AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG026083

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026083 MtrunA17_Chr5g0409841 78.613 173 37 0 119 291 11 183 2.94e-91 271
MsaG026083 MtrunA17_Chr5g0440731 71.930 171 41 3 118 286 27 192 2.16e-76 235
MsaG026083 MtrunA17_Chr5g0440741 71.930 171 36 5 118 286 27 187 5.13e-73 226
MsaG026083 MtrunA17_Chr5g0409831 59.783 184 48 3 119 291 11 179 4.33e-58 186
MsaG026083 MtrunA17_Chr5g0409951 53.289 152 32 2 3 118 90 238 1.44e-40 142
MsaG026083 MtrunA17_Chr5g0409951 49.412 85 28 2 122 204 38 109 7.57e-13 67.4
MsaG026083 MtrunA17_Chr5g0440821 47.872 188 23 5 1 118 1 183 2.67e-37 140
MsaG026083 MtrunA17_Chr5g0440721 53.788 132 34 3 1 118 1 119 3.04e-28 107
MsaG026083 MtrunA17_Chr5g0409941 58.824 102 12 2 15 116 34 105 3.44e-27 102
MsaG026083 MtrunA17_Chr1g0162081 55.056 89 36 3 187 274 110 195 3.20e-25 102
MsaG026083 MtrunA17_Chr3g0104071 41.727 139 65 3 144 281 104 227 1.98e-24 100
MsaG026083 MtrunA17_Chr5g0436501 49.107 112 49 3 190 295 115 224 2.04e-23 97.1
MsaG026083 MtrunA17_Chr1g0210471 42.857 133 70 4 154 286 81 207 4.25e-23 95.5
MsaG026083 MtrunA17_Chr5g0429521 53.125 96 42 2 190 284 122 215 1.78e-22 95.1
MsaG026083 MtrunA17_Chr4g0062741 51.807 83 37 2 193 274 131 211 2.27e-22 94.7
MsaG026083 MtrunA17_Chr2g0331031 48.485 99 47 2 192 288 99 195 6.99e-22 94.4
MsaG026083 MtrunA17_Chr4g0055931 39.231 130 68 4 150 275 47 169 7.17e-22 93.6
MsaG026083 MtrunA17_Chr7g0241761 55.000 80 34 1 189 268 129 206 2.61e-21 92.0
MsaG026083 MtrunA17_Chr3g0135671 50.000 76 37 1 202 276 93 168 7.74e-19 83.6
MsaG026083 MtrunA17_Chr8g0364731 57.143 70 29 1 209 278 10 78 1.05e-18 82.0
MsaG026083 MtrunA17_Chr4g0059701 45.455 110 54 3 183 291 66 170 1.38e-18 84.0
MsaG026083 MtrunA17_Chr8g0365011 35.556 180 85 7 120 278 12 181 1.43e-18 84.0
MsaG026083 MtrunA17_Chr6g0488471 54.286 70 30 1 196 265 93 160 1.55e-18 84.0
MsaG026083 MtrunA17_Chr8g0389241 43.396 106 51 4 196 297 101 201 3.76e-18 82.8
MsaG026083 MtrunA17_Chr5g0440751 48.760 121 27 3 25 118 13 125 1.08e-17 79.7
MsaG026083 MtrunA17_Chr5g0432921 44.118 102 51 3 201 301 114 210 1.33e-17 80.1
MsaG026083 MtrunA17_Chr5g0415191 54.167 72 31 1 176 247 80 149 2.37e-17 80.9
MsaG026083 MtrunA17_Chr5g0432941 36.090 133 75 4 174 301 83 210 2.59e-16 76.6
