AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG011648

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011648 MtrunA17_Chr3g0078041 95.694 209 9 0 30 238 21 229 1.39e-150 418
MsaG011648 MtrunA17_Chr7g0233911 49.751 201 99 2 30 230 6 204 7.64e-64 198
MsaG011648 MtrunA17_Chr2g0329421 41.304 184 99 3 55 233 23 202 4.26e-40 137
MsaG011648 MtrunA17_Chr4g0033611 43.503 177 90 3 55 225 72 244 7.32e-40 138
MsaG011648 MtrunA17_Chr2g0329361 37.306 193 101 5 53 229 55 243 3.25e-35 125
MsaG011648 MtrunA17_Chr5g0448761 52.778 108 48 2 58 162 59 166 4.93e-23 97.4
MsaG011648 MtrunA17_Chr2g0287061 35.821 134 72 1 58 191 28 147 2.15e-19 86.7
MsaG011648 MtrunA17_Chr2g0287061 35.659 129 69 1 58 186 182 296 5.06e-18 82.8
MsaG011648 MtrunA17_Chr5g0440451 37.778 135 65 2 29 163 18 133 2.80e-17 80.5
MsaG011648 MtrunA17_Chr2g0329031 33.333 138 84 3 54 191 9 138 4.72e-17 80.1
MsaG011648 MtrunA17_Chr3g0080351 34.921 126 70 1 58 171 75 200 4.76e-16 77.0
MsaG011648 MtrunA17_Chr1g0207551 35.238 105 65 1 58 162 33 134 1.05e-15 75.9
MsaG011648 MtrunA17_Chr1g0202341 35.878 131 80 4 58 186 50 178 1.09e-15 75.9
MsaG011648 MtrunA17_Chr6g0458391 38.889 108 65 1 59 166 225 331 3.22e-15 74.7
MsaG011648 MtrunA17_Chr6g0458391 37.143 105 64 2 59 163 91 193 2.81e-12 65.9
MsaG011648 MtrunA17_Chr3g0082121 38.136 118 66 3 59 170 43 159 2.42e-14 72.0
MsaG011648 MtrunA17_Chr5g0401121 38.095 105 63 2 59 162 56 159 5.64e-13 65.1
MsaG011648 MtrunA17_Chr1g0203721 36.735 98 61 1 62 159 66 162 2.54e-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
MsaG011648 AT2G43280.1 73.224 183 48 1 53 235 17 198 3.99e-100 290
MsaG011648 AT2G43280.2 74.233 163 42 0 73 235 1 163 3.60e-92 268
MsaG011648 AT3G07500.1 48.404 188 90 3 49 230 23 209 5.85e-52 168
MsaG011648 AT4G12850.1 43.646 181 90 2 53 229 5 177 6.09e-46 151
MsaG011648 AT3G59470.3 43.662 213 106 7 25 229 35 241 2.29e-42 144
MsaG011648 AT3G59470.1 43.662 213 106 7 25 229 35 241 2.29e-42 144
MsaG011648 AT3G59470.2 43.662 213 106 7 25 229 47 253 3.98e-42 144
MsaG011648 AT4G12850.2 50.442 113 44 2 53 161 5 109 9.49e-31 111
MsaG011648 AT4G12850.4 50.442 113 44 2 53 161 5 109 1.13e-30 111
MsaG011648 AT4G38180.1 53.271 107 48 1 58 162 72 178 7.96e-25 102
MsaG011648 AT2G32250.5 35.115 131 79 2 55 185 34 158 3.52e-18 83.6
MsaG011648 AT2G32250.2 35.115 131 79 2 55 185 34 158 3.53e-18 83.6
MsaG011648 AT2G32250.4 35.115 131 79 2 55 185 34 158 3.53e-18 83.6
MsaG011648 AT2G32250.6 35.115 131 79 2 55 185 34 158 3.64e-18 83.6
MsaG011648 AT2G32250.1 35.115 131 79 2 55 185 34 158 3.64e-18 83.6
