AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG031952

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG031952 MtrunA17_Chr3g0088371 81.890 127 22 1 418 543 5 131 2.96e-66 213
MsaG031952 MtrunA17_Chr1g0172971 77.273 132 15 1 1 132 1 117 9.79e-61 209
MsaG031952 MtrunA17_Chr7g0258861 31.818 308 173 7 46 335 2 290 4.51e-44 158
MsaG031952 MtrunA17_Chr6g0475591 93.151 73 5 0 191 263 1 73 7.37e-42 144
MsaG031952 MtrunA17_Chr3g0082121 32.877 292 156 8 57 335 49 313 8.31e-40 154
MsaG031952 MtrunA17_Chr2g0324011 30.976 297 175 7 52 335 8 287 1.94e-38 149
MsaG031952 MtrunA17_Chr1g0202341 29.697 330 190 8 50 358 50 358 2.94e-35 140
MsaG031952 MtrunA17_Chr1g0164591 34.653 202 110 4 147 335 1 193 5.70e-35 134
MsaG031952 MtrunA17_Chr1g0203721 26.230 366 203 10 9 333 2 341 6.84e-35 140
MsaG031952 MtrunA17_Chr8g0363841 30.000 310 180 8 56 350 22 309 9.54e-34 135
MsaG031952 MtrunA17_Chr6g0458391 30.035 283 166 7 57 335 231 485 7.49e-31 127
MsaG031952 MtrunA17_Chr2g0296781 29.097 299 165 7 55 335 1 270 7.96e-30 124
MsaG031952 MtrunA17_Chr5g0448761 28.146 302 185 7 50 335 59 344 1.08e-29 124
MsaG031952 MtrunA17_Chr5g0441581 26.888 331 204 9 39 358 25 328 1.57e-28 120
MsaG031952 MtrunA17_Chr6g0477261 36.709 158 99 1 178 335 3 159 1.78e-26 114
MsaG031952 MtrunA17_Chr2g0287651 26.562 320 221 6 21 335 45 355 8.58e-26 112
MsaG031952 MtrunA17_Chr2g0291591 26.871 294 178 7 53 333 66 335 2.86e-25 109
MsaG031952 MtrunA17_Chr5g0440451 25.496 353 192 9 16 335 11 325 2.33e-24 107
MsaG031952 MtrunA17_Chr1g0196541 26.074 326 193 7 55 358 1 300 2.34e-24 107
MsaG031952 MtrunA17_Chr2g0287061 27.915 283 154 10 57 335 189 425 7.08e-22 100
MsaG031952 MtrunA17_Chr1g0203051 24.561 285 179 6 66 335 94 357 1.90e-21 98.2
MsaG031952 MtrunA17_Chr3g0080351 27.083 288 193 7 47 334 72 342 4.25e-21 97.4
MsaG031952 MtrunA17_Chr1g0207551 27.817 284 168 9 66 335 49 309 9.79e-21 96.3
MsaG031952 MtrunA17_Chr2g0329031 25.846 325 189 10 33 342 3 290 3.12e-20 94.7
MsaG031952 MtrunA17_Chr3g0118611 40.179 112 67 0 224 335 111 222 3.33e-20 94.7
MsaG031952 MtrunA17_Chr5g0448511 37.607 117 72 1 219 335 1 116 1.47e-19 92.0
MsaG031952 MtrunA17_Chr2g0291581 25.625 320 198 7 27 335 44 334 4.18e-19 91.3
MsaG031952 MtrunA17_Chr1g0198761 26.821 302 177 9 56 333 52 333 2.68e-18 88.6
