AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040055

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040055 MtrunA17_Chr7g0265521 97.863 234 3 1 1 234 1 232 5.08e-172 472
MsaG040055 MtrunA17_Chr1g0179581 73.000 100 25 1 46 145 13 110 5.98e-46 149
MsaG040055 MtrunA17_Chr8g0362151 45.652 138 59 2 21 151 44 172 6.88e-33 120
MsaG040055 MtrunA17_Chr6g0450991 58.824 102 35 1 62 156 66 167 6.68e-32 117
MsaG040055 MtrunA17_Chr5g0416391 50.926 108 46 1 51 151 65 172 2.68e-30 113
MsaG040055 MtrunA17_Chr4g0060031 48.889 135 49 4 62 176 94 228 5.18e-30 114
MsaG040055 MtrunA17_Chr3g0119291 47.761 134 68 2 56 187 52 185 1.12e-29 111
MsaG040055 MtrunA17_Chr3g0123691 46.774 124 57 2 41 155 36 159 1.00e-28 110
MsaG040055 MtrunA17_Chr7g0217111 48.462 130 63 2 51 176 67 196 1.13e-28 108
MsaG040055 MtrunA17_Chr6g0453021 55.435 92 41 0 62 153 95 186 3.60e-28 107
MsaG040055 MtrunA17_Chr8g0381741 52.475 101 41 1 62 155 53 153 1.19e-27 107
MsaG040055 MtrunA17_Chr5g0415941 55.670 97 36 1 63 152 87 183 6.75e-27 105
MsaG040055 MtrunA17_Chr8g0362751 52.577 97 39 1 63 152 89 185 7.58e-25 99.4
MsaG040055 MtrunA17_Chr3g0127511 40.441 136 67 3 65 200 40 161 4.81e-24 96.3
MsaG040055 MtrunA17_Chr8g0346251 42.857 119 56 3 67 175 45 161 3.80e-21 88.6
MsaG040055 MtrunA17_Chr4g0054421 47.368 95 50 0 56 150 120 214 1.60e-20 87.4
MsaG040055 MtrunA17_Chr5g0403701 47.826 92 48 0 63 154 53 144 1.18e-19 83.6
MsaG040055 MtrunA17_Chr4g0055851 44.211 95 52 1 56 150 114 207 2.51e-18 81.6
MsaG040055 MtrunA17_Chr1g0175651 42.105 95 55 0 56 150 147 241 9.28e-18 80.1
MsaG040055 MtrunA17_Chr5g0403691 47.475 99 45 2 63 154 53 151 1.68e-17 78.2
MsaG040055 MtrunA17_Chr1g0151971 44.330 97 54 0 54 150 121 217 1.94e-17 79.3
MsaG040055 MtrunA17_Chr7g0258831 41.935 93 54 0 58 150 155 247 4.26e-17 78.6
MsaG040055 MtrunA17_Chr5g0399491 45.455 88 48 0 63 150 136 223 1.07e-16 77.4
MsaG040055 MtrunA17_Chr5g0400781 44.681 94 51 1 56 149 117 209 2.00e-16 76.3
MsaG040055 MtrunA17_Chr2g0308611 40.000 100 60 0 51 150 188 287 2.33e-16 77.0
MsaG040055 MtrunA17_Chr8g0335131 43.182 88 50 0 63 150 146 233 1.28e-15 74.3
MsaG040055 MtrunA17_Chr4g0044091 42.268 97 55 1 54 150 57 152 1.64e-15 72.4
MsaG040055 MtrunA17_Chr4g0071411 44.048 84 47 0 66 149 91 174 2.41e-14 69.7
MsaG040055 MtrunA17_Chr6g0481041 41.000 100 54 2 61 158 28 124 7.69e-12 64.3
MsaG040055 MtrunA17_Chr5g0410711 36.937 111 64 2 51 158 77 184 8.33e-12 64.3
MsaG040055 MtrunA17_Chr2g0299031 32.667 150 91 4 4 150 27 169 1.22e-11 62.0
MsaG040055 MtrunA17_Chr2g0331581 41.463 82 48 0 66 147 145 226 1.71e-11 63.5
