AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG026081

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026081 MtrunA17_Chr5g0409841 65.778 225 43 5 114 308 11 231 1.10e-89 267
MsaG026081 MtrunA17_Chr5g0409831 65.000 220 51 5 114 308 11 229 2.56e-83 251
MsaG026081 MtrunA17_Chr5g0440741 63.415 205 44 5 113 291 27 226 3.90e-77 237
MsaG026081 MtrunA17_Chr5g0440731 61.463 205 53 4 113 291 27 231 7.95e-73 226
MsaG026081 MtrunA17_Chr5g0440821 47.644 191 26 5 1 117 1 191 4.15e-39 146
MsaG026081 MtrunA17_Chr5g0409951 58.140 129 18 1 21 113 110 238 2.24e-37 134
MsaG026081 MtrunA17_Chr5g0409951 56.757 74 29 2 115 185 36 109 9.71e-16 75.5
MsaG026081 MtrunA17_Chr5g0440721 58.519 135 30 3 1 117 1 127 2.01e-35 125
MsaG026081 MtrunA17_Chr5g0409941 52.672 131 16 4 1 111 1 105 1.92e-27 103
MsaG026081 MtrunA17_Chr1g0162081 54.444 90 37 3 168 256 110 196 1.19e-23 98.2
MsaG026081 MtrunA17_Chr3g0104071 46.032 126 63 3 140 262 104 227 1.68e-23 98.2
MsaG026081 MtrunA17_Chr5g0436501 53.000 100 42 2 157 255 105 200 1.63e-22 94.7
MsaG026081 MtrunA17_Chr1g0210471 42.308 130 68 3 146 275 93 215 1.71e-22 94.0
MsaG026081 MtrunA17_Chr5g0429521 48.387 124 52 5 143 265 103 215 2.42e-22 94.7
MsaG026081 MtrunA17_Chr2g0331031 47.368 95 48 1 177 271 105 197 1.36e-21 93.6
MsaG026081 MtrunA17_Chr4g0062741 52.500 80 35 2 177 255 134 211 5.42e-21 90.9
MsaG026081 MtrunA17_Chr4g0055931 35.616 146 69 4 146 277 47 181 6.68e-21 91.3
MsaG026081 MtrunA17_Chr7g0241761 55.000 80 34 1 170 249 129 206 1.75e-20 89.7
MsaG026081 MtrunA17_Chr5g0440751 49.612 129 26 4 20 117 13 133 2.96e-19 84.0
MsaG026081 MtrunA17_Chr4g0059701 37.278 169 87 6 118 283 25 177 4.32e-19 85.5
MsaG026081 MtrunA17_Chr8g0365011 50.000 90 32 2 182 259 93 181 1.05e-18 84.3
MsaG026081 MtrunA17_Chr3g0135671 50.000 76 37 1 183 257 93 168 1.75e-18 82.8
MsaG026081 MtrunA17_Chr6g0488471 54.286 70 30 1 177 246 93 160 1.18e-17 81.6
MsaG026081 MtrunA17_Chr8g0389241 54.286 70 29 1 177 246 101 167 1.57e-17 80.9
MsaG026081 MtrunA17_Chr5g0415191 64.407 59 17 1 170 228 95 149 1.84e-17 81.3
MsaG026081 MtrunA17_Chr8g0364731 52.857 70 32 1 190 259 10 78 2.52e-17 78.6
MsaG026081 MtrunA17_Chr6g0452791 53.333 60 28 0 180 239 79 138 6.88e-16 74.3
MsaG026081 MtrunA17_Chr5g0432921 48.864 88 37 4 182 267 114 195 7.82e-16 75.1
