AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG039405

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039405 MtrunA17_Chr7g0258011 98.276 348 5 1 1 348 1 347 0.0 716
MsaG039405 MtrunA17_Chr1g0173841 73.179 302 55 6 66 348 92 386 3.81e-157 446
MsaG039405 MtrunA17_Chr8g0352011 63.103 290 90 4 66 346 54 335 5.41e-130 375
MsaG039405 MtrunA17_Chr2g0328921 66.084 286 75 5 67 348 44 311 9.69e-130 373
MsaG039405 MtrunA17_Chr2g0321291 61.943 247 81 4 103 348 71 305 1.73e-109 322
MsaG039405 MtrunA17_Chr5g0422571 67.421 221 48 4 119 337 64 262 1.32e-104 309
MsaG039405 MtrunA17_Chr4g0026521 75.568 176 40 1 174 346 115 290 2.90e-102 303
MsaG039405 MtrunA17_Chr1g0198651 75.000 172 40 1 174 342 99 270 2.29e-97 290
MsaG039405 MtrunA17_Chr4g0053341 64.762 210 50 3 119 328 40 225 1.04e-93 279
MsaG039405 MtrunA17_Chr1g0200421 38.667 150 82 5 184 326 245 391 2.57e-25 106
MsaG039405 MtrunA17_Chr2g0320341 36.913 149 87 3 184 325 238 386 1.32e-22 97.8
MsaG039405 MtrunA17_Chr1g0181381 32.558 172 99 5 177 347 54 209 1.30e-21 95.5
MsaG039405 MtrunA17_Chr7g0268961 32.558 172 92 6 178 342 33 187 3.37e-21 94.4
MsaG039405 MtrunA17_Chr1g0191991 34.161 161 86 6 184 342 86 228 3.81e-21 94.4
MsaG039405 MtrunA17_Chr4g0029521 33.540 161 90 5 184 343 61 205 3.99e-21 94.4
MsaG039405 MtrunA17_Chr1g0151351 34.146 164 89 6 182 343 62 208 4.23e-21 94.0
MsaG039405 MtrunA17_Chr1g0185121 35.032 157 83 6 182 336 61 200 4.80e-21 93.6
MsaG039405 MtrunA17_Chr1g0199101 33.951 162 87 7 177 336 63 206 1.17e-20 92.8
MsaG039405 MtrunA17_Chr1g0210821 33.540 161 89 6 177 336 60 203 1.52e-20 92.8
MsaG039405 MtrunA17_Chr1g0162971 35.065 154 82 6 184 336 64 200 1.79e-20 92.0
MsaG039405 MtrunA17_Chr8g0342421 33.333 159 86 6 184 340 85 225 2.32e-20 92.0
MsaG039405 MtrunA17_Chr2g0330171 32.716 162 89 6 177 336 62 205 3.76e-20 91.3
MsaG039405 MtrunA17_Chr1g0163001 33.333 162 90 6 177 337 59 203 6.42e-20 90.9
MsaG039405 MtrunA17_Chr2g0326381 35.971 139 80 4 184 321 55 185 1.11e-19 89.4
MsaG039405 MtrunA17_Chr8g0373541 33.548 155 85 5 184 337 56 193 2.30e-19 89.0
MsaG039405 MtrunA17_Chr7g0263941 33.951 162 87 7 177 336 50 193 2.50e-19 88.2
MsaG039405 MtrunA17_Chr8g0382121 37.143 140 81 6 192 326 127 264 7.02e-19 85.9
MsaG039405 MtrunA17_Chr4g0040571 31.395 172 100 5 177 347 55 209 1.04e-18 87.0
MsaG039405 MtrunA17_Chr3g0123941 36.025 161 93 7 192 348 139 293 2.17e-18 84.7
MsaG039405 MtrunA17_Chr2g0324991 34.507 142 83 5 177 316 8 141 6.26e-17 77.0
