:intergenic
GCGGCCGTCGCCGCCATGGA+TGG 0.472789 8:-1033446 None:intergenic
GCCCAAGGGTTGACAGGTGT+TGG 0.475640 8:-1035028 None:intergenic
GCCAACACCTGTCAACCCTT+GGG 0.479663 8:+1035027 MsaT041038.1:CDS
GATGATGACGGCGGAGGTTG+CGG 0.480696 8:+1033611 MsaT041038.1:CDS
AGACTCTAACTGATGAGAAT+AGG 0.482124 8:+1034807 MsaT041038.1:CDS
GGTTCATGTTCTCGCGGCGG+CGG 0.496150 8:+1033581 MsaT041038.1:CDS
GAAGGAACAGTCAATGTTGT+TGG 0.498061 8:+1033673 MsaT041038.1:CDS
ATTGCCGCCCAAGGGTTGAC+AGG 0.503094 8:-1035034 None:intergenic
TTCATTTGCATGTAGAGTTG+TGG 0.503551 8:-1034875 None:intergenic
CGGCGACACGCTCGCACGAA+GGG 0.511247 8:-1034922 None:intergenic
TCATTTCTCCGCGGAATAGA+CGG 0.512734 8:+1033410 MsaT041038.1:CDS
GGCGGAGGTTGCGGTGGTGA+CGG 0.513641 8:+1033620 MsaT041038.1:CDS
TGAAAACGACGCCGTCGAAA+GGG 0.514530 8:+1033559 MsaT041038.1:CDS
TGGATAGACATTGCCGCCCA+AGG 0.515878 8:-1035043 None:intergenic
CTTTCCACTGATGCTTGACA+CGG 0.517994 8:-1033510 None:intergenic
AAAATGGAACAAGTTATTGA+AGG 0.520682 8:-1032896 None:intergenic
AGAAGCGAAAGAGAAGGAAA+CGG 0.525139 8:+1033533 MsaT041038.1:CDS
CATGCACAAGCCTCCTCAAA+CGG 0.530251 8:+1032855 MsaT041038.1:CDS
GGAGCATAATACTCTGAATC+CGG 0.531921 8:+1033709 MsaT041038.1:CDS
GCCGCATTCGACGATGAAAA+CGG 0.539309 8:+1033467 MsaT041038.1:CDS
TGCATGTGAGTCACCTTCAA+AGG 0.543980 8:-1032838 None:intergenic
ACTACCATCCATGGCGGCGA+CGG 0.547385 8:+1033442 MsaT041038.1:CDS
TGACTGGTTGGCTGAAGCAG+AGG 0.549119 8:-1034987 None:intergenic
CAACACTCCACTACCATCCA+TGG 0.551656 8:+1033433 MsaT041038.1:CDS
TAGAGCGAATACTCATGGTC+GGG 0.553208 8:-1035074 None:intergenic
CTCTAACTGATGAGAATAGG+AGG 0.555223 8:+1034810 MsaT041038.1:CDS
GACTGGTTGGCTGAAGCAGA+GGG 0.557071 8:-1034986 None:intergenic
TCAGAAACAAAAGCAAGCAT+TGG 0.557840 8:+1034009 MsaT041038.1:intron
GTCGCCGCCATGGATGGTAG+TGG 0.558543 8:-1033440 None:intergenic
GGAAAGAGAAGCGAAAGAGA+AGG 0.564040 8:+1033527 MsaT041038.1:CDS
TGAGAATAGGAGGTTGCAAA+AGG 0.565911 8:+1034820 MsaT041038.1:CDS
CTCAAACGGTTACAAACCAA+AGG 0.569424 8:+1032869 MsaT041038.1:CDS
ATGAAAACGACGCCGTCGAA+AGG 0.571630 8:+1033558 MsaT041038.1:CDS
GGATAGACATTGCCGCCCAA+GGG 0.571951 8:-1035042 None:intergenic