MsaG026081 MtrunA17_Chr1g0192061 52.632 76 30 3 182 254 62 134 8.38e-16 74.3
MsaG026081 MtrunA17_Chr3g0092621 46.377 69 35 1 183 251 86 152 1.28e-15 73.6
MsaG026081 MtrunA17_Chr5g0432941 38.017 121 63 5 153 267 81 195 1.61e-14 71.6
MsaG026081 MtrunA17_Chr3g0113121 51.389 72 30 1 182 248 96 167 2.05e-13 68.2
MsaG026081 MtrunA17_Chr8g0370121 41.558 77 38 1 166 242 92 161 3.54e-12 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026081 AT5G08520.1 46.847 111 55 2 140 248 75 183 2.63e-23 97.8
MsaG026081 AT5G58900.1 54.286 105 33 5 147 250 119 209 2.43e-22 94.7
MsaG026081 AT1G49010.1 50.549 91 42 2 173 262 126 214 3.74e-22 94.7
MsaG026081 AT5G04760.1 58.750 80 27 2 169 248 91 164 4.09e-22 92.4
MsaG026081 AT3G10580.2 46.939 98 45 3 165 260 77 169 2.92e-21 91.3
MsaG026081 AT3G10580.1 46.939 98 45 3 165 260 77 169 3.71e-21 91.7
MsaG026081 AT5G23650.1 44.828 116 60 2 142 257 83 194 8.23e-21 91.3
MsaG026081 AT2G38090.1 54.651 86 36 2 170 254 130 213 9.49e-21 90.5
MsaG026081 AT3G11280.2 53.333 90 36 2 167 252 113 200 1.09e-20 89.7
MsaG026081 AT3G11280.1 53.333 90 36 2 167 252 113 200 1.09e-20 89.7
MsaG026081 AT5G05790.2 48.485 99 48 2 166 263 116 212 1.49e-20 89.7
MsaG026081 AT5G05790.1 48.485 99 48 2 166 263 116 212 1.49e-20 89.7
MsaG026081 AT5G01200.1 56.410 78 28 2 171 248 140 211 5.96e-20 87.8
MsaG026081 AT5G61620.1 48.515 101 38 3 170 262 101 195 6.04e-20 88.6
MsaG026081 AT5G47390.1 53.247 77 30 2 170 246 89 159 5.37e-19 86.7
MsaG026081 AT5G56840.1 55.714 70 30 1 177 246 87 155 1.42e-17 80.5
MsaG026081 AT1G74840.2 57.812 64 27 0 164 227 79 142 5.81e-17 79.0
MsaG026081 AT3G16350.1 46.739 92 45 2 141 228 93 184 5.93e-17 80.9
MsaG026081 AT1G70000.1 62.069 58 18 1 171 228 92 145 6.38e-17 79.3
MsaG026081 AT1G70000.2 62.069 58 18 1 171 228 92 145 6.38e-17 79.3
MsaG026081 AT1G74840.1 57.812 64 27 0 164 227 79 142 7.61e-17 79.3
MsaG026081 AT4G09450.1 47.619 84 42 1 166 249 76 157 8.74e-17 77.8
MsaG026081 AT1G19000.2 46.316 95 38 2 133 227 67 148 1.11e-16 79.0
MsaG026081 AT1G19000.1 46.316 95 38 2 133 227 67 148 1.11e-16 79.0
MsaG026081 AT3G10590.1 43.590 117 57 4 155 269 84 193 1.72e-16 77.0

Find 80 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTCTGTATCTTTCACATTT+TGG 0.106986 5:-16537283 None:intergenic
TGATGTGTCATTCTTGTTTA+AGG 0.162194 5:-16537339 None:intergenic
