AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG002371

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002371 MtrunA17_Chr1g0173841 95.785 261 8 1 1 258 131 391 0.0 529
MsaG002371 MtrunA17_Chr7g0258011 82.700 237 32 3 19 253 118 347 3.42e-148 417
MsaG002371 MtrunA17_Chr8g0352011 73.333 240 53 3 17 255 110 339 4.24e-131 374
MsaG002371 MtrunA17_Chr2g0328921 72.653 245 50 4 15 257 86 315 5.72e-125 357
MsaG002371 MtrunA17_Chr5g0422571 65.368 231 51 4 14 242 59 262 2.20e-108 315
MsaG002371 MtrunA17_Chr2g0321291 61.475 244 79 4 11 253 76 305 7.48e-108 314
MsaG002371 MtrunA17_Chr4g0026521 62.821 234 65 3 21 251 76 290 6.19e-105 306
MsaG002371 MtrunA17_Chr1g0198651 74.419 172 41 1 79 247 99 270 2.11e-98 289
MsaG002371 MtrunA17_Chr4g0053341 60.173 231 56 3 10 233 24 225 3.15e-96 281
MsaG002371 MtrunA17_Chr1g0200421 36.196 163 95 4 89 244 245 405 5.21e-25 103
MsaG002371 MtrunA17_Chr2g0320341 36.306 157 91 4 89 238 238 392 9.65e-23 95.9
MsaG002371 MtrunA17_Chr1g0151351 35.915 142 80 5 87 226 62 194 6.07e-20 88.6
MsaG002371 MtrunA17_Chr7g0268961 34.437 151 83 5 83 226 33 174 8.17e-20 88.2
MsaG002371 MtrunA17_Chr1g0162971 36.691 139 78 5 89 226 64 193 1.24e-19 87.4
MsaG002371 MtrunA17_Chr1g0210821 34.932 146 85 5 82 226 60 196 1.32e-19 87.8
MsaG002371 MtrunA17_Chr4g0029521 35.971 139 80 4 89 226 61 191 1.52e-19 87.4
MsaG002371 MtrunA17_Chr1g0199101 35.374 147 83 6 82 226 63 199 1.77e-19 87.4
MsaG002371 MtrunA17_Chr1g0185121 35.915 142 80 5 87 226 61 193 1.85e-19 87.0
MsaG002371 MtrunA17_Chr1g0191991 32.948 173 90 7 83 247 74 228 2.07e-19 87.0
MsaG002371 MtrunA17_Chr1g0181381 31.977 172 100 5 82 252 54 209 2.19e-19 87.0
MsaG002371 MtrunA17_Chr1g0163001 34.932 146 85 5 82 226 59 195 3.24e-19 86.7
MsaG002371 MtrunA17_Chr2g0326381 35.971 139 80 4 89 226 55 185 6.06e-19 85.5
MsaG002371 MtrunA17_Chr8g0342421 34.286 140 80 5 89 226 85 214 7.30e-19 85.5
MsaG002371 MtrunA17_Chr2g0330171 33.333 147 86 5 82 226 62 198 1.16e-18 84.7
MsaG002371 MtrunA17_Chr8g0382121 37.143 140 81 6 97 231 127 264 1.23e-18 83.6
MsaG002371 MtrunA17_Chr7g0263941 35.374 147 83 6 82 226 50 186 1.40e-18 84.3
MsaG002371 MtrunA17_Chr8g0373541 34.532 139 81 4 89 226 56 185 2.40e-18 84.0
MsaG002371 MtrunA17_Chr3g0123941 36.025 161 93 7 97 253 139 293 3.87e-18 82.4
MsaG002371 MtrunA17_Chr4g0040571 30.857 175 103 5 82 255 55 212 2.89e-17 80.9
MsaG002371 MtrunA17_Chr2g0324991 33.803 142 84 5 82 221 8 141 6.61e-17 75.5
MsaG002371 MtrunA17_Chr3g0141431 32.143 140 85 4 87 224 43 174 2.47e-15 75.1
