AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene00233


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene00233.t1 MTR_7g059070 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene00233.t1 MTR_5g029820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene00233.t1 MTR_5g029770 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene00233.t1 MTR_4g065990 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene00233.t1 MTR_4g088150 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene00233.t1 MTR_2g035230 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene00233.t1 MTR_8g092720 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene00233.t1 MTR_8g063500 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene00233.t1 MTR_8g103245 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene00233.t1 MTR_8g092820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene00233.t1 MTR_7g013610 100.000 136 0 0 1 136 100 235 1.10e-95 275
MS.gene00233.t1 MTR_4g097175 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene00233.t1 MTR_1g023630 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene00233.t1 MTR_8g061940 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene00233.t1 MTR_8g099430 96.324 136 5 0 1 136 1 136 1.38e-92 264
MS.gene00233.t1 MTR_4g097170 96.324 136 5 0 1 136 42 177 2.29e-91 262
MS.gene00233.t1 MTR_2g082310 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene00233.t1 MTR_2g082340 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene00233.t1 MTR_2g082370 85.616 146 11 1 1 136 1 146 1.74e-82 238
MS.gene00233.t1 MTR_2g082400 84.559 136 19 2 1 135 1 135 6.38e-75 219
MS.gene00233.t1 MTR_7g013600 86.607 112 15 0 25 136 2 113 1.01e-65 195
MS.gene00233.t1 MTR_7g023830 67.164 134 43 1 1 134 1 133 6.48e-56 171
MS.gene00233.t1 MTR_1g023630 73.504 117 15 3 1 111 1 107 3.81e-52 160
MS.gene00233.t1 MTR_5g024630 67.241 116 35 2 1 116 1 113 1.63e-45 144
MS.gene00233.t1 MTR_7g023880 58.647 133 41 3 3 134 18 137 5.46e-43 139
MS.gene00233.t1 MTR_5g024530 68.182 110 12 2 19 128 68 154 4.56e-42 137
MS.gene00233.t1 MTR_0197s0100 100.000 66 0 0 1 66 1 66 1.45e-40 132
MS.gene00233.t1 MTR_8g027840 55.102 98 43 1 37 133 28 125 4.83e-30 105
MS.gene00233.t1 MTR_8g105150 53.846 91 10 1 37 127 11 69 1.43e-25 92.4
MS.gene00233.t1 MTR_8g092740 97.368 38 1 0 99 136 118 155 4.60e-20 80.9
MS.gene00233.t1 MTR_5g089120 76.190 42 10 0 82 123 6 47 6.07e-18 73.6
MS.gene00233.t1 MTR_5g024600 62.963 54 20 0 1 54 1 54 1.76e-15 66.2
MS.gene00233.t1 MTR_4g128040 75.676 37 9 0 79 115 20 56 3.38e-15 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene00233.t1 AT5G65360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene00233.t1 AT5G10390 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene00233.t1 AT5G10400 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene00233.t1 AT3G27360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene00233.t1 AT1G09200 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene00233.t1 AT5G10980 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene00233.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene00233.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene00233.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene00233.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene00233.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene00233.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene00233.t1 AT4G40030 97.059 136 4 0 1 136 29 164 6.76e-93 266
MS.gene00233.t1 AT5G65350 94.853 136 7 0 1 136 1 136 5.09e-91 260
MS.gene00233.t1 AT1G75600 93.382 136 9 0 1 136 1 136 1.20e-89 256
MS.gene00233.t1 AT1G13370 93.382 136 9 0 1 136 1 136 5.32e-89 254
MS.gene00233.t1 AT1G19890 89.781 137 13 1 1 136 1 137 1.03e-83 241
MS.gene00233.t1 AT5G12910 71.111 135 34 2 1 135 1 130 9.51e-67 198
MS.gene00233.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene00233.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene00233.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene00233.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110