TGTGATGTATAGGTTGTTTC+TGG 0.210646 5:+16537151 MsaT026081.1:intron
TCAACACGATTCTTAGGTTT+TGG 0.247019 5:-16535800 None:intergenic
ACATTCTCAACACGATTCTT+AGG 0.260608 5:-16535806 None:intergenic
TTCTCAAGATTGTTCATATC+AGG 0.300574 5:-16537461 None:intergenic
CGAACATTGCGCTTGGGGCC+TGG 0.318948 5:-16535860 None:intergenic
TTTGCTTCACGACTTCCTTC+TGG 0.354439 5:-16536529 None:intergenic
GCGCAACTTGTTCAACTTGT+TGG 0.354873 5:+16537487 MsaT026081.1:CDS
GGATTCTCACCATTCGAATA+AGG 0.364094 5:-16535944 None:intergenic
GATGTTCCTGTGTTGGTTGT+TGG 0.372353 5:+16535740 MsaT026081.1:CDS
TATACTTTCCCACCTGGTTC+AGG 0.373635 5:+16535920 MsaT026081.1:CDS
CCTGCTGCCACAGGGGATAC+AGG 0.376950 5:-16535971 None:intergenic
TGCTATGCTCAGAGGGATCT+TGG 0.382368 5:-16536402 None:intergenic
CATTTAAATCAATTTGATGT+AGG 0.397989 5:-16536366 None:intergenic
ACGGGCCGAACATTGCGCTT+GGG 0.403809 5:-16535866 None:intergenic
GCATGGCTAGCAATTTGAAT+TGG 0.406712 5:-16537242 None:intergenic
CACGGGCCGAACATTGCGCT+TGG 0.408670 5:-16535867 None:intergenic
GCACCTTGTCCTGCTGCCAC+AGG 0.438140 5:-16535980 None:intergenic
CAAAGAGAGGGCGTAGTGAA+TGG 0.443133 5:+16536548 MsaT026081.1:CDS
CAGGCCCCAAGCGCAATGTT+CGG 0.443678 5:+16535861 MsaT026081.1:CDS
CACCTTGTCCTGCTGCCACA+GGG 0.446495 5:-16535979 None:intergenic
CACATCAGTCACTGCTCCTA+TGG 0.448672 5:+16537355 MsaT026081.1:CDS
AGATATTTCAAAAGAATTTG+TGG 0.448838 5:+16537208 MsaT026081.1:CDS
GAACAACAACAGGAGAAAAC+TGG 0.454055 5:+16536427 MsaT026081.1:CDS
GGTTTCTTCCATGTAGACTT+AGG 0.456119 5:-16535695 None:intergenic
CCTGTATCCCCTGTGGCAGC+AGG 0.482180 5:+16535971 MsaT026081.1:CDS
GCATAGCATGGAACAACAAC+AGG 0.485938 5:+16536417 MsaT026081.1:CDS
TTGGTGCTGCTCTGTCCAAT+CGG 0.496082 5:+16537428 MsaT026081.1:CDS
TCAAATTGATTTAAATGAGT+CGG 0.503726 5:+16536372 MsaT026081.1:CDS
TGATAGCGTGGTGATGCCAC+AGG 0.503741 5:-16535833 None:intergenic
CGGGCCGAACATTGCGCTTG+GGG 0.503942 5:-16535865 None:intergenic
CTTGAGGTGGCTGTGTCTTG+AGG 0.504065 5:-16537395 None:intergenic
GGATTCTCATGTTGTTCCAT+AGG 0.504821 5:-16537371 None:intergenic
CACCAACTGCATTTGTCTTG+AGG 0.508085 5:-16537411 None:intergenic
GGCAGCAATATCAATGAGTC+GGG 0.509560 5:+16536448 MsaT026081.1:CDS
CCTGCATATACTTTCCCACC+TGG 0.509645 5:+16535914 MsaT026081.1:CDS
ATGTGAGTTGGAGGTGTCAC+GGG 0.512250 5:-16535884 None:intergenic