MsaG002371 MtrunA17_Chr8g0375521 29.834 181 104 7 57 222 6 178 1.21e-13 70.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002371 AT3G57670.1 75.954 262 41 3 19 258 122 383 1.02e-139 398
MsaG002371 AT1G51220.1 68.354 237 70 2 19 250 101 337 6.43e-119 343
MsaG002371 AT3G20880.1 68.619 239 64 6 19 250 176 410 6.39e-114 333
MsaG002371 AT1G13290.1 66.516 221 43 4 17 235 52 243 6.76e-103 301
MsaG002371 AT1G08290.1 56.175 251 100 4 3 243 82 332 8.43e-99 292
MsaG002371 AT1G34790.1 61.039 231 76 1 19 249 83 299 3.51e-98 289
MsaG002371 AT1G34370.3 35.028 177 100 5 89 256 28 198 5.16e-26 103
MsaG002371 AT1G34370.2 38.816 152 81 5 89 231 238 386 1.13e-25 105
MsaG002371 AT1G34370.1 38.816 152 81 5 89 231 238 386 1.13e-25 105
MsaG002371 AT5G22890.1 39.103 156 82 6 89 234 211 363 2.49e-23 97.8
MsaG002371 AT1G55110.3 36.620 142 79 5 87 226 84 216 4.15e-20 89.4
MsaG002371 AT1G55110.1 36.620 142 79 5 87 226 84 216 4.15e-20 89.4
MsaG002371 AT1G55110.2 36.620 142 79 5 87 226 84 216 4.15e-20 89.4
MsaG002371 AT2G02070.2 34.194 155 92 4 73 226 59 204 1.07e-19 88.6
MsaG002371 AT2G02070.1 34.194 155 92 4 73 226 59 204 1.07e-19 88.6
MsaG002371 AT5G03150.1 32.353 170 98 5 89 257 76 229 1.32e-19 88.2
MsaG002371 AT2G02080.1 35.461 141 81 4 87 226 75 206 1.94e-19 87.8
MsaG002371 AT2G02080.4 35.461 141 81 4 87 226 75 206 1.94e-19 87.8
MsaG002371 AT2G02080.5 35.461 141 81 4 87 226 75 206 1.94e-19 87.8
MsaG002371 AT2G02080.3 35.461 141 81 4 87 226 75 206 1.94e-19 87.8
MsaG002371 AT1G14580.3 35.616 146 84 4 82 226 83 219 6.64e-19 85.9
MsaG002371 AT1G14580.1 35.616 146 84 4 82 226 69 205 6.96e-19 85.9
MsaG002371 AT1G14580.2 35.616 146 84 4 82 226 69 205 6.96e-19 85.9
MsaG002371 AT2G02080.6 36.232 138 78 4 90 226 1 129 8.27e-19 85.5
MsaG002371 AT2G02080.2 36.232 138 78 4 90 226 1 129 8.27e-19 85.5
MsaG002371 AT5G66730.1 35.915 142 79 6 87 226 53 184 1.97e-18 84.7
MsaG002371 AT3G45260.2 35.971 139 80 4 89 226 62 192 1.18e-17 82.4
MsaG002371 AT3G45260.1 35.971 139 80 4 89 226 62 192 1.18e-17 82.4
MsaG002371 AT5G60470.1 33.813 139 83 4 89 226 58 188 1.63e-17 82.0
MsaG002371 AT5G60470.2 33.813 139 83 4 89 226 67 197 2.22e-17 81.6
MsaG002371 AT1G03840.2 32.192 146 89 4 82 226 55 191 2.36e-17 81.6
MsaG002371 AT5G60470.3 33.813 139 83 4 89 226 63 193 2.37e-17 81.3
MsaG002371 AT1G03840.1 32.192 146 89 4 82 226 57 193 2.37e-17 81.6
MsaG002371 AT5G44160.2 33.813 139 82 4 89 226 21 150 3.40e-17 80.9
MsaG002371 AT5G44160.1 33.813 139 82 4 89 226 60 189 3.46e-17 80.9
MsaG002371 AT3G50700.1 33.333 141 84 4 87 226 55 186 3.78e-17 80.9
MsaG002371 AT4G02670.2 32.192 146 90 3 82 226 71 208 8.49e-17 79.7
MsaG002371 AT4G02670.1 32.192 146 90 3 82 226 69 206 9.62e-17 79.3