MsaG031952 MtrunA17_Chr5g0431001 26.578 301 179 11 56 333 66 347 2.00e-17 85.1
MsaG031952 MtrunA17_Chr2g0290391 26.710 307 178 10 55 334 55 341 3.01e-17 85.1
MsaG031952 MtrunA17_Chr2g0294841 26.280 293 170 11 65 333 59 329 1.61e-16 83.2
MsaG031952 MtrunA17_Chr2g0276841 25.694 288 175 9 65 333 84 351 2.28e-16 82.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG031952 AT4G38180.1 28.188 298 186 6 50 335 72 353 8.03e-31 127
MsaG031952 AT3G06250.2 29.097 299 163 9 39 335 178 429 1.33e-26 115
MsaG031952 AT3G06250.1 29.097 299 163 9 39 335 178 429 1.33e-26 115
MsaG031952 AT3G06250.3 29.097 299 163 9 39 335 178 429 1.33e-26 115
MsaG031952 AT4G15090.1 28.421 285 168 9 66 335 66 329 5.19e-21 97.8
MsaG031952 AT4G15090.5 28.421 285 168 9 66 335 66 329 5.19e-21 97.8
MsaG031952 AT4G15090.3 28.421 285 168 9 66 335 66 329 5.19e-21 97.8
MsaG031952 AT4G15090.2 28.421 285 168 9 66 335 66 329 5.19e-21 97.8
MsaG031952 AT4G15090.4 28.421 285 168 9 66 335 66 329 5.19e-21 97.8
MsaG031952 AT2G27110.2 32.026 153 90 2 183 335 162 300 6.45e-21 97.4
MsaG031952 AT2G27110.1 32.026 153 90 2 183 335 162 300 6.45e-21 97.4
MsaG031952 AT2G27110.3 32.026 153 90 2 183 335 17 155 8.22e-21 97.1
MsaG031952 AT5G18960.2 25.246 305 174 10 37 335 197 453 3.71e-20 95.1
MsaG031952 AT5G18960.1 25.246 305 174 10 37 335 197 453 3.71e-20 95.1
MsaG031952 AT3G22170.2 24.915 293 194 6 48 335 67 338 9.32e-20 94.0
MsaG031952 AT3G22170.1 24.915 293 194 6 48 335 67 338 9.32e-20 94.0
MsaG031952 AT5G28530.1 25.658 304 183 7 56 334 60 345 9.92e-20 93.6
MsaG031952 AT5G28530.3 25.658 304 183 7 56 334 60 345 1.21e-19 93.2
MsaG031952 AT5G28530.2 25.658 304 183 7 56 334 60 345 1.21e-19 93.2
MsaG031952 AT4G38170.1 39.394 99 55 2 238 335 24 118 2.32e-19 92.0
MsaG031952 AT2G32250.5 25.796 314 178 8 24 335 13 273 3.16e-19 92.0
MsaG031952 AT1G80010.1 27.922 308 164 12 57 337 101 377 3.24e-19 92.0
MsaG031952 AT2G32250.2 25.796 314 178 7 24 335 13 273 3.76e-19 92.0
MsaG031952 AT2G32250.4 25.796 314 178 7 24 335 13 273 3.76e-19 92.0
MsaG031952 AT2G32250.6 25.796 314 178 7 24 335 13 273 3.87e-19 91.7
MsaG031952 AT2G32250.1 25.796 314 178 7 24 335 13 273 3.87e-19 91.7
MsaG031952 AT2G32250.3 25.796 314 178 7 24 335 13 273 3.87e-19 91.7