AATGTGAGTTGGAGGTGTCA+CGG 0.516122 5:-16535885 None:intergenic
AAAGAGAGGGCGTAGTGAAT+GGG 0.526290 5:+16536549 MsaT026081.1:CDS
TCCCCTGTGGCAGCAGGACA+AGG 0.527271 5:+16535977 MsaT026081.1:CDS
AGAAAGAGCTGGCCAAGACT+TGG 0.529628 5:-16535765 None:intergenic
TGTTCCATGCTATGCTCAGA+GGG 0.536332 5:-16536409 None:intergenic
GCCACAGGGGATACAGGCTT+AGG 0.537409 5:-16535965 None:intergenic
GCAGGAACGGCAATGTGAGT+TGG 0.540550 5:-16535896 None:intergenic
ATGTATAGGTTGTTTCTGGA+GGG 0.542704 5:+16537155 MsaT026081.1:intron
CAACTGCATTTGTCTTGAGG+TGG 0.545901 5:-16537408 None:intergenic
TGGTTGTTGGAACCAAGTCT+TGG 0.553347 5:+16535753 MsaT026081.1:CDS
TTCGAATAAGGTCCTGAACC+AGG 0.561660 5:-16535932 None:intergenic
TGGCAGCAATATCAATGAGT+CGG 0.562292 5:+16536447 MsaT026081.1:CDS
TGTATAGGTTGTTTCTGGAG+GGG 0.562950 5:+16537156 MsaT026081.1:intron
TCACCACGCTATCAAAAGCC+AGG 0.565310 5:+16535842 MsaT026081.1:CDS
TTGTTCCATGCTATGCTCAG+AGG 0.567759 5:-16536410 None:intergenic
CACCTCAAGACAAATGCAGT+TGG 0.567812 5:+16537409 MsaT026081.1:CDS
GAGGTGGCTGTGTCTTGAGG+AGG 0.576603 5:-16537392 None:intergenic
TCAGGAAGTGTAGAACCGAT+TGG 0.579196 5:-16537443 None:intergenic
AAGTGTTGATGTTCCTGTGT+TGG 0.580284 5:+16535733 MsaT026081.1:CDS
GTTTGAGCAACAGAAAGAGC+TGG 0.581931 5:-16535776 None:intergenic
GGCGTAGTGAATGGGTACAT+TGG 0.582420 5:+16536557 MsaT026081.1:CDS
TTAGTGCTCCTAAGTCTACA+TGG 0.585666 5:+16535687 MsaT026081.1:CDS
CCAGGTGGGAAAGTATATGC+AGG 0.588904 5:-16535914 None:intergenic
GGTTCAGGACCTTATTCGAA+TGG 0.589457 5:+16535935 MsaT026081.1:CDS
GAATGGGTACATTGGACAGA+AGG 0.593788 5:+16536565 MsaT026081.1:CDS
TCTTGTTTAAGGTTGTGTCG+TGG 0.595697 5:-16537328 None:intergenic
AGATCCCTCTGAGCATAGCA+TGG 0.596307 5:+16536405 MsaT026081.1:CDS
ATGTGAAAGATACAGAGAAG+AGG 0.601303 5:+16537288 MsaT026081.1:CDS
ATTAGAGTTTAGAATTGCGA+CGG 0.604472 5:-16536476 None:intergenic
GATGTATAGGTTGTTTCTGG+AGG 0.607647 5:+16537154 MsaT026081.1:intron
TGGGAAAGTATATGCAGGAA+CGG 0.613830 5:-16535909 None:intergenic
GGAACGGCAATGTGAGTTGG+AGG 0.625369 5:-16535893 None:intergenic
AAGTCTACATGGAAGAAACC+TGG 0.626539 5:+16535698 MsaT026081.1:CDS
CAAGCTGAGTCAGTACCAGA+AGG 0.630435 5:+16536514 MsaT026081.1:CDS
GGAAGTCGTGAAGCAAAGAG+AGG 0.632062 5:+16536535 MsaT026081.1:CDS
GAAGTCGTGAAGCAAAGAGA+GGG 0.647998 5:+16536536 MsaT026081.1:CDS