MsaG002371 AT3G13810.4 33.333 147 87 5 82 226 86 223 1.16e-16 79.7
MsaG002371 AT3G13810.1 33.333 147 87 5 82 226 86 223 1.16e-16 79.7
MsaG002371 AT3G13810.2 32.877 146 89 4 82 226 87 224 1.22e-16 79.3
MsaG002371 AT3G13810.5 33.333 147 87 5 82 226 81 218 1.44e-16 79.3
MsaG002371 AT3G13810.3 32.877 146 89 4 82 226 73 210 1.47e-16 79.3
MsaG002371 AT3G13810.6 32.877 146 89 4 82 226 67 204 1.57e-16 79.0
MsaG002371 AT1G68130.1 30.216 139 86 5 87 222 62 192 2.76e-12 66.2

Find 48 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTCCTTCTCAGATTCTTAT+TGG 0.201568 1:+39431869 MsaT002371.1:CDS
TGTGTACCTCTTAGAGATTC+TGG 0.222352 1:-39434216 None:intergenic
AAAGATCATATAAGAGCTTT+TGG 0.231134 1:+39434501 MsaT002371.1:CDS
GGGAGTGGTCATGCTGCTTA+TGG 0.311784 1:+39434522 MsaT002371.1:CDS
CACTTCAAACACATTATAAA+AGG 0.323447 1:+39434337 MsaT002371.1:CDS
CATGTTGTTGTATCTGTTGA+AGG 0.332315 1:-39431927 None:intergenic
GTGACTGTTGCACTTCATAT+AGG 0.339638 1:+39431674 MsaT002371.1:CDS
TGACTGTTGCACTTCATATA+GGG 0.360463 1:+39431675 MsaT002371.1:CDS
TCTTTCAATGGCTTTGCTCT+TGG 0.361148 1:-39434306 None:intergenic
ACCCTTGTTAAGTGATCTAT+TGG 0.367615 1:-39431831 None:intergenic
ATTGTTGTTCACCAGGTTGC+AGG 0.377391 1:+39434268 MsaT002371.1:CDS
CCTTGCTATTGTTGTTCACC+AGG 0.381067 1:+39434261 MsaT002371.1:CDS
CATGCTGCTTATGGAATTGA+TGG 0.388035 1:+39434531 MsaT002371.1:CDS
TAGTCATAAAGTAGAAGAAA+AGG 0.405108 1:+39431637 MsaT002371.1:CDS
AAGCTTTGGTATTGTCTTTG+TGG 0.415419 1:+39434450 MsaT002371.1:CDS
CTTATCCTCAGATGCATATG+TGG 0.432175 1:+39434166 MsaT002371.1:intron
AGAAGAACTGTGGAAAGCTT+TGG 0.443136 1:+39434436 MsaT002371.1:CDS
AGTGTTCTGAAATCTTTCAA+TGG 0.447098 1:-39434318 None:intergenic
ATCTTGCACTTTAATGGATG+TGG 0.454122 1:+39431607 None:intergenic
TCTTGTTCAACTTCAGAAGC+AGG 0.458660 1:-39434573 None:intergenic
CGACCGCTTATGCTTAAAAT+CGG 0.461660 1:-39434475 None:intergenic
CACTTAACAAGGGTCAGTAT+TGG 0.467580 1:+39431840 MsaT002371.1:CDS
AGCGACGATTCCTCTTCAGC+TGG 0.480169 1:+39431797 MsaT002371.1:CDS
CTAAGAGGTACACAACCAAC+AGG 0.500045 1:+39434225 MsaT002371.1:CDS
ATCTCAGAAGAACTAGGGCT+TGG 0.503709 1:-39431701 None:intergenic
CAGATGCATATGTGGGGACA+TGG 0.531260 1:+39434174 MsaT002371.1:intron
CATGGATCACAATACAGAAA+AGG 0.532079 1:+39434192 MsaT002371.1:CDS
TATGTGTAGAAAATGTGGTA+AGG 0.535524 1:+39434380 MsaT002371.1:CDS
TTATCCTCAGATGCATATGT+GGG 0.539918 1:+39434167 MsaT002371.1:intron
GTTGCAATCTCAGAAGAACT+AGG 0.540111 1:-39431707 None:intergenic
ATAAGAATCTGAGAAGGAGT+AGG 0.541391 1:-39431866 None:intergenic
GAAGAAAAGGAAGATCATGA+AGG 0.566975 1:+39431650 MsaT002371.1:CDS