MsaG039405 MtrunA17_Chr3g0141431 32.117 137 85 3 182 317 43 172 3.61e-16 79.0
MsaG039405 MtrunA17_Chr8g0375521 30.986 142 87 5 182 320 48 181 2.41e-13 70.5
MsaG039405 MtrunA17_Chr6g0479921 30.822 146 89 6 182 324 50 186 1.06e-12 68.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039405 AT3G57670.1 61.818 385 96 8 4 348 3 376 8.40e-142 407
MsaG039405 AT1G51220.1 54.722 360 125 8 1 345 1 337 1.36e-124 361
MsaG039405 AT3G20880.1 56.923 325 107 8 45 345 95 410 1.83e-119 351
MsaG039405 AT1G13290.1 68.868 212 40 4 119 328 54 241 1.08e-102 305
MsaG039405 AT1G34790.1 64.159 226 72 1 119 344 83 299 3.83e-101 300
MsaG039405 AT1G08290.1 75.148 169 38 2 174 338 164 332 3.12e-96 289
MsaG039405 AT1G34370.3 38.816 152 81 5 184 326 28 176 2.97e-26 106
MsaG039405 AT1G34370.2 38.816 152 81 5 184 326 238 386 8.51e-26 108
MsaG039405 AT1G34370.1 38.816 152 81 5 184 326 238 386 8.51e-26 108
MsaG039405 AT5G22890.1 39.744 156 81 6 184 329 211 363 1.54e-23 100
MsaG039405 AT5G03150.1 33.333 165 93 5 184 347 76 224 6.14e-22 97.1
MsaG039405 AT1G55110.3 35.404 161 85 6 182 340 84 227 1.51e-21 95.5
MsaG039405 AT1G55110.1 35.404 161 85 6 182 340 84 227 1.51e-21 95.5
MsaG039405 AT1G55110.2 35.404 161 85 6 182 340 84 227 1.51e-21 95.5
MsaG039405 AT2G02070.2 33.540 161 89 5 177 336 68 211 1.88e-20 92.8
MsaG039405 AT2G02070.1 33.540 161 89 5 177 336 68 211 1.88e-20 92.8
MsaG039405 AT2G02080.1 33.974 156 85 5 182 336 75 213 3.07e-20 92.0
MsaG039405 AT2G02080.4 33.974 156 85 5 182 336 75 213 3.07e-20 92.0
MsaG039405 AT2G02080.5 33.974 156 85 5 182 336 75 213 3.07e-20 92.0
MsaG039405 AT2G02080.3 33.974 156 85 5 182 336 75 213 3.07e-20 92.0
MsaG039405 AT5G66730.1 35.032 157 82 7 182 336 53 191 3.12e-20 92.0
MsaG039405 AT1G14580.1 33.951 162 87 6 177 336 69 212 9.26e-20 90.5
MsaG039405 AT1G14580.2 33.951 162 87 6 177 336 69 212 9.26e-20 90.5
MsaG039405 AT1G14580.3 33.951 162 87 6 177 336 83 226 9.97e-20 90.5
MsaG039405 AT2G02080.6 34.641 153 82 5 185 336 1 136 1.68e-19 89.4
MsaG039405 AT2G02080.2 34.641 153 82 5 185 336 1 136 1.68e-19 89.4
MsaG039405 AT3G45260.2 35.065 154 83 5 184 336 62 199 3.03e-19 89.0
MsaG039405 AT3G45260.1 35.065 154 83 5 184 336 62 199 3.03e-19 89.0
MsaG039405 AT5G44160.2 31.515 165 95 5 184 347 21 168 1.15e-18 87.0
MsaG039405 AT5G60470.1 33.117 154 86 5 184 336 58 195 1.21e-18 87.0
MsaG039405 AT5G44160.1 31.515 165 95 5 184 347 60 207 1.33e-18 87.0
MsaG039405 AT5G60470.3 33.117 154 86 5 184 336 63 200 1.41e-18 87.0
MsaG039405 AT5G60470.2 33.117 154 86 5 184 336 67 204 1.42e-18 87.0