MsaG031952 AT2G32250.8 27.206 272 145 6 66 335 12 232 4.62e-19 91.7
MsaG031952 AT2G32250.7 27.206 272 145 6 66 335 12 232 5.28e-19 91.3
MsaG031952 AT1G52520.1 23.667 300 181 8 57 341 91 357 1.31e-16 83.6
MsaG031952 AT1G76320.3 24.643 280 172 9 66 333 12 264 1.31e-14 77.4
MsaG031952 AT1G76320.2 25.000 280 171 9 66 333 12 264 1.32e-14 77.4
MsaG031952 AT1G76320.1 25.000 280 171 9 66 333 12 264 1.47e-14 77.4
MsaG031952 AT1G76320.4 25.000 280 171 9 66 333 12 264 1.47e-14 77.4
MsaG031952 AT4G19990.6 23.571 280 184 7 57 335 27 277 1.95e-13 73.6
MsaG031952 AT4G19990.2 23.571 280 184 7 57 335 27 277 1.95e-13 73.6
MsaG031952 AT4G19990.5 23.571 280 184 7 57 335 27 277 2.20e-13 73.6
MsaG031952 AT4G19990.3 23.571 280 184 7 57 335 27 277 2.47e-13 73.6
MsaG031952 AT4G19990.4 23.571 280 184 7 57 335 27 277 2.47e-13 73.6
MsaG031952 AT4G19990.7 23.571 280 184 7 57 335 41 291 2.54e-13 73.2
MsaG031952 AT1G10240.2 23.693 287 180 9 65 332 62 328 2.98e-13 73.2
MsaG031952 AT1G10240.1 23.693 287 180 9 65 332 62 328 2.98e-13 73.2
MsaG031952 AT4G19990.1 31.304 115 78 1 222 335 106 220 2.83e-12 70.1

Find 71 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAATTTCAGCTACCTTTAT+TGG 0.108811 6:-40636649 MsaT031952.1:intron
ACATTATGGTTCAGAGAATT+AGG 0.129109 6:-40636101 MsaT031952.1:CDS
CTTTAGTCATTTCAACATTA+TGG 0.194287 6:-40636115 MsaT031952.1:CDS
CAACTAGATTATTCTCTATT+AGG 0.260074 6:-40637282 MsaT031952.1:CDS
TCTGTTGTTGGCCTGTTGTT+AGG 0.292589 6:+40637789 None:intergenic
GGTAATTATGCATATAATAC+TGG 0.300165 6:-40637933 MsaT031952.1:CDS
TTGAAGATCTTGGAGTTCTT+AGG 0.331625 6:-40635655 MsaT031952.1:CDS
GCCGATATTTATTGTTTGTT+CGG 0.341758 6:+40637232 None:intergenic
GAGAACGTCTTATGATGTTA+TGG 0.346294 6:-40637523 MsaT031952.1:CDS
TAGGGATAATCATGTTGAAT+TGG 0.364903 6:-40636082 MsaT031952.1:CDS
ATGATTGTCAAAACCAATAA+AGG 0.373376 6:+40636636 None:intergenic
TACAAGGTGTTCTTGAAGTT+GGG 0.373692 6:-40635414 MsaT031952.1:CDS
GATACATTTGAAGACTTAGA+TGG 0.386346 6:+40635334 None:intergenic
AACAATAAATATCGGCCATT+AGG 0.388497 6:-40637225 MsaT031952.1:intron
ACCGAACAAACAATAAATAT+CGG 0.389395 6:-40637233 MsaT031952.1:CDS
CATTATGGTTCAGAGAATTA+GGG 0.394108 6:-40636100 MsaT031952.1:CDS
GCACGGAGAATCTTCCTTCT+CGG 0.394267 6:-40637485 MsaT031952.1:CDS