MsaG026083 MtrunA17_Chr1g0192061 50.000 76 36 2 199 273 60 134 1.10e-15 73.9
MsaG026083 MtrunA17_Chr3g0092621 44.444 72 38 1 199 270 83 152 1.79e-15 73.2
MsaG026083 MtrunA17_Chr6g0452791 37.864 103 51 2 202 303 82 172 2.04e-14 70.1
MsaG026083 MtrunA17_Chr3g0113121 50.685 73 29 2 201 267 96 167 2.44e-13 68.2
MsaG026083 MtrunA17_Chr8g0370121 43.077 65 37 0 197 261 97 161 4.55e-12 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026083 AT5G08520.1 48.515 101 50 1 167 267 85 183 2.05e-25 103
MsaG026083 AT5G04760.1 54.217 83 36 1 185 267 84 164 1.84e-23 96.3
MsaG026083 AT1G49010.1 50.549 91 42 2 192 281 126 214 3.04e-23 97.8
MsaG026083 AT5G58900.1 57.143 84 33 2 187 269 128 209 4.11e-23 97.1
MsaG026083 AT2G38090.1 49.550 111 47 4 170 273 105 213 1.40e-22 95.5
MsaG026083 AT5G23650.1 45.536 112 56 2 160 271 83 189 1.02e-21 94.0
MsaG026083 AT5G05790.2 48.485 99 48 2 185 282 116 212 3.54e-21 91.3
MsaG026083 AT5G05790.1 48.485 99 48 2 185 282 116 212 3.54e-21 91.3
MsaG026083 AT5G01200.1 56.000 75 31 1 193 267 139 211 7.74e-21 90.1
MsaG026083 AT3G11280.2 52.222 90 37 2 186 271 113 200 1.34e-20 89.4
MsaG026083 AT3G11280.1 52.222 90 37 2 186 271 113 200 1.34e-20 89.4
MsaG026083 AT5G47390.1 51.351 74 34 1 192 265 88 159 1.01e-19 88.6
MsaG026083 AT5G61620.1 52.273 88 32 2 202 281 110 195 1.34e-19 87.8
MsaG026083 AT3G10580.2 42.857 98 49 3 184 279 77 169 4.47e-19 85.1
MsaG026083 AT3G10580.1 42.857 98 49 3 184 279 77 169 5.88e-19 85.5
MsaG026083 AT5G56840.1 52.857 70 32 1 196 265 87 155 7.35e-18 81.3
MsaG026083 AT1G74840.2 56.250 64 28 0 183 246 79 142 3.69e-17 79.7
MsaG026083 AT1G74840.1 56.250 64 28 0 183 246 79 142 4.26e-17 79.7
MsaG026083 AT3G16350.1 58.065 62 24 1 188 247 123 184 1.45e-16 79.7
MsaG026083 AT1G70000.1 61.111 54 21 0 194 247 92 145 1.51e-16 78.2
MsaG026083 AT1G70000.2 61.111 54 21 0 194 247 92 145 1.51e-16 78.2
MsaG026083 AT1G19000.2 48.315 89 36 3 158 246 70 148 5.48e-16 77.0
MsaG026083 AT1G19000.1 48.315 89 36 3 158 246 70 148 5.48e-16 77.0
MsaG026083 AT4G09450.1 56.716 67 27 1 202 268 93 157 6.76e-16 75.1
MsaG026083 AT3G10590.1 31.522 184 98 5 106 288 37 193 6.78e-16 75.5

Find 78 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCTATATCTTTCACATTT+TGG 0.106789 5:-16612111 None:intergenic