MsaG011648 AT2G32250.3 35.115 131 79 2 55 185 34 158 3.64e-18 83.6
MsaG011648 AT3G06250.2 37.037 135 71 1 27 161 158 278 8.18e-18 82.4
MsaG011648 AT3G06250.2 34.109 129 70 2 44 171 12 126 2.61e-16 78.2
MsaG011648 AT3G06250.1 37.037 135 71 1 27 161 158 278 8.18e-18 82.4
MsaG011648 AT3G06250.1 34.109 129 70 2 44 171 12 126 2.61e-16 78.2
MsaG011648 AT3G06250.3 37.037 135 71 1 27 161 158 278 8.18e-18 82.4
MsaG011648 AT3G06250.3 34.109 129 70 2 44 171 12 126 2.61e-16 78.2
MsaG011648 AT2G32250.8 34.959 123 74 2 63 185 1 117 6.69e-17 79.7
MsaG011648 AT2G32250.7 34.959 123 74 2 63 185 1 117 6.70e-17 79.7
MsaG011648 AT5G18960.2 40.385 104 48 1 58 161 210 299 1.52e-16 79.0
MsaG011648 AT5G18960.2 36.207 116 58 2 48 161 30 131 2.63e-16 78.2
MsaG011648 AT5G18960.1 40.385 104 48 1 58 161 210 299 1.52e-16 79.0
MsaG011648 AT5G18960.1 36.207 116 58 2 48 161 30 131 2.63e-16 78.2
MsaG011648 AT2G27110.2 34.228 149 75 6 20 164 9 138 5.56e-16 77.4
MsaG011648 AT2G27110.1 34.228 149 75 6 20 164 9 138 5.56e-16 77.4
MsaG011648 AT4G15090.1 36.190 105 66 1 58 162 50 153 9.02e-16 76.6
MsaG011648 AT4G15090.5 36.190 105 66 1 58 162 50 153 9.02e-16 76.6
MsaG011648 AT4G15090.3 36.190 105 66 1 58 162 50 153 9.02e-16 76.6
MsaG011648 AT4G15090.2 36.190 105 66 1 58 162 50 153 9.02e-16 76.6
MsaG011648 AT4G15090.4 36.190 105 66 1 58 162 50 153 9.02e-16 76.6
MsaG011648 AT1G76320.3 37.736 106 60 2 63 168 1 100 6.11e-15 73.9
MsaG011648 AT1G76320.1 37.736 106 60 2 63 168 1 100 6.22e-15 73.9
MsaG011648 AT1G76320.4 37.736 106 60 2 63 168 1 100 6.22e-15 73.9
MsaG011648 AT1G76320.2 37.736 106 60 2 63 168 1 100 6.33e-15 73.9
MsaG011648 AT4G19990.3 33.333 132 76 2 49 168 11 142 8.39e-15 73.6
MsaG011648 AT4G19990.4 33.333 132 76 2 49 168 11 142 8.39e-15 73.6
MsaG011648 AT4G19990.7 33.333 132 76 2 49 168 25 156 9.00e-15 73.6
MsaG011648 AT4G19990.6 33.333 132 76 2 49 168 11 142 1.00e-14 73.6
MsaG011648 AT4G19990.2 33.333 132 76 2 49 168 11 142 1.00e-14 73.6
MsaG011648 AT4G19990.5 33.333 132 76 2 49 168 11 142 1.09e-14 73.6
MsaG011648 AT3G22170.2 34.127 126 71 2 58 171 69 194 2.57e-14 72.4
MsaG011648 AT3G22170.1 34.127 126 71 2 58 171 69 194 2.57e-14 72.4

Find 60 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTATGATCAGTCCGGAAAA+TGG 0.289521 3:+8509310 MsaT011648.1:CDS
AGATCGGAAAAGAGTTATTC+TGG 0.296771 3:+8508997 MsaT011648.1:CDS
CCTTCCCTTGTGCTGGCCCT+TGG 0.331995 3:-8509264 None:intergenic
TTGGTGCAAAAGCTCTTCTA+TGG 0.342841 3:-8509687 None:intergenic
AGGATTCTCGCCCGCAGGTT+TGG 0.350053 3:+8509183 MsaT011648.1:CDS