Find 38 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTGTCGCCGGAGCAGATTTC+CGG 0.251839 2.1:+57576506 None:intergenic
TGAGAAGCTCAGTGCTCTTC+TGG 0.304985 2.1:+57576419 None:intergenic
TCACGAAGTGCGACGGTTCC+TGG 0.318785 2.1:+57576454 None:intergenic
GCTGCTGAAGCTTATCTTGT+TGG 0.357332 2.1:-57576298 MS.gene00233:CDS
GAAGCTTCCATTTCAAAGAT+TGG 0.365481 2.1:-57576392 MS.gene00233:CDS
TCTCGAACCAATCTTTGAAA+TGG 0.396886 2.1:+57576385 None:intergenic
TGTCGCCGGAGCAGATTTCC+GGG 0.400441 2.1:+57576507 None:intergenic
CGGAAATCTGCTCCGGCGAC+AGG 0.416360 2.1:-57576505 MS.gene00233:CDS
GGATTTGCGGGCTGTTTGTT+TGG 0.425629 2.1:+57576573 None:intergenic
TTGTGGCGAGCTGTTTGCGT+GGG 0.426078 2.1:+57576536 None:intergenic
TTCTTCACTCCTCCTGTCGC+CGG 0.451049 2.1:+57576493 None:intergenic
GAGCAGAAACAGCACTACTC+TGG 0.498444 2.1:+57576329 None:intergenic
AAGCCCCACCGTTTCCGTCC+AGG 0.502650 2.1:-57576472 MS.gene00233:CDS
CGACGGTTCCTGGACGGAAA+CGG 0.511490 2.1:+57576464 None:intergenic
TTGTGCTATTCATGCTAAGA+GGG 0.513784 2.1:-57576254 MS.gene00233:CDS
GGTTCCTGGACGGAAACGGT+GGG 0.514668 2.1:+57576468 None:intergenic
CAAACAGCCCGCAAATCCAC+CGG 0.524480 2.1:-57576568 MS.gene00233:CDS
AGCTGCCCGGAAATCTGCTC+CGG 0.529187 2.1:-57576512 MS.gene00233:CDS
AGAGCACTGAGCTTCTCATA+AGG 0.531497 2.1:-57576414 MS.gene00233:CDS
CGGTTCCTGGACGGAAACGG+TGG 0.532129 2.1:+57576467 None:intergenic
AAACAGCACTACTCTGGAAA+CGG 0.532210 2.1:+57576335 None:intergenic
GAGGGTTACTATTATGCCTA+AGG 0.533362 2.1:-57576236 MS.gene00233:CDS
CTCGCAAGCTGAATATCCTT+AGG 0.533935 2.1:+57576220 None:intergenic
TTTGTGCTATTCATGCTAAG+AGG 0.537531 2.1:-57576255 MS.gene00233:CDS
AGCTCGCCACAAAAGCTGCC+CGG 0.549986 2.1:-57576525 MS.gene00233:CDS
CAGTGCTCTTCTGGTACTTG+CGG 0.559165 2.1:+57576428 None:intergenic
GAGAAGAATCAGAGGCGAAA+GGG 0.568256 2.1:-57576200 MS.gene00233:CDS
TTTGTGGCGAGCTGTTTGCG+TGG 0.574422 2.1:+57576535 None:intergenic
CGAGAAGAATCAGAGGCGAA+AGG 0.575054 2.1:-57576201 MS.gene00233:CDS
AATCGCTCAGGATTTCAAAA+CGG 0.576806 2.1:-57576362 MS.gene00233:CDS
TGTGGCGAGCTGTTTGCGTG+GGG 0.596011 2.1:+57576537 None:intergenic
GCGGATTTCACGAAGTGCGA+CGG 0.598942 2.1:+57576447 None:intergenic
GTTCCTGGACGGAAACGGTG+GGG 0.599384 2.1:+57576469 None:intergenic
AAATCTGCTCCGGCGACAGG+AGG 0.602026 2.1:-57576502 MS.gene00233:CDS
ATTGGTTCGAGAAATCGCTC+AGG 0.615789 2.1:-57576374 MS.gene00233:CDS
GAAGTGCGACGGTTCCTGGA+CGG 0.655834 2.1:+57576458 None:intergenic
ACAGCCCGCAAATCCACCGG+CGG 0.662314 2.1:-57576565 MS.gene00233:CDS
CAGCTTGCGAGAAGAATCAG+AGG 0.668283 2.1:-57576208 MS.gene00233:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AATCGCTCAGGATTTCAAAA+CGG - chr2.1:57576416-57576435 MS.gene00233:CDS 35.0%
GAAGCTTCCATTTCAAAGAT+TGG - chr2.1:57576386-57576405 MS.gene00233:CDS 35.0%
! TCTCGAACCAATCTTTGAAA+TGG + chr2.1:57576396-57576415 None:intergenic 35.0%
! TTGTGCTATTCATGCTAAGA+GGG - chr2.1:57576524-57576543 MS.gene00233:CDS 35.0%
! TTTGTGCTATTCATGCTAAG+AGG - chr2.1:57576523-57576542 MS.gene00233:CDS 35.0%
GAGGGTTACTATTATGCCTA+AGG - chr2.1:57576542-57576561 MS.gene00233:CDS 40.0%
! AAACAGCACTACTCTGGAAA+CGG + chr2.1:57576446-57576465 None:intergenic 40.0%
CTCGCAAGCTGAATATCCTT+AGG + chr2.1:57576561-57576580 None:intergenic 45.0%
GAGAAGAATCAGAGGCGAAA+GGG - chr2.1:57576578-57576597 MS.gene00233:CDS 45.0%
GCTGCTGAAGCTTATCTTGT+TGG - chr2.1:57576480-57576499 MS.gene00233:CDS 45.0%
!! AGAGCACTGAGCTTCTCATA+AGG - chr2.1:57576364-57576383 MS.gene00233:CDS 45.0%