CGATGTGTCATTCTTGTTTA+AGG 0.196236 5:-16612167 None:intergenic
TGTGATGTATAGGTTGTTTC+TGG 0.210646 5:+16611979 MsaT026083.1:intron
CTCCTAAGAAAAGCAATTAT+TGG 0.235641 5:+16610432 MsaT026083.1:CDS
TCAACACGATTCTTAGGTTT+TGG 0.247019 5:-16610545 None:intergenic
ACATTCTCAACACGATTCTT+AGG 0.260608 5:-16610551 None:intergenic
TTCTCAAGATTGTTCATATC+AGG 0.300574 5:-16612273 None:intergenic
CCTGCTGCCACTGGGGATAC+AGG 0.325036 5:-16610716 None:intergenic
TATGCTTTCCCACCTGGTTC+AGG 0.329227 5:+16610665 MsaT026083.1:CDS
TCACCTTGTCCTGCTGCCAC+TGG 0.332187 5:-16610725 None:intergenic
CACCTTGTCCTGCTGCCACT+GGG 0.340792 5:-16610724 None:intergenic
GATGTTCCTGTGTTGGTTGT+TGG 0.356491 5:+16610485 MsaT026083.1:CDS
CCTGCATATGCTTTCCCACC+TGG 0.358776 5:+16610659 MsaT026083.1:CDS
TCTGCTTCACGACTTCCTTC+TGG 0.363810 5:-16611384 None:intergenic
TGAGCATAGCATGGAACAAC+AGG 0.409179 5:+16611227 MsaT026083.1:CDS
TGCTATGCTCAGATGGATCT+TGG 0.411752 5:-16611215 None:intergenic
CGAACATTGTGCTTGGGGCC+TGG 0.414345 5:-16610605 None:intergenic
GGATTCTCACCATTCGGATA+AGG 0.417277 5:-16610689 None:intergenic
ACAGGACGAACATTGTGCTT+GGG 0.429819 5:-16610611 None:intergenic
AAAGCAATTATGGTGATTGC+TGG 0.434875 5:+16610386 None:intergenic
GGCTTAGGATTCTCACCATT+CGG 0.437848 5:-16610695 None:intergenic
AGATATTTCAAAAGAATTTG+TGG 0.448838 5:+16612036 MsaT026083.1:CDS
CACATCGATCACTGCTCCTA+TGG 0.451206 5:+16612183 MsaT026083.1:CDS
TTGGTTCTGCTCTGTCCAAT+CGG 0.451241 5:+16612240 MsaT026083.1:CDS
AACTTAGTTCAAGCTGAGTC+AGG 0.458703 5:+16611315 MsaT026083.1:CDS
ATGGAACAACAGGAGAAAAC+TGG 0.458792 5:+16611237 MsaT026083.1:CDS
CACAGGACGAACATTGTGCT+TGG 0.472312 5:-16610612 None:intergenic
ATGACCCGACTCACTGATAT+CGG 0.474612 5:-16611262 None:intergenic
TGGAAGAAACCTGATGTTGA+TGG 0.476300 5:+16610452 MsaT026083.1:CDS
AGAGAGAAGGCGTAGGGAAA+GGG 0.483144 5:+16611404 MsaT026083.1:CDS
GATGGATCTTGGACTGAAGC+TGG 0.485915 5:-16611204 None:intergenic
CAGAGAGAAGGCGTAGGGAA+AGG 0.500095 5:+16611403 MsaT026083.1:CDS
CCTGTATCCCCAGTGGCAGC+AGG 0.501497 5:+16610716 MsaT026083.1:CDS
GGATTCTCATGTTGTTCCAT+AGG 0.504821 5:-16612199 None:intergenic
GGCACCGATATCAGTGAGTC+GGG 0.505895 5:+16611258 MsaT026083.1:CDS
GCCACTGGGGATACAGGCTT+AGG 0.516695 5:-16610710 None:intergenic
ATGTGAGTTGGAGGTGCCAC+AGG 0.521985 5:-16610629 None:intergenic