CCGCAGGTTTGGATGTAATA+AGG 0.351849 3:+8509194 MsaT011648.1:CDS
ATTATGGATTTACCATTGTT+TGG 0.357489 3:-8509395 None:intergenic
TTGAAAGGATGTTTACTAAG+AGG 0.367786 3:-8508663 None:intergenic
TGAGAAGGATAAGAAAATTC+AGG 0.371151 3:+8509517 MsaT011648.1:CDS
AGTTATTCTGGGAGAGAGTT+GGG 0.374971 3:+8509009 MsaT011648.1:CDS
TGATCATGACCATGCTGTTA+AGG 0.378319 3:+8509038 MsaT011648.1:CDS
CTGGCCCTTGGTTTACGAAC+TGG 0.386907 3:-8509252 None:intergenic
TGCAGGTGGGAAAGAGCTTC+TGG 0.388048 3:+8508628 MsaT011648.1:CDS
ACAAATTCCATGCCTTCATA+TGG 0.406605 3:-8509063 None:intergenic
TCCGATCTACACCCATCATT+CGG 0.427229 3:-8508982 None:intergenic
CAGCACAAGGGAAGGTTGTA+AGG 0.428246 3:+8509272 MsaT011648.1:CDS
TTTGTCGTGGTTCTTGTATG+AGG 0.441087 3:-8508688 None:intergenic
CTTACAACCTTCCCTTGTGC+TGG 0.442748 3:-8509271 None:intergenic
AAATATCTTAGCAGCATCTT+CGG 0.446381 3:-8509088 None:intergenic
TGAAAATTGTCGAAGAGCAC+AGG 0.449262 3:+8509609 MsaT011648.1:CDS
CATAATGCAGGGGCTACGTT+TGG 0.450836 3:-8509706 None:intergenic
GAGTTATTCTGGGAGAGAGT+TGG 0.452971 3:+8509008 MsaT011648.1:CDS
GTATGATCAGTCCGGAAAAT+GGG 0.457291 3:+8509311 MsaT011648.1:CDS
GGTCATTGTGTCAGCATACA+AGG 0.462427 3:+8509219 MsaT011648.1:CDS
AGGAACTAACAGTAGAGCTT+CGG 0.480103 3:+8509537 MsaT011648.1:CDS
GTCAGCATACAAGGGAAACT+TGG 0.481454 3:+8509228 MsaT011648.1:CDS
TGAAAGGATGTTTACTAAGA+GGG 0.485649 3:-8508662 None:intergenic
CATGACAAATCCCACATGTC+GGG 0.498945 3:-8509124 None:intergenic
TCATGCGTGTGATGTCTTGT+CGG 0.499987 3:+8509142 MsaT011648.1:CDS
CATATAAAGTATGATCAGTC+CGG 0.513874 3:+8509303 MsaT011648.1:CDS
ATGGTAGGATTCTCGCCCGC+AGG 0.530043 3:+8509178 MsaT011648.1:CDS
GATCGGAAAAGAGTTATTCT+GGG 0.541626 3:+8508998 MsaT011648.1:CDS
GTGACAGTGGATCCGAATGA+TGG 0.543169 3:+8508970 MsaT011648.1:intron
TCCGAATGATGGGTGTAGAT+CGG 0.551733 3:+8508981 MsaT011648.1:CDS
GTAAACCAAGGGCCAGCACA+AGG 0.556363 3:+8509259 MsaT011648.1:CDS
CTTATTACATCCAAACCTGC+GGG 0.573213 3:-8509193 None:intergenic
ATTGTTTGGCGTGCTTCACG+TGG 0.576935 3:-8509381 None:intergenic
GAAGGAAAAGGCGATGCAGG+TGG 0.585646 3:+8508614 None:intergenic
GCTGTTAAGGAACCATATGA+AGG 0.588056 3:+8509051 MsaT011648.1:CDS
TAAGGAACCATATGAAGGCA+TGG 0.594188 3:+8509056 MsaT011648.1:CDS
CCAAGGGCCAGCACAAGGGA+AGG 0.601558 3:+8509264 MsaT011648.1:CDS
GCATGACAAATCCCACATGT+CGG 0.607196 3:-8509125 None:intergenic
TGATGAATATGCCCGACATG+TGG 0.607236 3:+8509113 MsaT011648.1:CDS
CATATGGTTCCTTAACAGCA+TGG 0.608918 3:-8509047 None:intergenic
TGACAGTGGATCCGAATGAT+GGG 0.613335 3:+8508971 MsaT011648.1:intron
ACGTGAAGCACGCCAAACAA+TGG 0.620174 3:+8509383 MsaT011648.1:CDS