CTACAAGGTGTTCTTGAAGT+TGG 0.396261 6:-40635415 MsaT031952.1:CDS
TCATGTTGAATTGGACTTCA+AGG 0.396607 6:-40636073 MsaT031952.1:CDS
TTCCTTCAAATACTATTATG+AGG 0.399583 6:-40635941 MsaT031952.1:CDS
GATGTTATGGGTCAAGGAGT+TGG 0.432012 6:-40637510 MsaT031952.1:CDS
CAGGAGTTGCTTCATTCTAA+AGG 0.443329 6:-40635385 MsaT031952.1:CDS
TCCATGATTCTTTATTGCTA+GGG 0.444266 6:+40638000 None:intergenic
TTCCATGATTCTTTATTGCT+AGG 0.445442 6:+40637999 None:intergenic
GAAAGGGTTGGTTGTAAAGC+TGG 0.447509 6:-40637720 MsaT031952.1:CDS
AGAACGTCTTATGATGTTAT+GGG 0.462674 6:-40637522 MsaT031952.1:CDS
GCTCTTATAAATTCTAAAGC+TGG 0.462891 6:-40637555 MsaT031952.1:CDS
ATGAGGAGGACACGACAAAA+AGG 0.469751 6:-40635924 MsaT031952.1:intron
CGCTTTAAAACATATTGTCC+AGG 0.471916 6:+40635598 None:intergenic
GTTTGCTTAATCCTAACAAC+AGG 0.484661 6:-40637800 MsaT031952.1:CDS
CTCCTCATAATAGTATTTGA+AGG 0.485089 6:+40635939 None:intergenic
TTAGATGGCGTCACGGATGA+TGG 0.485836 6:+40635349 None:intergenic
CCCCTAGCAATAAAGAATCA+TGG 0.497001 6:-40638001 MsaT031952.1:CDS
ATGTGCATAAGATATATAGA+TGG 0.503060 6:-40637668 MsaT031952.1:CDS
TTACAACCAACCCTTTCCTC+AGG 0.505082 6:+40637726 None:intergenic
TCTTCAAATGTATCTGCTGT+TGG 0.506772 6:-40635325 MsaT031952.1:CDS
CATTCTTTGAAGTCAATACC+TGG 0.507205 6:-40635616 MsaT031952.1:CDS
AGCTGGAATATATTTGAAGC+TGG 0.507410 6:-40637703 MsaT031952.1:CDS
ACAAAACAAGAAATCTGATA+AGG 0.511435 6:-40637871 MsaT031952.1:CDS
CTAAGGTAACGTGAATGCTC+TGG 0.514487 6:+40637615 None:intergenic
ACCAGTGGACTGTCTGTTGT+TGG 0.515301 6:+40637777 None:intergenic
CGTTATGCTTGTAACAAACA+AGG 0.517293 6:-40637837 MsaT031952.1:CDS
GAATGCTCTGGTTTATGTAA+TGG 0.517705 6:+40637627 None:intergenic
TAAAGAATCGAACAAGTGAA+TGG 0.519618 6:+40636133 None:intergenic
TAACAAACAAGGTTTCAAGA+AGG 0.524869 6:-40637826 MsaT031952.1:CDS
CATAATAGTATTTGAAGGAA+AGG 0.529686 6:+40635944 None:intergenic
CCATGATTCTTTATTGCTAG+GGG 0.537011 6:+40638001 None:intergenic
AATCGAACAAGTGAATGGTC+TGG 0.540971 6:+40636138 None:intergenic
GAGAGTGGACATCTTAGTGT+TGG 0.544996 6:-40638110 MsaT031952.1:CDS
TCTTATGATGTTATGGGTCA+AGG 0.547172 6:-40637516 MsaT031952.1:CDS
GGACCTCATCAGCTGACTGT+TGG 0.551939 6:+40636020 None:intergenic
AACAAACAAGGTTTCAAGAA+GGG 0.554561 6:-40637825 MsaT031952.1:CDS
TAGATGGCGTCACGGATGAT+GGG 0.557025 6:+40635350 None:intergenic