AATAAGGTCCTGAACCAGGT+GGG 0.650251 5:-16535928 None:intergenic
TGTTGAGAATGTTCGTCCTG+TGG 0.664926 5:+16535817 MsaT026081.1:CDS
TTGGTTCCAACAACCAACAC+AGG 0.665985 5:-16535746 None:intergenic
TCCTAAGCCTGTATCCCCTG+TGG 0.686944 5:+16535964 MsaT026081.1:CDS
ACCTTGTCCTGCTGCCACAG+GGG 0.694899 5:-16535978 None:intergenic
GAATAAGGTCCTGAACCAGG+TGG 0.699303 5:-16535929 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 16535665 16537523 16535665 ID=MsaG026081
Chr5 mRNA 16535665 16537523 16535665 ID=MsaT026081.1;Parent=MsaG026081
Chr5 exon 16535665 16535998 16535665 ID=MsaT026081.1.exon1;Parent=MsaT026081.1
Chr5 CDS 16535665 16535998 16535665 ID=cds.MsaT026081.1;Parent=MsaT026081.1
Chr5 exon 16536365 16536596 16536365 ID=MsaT026081.1.exon2;Parent=MsaT026081.1
Chr5 CDS 16536365 16536596 16536365 ID=cds.MsaT026081.1;Parent=MsaT026081.1
Chr5 exon 16537163 16537523 16537163 ID=MsaT026081.1.exon3;Parent=MsaT026081.1
Chr5 CDS 16537163 16537523 16537163 ID=cds.MsaT026081.1;Parent=MsaT026081.1
Gene Sequence

>MsaT026081.1

ATGGTGATTGCTGATAATGAGATTAGTGCTCCTAAGTCTACATGGAAGAAACCTGGTGTTGATGAGAAAAGTGTTGATGTTCCTGTGTTGGTTGTTGGAACCAAGTCTTGGCCAGCTCTTTCTGTTGCTCAAACTCCAAAACCTAAGAATCGTGTTGAGAATGTTCGTCCTGTGGCATCACCACGCTATCAAAAGCCAGGCCCCAAGCGCAATGTTCGGCCCGTGACACCTCCAACTCACATTGCCGTTCCTGCATATACTTTCCCACCTGGTTCAGGACCTTATTCGAATGGTGAGAATCCTAAGCCTGTATCCCCTGTGGCAGCAGGACAAGACCTACATCAAATTGATTTAAATGAGTCGGTTTCAGTCCAAGATCCCTCTGAGCATAGCATGGAACAACAACAGGAGAAAACTGGCAGCAATATCAATGAGTCGGGTCATGCCGTCGCAATTCTAAACTCTAATGATAATAACTTAGTTCAAGCTGAGTCAGTACCAGAAGGAAGTCGTGAAGCAAAGAGAGGGCGTAGTGAATGGGTACATTGGACAGAAGGTGAACATAAGTTGTTTCTGGAGGGGCTAGAAAAATATGGTAAGGGACGTTGGAAAGATATTTCAAAAGAATTTGTGGTGACAAAGACTCCAATTCAAATTGCTAGCCATGCCCAAAAATACTTTATCCACCAAAATGTGAAAGATACAGAGAAGAGGAAAAAGAGAAGAAGTATCCACGACACAACCTTAAACAAGAATGACACATCAGTCACTGCTCCTATGGAACAACATGAGAATCCTCCTCAAGACACAGCCACCTCAAGACAAATGCAGTTGGTGCTGCTCTGTCCAATCGGTTCTACACTTCCTGATATGAACAATCTTGAGAAGATGCGCAACTTGTTCAACTTGTTGGCAAAAGAACTTTGA
Protein sequence

>MsaT026081.1

MVIADNEISAPKSTWKKPGVDEKSVDVPVLVVGTKSWPALSVAQTPKPKNRVENVRPVASPRYQKPGPKRNVRPVTPPTHIAVPAYTFPPGSGPYSNGENPKPVSPVAAGQDLHQIDLNESVSVQDPSEHSMEQQQEKTGSNINESGHAVAILNSNDNNLVQAESVPEGSREAKRGRSEWVHWTEGEHKLFLEGLEKYGKGRWKDISKEFVVTKTPIQIASHAQKYFIHQNVKDTEKRKKRRSIHDTTLNKNDTSVTAPMEQHENPPQDTATSRQMQLVLLCPIGSTLPDMNNLEKMRNLFNLLAKEL*