GCATGGCTAGCAATTTGAGT+TGG 0.525594 5:-16612070 None:intergenic
TGTTCCATGCTATGCTCAGA+TGG 0.527301 5:-16611222 None:intergenic
TGTATAGGTTGTTTCTGGAG+GGG 0.528745 5:+16611984 MsaT026083.1:intron
AGAAAGAGCTGGCCACGACT+TGG 0.528799 5:-16610510 None:intergenic
AACCAACTGCATTTGTCTTG+AGG 0.533805 5:-16612223 None:intergenic
CAAGCTGAGTCAGGAGCAGA+AGG 0.534197 5:+16611324 MsaT026083.1:CDS
ATGTATAGGTTGTTTCTGGA+GGG 0.542704 5:+16611983 MsaT026083.1:intron
TCCCCAGTGGCAGCAGGACA+AGG 0.543373 5:+16610722 MsaT026083.1:CDS
TGATAGTGTGGTGATGCCAC+AGG 0.546962 5:-16610578 None:intergenic
ATTAGAGTTTAGAATTTCGA+CGG 0.548915 5:-16611286 None:intergenic
GCAGGAACAGCAATGTGAGT+TGG 0.551521 5:-16610641 None:intergenic
ATGTGAAAGATATAGAAAAG+AGG 0.554408 5:+16612116 MsaT026083.1:CDS
CAACTGCATTTGTCTTGAGG+AGG 0.556868 5:-16612220 None:intergenic
TTCGGATAAGGTCCTGAACC+AGG 0.561660 5:-16610677 None:intergenic
TCAGGAAGTGTAGAACCGAT+TGG 0.579196 5:-16612255 None:intergenic
GAAGTCGTGAAGCAGAGAGA+AGG 0.582294 5:+16611391 MsaT026083.1:CDS
GGCGTAGGGAAAGGGTACAT+TGG 0.585151 5:+16611412 MsaT026083.1:CDS
TGAAGCAGAGAGAAGGCGTA+GGG 0.585499 5:+16611398 MsaT026083.1:CDS
GAAAGGGTACATTGGACAGA+AGG 0.586417 5:+16611420 MsaT026083.1:CDS
CTCCTCAAGACAAATGCAGT+TGG 0.587149 5:+16612221 MsaT026083.1:CDS
TCACCACACTATCAAAAGCC+AGG 0.587566 5:+16610587 MsaT026083.1:CDS
CCAGGTGGGAAAGCATATGC+AGG 0.588904 5:-16610659 None:intergenic
GTTTGAGCATCAGAAAGAGC+TGG 0.591524 5:-16610521 None:intergenic
GTGAAGCAGAGAGAAGGCGT+AGG 0.593591 5:+16611397 MsaT026083.1:CDS
TCTTGTTTAAGGTTGTGTCG+TGG 0.595697 5:-16612156 None:intergenic
CAAGCACAATGTTCGTCCTG+TGG 0.597290 5:+16610613 MsaT026083.1:CDS
AGATCCATCTGAGCATAGCA+TGG 0.598790 5:+16611218 MsaT026083.1:CDS
TGGCACCGATATCAGTGAGT+CGG 0.599539 5:+16611257 MsaT026083.1:CDS
GGAAGAAACCTGATGTTGAT+GGG 0.600653 5:+16610453 MsaT026083.1:CDS
CAGGACGAACATTGTGCTTG+GGG 0.606274 5:-16610610 None:intergenic
GATGTATAGGTTGTTTCTGG+AGG 0.607647 5:+16611982 MsaT026083.1:intron
GGAACAGCAATGTGAGTTGG+AGG 0.613590 5:-16610638 None:intergenic
CAAGCTGAGTCAGTACCAGA+AGG 0.630435 5:+16611369 MsaT026083.1:CDS
GGTTCAGGACCTTATCCGAA+TGG 0.640623 5:+16610680 MsaT026083.1:CDS
GATAAGGTCCTGAACCAGGT+GGG 0.657071 5:-16610673 None:intergenic