TAAGATATATAGATGGGATG+TGG 0.566406 6:-40637661 MsaT031952.1:CDS
GTCTTCAGTGCCAACATGGA+TGG 0.576478 6:+40635531 None:intergenic
GTTATGGGTCAAGGAGTTGG+AGG 0.578191 6:-40637507 MsaT031952.1:CDS
ATTCCAACAGTCAGCTGATG+AGG 0.579187 6:-40636023 MsaT031952.1:intron
AAGATCTTGGAGTTCTTAGG+TGG 0.582236 6:-40635652 MsaT031952.1:CDS
TTTAAGTCTGAAAACCGAGA+AGG 0.597861 6:+40637471 None:intergenic
TGTGCATAAGATATATAGAT+GGG 0.600057 6:-40637667 MsaT031952.1:CDS
TTGATATCGTTGTGCTTGAG+TGG 0.601464 6:+40635507 None:intergenic
TCACTGATTCATGCTGAGAG+TGG 0.606950 6:-40638080 MsaT031952.1:CDS
CTTCAAATACTATTATGAGG+AGG 0.607664 6:-40635938 MsaT031952.1:CDS
CTGAAATCGACCATCCATGT+TGG 0.607729 6:-40635541 MsaT031952.1:CDS
GCCAACAACAGACAGTCCAC+TGG 0.611268 6:-40637778 MsaT031952.1:CDS
ATATCAACTTCATCTGAGAG+TGG 0.614980 6:-40638125 MsaT031952.1:CDS
TTCACAAACTCAATAACCAG+TGG 0.633415 6:+40637762 None:intergenic
GGGTCAAGGAGTTGGAGGCA+CGG 0.637387 6:-40637502 MsaT031952.1:CDS
TGAAGACTTAGATGGCGTCA+CGG 0.647113 6:+40635342 None:intergenic
TGGTGTCTTCAGTGCCAACA+TGG 0.650133 6:+40635527 None:intergenic
GATTTCAGCTTATCGACAGA+CGG 0.652942 6:+40635556 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 40635321 40638156 40635321 ID=MsaG031952
Chr6 mRNA 40635321 40638156 40635321 ID=MsaT031952.1;Parent=MsaG031952
Chr6 exon 40635321 40635699 40635321 ID=MsaT031952.1.exon6;Parent=MsaT031952.1
Chr6 CDS 40635321 40635699 40635321 ID=cds.MsaT031952.1;Parent=MsaT031952.1
Chr6 exon 40635925 40635975 40635925 ID=MsaT031952.1.exon5;Parent=MsaT031952.1
Chr6 CDS 40635925 40635975 40635925 ID=cds.MsaT031952.1;Parent=MsaT031952.1
Chr6 exon 40636024 40636222 40636024 ID=MsaT031952.1.exon4;Parent=MsaT031952.1
Chr6 CDS 40636024 40636222 40636024 ID=cds.MsaT031952.1;Parent=MsaT031952.1
Chr6 exon 40636551 40636661 40636551 ID=MsaT031952.1.exon3;Parent=MsaT031952.1
Chr6 CDS 40636551 40636661 40636551 ID=cds.MsaT031952.1;Parent=MsaT031952.1
Chr6 exon 40637226 40637585 40637226 ID=MsaT031952.1.exon2;Parent=MsaT031952.1
Chr6 CDS 40637226 40637585 40637226 ID=cds.MsaT031952.1;Parent=MsaT031952.1
Chr6 exon 40637625 40638156 40637625 ID=MsaT031952.1.exon1;Parent=MsaT031952.1
Chr6 CDS 40637625 40638156 40637625 ID=cds.MsaT031952.1;Parent=MsaT031952.1
Gene Sequence

>MsaT031952.1

ATGGATTTGATATCAACTTCATCTGAGAGTGGACATCTTAGTGTTGGAAATTCATCACTGATTCATGCTGAGAGTGGACAACTGAGTATTGAAACTTCTTCAATGATTCATGCTGATAGTTCTCAATGTTACTCCCCTAGCAATAAAGAATCATGGAAGTCTTTAGTCTTTCATTCTATTAAAGAGATTGAAGATTTTTATGGTAATTATGCATATAATACTGGATTTTCTATTAGGACTATGTTGAAGTCGAAGAATAATTCACAAAACAAGAAATCTGATAAGGTACATTATGTGCGTTATGCTTGTAACAAACAAGGTTTCAAGAAGGGAAGTTTGCTTAATCCTAACAACAGGCCAACAACAGACAGTCCACTGGTTATTGAGTTTGTGAAAGTGAAAGAAAAACCTGAGGAAAGGGTTGGTTGTAAAGCTGGAATATATTTGAAGCTGGATGAAGTTTTGAATGTGCATAAGATATATAGATGGGATGTGGCTCACTGTCATCCATTACATAAACCAGAGCATTCACGACAACTAGCTCTTATAAATTCTAAAGCTGGAATGTCGATGAGAACGTCTTATGATGTTATGGGTCAAGGAGTTGGAGGCACGGAGAATCTTCCTTCTCGGTTTTCAGACTTAAAGAACTATCTAATGACAATTCGTCAAAAAGAGATGGTGGTTGGTGAAGCAACTGTAATTCAAGAATTCTTTAGAAATGAAGCTCTCTCGAAACCATCTTTTTACTATGATATTCAAGTTGATGCTGCAGAAGACATAGCTAGTATTTTTTGGTCAGATGGAATTATGCAACTAGATTATTCTCTATTAGGCGATGTCATCAGTTTTGATACAACTTACCGAACAAACAATAAATATCGGCCATTAGCTACCTTTATTGGTTTTGACAATCATCGTAAGAATGTTTTATTTGGTGCTGCGCTATTGTACGATGAGACAACAGCTACTTTTGATTGGTTGTTTAAAACATTCTTGAAGTCTGGTCTGAAAACGACTCAGTTAAGTGAGTCTTTCAATGCTTTTCATCGTGGATTTGTGCAGCCAGACCATTCACTTGTTCGATTCTTTAGTCATTTCAACATTATGGTTCAGAGAATTAGGGATAATCATGTTGAATTGGACTTCAAGGCTGCAAACACTAGAACAAAAAATAATTATTCCAACAGTCAGCTGATGAGGCAGTATGACCTTTCCTTCAAATACTATTATGAGGAGGACACGACAAAAAGGGGCTTCTTATGTCGACATGTTTTGAAGATCTTGGAGTTCTTAGGTGGTCATGTGCAATATCATTCTTTGAAGTCAATACCTGGACAATATGTTTTAAAGCGTTGGACTAGAGATGTGCGTCCGTCTGTCGATAAGCTGAAATCGACCATCCATGTTGGCACTGAAGACACCACTCAAGCACAACGATATCAACAAATTTGCGCTGTTACAGTTCAACTTTCTACACGTTTTCGTGCAGATCCGGAGGCATCTGAAATTTTTCTACAAGGTGTTCTTGAAGTTGGGAAAAAGCAGGAGTTGCTTCATTCTAAAGGTATACGCACAGACCCATCATCCGTGACGCCATCTAAGTCTTCAAATGTATCTGCTGTTGGTTAA
Protein sequence

>MsaT031952.1

MDLISTSSESGHLSVGNSSLIHAESGQLSIETSSMIHADSSQCYSPSNKESWKSLVFHSIKEIEDFYGNYAYNTGFSIRTMLKSKNNSQNKKSDKVHYVRYACNKQGFKKGSLLNPNNRPTTDSPLVIEFVKVKEKPEERVGCKAGIYLKLDEVLNVHKIYRWDVAHCHPLHKPEHSRQLALINSKAGMSMRTSYDVMGQGVGGTENLPSRFSDLKNYLMTIRQKEMVVGEATVIQEFFRNEALSKPSFYYDIQVDAAEDIASIFWSDGIMQLDYSLLGDVISFDTTYRTNNKYRPLATFIGFDNHRKNVLFGAALLYDETTATFDWLFKTFLKSGLKTTQLSESFNAFHRGFVQPDHSLVRFFSHFNIMVQRIRDNHVELDFKAANTRTKNNYSNSQLMRQYDLSFKYYYEEDTTKRGFLCRHVLKILEFLGGHVQYHSLKSIPGQYVLKRWTRDVRPSVDKLKSTIHVGTEDTTQAQRYQQICAVTVQLSTRFRADPEASEIFLQGVLEVGKKQELLHSKGIRTDPSSVTPSKSSNVSAVG*