GGGCACATTGTAAGAGTGGT+GGG 0.573198 8:-1034902 None:intergenic
CAAGTTGAAGCAAACTGAAG+TGG 0.573772 8:+1034757 MsaT041038.1:CDS
CTAGAGCGAATACTCATGGT+CGG 0.575049 8:-1035075 None:intergenic
CGAAGGGCACATTGTAAGAG+TGG 0.588926 8:-1034906 None:intergenic
AACACCTGTCAACCCTTGGG+CGG 0.591322 8:+1035030 MsaT041038.1:CDS
TCAAACGGTTACAAACCAAA+GGG 0.592760 8:+1032870 MsaT041038.1:CDS
ACATTGTAAGAGTGGTGGGA+GGG 0.595529 8:-1034898 None:intergenic
GTGTTGGCCGTTGAACACTT+GGG 0.596735 8:-1035012 None:intergenic
ACGGCGACACGCTCGCACGA+AGG 0.599222 8:-1034923 None:intergenic
AGCCAAGACAAGTGGAGGTG+TGG 0.599876 8:+1034050 MsaT041038.1:CDS
TGGTTTGTAACCGTTTGAGG+AGG 0.599884 8:-1032865 None:intergenic
AGCACCGTGTCAAGCATCAG+TGG 0.602338 8:+1033506 MsaT041038.1:CDS
AGGGCACATTGTAAGAGTGG+TGG 0.603305 8:-1034903 None:intergenic
AGTCAGGCCCAAGTGTTCAA+CGG 0.603538 8:+1035005 MsaT041038.1:CDS
AGAACATGAACCCCTTTCGA+CGG 0.611067 8:-1033570 None:intergenic
CACATTGTAAGAGTGGTGGG+AGG 0.613092 8:-1034899 None:intergenic
GAAAACGACGCCGTCGAAAG+GGG 0.619048 8:+1033560 MsaT041038.1:CDS
GAATCTGAAGCCAAGACAAG+TGG 0.625066 8:+1034042 MsaT041038.1:CDS
GAAGAAGCTGAGGTTGTCGA+AGG 0.629748 8:+1033655 MsaT041038.1:CDS
GATGACGGCGGAGGTTGCGG+TGG 0.634690 8:+1033614 MsaT041038.1:CDS
AGTGATGATGATGACGGCGG+AGG 0.634764 8:+1033605 MsaT041038.1:CDS
TCTGAAGCCAAGACAAGTGG+AGG 0.635230 8:+1034045 MsaT041038.1:CDS
GTGGTGACGGTGATTCGTCA+AGG 0.643931 8:+1033633 MsaT041038.1:CDS
ATTCGTCAAGGAAGAAGCTG+AGG 0.662832 8:+1033645 MsaT041038.1:CDS
GAAAGGGGTTCATGTTCTCG+CGG 0.668678 8:+1033575 MsaT041038.1:CDS
GGCGGAAGTGATGATGATGA+CGG 0.668902 8:+1033599 MsaT041038.1:CDS
GGTTTCAAAACAGAAGAGCA+AGG 0.676969 8:+1034071 MsaT041038.1:CDS
CAGATCTAAGCACAGAAACG+AGG 0.678976 8:+1033387 MsaT041038.1:intron
GAGTGTTGCCGTCTATTCCG+CGG 0.683806 8:-1033418 None:intergenic
TGGTTGGCTGAAGCAGAGGG+AGG 0.685549 8:-1034983 None:intergenic
TGAGGACGATGCAGATGACA+CGG 0.688825 8:-1034942 None:intergenic
AGGGGTTCATGTTCTCGCGG+CGG 0.699189 8:+1033578 MsaT041038.1:CDS
CACTCCACTACCATCCATGG+CGG 0.704044 8:+1033436 MsaT041038.1:CDS
GGAAGTGATGATGATGACGG+CGG 0.716365 8:+1033602 MsaT041038.1:CDS