MsaG040055 MtrunA17_Chr3g0135331 39.535 86 51 1 50 135 133 217 1.79e-11 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040055 AT5G03790.1 52.299 174 64 4 16 174 25 194 1.12e-46 155
MsaG040055 AT5G03790.2 57.447 141 49 2 16 148 25 162 1.98e-43 145
MsaG040055 AT2G36610.1 47.879 165 68 3 10 156 8 172 1.58e-39 135
MsaG040055 AT1G69780.1 48.201 139 53 3 56 187 78 204 7.23e-32 118
MsaG040055 AT5G65310.2 55.914 93 41 0 62 154 53 145 8.89e-29 110
MsaG040055 AT5G65310.1 55.914 93 41 0 62 154 71 163 9.37e-29 110
MsaG040055 AT2G22430.1 57.143 98 35 1 62 152 61 158 1.28e-28 110
MsaG040055 AT5G15150.1 53.846 104 46 1 51 152 101 204 1.50e-28 110
MsaG040055 AT4G40060.1 45.588 136 58 3 33 152 20 155 4.74e-28 108
MsaG040055 AT3G01470.1 54.545 99 38 1 62 153 67 165 8.44e-28 107
MsaG040055 AT3G01220.1 48.000 125 54 3 38 151 58 182 2.03e-26 103
MsaG040055 AT1G26960.1 50.000 108 47 1 51 151 59 166 2.48e-26 102
MsaG040055 AT4G36740.2 52.577 97 46 0 56 152 49 145 5.60e-25 98.6
MsaG040055 AT4G36740.1 52.577 97 46 0 56 152 48 144 5.84e-25 98.2
MsaG040055 AT2G46680.1 46.364 110 48 2 47 149 20 125 1.05e-24 98.6
MsaG040055 AT2G46680.2 46.296 108 47 2 47 147 20 123 1.17e-23 95.9
MsaG040055 AT2G18550.1 42.857 126 63 1 63 188 61 177 2.42e-23 94.4
MsaG040055 AT1G27045.1 45.669 127 57 4 48 164 50 174 9.36e-23 92.8
MsaG040055 AT1G27045.5 45.669 127 57 4 48 164 7 131 1.50e-22 91.3
MsaG040055 AT1G27045.3 45.669 127 57 4 48 164 7 131 1.50e-22 91.3
MsaG040055 AT3G61890.1 47.778 90 40 1 66 148 33 122 1.80e-22 92.4
MsaG040055 AT1G27045.2 46.400 125 55 4 50 164 1 123 2.01e-22 90.5
MsaG040055 AT5G66700.1 48.913 92 47 0 63 154 71 162 6.38e-21 87.8
MsaG040055 AT1G27045.4 39.007 141 66 4 48 178 50 180 5.50e-20 85.9
MsaG040055 AT5G53980.1 44.086 93 52 0 61 153 9 101 2.57e-18 79.3
MsaG040055 AT5G06710.1 43.564 101 57 0 49 149 176 276 5.54e-18 81.6
MsaG040055 AT5G47370.1 41.489 94 55 0 56 149 123 216 1.21e-16 77.4
MsaG040055 AT4G16780.1 42.105 95 54 1 56 150 123 216 1.27e-16 77.4
MsaG040055 AT2G22800.1 45.977 87 47 0 63 149 113 199 1.98e-16 76.6
MsaG040055 AT3G60390.1 41.053 95 56 0 56 150 155 249 5.78e-16 75.9
MsaG040055 AT2G44910.1 43.182 88 50 0 63 150 163 250 1.05e-15 75.1
MsaG040055 AT2G01430.1 44.211 95 53 0 56 150 132 226 2.01e-15 73.9
MsaG040055 AT4G37790.1 44.318 88 49 0 63 150 126 213 3.19e-15 73.6
MsaG040055 AT4G17460.1 39.000 100 61 0 51 150 123 222 3.47e-15 73.2
MsaG040055 AT1G79840.1 38.462 104 62 1 57 158 96 199 7.04e-14 70.9
MsaG040055 AT1G79840.2 38.462 104 62 1 57 158 125 228 7.31e-14 70.9
MsaG040055 AT1G79840.3 38.462 104 62 1 57 158 38 141 7.56e-14 70.9
MsaG040055 AT1G79840.6 38.462 104 62 1 57 158 38 141 7.56e-14 70.9
MsaG040055 AT1G79840.5 38.462 104 62 1 57 158 96 199 7.58e-14 70.5