MsaG039405 AT4G02670.1 32.298 161 92 4 177 336 69 213 1.78e-18 86.3
MsaG039405 AT4G02670.2 32.298 161 92 4 177 336 71 215 1.91e-18 86.3
MsaG039405 AT3G50700.1 32.484 157 88 5 182 337 55 194 1.97e-18 86.3
MsaG039405 AT1G03840.2 32.298 161 91 6 177 336 55 198 3.36e-18 85.9
MsaG039405 AT1G03840.1 31.056 161 93 5 177 336 57 200 3.57e-18 85.9
MsaG039405 AT3G13810.5 31.677 161 93 5 177 336 81 225 1.35e-17 84.3
MsaG039405 AT3G13810.4 31.677 161 93 5 177 336 86 230 1.39e-17 84.3
MsaG039405 AT3G13810.1 31.677 161 93 5 177 336 86 230 1.39e-17 84.3
MsaG039405 AT3G13810.2 31.677 161 93 5 177 336 87 231 1.47e-17 84.0
MsaG039405 AT3G13810.6 31.677 161 93 5 177 336 67 211 1.57e-17 84.0
MsaG039405 AT3G13810.3 31.677 161 93 5 177 336 73 217 1.71e-17 84.0
MsaG039405 AT1G25250.3 29.496 139 88 5 182 317 54 185 1.80e-13 71.2
MsaG039405 AT1G25250.1 29.496 139 88 5 182 317 31 162 2.10e-13 70.9
MsaG039405 AT1G68130.1 30.935 139 85 5 182 317 62 192 3.83e-13 70.5

Find 72 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGGATTCATGGTTAATAAT+AGG 0.242177 7:+88707230 MsaT039405.1:CDS
AAAGATCATATCAAAGCTTT+TGG 0.279015 7:+88709116 MsaT039405.1:CDS
TGTGTGCCTCTTAGAGATTC+AGG 0.280812 7:-88708831 None:intergenic
GGAAGTGGACATGCTGCTTA+TGG 0.286552 7:+88709137 MsaT039405.1:CDS
GTTGGTGAGGATTCTTGTTC+AGG 0.320459 7:+88707211 MsaT039405.1:CDS
AAAAGAATTGTGGGAAGCTT+TGG 0.349652 7:+88709051 MsaT039405.1:CDS
GAAGAGAAAAGATTAGAGTA+AGG 0.352738 7:-88706758 None:intergenic
GGATTCTTGTTCAGGATTCA+TGG 0.360583 7:+88707219 MsaT039405.1:CDS
ATGATGATGATAGTGGAAAA+AGG 0.364911 7:-88706888 None:intergenic
AAACCCTAGTGCTGCTGAAA+TGG 0.370039 7:+88707129 MsaT039405.1:CDS
GGCTTAACAAAGGACAATAT+TGG 0.383450 7:+88707251 MsaT039405.1:CDS
CCTTGTTACTGTTGTGCACC+AGG 0.388233 7:+88708876 MsaT039405.1:CDS
AGAGGTAGTTCTTCTCTTAG+AGG 0.403255 7:-88706938 None:intergenic
ACTCCTTCTCAGATTCTCAT+TGG 0.410986 7:+88707280 MsaT039405.1:CDS
TCTTTGAGAGGCTTTGCTCT+TGG 0.418075 7:-88708921 None:intergenic
GAAGTGGACATGCTGCTTAT+GGG 0.418215 7:+88709138 MsaT039405.1:CDS
ATTTCAGCAGCACTAGGGTT+TGG 0.419339 7:-88707127 None:intergenic
GATCTCTGAGGAGTTATTAG+AGG 0.433036 7:-88707167 None:intergenic
GAAGGGTTTGAATTTGAAGA+TGG 0.443053 7:-88706815 None:intergenic
AGGAAATATGATGATGATAG+TGG 0.447261 7:-88706895 None:intergenic
TTCCCTTTCTTCTAAATCCA+TGG 0.448360 7:-88707047 None:intergenic
AGACCTTCCTTGCACTGCCA+TGG 0.468218 7:+88707030 MsaT039405.1:CDS
TGCCATGGATTTAGAAGAAA+GGG 0.480220 7:+88707045 MsaT039405.1:CDS