ACCTTGTCCTGCTGCCACTG+GGG 0.659898 5:-16610723 None:intergenic
TTGGTTCCAACAACCAACAC+AGG 0.662334 5:-16610491 None:intergenic
TGTTGAGAATGTTCGTCCTG+TGG 0.664926 5:+16610562 MsaT026083.1:CDS
TGGTTGTTGGAACCAAGTCG+TGG 0.665596 5:+16610498 MsaT026083.1:CDS
TCCTAAGCCTGTATCCCCAG+TGG 0.691555 5:+16610709 MsaT026083.1:CDS
GGATAAGGTCCTGAACCAGG+TGG 0.699303 5:-16610674 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 16610395 16612282 16610395 ID=MsaG026083
Chr5 mRNA 16610395 16612282 16610395 ID=MsaT026083.1;Parent=MsaG026083
Chr5 exon 16610395 16610743 16610395 ID=MsaT026083.1.exon1;Parent=MsaT026083.1
Chr5 CDS 16610395 16610743 16610395 ID=cds.MsaT026083.1;Parent=MsaT026083.1
Chr5 exon 16611178 16611451 16611178 ID=MsaT026083.1.exon2;Parent=MsaT026083.1
Chr5 CDS 16611178 16611451 16611178 ID=cds.MsaT026083.1;Parent=MsaT026083.1
Chr5 exon 16611991 16612282 16611991 ID=MsaT026083.1.exon3;Parent=MsaT026083.1
Chr5 CDS 16611991 16612282 16611991 ID=cds.MsaT026083.1;Parent=MsaT026083.1
Gene Sequence

>MsaT026083.1

ATGGTGATTGCTGGTAATGAGATTAGTGCTCGTAAGTCTCCTAAGAAAAGCAATTATTGGAAGAAACCTGATGTTGATGGGAAAAGTTTTGATGTTCCTGTGTTGGTTGTTGGAACCAAGTCGTGGCCAGCTCTTTCTGATGCTCAAACTCCAAAACCTAAGAATCGTGTTGAGAATGTTCGTCCTGTGGCATCACCACACTATCAAAAGCCAGGCCCCAAGCACAATGTTCGTCCTGTGGCACCTCCAACTCACATTGCTGTTCCTGCATATGCTTTCCCACCTGGTTCAGGACCTTATCCGAATGGTGAGAATCCTAAGCCTGTATCCCCAGTGGCAGCAGGACAAGACCTCCATCAAAATGATTTAAATGAGCCAGCTTCAGTCCAAGATCCATCTGAGCATAGCATGGAACAACAGGAGAAAACTGGCACCGATATCAGTGAGTCGGGTCATGCCGTCGAAATTCTAAACTCTAATGATAATAACTTAGTTCAAGCTGAGTCAGGAGCAGAAGGAAGTAATGAAGCTAACTTAGTTCAAGCTGAGTCAGTACCAGAAGGAAGTCGTGAAGCAGAGAGAAGGCGTAGGGAAAGGGTACATTGGACAGAAGGTGAACATAAGTTGTTTCTGGAGGGGCTTGAAAAACATGGTAGGGGACGTTGGAAAGATATTTCAAAAGAATTTGTGGTGACAAAGACTCCAACTCAAATTGCTAGCCATGCCCAAAAATACTTTATCCACCAAAATGTGAAAGATATAGAAAAGAGGAAAAAGAGAAGAAGTATCCACGACACAACCTTAAACAAGAATGACACATCGATCACTGCTCCTATGGAACAACATGAGAATCCTCCTCAAGACAAATGCAGTTGGTTCTGCTCTGTCCAATCGGTTCTACACTTCCTGATATGA
Protein sequence

>MsaT026083.1

MVIAGNEISARKSPKKSNYWKKPDVDGKSFDVPVLVVGTKSWPALSDAQTPKPKNRVENVRPVASPHYQKPGPKHNVRPVAPPTHIAVPAYAFPPGSGPYPNGENPKPVSPVAAGQDLHQNDLNEPASVQDPSEHSMEQQEKTGTDISESGHAVEILNSNDNNLVQAESGAEGSNEANLVQAESVPEGSREAERRRRERVHWTEGEHKLFLEGLEKHGRGRWKDISKEFVVTKTPTQIASHAQKYFIHQNVKDIEKRKKRRSIHDTTLNKNDTSITAPMEQHENPPQDKCSWFCSVQSVLHFLI*