!! ATTGGTTCGAGAAATCGCTC+AGG - chr2.1:57576404-57576423 MS.gene00233:CDS 45.0%
CAGCTTGCGAGAAGAATCAG+AGG - chr2.1:57576570-57576589 MS.gene00233:CDS 50.0%
CAGTGCTCTTCTGGTACTTG+CGG + chr2.1:57576353-57576372 None:intergenic 50.0%
CGAGAAGAATCAGAGGCGAA+AGG - chr2.1:57576577-57576596 MS.gene00233:CDS 50.0%
GAGCAGAAACAGCACTACTC+TGG + chr2.1:57576452-57576471 None:intergenic 50.0%
TGAGAAGCTCAGTGCTCTTC+TGG + chr2.1:57576362-57576381 None:intergenic 50.0%
! AGATTTCCGGGCAGCTTTTG+TGG + chr2.1:57576262-57576281 None:intergenic 50.0%
! GGATTTGCGGGCTGTTTGTT+TGG + chr2.1:57576208-57576227 None:intergenic 50.0%
CAAACAGCCCGCAAATCCAC+CGG - chr2.1:57576210-57576229 MS.gene00233:CDS 55.0%
GCGGATTTCACGAAGTGCGA+CGG + chr2.1:57576334-57576353 None:intergenic 55.0%
TTCTTCACTCCTCCTGTCGC+CGG + chr2.1:57576288-57576307 None:intergenic 55.0%
TTGTGGCGAGCTGTTTGCGT+GGG + chr2.1:57576245-57576264 None:intergenic 55.0%
TTTGTGGCGAGCTGTTTGCG+TGG + chr2.1:57576246-57576265 None:intergenic 55.0%
!! CTTTTCCGCCGGTGGATTTG+CGG + chr2.1:57576221-57576240 None:intergenic 55.0%
!! TTTTCCGCCGGTGGATTTGC+GGG + chr2.1:57576220-57576239 None:intergenic 55.0%
AAATCTGCTCCGGCGACAGG+AGG - chr2.1:57576276-57576295 MS.gene00233:CDS 60.0%
AGCTCGCCACAAAAGCTGCC+CGG - chr2.1:57576253-57576272 MS.gene00233:CDS 60.0%
AGCTGCCCGGAAATCTGCTC+CGG - chr2.1:57576266-57576285 MS.gene00233:CDS 60.0%
CGACGGTTCCTGGACGGAAA+CGG + chr2.1:57576317-57576336 None:intergenic 60.0%
CTGTCGCCGGAGCAGATTTC+CGG + chr2.1:57576275-57576294 None:intergenic 60.0%
GAAGTGCGACGGTTCCTGGA+CGG + chr2.1:57576323-57576342 None:intergenic 60.0%
GGTTCCTGGACGGAAACGGT+GGG + chr2.1:57576313-57576332 None:intergenic 60.0%
GTTCCTGGACGGAAACGGTG+GGG + chr2.1:57576312-57576331 None:intergenic 60.0%
TCACGAAGTGCGACGGTTCC+TGG + chr2.1:57576327-57576346 None:intergenic 60.0%
TGTCGCCGGAGCAGATTTCC+GGG + chr2.1:57576274-57576293 None:intergenic 60.0%
TGTGGCGAGCTGTTTGCGTG+GGG + chr2.1:57576244-57576263 None:intergenic 60.0%
! TTTGCGTGGGGCTTTTCCGC+CGG + chr2.1:57576232-57576251 None:intergenic 60.0%
AAGCCCCACCGTTTCCGTCC+AGG - chr2.1:57576306-57576325 MS.gene00233:CDS 65.0%
ACAGCCCGCAAATCCACCGG+CGG - chr2.1:57576213-57576232 MS.gene00233:CDS 65.0%
CGGAAATCTGCTCCGGCGAC+AGG - chr2.1:57576273-57576292 MS.gene00233:CDS 65.0%
CGGTTCCTGGACGGAAACGG+TGG + chr2.1:57576314-57576333 None:intergenic 65.0%
! GCGTGGGGCTTTTCCGCCGG+TGG + chr2.1:57576229-57576248 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 57576195 57576605 57576195 ID=MS.gene00233
chr2.1 mRNA 57576195 57576605 57576195 ID=MS.gene00233.t1;Parent=MS.gene00233
chr2.1 exon 57576195 57576605 57576195 ID=MS.gene00233.t1.exon1;Parent=MS.gene00233.t1
chr2.1 CDS 57576195 57576605 57576195 ID=cds.MS.gene00233.t1;Parent=MS.gene00233.t1
Gene Sequence

>MS.gene00233

ATGGCACGTACCAAACAAACAGCCCGCAAATCCACCGGCGGAAAAGCCCCACGCAAACAGCTCGCCACAAAAGCTGCCCGGAAATCTGCTCCGGCGACAGGAGGAGTGAAGAAGCCCCACCGTTTCCGTCCAGGAACCGTCGCACTTCGTGAAATCCGCAAGTACCAGAAGAGCACTGAGCTTCTCATAAGGAAGCTTCCATTTCAAAGATTGGTTCGAGAAATCGCTCAGGATTTCAAAACGGATCTCCGTTTCCAGAGTAGTGCTGTTTCTGCTCTTCAAGAAGCTGCTGAAGCTTATCTTGTTGGTTTGTTTGAAGATACGAATCTTTGTGCTATTCATGCTAAGAGGGTTACTATTATGCCTAAGGATATTCAGCTTGCGAGAAGAATCAGAGGCGAAAGGGCTTAG

Protein sequence

>MS.gene00233.t1

MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRFRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVSALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA