AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene063546


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene063546.t1 MTR_6g034515 100.000 136 0 0 1 136 174 309 4.35e-96 281
MS.gene063546.t1 MTR_8g092080 40.580 138 73 2 2 139 148 276 3.28e-27 103
MS.gene063546.t1 MTR_1g097890 40.299 134 71 2 2 135 147 271 5.90e-26 99.8
MS.gene063546.t1 MTR_8g098240 37.956 137 70 4 3 135 429 554 4.33e-21 88.2
MS.gene063546.t1 MTR_2g102010 32.867 143 79 3 3 135 126 261 3.43e-16 73.6
MS.gene063546.t1 MTR_1g095780 36.207 116 72 2 2 116 629 743 9.67e-15 70.1
MS.gene063546.t1 MTR_4g057850 34.247 146 79 4 1 135 131 270 3.22e-14 68.2
MS.gene063546.t1 MTR_4g012850 30.556 144 85 3 1 136 124 260 4.84e-14 67.4
MS.gene063546.t1 MTR_7g064980 33.333 135 84 3 1 135 153 281 6.69e-14 67.4
MS.gene063546.t1 MTR_2g032610 33.766 154 80 6 1 139 144 290 9.25e-14 67.0
MS.gene063546.t1 MTR_2g032610 29.577 142 85 4 3 135 45 180 2.43e-12 62.8
MS.gene063546.t1 MTR_5g073040 33.333 144 78 4 1 139 53 183 2.11e-12 63.2
MS.gene063546.t1 MTR_4g119770 28.906 128 80 3 21 137 167 294 2.88e-12 62.8
MS.gene063546.t1 MTR_3g104600 34.646 127 72 4 11 136 181 297 5.00e-12 62.0
MS.gene063546.t1 MTR_8g096050 31.034 145 88 4 1 139 335 473 1.89e-11 60.8
MS.gene063546.t1 MTR_2g436930 31.200 125 75 4 24 137 79 203 1.99e-11 59.7
MS.gene063546.t1 MTR_2g436930 31.200 125 75 4 24 137 169 293 2.49e-11 60.1
MS.gene063546.t1 MTR_4g114320 29.630 135 86 3 3 135 234 361 2.62e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene063546.t1 AT5G42130 73.381 139 37 0 1 139 226 364 2.99e-66 206
MS.gene063546.t1 AT4G39460 40.299 134 71 2 2 135 154 278 2.87e-25 98.2
MS.gene063546.t1 AT4G39460 40.299 134 71 2 2 135 154 278 2.87e-25 98.2
MS.gene063546.t1 AT4G39460 40.299 134 71 2 2 135 154 278 2.87e-25 98.2
MS.gene063546.t1 AT1G34065 38.060 134 74 2 2 135 171 295 6.07e-25 97.4
MS.gene063546.t1 AT1G34065 38.060 134 74 2 2 135 178 302 7.14e-25 97.4
MS.gene063546.t1 AT4G11440 34.965 143 76 5 1 135 437 570 1.23e-18 81.3
MS.gene063546.t1 AT4G11440 34.965 143 76 5 1 135 437 570 1.23e-18 81.3
MS.gene063546.t1 AT2G37890 34.058 138 82 3 3 136 168 300 9.15e-17 75.5
MS.gene063546.t1 AT3G53940 33.577 137 82 3 3 135 196 327 1.25e-15 72.4
MS.gene063546.t1 AT2G26360 35.577 104 66 1 2 105 220 322 1.44e-14 69.7
MS.gene063546.t1 AT5G01340 33.562 146 81 5 1 135 126 266 1.03e-13 66.6
MS.gene063546.t1 AT1G79900 33.333 138 80 3 1 136 124 251 1.96e-13 65.9
MS.gene063546.t1 AT4G32400 28.369 141 90 4 3 139 224 357 4.80e-13 65.1
MS.gene063546.t1 AT4G32400 30.657 137 83 3 1 135 128 254 6.70e-11 58.9
MS.gene063546.t1 AT2G35800 33.654 104 68 1 2 105 649 751 5.25e-13 65.5
MS.gene063546.t1 AT5G15640 29.861 144 86 4 1 135 42 179 4.00e-12 62.4
MS.gene063546.t1 AT5G15640 30.128 156 84 6 1 139 143 290 9.61e-12 61.2
MS.gene063546.t1 AT5G15640 29.861 144 86 4 1 135 35 172 4.05e-12 62.4
MS.gene063546.t1 AT5G15640 30.128 156 84 6 1 139 136 283 1.19e-11 60.8
MS.gene063546.t1 AT3G55640 32.117 137 84 3 3 135 161 292 6.81e-12 61.6
MS.gene063546.t1 AT3G55640 32.117 137 84 3 3 135 161 292 6.81e-12 61.6
MS.gene063546.t1 AT4G01100 26.144 153 95 3 3 137 111 263 8.32e-11 58.5

Find 46 sgRNAs with CRISPR-Local

Find 55 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTGCAGAATGAAGGTGTTT+TGG 0.264365 6.1:+14614182 MS.gene063546:CDS
GTGATTTGTGGGGCGTTGGC+GGG 0.323397 6.1:+14614339 MS.gene063546:CDS
TGTGATTTGTGGGGCGTTGG+CGG 0.357288 6.1:+14614338 MS.gene063546:CDS
GGTTATGTATGGTGGGGTTA+AGG 0.386748 6.1:+14614455 MS.gene063546:CDS
GCATACGAACAAAGATTGTT+TGG 0.390467 6.1:+14614302 MS.gene063546:CDS
AACATCCAACGGCGTAGTTA+TGG 0.407710 6.1:-14614376 None:intergenic
CGGTTCAGAGTGTGATTTGT+GGG 0.419531 6.1:+14614328 MS.gene063546:CDS
TGATTTGTGGGGCGTTGGCG+GGG 0.437698 6.1:+14614340 MS.gene063546:CDS
CGCTGCGTTATCAATTCCTT+CGG 0.442471 6.1:-14614111 None:intergenic
TGTTGAGGAATTTGCCTGCT+GGG 0.444165 6.1:+14614232 MS.gene063546:CDS
TGAAGGAAGAAGGGTGGGGT+TGG 0.444484 6.1:+14614496 MS.gene063546:CDS
AGGCGAGGAATGAGGCGGTT+GGG 0.475712 6.1:+14614421 MS.gene063546:CDS
GTGGGGTTAAGGATACTGTA+AGG 0.478723 6.1:+14614466 MS.gene063546:CDS
TTGTTGAGGAATTTGCCTGC+TGG 0.480628 6.1:+14614231 MS.gene063546:CDS
GATTTGTGGGGCGTTGGCGG+GGG 0.487414 6.1:+14614341 MS.gene063546:CDS
TTGCGGAGGTTATGTATGGT+GGG 0.491320 6.1:+14614448 MS.gene063546:CDS
CCACAAATCACACTCTGAAC+CGG 0.493103 6.1:-14614327 None:intergenic
GTTGCGGAGGTTATGTATGG+TGG 0.500010 6.1:+14614447 MS.gene063546:CDS
AAGGTTGCGGAGGTTATGTA+TGG 0.504862 6.1:+14614444 MS.gene063546:CDS
GAGGAATGAGGCGGTTGGGA+AGG 0.510334 6.1:+14614425 MS.gene063546:CDS
CAGGCGAGGAATGAGGCGGT+TGG 0.514856 6.1:+14614420 MS.gene063546:CDS
CGGATGCAGACGGGTGCGAA+GGG 0.525730 6.1:+14614132 MS.gene063546:CDS
CCGGTTCAGAGTGTGATTTG+TGG 0.525919 6.1:+14614327 MS.gene063546:CDS
GAGTGTGATTTGTGGGGCGT+TGG 0.527587 6.1:+14614335 MS.gene063546:CDS
TGAGGCGGTTGGGAAGGTTG+CGG 0.528238 6.1:+14614431 MS.gene063546:CDS
GGTGGGGTTGGTTTGACTAG+AGG 0.529990 6.1:+14614508 MS.gene063546:CDS
GGCTTCCATAACTACGCCGT+TGG 0.535451 6.1:+14614371 MS.gene063546:CDS
GAACAAAGATTGTTTGGAGC+CGG 0.535824 6.1:+14614308 MS.gene063546:CDS
GATGACGCAGGCGAGGAATG+AGG 0.540893 6.1:+14614413 MS.gene063546:CDS
GCGGATGCAGACGGGTGCGA+AGG 0.558993 6.1:+14614131 MS.gene063546:CDS
TGCGGAGGTTATGTATGGTG+GGG 0.571518 6.1:+14614449 MS.gene063546:CDS
GAATAACTTATAACCCCAGC+AGG 0.578876 6.1:-14614246 None:intergenic
GATAACGCAGCGGATGCAGA+CGG 0.581140 6.1:+14614122 MS.gene063546:CDS
ATAACGCAGCGGATGCAGAC+GGG 0.587923 6.1:+14614123 MS.gene063546:CDS
GTCTGCGATTATGGTTCCGA+AGG 0.591943 6.1:+14614095 None:intergenic
CGAGACTGATGACGCAGGCG+AGG 0.604725 6.1:+14614406 MS.gene063546:CDS
CTCGTCTTCACAACATCCAA+CGG 0.607204 6.1:-14614387 None:intergenic
GGCGGTTGGGAAGGTTGCGG+AGG 0.609437 6.1:+14614434 MS.gene063546:CDS
GTTGAGGAATTTGCCTGCTG+GGG 0.612034 6.1:+14614233 MS.gene063546:CDS
GGTACTCAGCTACATTGTTG+AGG 0.647888 6.1:+14614217 MS.gene063546:CDS
GGTTCAGAGTGTGATTTGTG+GGG 0.649669 6.1:+14614329 MS.gene063546:CDS
GGATGCAGACGGGTGCGAAG+GGG 0.664448 6.1:+14614133 MS.gene063546:CDS
TGGGGTTAAGGATACTGTAA+GGG 0.664936 6.1:+14614467 MS.gene063546:CDS
GACGCAGGCGAGGAATGAGG+CGG 0.666166 6.1:+14614416 MS.gene063546:CDS
GAAGACGAGACTGATGACGC+AGG 0.724323 6.1:+14614401 MS.gene063546:CDS
CGAAGGAATTGATAACGCAG+CGG 0.736123 6.1:+14614112 MS.gene063546:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTAAGATTTTGCAGAATGA+AGG + chr6.1:14614174-14614193 MS.gene063546:CDS 25.0%
GCATACGAACAAAGATTGTT+TGG + chr6.1:14614302-14614321 MS.gene063546:CDS 35.0%
! TACTGTAAGGGAGATTTTGA+AGG + chr6.1:14614479-14614498 MS.gene063546:CDS 35.0%
!!! GTGTTTTGGGTTTGTATAGA+GGG + chr6.1:14614196-14614215 MS.gene063546:CDS 35.0%
!!! TTGCAGAATGAAGGTGTTTT+GGG + chr6.1:14614183-14614202 MS.gene063546:CDS 35.0%
!!! TTTGCAGAATGAAGGTGTTT+TGG + chr6.1:14614182-14614201 MS.gene063546:CDS 35.0%
GAATAACTTATAACCCCAGC+AGG - chr6.1:14614249-14614268 None:intergenic 40.0%
TGGGGTTAAGGATACTGTAA+GGG + chr6.1:14614467-14614486 MS.gene063546:CDS 40.0%
! GAACAAAGATTGTTTGGAGC+CGG + chr6.1:14614308-14614327 MS.gene063546:CDS 40.0%
!! AGATTTTGAAGGAAGAAGGG+TGG + chr6.1:14614490-14614509 MS.gene063546:CDS 40.0%
!! AGGGAGATTTTGAAGGAAGA+AGG + chr6.1:14614486-14614505 MS.gene063546:CDS 40.0%
!! ATTTTGAAGGAAGAAGGGTG+GGG + chr6.1:14614492-14614511 MS.gene063546:CDS 40.0%
!! GATTTTGAAGGAAGAAGGGT+GGG + chr6.1:14614491-14614510 MS.gene063546:CDS 40.0%
!! GGGAGATTTTGAAGGAAGAA+GGG + chr6.1:14614487-14614506 MS.gene063546:CDS 40.0%
!!! GGTGTTTTGGGTTTGTATAG+AGG + chr6.1:14614195-14614214 MS.gene063546:CDS 40.0%
AACATCCAACGGCGTAGTTA+TGG - chr6.1:14614379-14614398 None:intergenic 45.0%
AAGGTTGCGGAGGTTATGTA+TGG + chr6.1:14614444-14614463 MS.gene063546:CDS 45.0%
CCACAAATCACACTCTGAAC+CGG - chr6.1:14614330-14614349 None:intergenic 45.0%
CGCTGCGTTATCAATTCCTT+CGG - chr6.1:14614114-14614133 None:intergenic 45.0%
CTCGTCTTCACAACATCCAA+CGG - chr6.1:14614390-14614409 None:intergenic 45.0%
GGTACTCAGCTACATTGTTG+AGG + chr6.1:14614217-14614236 MS.gene063546:CDS 45.0%
GTGGGGTTAAGGATACTGTA+AGG + chr6.1:14614466-14614485 MS.gene063546:CDS 45.0%
TGTTGAGGAATTTGCCTGCT+GGG + chr6.1:14614232-14614251 MS.gene063546:CDS 45.0%
TTGCGGAGGTTATGTATGGT+GGG + chr6.1:14614448-14614467 MS.gene063546:CDS 45.0%
TTGTTGAGGAATTTGCCTGC+TGG + chr6.1:14614231-14614250 MS.gene063546:CDS 45.0%
! CGGTTCAGAGTGTGATTTGT+GGG + chr6.1:14614328-14614347 MS.gene063546:CDS 45.0%
! GGTTATGTATGGTGGGGTTA+AGG + chr6.1:14614455-14614474 MS.gene063546:CDS 45.0%
! GGTTCAGAGTGTGATTTGTG+GGG + chr6.1:14614329-14614348 MS.gene063546:CDS 45.0%
!! CGAAGGAATTGATAACGCAG+CGG + chr6.1:14614112-14614131 MS.gene063546:CDS 45.0%
CCGGTTCAGAGTGTGATTTG+TGG + chr6.1:14614327-14614346 MS.gene063546:CDS 50.0%
GTTGAGGAATTTGCCTGCTG+GGG + chr6.1:14614233-14614252 MS.gene063546:CDS 50.0%
GTTGCGGAGGTTATGTATGG+TGG + chr6.1:14614447-14614466 MS.gene063546:CDS 50.0%
TGCGGAGGTTATGTATGGTG+GGG + chr6.1:14614449-14614468 MS.gene063546:CDS 50.0%
ATAACGCAGCGGATGCAGAC+GGG + chr6.1:14614123-14614142 MS.gene063546:CDS 55.0%
GATAACGCAGCGGATGCAGA+CGG + chr6.1:14614122-14614141 MS.gene063546:CDS 55.0%
GGCTTCCATAACTACGCCGT+TGG + chr6.1:14614371-14614390 MS.gene063546:CDS 55.0%
TGAAGGAAGAAGGGTGGGGT+TGG + chr6.1:14614496-14614515 MS.gene063546:CDS 55.0%
! GAAGACGAGACTGATGACGC+AGG + chr6.1:14614401-14614420 MS.gene063546:CDS 55.0%
! GAGTGTGATTTGTGGGGCGT+TGG + chr6.1:14614335-14614354 MS.gene063546:CDS 55.0%
!! TGTGATTTGTGGGGCGTTGG+CGG + chr6.1:14614338-14614357 MS.gene063546:CDS 55.0%
AGGCGAGGAATGAGGCGGTT+GGG + chr6.1:14614421-14614440 MS.gene063546:CDS 60.0%
GAGGAATGAGGCGGTTGGGA+AGG + chr6.1:14614425-14614444 MS.gene063546:CDS 60.0%
GATGACGCAGGCGAGGAATG+AGG + chr6.1:14614413-14614432 MS.gene063546:CDS 60.0%
TGAGGCGGTTGGGAAGGTTG+CGG + chr6.1:14614431-14614450 MS.gene063546:CDS 60.0%
!! GTGATTTGTGGGGCGTTGGC+GGG + chr6.1:14614339-14614358 MS.gene063546:CDS 60.0%
!! TGATTTGTGGGGCGTTGGCG+GGG + chr6.1:14614340-14614359 MS.gene063546:CDS 60.0%
CAGGCGAGGAATGAGGCGGT+TGG + chr6.1:14614420-14614439 MS.gene063546:CDS 65.0%
CGGATGCAGACGGGTGCGAA+GGG + chr6.1:14614132-14614151 MS.gene063546:CDS 65.0%
GACGCAGGCGAGGAATGAGG+CGG + chr6.1:14614416-14614435 MS.gene063546:CDS 65.0%
GGATGCAGACGGGTGCGAAG+GGG + chr6.1:14614133-14614152 MS.gene063546:CDS 65.0%
! CGAGACTGATGACGCAGGCG+AGG + chr6.1:14614406-14614425 MS.gene063546:CDS 65.0%
!! GATTTGTGGGGCGTTGGCGG+GGG + chr6.1:14614341-14614360 MS.gene063546:CDS 65.0%
GCGGATGCAGACGGGTGCGA+AGG + chr6.1:14614131-14614150 MS.gene063546:CDS 70.0%
GGCGGTTGGGAAGGTTGCGG+AGG + chr6.1:14614434-14614453 MS.gene063546:CDS 70.0%
!! GGCGTTGGCGGGGGCGATAT+CGG + chr6.1:14614350-14614369 MS.gene063546:CDS 70.0%


Chromosome Type Strat End Strand Name
chr6.1 gene 14614105 14614527 14614105 ID=MS.gene063546
chr6.1 mRNA 14614105 14614527 14614105 ID=MS.gene063546.t1;Parent=MS.gene063546
chr6.1 exon 14614105 14614527 14614105 ID=MS.gene063546.t1.exon1;Parent=MS.gene063546.t1
chr6.1 CDS 14614105 14614527 14614105 ID=cds.MS.gene063546.t1;Parent=MS.gene063546.t1
Gene Sequence

>MS.gene063546

ATGGTTCCGAAGGAATTGATAACGCAGCGGATGCAGACGGGTGCGAAGGGGAGATCGTACGAAGTTTTGATTAAGATTTTGCAGAATGAAGGTGTTTTGGGTTTGTATAGAGGGTACTCAGCTACATTGTTGAGGAATTTGCCTGCTGGGGTTATAAGTTATTCGTCGTTTGAGTATTTGAAGTTAGCGTTTATGAAGCATACGAACAAAGATTGTTTGGAGCCGGTTCAGAGTGTGATTTGTGGGGCGTTGGCGGGGGCGATATCGGCTTCCATAACTACGCCGTTGGATGTTGTGAAGACGAGACTGATGACGCAGGCGAGGAATGAGGCGGTTGGGAAGGTTGCGGAGGTTATGTATGGTGGGGTTAAGGATACTGTAAGGGAGATTTTGAAGGAAGAAGGGTGGGGTTGGTTTGACTAG

Protein sequence

>MS.gene063546.t1

MVPKELITQRMQTGAKGRSYEVLIKILQNEGVLGLYRGYSATLLRNLPAGVISYSSFEYLKLAFMKHTNKDCLEPVQSVICGALAGAISASITTPLDVVKTRLMTQARNEAVGKVAEVMYGGVKDTVREILKEEGWGWFD