TCTTGCTCTACTTCAGAAGC+TGG 0.480582 7:-88709188 None:intergenic
AGGAGAAGGTGGTGAAGAAG+AGG 0.481051 7:-88706915 None:intergenic
CTAAGAGGCACACAACCAAC+AGG 0.487480 7:+88708840 MsaT039405.1:CDS
TTGTTGTGGTGGTGAAGAAA+AGG 0.494029 7:-88706854 None:intergenic
GAAGCCATTTCAGCAGCACT+AGG 0.500052 7:-88707133 None:intergenic
TCTTCTCTTAGAGGAGGAGA+AGG 0.501187 7:-88706929 None:intergenic
AAGAGAAAAGATTAGAGTAA+GGG 0.501589 7:-88706757 None:intergenic
GAACTCATGAAAAGAATTGT+GGG 0.503233 7:+88709042 MsaT039405.1:CDS
AGAACTCATGAAAAGAATTG+TGG 0.519976 7:+88709041 MsaT039405.1:CDS
TTAGAAGAAAGGGAAGAAGA+TGG 0.524706 7:+88707055 MsaT039405.1:CDS
GTTACTGTTGCACTTCACAT+AGG 0.528079 7:+88707100 MsaT039405.1:CDS
ATGAGAATCTGAGAAGGAGT+AGG 0.530035 7:-88707277 None:intergenic
TGTTGTGGTGGTGAAGAAAA+GGG 0.533983 7:-88706853 None:intergenic
CATGCTGCTTATGGGTGTGA+TGG 0.534441 7:+88709146 MsaT039405.1:CDS
GTTGGAATTAGGCTTAAAAG+AGG 0.534675 7:-88706956 None:intergenic
CATGGATCACAGTACAGAAA+AGG 0.538411 7:+88708807 MsaT039405.1:CDS
CTGCCATGGATTTAGAAGAA+AGG 0.539425 7:+88707044 MsaT039405.1:CDS
AATCCATGGCAGTGCAAGGA+AGG 0.544023 7:-88707033 None:intergenic
AGGTATGGTTATTGTTGTTG+TGG 0.546230 7:-88706868 None:intergenic
GGTGGTGAAGAAAAGGGTGG+TGG 0.550176 7:-88706847 None:intergenic
TATGGTTATTGTTGTTGTGG+TGG 0.558394 7:-88706865 None:intergenic
AAGCTTTGGTATTGTATCTG+TGG 0.559395 7:+88709065 MsaT039405.1:CDS
ACACATTACAAGAGGAAACA+TGG 0.569309 7:+88708960 MsaT039405.1:CDS
ACAGGGCAAGAAAACTGAGT+TGG 0.573007 7:-88707304 None:intergenic
TGAGAATCTGAGAAGGAGTA+GGG 0.575360 7:-88707276 None:intergenic
AAAGGTCCTGAATCTCTAAG+AGG 0.580235 7:+88708825 MsaT039405.1:CDS
AGTGTTCTAAAATCTTTGAG+AGG 0.584894 7:-88708933 None:intergenic
CTTGTTACTGTTGTGCACCA+GGG 0.585436 7:+88708877 MsaT039405.1:CDS
AGAGTAAGGGTTATCAGCCA+TGG 0.585920 7:-88706744 None:intergenic
TCTCTTAGAGGAGGAGAAGG+TGG 0.585932 7:-88706926 None:intergenic
GGTAGTTCTTCTCTTAGAGG+AGG 0.595867 7:-88706935 None:intergenic
CACTTCAAACACATTACAAG+AGG 0.601250 7:+88708952 MsaT039405.1:CDS
AAGCCATTTCAGCAGCACTA+GGG 0.602433 7:-88707132 None:intergenic
TCTAAATCCATGGCAGTGCA+AGG 0.604858 7:-88707037 None:intergenic
GGTAGCCTTAGCATTCCTGT+TGG 0.607467 7:-88708855 None:intergenic
TCAATGTTGTTTCTGCACCC+TGG 0.610178 7:-88708894 None:intergenic
CACAACCAACAGGAATGCTA+AGG 0.612992 7:+88708850 MsaT039405.1:CDS
ATCACTGATAAAGAACATGT+TGG 0.619011 7:+88707193 MsaT039405.1:CDS
CAATAGATATAACAACATGC+AGG 0.621278 7:+88707342 MsaT039405.1:CDS
GGACCAATGAGAATCTGAGA+AGG 0.626496 7:-88707283 None:intergenic