TAAGAATCTGAGAAGGAGTA+GGG 0.573637 1:-39431865 None:intergenic
AAAGGACCAGAATCTCTAAG+AGG 0.574044 1:+39434210 MsaT002371.1:CDS
CACATTATAAAAGGAAACAT+GGG 0.574183 1:+39434346 MsaT002371.1:CDS
ACACATTATAAAAGGAAACA+TGG 0.579095 1:+39434345 MsaT002371.1:CDS
CACAACCAACAGGTATGCTA+AGG 0.584031 1:+39434235 MsaT002371.1:CDS
TTGCAATCTCAGAAGAACTA+GGG 0.593596 1:-39431706 None:intergenic
TCAATGTTGTTCCTGCAACC+TGG 0.607275 1:-39434279 None:intergenic
GGAAGCCTTAGCATACCTGT+TGG 0.618027 1:-39434240 None:intergenic
TACCAATAGATCACTTAACA+AGG 0.618619 1:+39431829 MsaT002371.1:CDS
CAACAGATACAACAACATGC+AGG 0.634469 1:+39431931 MsaT002371.1:CDS
AGAACTCATGAGAAGAACTG+TGG 0.653790 1:+39434426 MsaT002371.1:CDS
CCTGGTGAACAACAATAGCA+AGG 0.660333 1:-39434261 None:intergenic
ACAGGACAAGAGAATTGTGT+CGG 0.668876 1:-39431893 None:intergenic
GGACCAATAAGAATCTGAGA+AGG 0.674504 1:-39431872 None:intergenic
ACCAATAGATCACTTAACAA+GGG 0.699637 1:+39431830 MsaT002371.1:CDS
TATCCTCAGATGCATATGTG+GGG 0.710095 1:+39434168 MsaT002371.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 39431620 39434620 39431620 ID=MsaG002371
Chr1 mRNA 39431620 39434620 39431620 ID=MsaT002371.1;Parent=MsaG002371
Chr1 exon 39431620 39431952 39431620 ID=MsaT002371.1.exon1;Parent=MsaT002371.1
Chr1 CDS 39431620 39431952 39431620 ID=cds.MsaT002371.1;Parent=MsaT002371.1
Chr1 exon 39434177 39434620 39434177 ID=MsaT002371.1.exon2;Parent=MsaT002371.1
Chr1 CDS 39434177 39434620 39434177 ID=cds.MsaT002371.1;Parent=MsaT002371.1
Gene Sequence

>MsaT002371.1

ATGGATGTGGATGATTGTAGTCATAAAGTAGAAGAAAAGGAAGATCATGAAGGTGTGACTGTTGCACTTCATATAGGGTTACCAAGCCCTAGTTCTTCTGAGATTGCAACTATGATGATGTCTTCTTCTTCTGAGATGATGATTAATGAACAAGATCATTTACAAGATGTTACTATTAGCGACGATTCCTCTTCAGCTGGATTTTTGAGTACCAATAGATCACTTAACAAGGGTCAGTATTGGATCCCTACTCCTTCTCAGATTCTTATTGGTCCGACACAATTCTCTTGTCCTGTTTGCTGCAAAACCTTCAACAGATACAACAACATGCAGATGCATATGTGGGGACATGGATCACAATACAGAAAAGGACCAGAATCTCTAAGAGGTACACAACCAACAGGTATGCTAAGGCTTCCTTGCTATTGTTGTTCACCAGGTTGCAGGAACAACATTGATCATCCAAGAGCAAAGCCATTGAAAGATTTCAGAACACTTCAAACACATTATAAAAGGAAACATGGGATCAAACCTTTTATGTGTAGAAAATGTGGTAAGGCTTTTGCTGTAAGAGGAGATTGGAGAACTCATGAGAAGAACTGTGGAAAGCTTTGGTATTGTCTTTGTGGTTCCGATTTTAAGCATAAGCGGTCGCTTAAAGATCATATAAGAGCTTTTGGGAGTGGTCATGCTGCTTATGGAATTGATGGTTTTGAAGAAGAGGATGAACCTGCTTCTGAAGTTGAACAAGATAATGAATCTACTCAGACTCAGTAG
Protein sequence

>MsaT002371.1

MDVDDCSHKVEEKEDHEGVTVALHIGLPSPSSSEIATMMMSSSSEMMINEQDHLQDVTISDDSSSAGFLSTNRSLNKGQYWIPTPSQILIGPTQFSCPVCCKTFNRYNNMQMHMWGHGSQYRKGPESLRGTQPTGMLRLPCYCCSPGCRNNIDHPRAKPLKDFRTLQTHYKRKHGIKPFMCRKCGKAFAVRGDWRTHEKNCGKLWYCLCGSDFKHKRSLKDHIRAFGSGHAAYGIDGFEEEDEPASEVEQDNESTQTQ*