GAAACGAGGTCATTTCTCCG+CGG 0.771153 8:+1033401 MsaT041038.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 1032754 1035084 1032754 ID=MsaG041038
Chr8 mRNA 1032754 1035084 1032754 ID=MsaT041038.1;Parent=MsaG041038
Chr8 exon 1032754 1032922 1032754 ID=MsaT041038.1.exon1;Parent=MsaT041038.1
Chr8 CDS 1032754 1032922 1032754 ID=cds.MsaT041038.1;Parent=MsaT041038.1
Chr8 exon 1033390 1033730 1033390 ID=MsaT041038.1.exon2;Parent=MsaT041038.1
Chr8 CDS 1033390 1033730 1033390 ID=cds.MsaT041038.1;Parent=MsaT041038.1
Chr8 exon 1034013 1034092 1034013 ID=MsaT041038.1.exon3;Parent=MsaT041038.1
Chr8 CDS 1034013 1034092 1034013 ID=cds.MsaT041038.1;Parent=MsaT041038.1
Chr8 exon 1034754 1035084 1034754 ID=MsaT041038.1.exon4;Parent=MsaT041038.1
Chr8 CDS 1034754 1035084 1034754 ID=cds.MsaT041038.1;Parent=MsaT041038.1
Gene Sequence

>MsaT041038.1

ATGGGTGAGAAAGATGATGAATTTAGTTTGGGTTTAAGCTTGAGTTTAGGATTTGGAGAATATGCAAATAACAACAACCAAACTCCTTTGAAGGTGACTCACATGCACAAGCCTCCTCAAACGGTTACAAACCAAAGGGTTTCCTTCAATAACTTGTTCCATTTTCATGATCTAAGCACAGAAACGAGGTCATTTCTCCGCGGAATAGACGGCAACACTCCACTACCATCCATGGCGGCGACGGCCGCCGCATTCGACGATGAAAACGGAGTTTCATCACCGAACAGCACCGTGTCAAGCATCAGTGGAAAGAGAAGCGAAAGAGAAGGAAACGGAGATGAAAACGACGCCGTCGAAAGGGGTTCATGTTCTCGCGGCGGCGGAAGTGATGATGATGACGGCGGAGGTTGCGGTGGTGACGGTGATTCGTCAAGGAAGAAGCTGAGGTTGTCGAAGGAACAGTCAATGTTGTTGGAAGAAACTTTCAAGGAGCATAATACTCTGAATCCGAAACAAAAGCAAGCATTGGCAAAGCAGTTGAATCTGAAGCCAAGACAAGTGGAGGTGTGGTTTCAAAACAGAAGAGCAAGGACCAAGTTGAAGCAAACTGAAGTGGATTGTGAGTACTTGAAGAGATGCTGTGAGACTCTAACTGATGAGAATAGGAGGTTGCAAAAGGAAGTGCAAGAGCTTAGGGCATTGAAGTTATCTCCACAACTCTACATGCAAATGAACCCTCCCACCACTCTTACAATGTGCCCTTCGTGCGAGCGTGTCGCCGTGTCATCTGCATCGTCCTCATCAGCAGCTGCTGCTGCTCCTCCCTCTGCTTCAGCCAACCAGTCAGGCCCAAGTGTTCAACGGCCAACACCTGTCAACCCTTGGGCGGCAATGTCTATCCAAAATCGTTCCCGACCATGA
Protein sequence

>MsaT041038.1

MGEKDDEFSLGLSLSLGFGEYANNNNQTPLKVTHMHKPPQTVTNQRVSFNNLFHFHDLSTETRSFLRGIDGNTPLPSMAATAAAFDDENGVSSPNSTVSSISGKRSEREGNGDENDAVERGSCSRGGGSDDDDGGGCGGDGDSSRKKLRLSKEQSMLLEETFKEHNTLNPKQKQALAKQLNLKPRQVEVWFQNRRARTKLKQTEVDCEYLKRCCETLTDENRRLQKEVQELRALKLSPQLYMQMNPPTTLTMCPSCERVAVSSASSSSAAAAAPPSASANQSGPSVQRPTPVNPWAAMSIQNRSRP*