MsaG040055 AT1G79840.4 38.462 104 62 1 57 158 96 199 1.22e-13 70.1
MsaG040055 AT1G73360.1 43.000 100 52 2 61 158 31 127 9.52e-13 67.4
MsaG040055 AT1G70920.2 35.659 129 77 2 22 150 4 126 1.74e-12 63.9
MsaG040055 AT1G70920.1 35.659 129 77 2 22 150 34 156 2.00e-12 64.7
MsaG040055 AT5G06710.4 48.485 66 34 0 49 114 176 241 4.66e-12 64.3
MsaG040055 AT5G46880.3 39.773 88 53 0 61 148 112 199 4.37e-11 62.8
MsaG040055 AT5G46880.1 39.773 88 53 0 61 148 112 199 4.37e-11 62.8
MsaG040055 AT5G46880.2 39.773 88 53 0 61 148 112 199 4.37e-11 62.8
MsaG040055 AT3G61150.1 33.333 120 71 2 51 168 99 211 7.13e-11 62.0

Find 47 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAAGCTTCATCTTCCTTTC+AGG 0.091903 7:+96166132 None:intergenic
TCCACCTTGTACGCCTATTT+TGG 0.171135 7:+96166067 None:intergenic
TTGCTGTTTGGTTCCAAAAT+AGG 0.192526 7:-96166080 MsaT040055.1:CDS
GATAATTAGGTACCTCTTCT+TGG 0.238895 7:+96165968 None:intergenic
GGTCTAACTTTATTTCTTCT+TGG 0.251946 7:+96166154 None:intergenic
TTTGGAACCAAACAGCAATT+TGG 0.278055 7:+96166085 None:intergenic
GTAGATTAGGGATAATAATT+AGG 0.330622 7:+96164871 None:intergenic
TTGTTATTGTATCCCTGATC+TGG 0.353848 7:+96164982 None:intergenic
TATAACAACACCCCTTATTC+AGG 0.354916 7:-96166824 MsaT040055.1:intron
AAAGCTTCATCTTCCTTTCA+GGG 0.372499 7:+96166133 None:intergenic
AACCTCGCCAAATTGCTGTT+TGG 0.376064 7:-96166092 MsaT040055.1:CDS
TGTTGAATGCTACTATTTGT+TGG 0.395823 7:+96165012 None:intergenic
GGAAATGAGTCAACCGTCAT+TGG 0.398063 7:-96166295 MsaT040055.1:CDS
TCAACAAGCTGTTCCAGATC+AGG 0.398083 7:-96164995 MsaT040055.1:CDS
GGATAATAATTAGGCAATAC+AGG 0.433929 7:+96164880 None:intergenic
ATGAAGCTTTCAAGAGAGCT+AGG 0.447660 7:-96166120 MsaT040055.1:CDS
ATAGTTGTAGAAGAAGCTTA+AGG 0.450197 7:+96166844 None:intergenic
ATGGATGAAATGAACATTGA+TGG 0.450308 7:-96166243 MsaT040055.1:CDS
ACAGGCCAGTGACATTGATT+AGG 0.461524 7:+96164898 None:intergenic
AAGTAACCAGATTGATTCAC+TGG 0.476965 7:-96166187 MsaT040055.1:CDS
TCTTCTCCAGTGAATCAATC+TGG 0.478388 7:+96166181 None:intergenic
AAACAGCAATTTGGCGAGGT+TGG 0.478872 7:+96166094 None:intergenic
GGTTCCAAAATAGGCGTACA+AGG 0.492609 7:-96166071 MsaT040055.1:CDS
ATGTTCATTTCATCCATAGC+TGG 0.495881 7:+96166249 None:intergenic
AGTGAAAGCCTAAAATGGAT+TGG 0.500919 7:-96166907 None:intergenic
GACTCAGTATGAGGAACAAA+GGG 0.509615 7:+96166869 None:intergenic
GAAATGAGTCAACCGTCATT+GGG 0.510295 7:-96166294 MsaT040055.1:CDS
CTTAAGGAAGACTCAGTATG+AGG 0.527362 7:+96166860 None:intergenic
AGAATTTGATGTTGTCTCCA+AGG 0.530430 7:-96166004 MsaT040055.1:CDS
ACAAAGGTTACTTCCAGCTA+TGG 0.541285 7:-96166262 MsaT040055.1:CDS
CACACAGGTTATGAAGTTGA+AGG 0.545029 7:-96165133 MsaT040055.1:intron