GTTAATAATAGGCTTAACAA+AGG 0.627528 7:+88707241 MsaT039405.1:CDS
TGATAAAGAACATGTTGGTG+AGG 0.633314 7:+88707198 MsaT039405.1:CDS
AGATCAACAAGAACATGAGG+TGG 0.635764 7:+88707000 MsaT039405.1:CDS
CATGTGTAGAAAATGTAGCA+AGG 0.640710 7:+88708995 MsaT039405.1:CDS
CCTGGTGCACAACAGTAACA+AGG 0.646997 7:-88708876 None:intergenic
TGAAGATCAACAAGAACATG+AGG 0.648021 7:+88706997 MsaT039405.1:CDS
GTGTGATGGATTTGAAGAAG+AGG 0.666362 7:+88709160 MsaT039405.1:CDS
TGTGGTGGTGAAGAAAAGGG+TGG 0.675317 7:-88706850 None:intergenic
ATCAGTGATAGTGATCTCTG+AGG 0.722446 7:-88707179 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 88706746 88709220 88706746 ID=MsaG039405
Chr7 mRNA 88706746 88709220 88706746 ID=MsaT039405.1;Parent=MsaG039405
Chr7 exon 88706746 88707363 88706746 ID=MsaT039405.1.exon1;Parent=MsaT039405.1
Chr7 CDS 88706746 88707363 88706746 ID=cds.MsaT039405.1;Parent=MsaT039405.1
Chr7 exon 88708792 88709220 88708792 ID=MsaT039405.1.exon2;Parent=MsaT039405.1
Chr7 CDS 88708792 88709220 88708792 ID=cds.MsaT039405.1;Parent=MsaT039405.1
Gene Sequence

>MsaT039405.1

ATGGCTGATAACCCTTACTCTAATCTTTTCTCTTCTTCATCAAGTTTCTTCCAATTCAACCATATTTTTCCATCTTCAAATTCAAACCCTTCTCCACAAAACCACCACCCTTTTCTTCACCACCACAACAACAATAACCATACCTTTTTCCACTATCATCATCATATTTCCTCTTCTTCACCACCTTCTCCTCCTCTAAGAGAAGAACTACCTCTTTTAAGCCTAATTCCAACAAAACAAGAAAAATATGATGAAGATCAACAAGAACATGAGGTGGATATTCAAGACCTTCCTTGCACTGCCATGGATTTAGAAGAAAGGGAAGAAGATGGTAGTAGTAGTAGAACTACTACTGTTACTGTTGCACTTCACATAGGTTTACCAAACCCTAGTGCTGCTGAAATGGCTTCTGTACTTTCTTCCTCTAATAACTCCTCAGAGATCACTATCACTGATAAAGAACATGTTGGTGAGGATTCTTGTTCAGGATTCATGGTTAATAATAGGCTTAACAAAGGACAATATTGGATCCCTACTCCTTCTCAGATTCTCATTGGTCCAACTCAGTTTTCTTGCCCTGTTTGCTCTAAAACTTTCAATAGATATAACAACATGCAGATGCATATGTGGGGGCATGGATCACAGTACAGAAAAGGTCCTGAATCTCTAAGAGGCACACAACCAACAGGAATGCTAAGGCTACCTTGTTACTGTTGTGCACCAGGGTGCAGAAACAACATTGATCATCCAAGAGCAAAGCCTCTCAAAGATTTTAGAACACTTCAAACACATTACAAGAGGAAACATGGAATTAAGCCATTCATGTGTAGAAAATGTAGCAAGGCTTTTGCTGTTAGAGGAGATTGGAGAACTCATGAAAAGAATTGTGGGAAGCTTTGGTATTGTATCTGTGGTTCTGATTTTAAACACAAGAGGTCTCTTAAAGATCATATCAAAGCTTTTGGAAGTGGACATGCTGCTTATGGGTGTGATGGATTTGAAGAAGAGGATGAACCAGCTTCTGAAGTAGAGCAAGATAATGAATGA
Protein sequence

>MsaT039405.1

MADNPYSNLFSSSSSFFQFNHIFPSSNSNPSPQNHHPFLHHHNNNNHTFFHYHHHISSSSPPSPPLREELPLLSLIPTKQEKYDEDQQEHEVDIQDLPCTAMDLEEREEDGSSSRTTTVTVALHIGLPNPSAAEMASVLSSSNNSSEITITDKEHVGEDSCSGFMVNNRLNKGQYWIPTPSQILIGPTQFSCPVCSKTFNRYNNMQMHMWGHGSQYRKGPESLRGTQPTGMLRLPCYCCAPGCRNNIDHPRAKPLKDFRTLQTHYKRKHGIKPFMCRKCSKAFAVRGDWRTHEKNCGKLWYCICGSDFKHKRSLKDHIKAFGSGHAAYGCDGFEEEDEPASEVEQDNE*