TTGGTCCAGTTCGTAAACCA+AGG 0.623231 3:+8509247 MsaT011648.1:CDS
GAAAATTGTCGAAGAGCACA+GGG 0.623512 3:+8509610 MsaT011648.1:CDS
TAAACCAAGGGCCAGCACAA+GGG 0.625275 3:+8509260 MsaT011648.1:CDS
CAGGTTTGGATGTAATAAGG+AGG 0.625678 3:+8509197 MsaT011648.1:CDS
CCTTATTACATCCAAACCTG+CGG 0.631158 3:-8509194 None:intergenic
TTCTTGTATGAGGTATTGAA+AGG 0.647212 3:-8508678 None:intergenic
AGGTTTGGATGTAATAAGGA+GGG 0.648013 3:+8509198 MsaT011648.1:CDS
TGTCGGCGCTCAGAAAGAGA+TGG 0.650735 3:+8509159 MsaT011648.1:CDS
GATGAATATGCCCGACATGT+GGG 0.650764 3:+8509114 MsaT011648.1:CDS
TCACGTGGAGAGACTACTAG+TGG 0.652114 3:-8509366 None:intergenic
AAGGAAAAGGCGATGCAGGT+GGG 0.655462 3:+8508615 None:intergenic
TGGTCCAGTTCGTAAACCAA+GGG 0.657286 3:+8509248 MsaT011648.1:CDS
GTCATTGTGTCAGCATACAA+GGG 0.663280 3:+8509220 MsaT011648.1:CDS
GGCGCTCAGAAAGAGATGGT+AGG 0.694825 3:+8509163 MsaT011648.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 8508627 8509715 8508627 ID=MsaG011648
Chr3 mRNA 8508627 8509715 8508627 ID=MsaT011648.1;Parent=MsaG011648
Chr3 exon 8508627 8508714 8508627 ID=MsaT011648.1.exon1;Parent=MsaT011648.1
Chr3 CDS 8508627 8508714 8508627 ID=cds.MsaT011648.1;Parent=MsaT011648.1
Chr3 exon 8508977 8509404 8508977 ID=MsaT011648.1.exon2;Parent=MsaT011648.1
Chr3 CDS 8508977 8509404 8508977 ID=cds.MsaT011648.1;Parent=MsaT011648.1
Chr3 exon 8509515 8509715 8509515 ID=MsaT011648.1.exon3;Parent=MsaT011648.1
Chr3 CDS 8509515 8509715 8509515 ID=cds.MsaT011648.1;Parent=MsaT011648.1
Gene Sequence

>MsaT011648.1

ATGCAGGTGGGAAAGAGCTTCTGGTTAAGAAATATCCCTCTTAGTAAACATCCTTTCAATACCTCATACAAGAACCACGACAAAAACGTGGATCCGAATGATGGGTGTAGATCGGAAAAGAGTTATTCTGGGAGAGAGTTGGGTATCTCTGATCATGACCATGCTGTTAAGGAACCATATGAAGGCATGGAATTTGTATCCGAAGATGCTGCTAAGATATTTTATGATGAATATGCCCGACATGTGGGATTTGTCATGCGTGTGATGTCTTGTCGGCGCTCAGAAAGAGATGGTAGGATTCTCGCCCGCAGGTTTGGATGTAATAAGGAGGGTCATTGTGTCAGCATACAAGGGAAACTTGGTCCAGTTCGTAAACCAAGGGCCAGCACAAGGGAAGGTTGTAAGGCGATGATTCATATAAAGTATGATCAGTCCGGAAAATGGGTGATAACAAAGTTTGTGAAAGATCATAATCATCCACTAGTAGTCTCTCCACGTGAAGCACGCCAAACAATGGATGAGAAGGATAAGAAAATTCAGGAACTAACAGTAGAGCTTCGGATTAAAAAACGATTGTGTGTAACATATCAAGAACAGTTAACGTCTTTTATGAAAATTGTCGAAGAGCACAGGGACAAGCTGTCTGCAAGAATTCATCACATACTCGATAATCTTAAAGAATATGAATCCATAGAAGAGCTTTTGCACCAAACGTAG
Protein sequence

>MsaT011648.1

MQVGKSFWLRNIPLSKHPFNTSYKNHDKNVDPNDGCRSEKSYSGRELGISDHDHAVKEPYEGMEFVSEDAAKIFYDEYARHVGFVMRVMSCRRSERDGRILARRFGCNKEGHCVSIQGKLGPVRKPRASTREGCKAMIHIKYDQSGKWVITKFVKDHNHPLVVSPREARQTMDEKDKKIQELTVELRIKKRLCVTYQEQLTSFMKIVEEHRDKLSARIHHILDNLKEYESIEELLHQT*