GGAAAGCTAAAAGAGCAATC+AGG 0.547065 7:-96165111 MsaT040055.1:CDS
CAACAAGCTGTTCCAGATCA+GGG 0.555767 7:-96164994 MsaT040055.1:CDS
TGCCTCCTAATCAATGTCAC+TGG 0.563013 7:-96164903 MsaT040055.1:CDS
AAATAAAGTTAGACCCTGAA+AGG 0.563460 7:-96166146 MsaT040055.1:CDS
GGCCAGTGACATTGATTAGG+AGG 0.565142 7:+96164901 None:intergenic
ACAGTAGAAAGCACATCAGA+AGG 0.569739 7:-96165054 MsaT040055.1:CDS
TGAAGCTTTCAAGAGAGCTA+GGG 0.584376 7:-96166119 MsaT040055.1:CDS
ACACAGGTTATGAAGTTGAA+GGG 0.593093 7:-96165132 MsaT040055.1:intron
AGACTCAGTATGAGGAACAA+AGG 0.595030 7:+96166868 None:intergenic
TGTTGTGTCTCACCCAATGA+CGG 0.608704 7:+96166282 None:intergenic
AAATAGGCGTACAAGGTGGA+AGG 0.609407 7:-96166064 MsaT040055.1:CDS
AAAACAGAAACTCCAAGAAG+AGG 0.620624 7:-96165980 MsaT040055.1:intron
AACCAAACAGCAATTTGGCG+AGG 0.655043 7:+96166090 None:intergenic
TCCAAAATAGGCGTACAAGG+TGG 0.664815 7:-96166068 MsaT040055.1:CDS
AAGCTAAAAGAGCAATCAGG+TGG 0.690901 7:-96165108 MsaT040055.1:CDS
CATTGGGTGAGACACAACAA+AGG 0.711095 7:-96166278 MsaT040055.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 96164876 96166915 96164876 ID=MsaG040055
Chr7 mRNA 96164876 96166915 96164876 ID=MsaT040055.1;Parent=MsaG040055
Chr7 exon 96164876 96165148 96164876 ID=MsaT040055.1.exon3;Parent=MsaT040055.1
Chr7 CDS 96164876 96165148 96164876 ID=cds.MsaT040055.1;Parent=MsaT040055.1
Chr7 exon 96165981 96166321 96165981 ID=MsaT040055.1.exon2;Parent=MsaT040055.1
Chr7 CDS 96165981 96166321 96165981 ID=cds.MsaT040055.1;Parent=MsaT040055.1
Chr7 exon 96166825 96166915 96166825 ID=MsaT040055.1.exon1;Parent=MsaT040055.1
Chr7 CDS 96166825 96166915 96166825 ID=cds.MsaT040055.1;Parent=MsaT040055.1
Gene Sequence

>MsaT040055.1

ATGGATTGGAATGAGAGCACAAGACCCTTTGTTCCTCATACTGAGTCTTCCTTAAGCTTCTTCTACAACTATAACAACACCCCTTATTCAGGAATGGAAATGAGTCAACCGTCATTGGGTGAGACACAACAAAGGTTACTTCCAGCTATGGATGAAATGAACATTGATGGAAACAATTACAGAGAGAAGAAGAAGAGATTAACAAGTAACCAGATTGATTCACTGGAGAAGAGTTTCCAAGAAGAAATAAAGTTAGACCCTGAAAGGAAGATGAAGCTTTCAAGAGAGCTAGGGCTCCAACCTCGCCAAATTGCTGTTTGGTTCCAAAATAGGCGTACAAGGTGGAAGGCTAAGCAACTTGAACACTTGTATGATGTTCTCAAACAAGAATTTGATGTTGTCTCCAAGGAAAAACAGAAACTCCAAGAAGAGGTTATGAAGTTGAAGGGAAAGCTAAAAGAGCAATCAGGTGGTAATTTTAGGACACAAACATATGTTGAAGAAACAGTAGAAAGCACATCAGAAGGTCTACGTTGTTCTAACAAACCAACAAATAGTAGCATTCAACAAGCTGTTCCAGATCAGGGATACAATAACAACAACAACAACAACAGTAGTACTTTCATTGTTGAAAATTTTAATAACTCAGTTTCAATGCCTCCTAATCAATGTCACTGGCCTGTATTGCCTAATTATTATCCCTAA
Protein sequence

>MsaT040055.1

MDWNESTRPFVPHTESSLSFFYNYNNTPYSGMEMSQPSLGETQQRLLPAMDEMNIDGNNYREKKKRLTSNQIDSLEKSFQEEIKLDPERKMKLSRELGLQPRQIAVWFQNRRTRWKAKQLEHLYDVLKQEFDVVSKEKQKLQEEVMKLKGKLKEQSGGNFRTQTYVEETVESTSEGLRCSNKPTNSSIQQAVPDQGYNNNNNNNSSTFIVENFNNSVSMPPNQCHWPVLPNYYP*