AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010308


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010308 MtrunA17_Chr2g0322941 93.500 200 13 0 1 200 40 239 4.27e-138 395
MsaG010308 MtrunA17_Chr2g0322951 95.238 147 7 0 287 433 1 147 1.29e-100 296
MsaG010308 MtrunA17_Chr5g0429341 34.240 441 241 13 1 429 1 404 2.11e-58 196
MsaG010308 MtrunA17_Chr3g0120711 33.333 447 238 14 1 429 1 405 5.86e-57 193
MsaG010308 MtrunA17_Chr1g0209071 44.231 104 57 1 1 104 1 103 3.74e-22 97.1
MsaG010308 MtrunA17_Chr7g0268691 44.000 100 55 1 5 103 20 119 3.39e-20 91.7
MsaG010308 MtrunA17_Chr7g0251781 40.741 108 56 1 1 100 1 108 3.40e-18 85.9
MsaG010308 MtrunA17_Chr7g0251781 26.716 408 245 16 45 422 2 385 6.12e-15 76.3
MsaG010308 MtrunA17_Chr3g0136701 45.122 82 45 0 4 85 5 86 5.60e-14 72.0
MsaG010308 MtrunA17_Chr4g0072871 39.024 82 50 0 4 85 21 102 1.62e-12 68.6
MsaG010308 MtrunA17_Chr1g0150471 39.024 82 50 0 4 85 5 86 4.16e-11 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010308 AT3G21880.3 38.283 431 189 13 1 428 5 361 6.93e-82 256
MsaG010308 AT3G21880.2 38.283 431 189 13 1 428 5 361 6.93e-82 256
MsaG010308 AT3G21880.1 38.283 431 189 13 1 428 1 357 8.59e-82 256
MsaG010308 AT4G15250.1 36.175 434 167 11 1 430 1 328 8.11e-68 219
MsaG010308 AT5G48250.1 32.438 447 204 13 1 429 1 367 6.65e-56 189
MsaG010308 AT3G07650.3 32.892 453 193 15 1 429 1 366 4.47e-55 187
MsaG010308 AT3G07650.2 32.892 453 193 15 1 429 1 366 4.47e-55 187
MsaG010308 AT3G07650.4 32.892 453 193 15 1 429 1 366 4.47e-55 187
MsaG010308 AT3G07650.1 32.892 453 193 15 1 429 1 366 4.47e-55 187
MsaG010308 AT1G68190.1 45.113 133 65 2 1 129 10 138 1.47e-26 110
MsaG010308 AT1G68190.3 45.113 133 65 2 1 129 10 138 1.47e-26 110
MsaG010308 AT1G68190.2 45.113 133 65 2 1 129 39 167 2.38e-26 110
MsaG010308 AT2G33500.1 45.098 102 54 1 5 104 12 113 2.75e-23 101
MsaG010308 AT2G33500.1 71.111 45 13 0 376 420 355 399 3.39e-12 68.2
MsaG010308 AT2G33500.2 45.098 102 54 1 5 104 12 113 3.08e-23 101
MsaG010308 AT2G33500.2 71.111 45 13 0 376 420 354 398 3.28e-12 68.2
MsaG010308 AT1G28050.1 44.118 102 55 1 5 104 9 110 2.48e-22 99.0
MsaG010308 AT1G28050.1 68.750 48 15 0 376 423 383 430 3.51e-12 68.2
MsaG010308 AT2G47890.2 39.552 134 81 0 4 137 12 145 6.74e-21 91.7
MsaG010308 AT2G47890.3 39.552 134 81 0 4 137 12 145 1.01e-20 92.4
MsaG010308 AT2G47890.1 41.803 122 71 0 4 125 12 133 1.28e-20 92.8
MsaG010308 AT1G05290.1 27.316 421 227 14 22 432 10 361 2.36e-16 80.5
MsaG010308 AT5G24930.1 41.463 82 48 0 4 85 5 86 2.27e-13 71.6
MsaG010308 AT3G02380.1 33.333 150 72 4 277 419 191 319 2.20e-12 68.6
MsaG010308 AT2G24790.1 37.805 82 51 0 4 85 7 88 3.23e-11 64.3
MsaG010308 AT2G24790.2 37.805 82 51 0 4 85 7 88 5.65e-11 62.8

Find 87 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCTCTTGGTATCTCATTT+TGG 0.141143 2:-71619020 None:intergenic
TTTGAATTTGATGGAATAAT+AGG 0.232482 2:-71617430 None:intergenic
CTACACTGGTTGTCCCTCTT+TGG 0.263095 2:+71617186 MsaT010308.1:CDS
ATCGCATTGGGAATCAAATT+TGG 0.271470 2:+71618967 MsaT010308.1:CDS
CTCTCTGTCAAGTTTGTGAT+TGG 0.298207 2:+71617113 MsaT010308.1:CDS
TGGCAGACTTATCTAAGATT+TGG 0.313493 2:+71617206 MsaT010308.1:CDS
AAAGAATGGCTTCGTTGGTT+TGG 0.319776 2:+71617345 MsaT010308.1:CDS
ATTCAATTACCTAACATAAA+TGG 0.323167 2:+71618884 MsaT010308.1:CDS
CCTCAGAGTCAAACTCATTC+AGG 0.325054 2:+71618854 MsaT010308.1:CDS
CTGCTTTCACCATTTATGTT+AGG 0.331564 2:-71618893 None:intergenic
AGGAATAGAATGTCTATTAA+TGG 0.335494 2:+71618409 MsaT010308.1:CDS
ATCTAAGATTTGGCCACATT+TGG 0.339459 2:+71617216 MsaT010308.1:CDS
CGTCTTTGCTTGCATTGTGA+TGG 0.374410 2:+71616983 MsaT010308.1:CDS
TGTGTGCAGTTTGAATTTGA+TGG 0.391221 2:-71617439 None:intergenic
GTCTTTGCTTGCATTGTGAT+GGG 0.397890 2:+71616984 MsaT010308.1:CDS
TCTTTAACTAATTAGCTTCA+AGG 0.399809 2:+71618236 MsaT010308.1:intron
AAGCAAAGACGAGCGGAATC+AGG 0.415903 2:-71616971 None:intergenic
TCAAGGATGCCATGATGTTA+AGG 0.427984 2:+71618253 MsaT010308.1:CDS
AAATTCATCAAATGCTGCTT+GGG 0.439410 2:+71617246 MsaT010308.1:CDS
CCCGAAAAGAATGGCTTCGT+TGG 0.443487 2:+71617340 MsaT010308.1:CDS
TGACCGCCGCAATCAACATT+TGG 0.447113 2:+71617309 MsaT010308.1:CDS
TCATCCTGGTGAATCGCATT+GGG 0.451754 2:+71618955 MsaT010308.1:CDS
CAAATTCATCAAATGCTGCT+TGG 0.474377 2:+71617245 MsaT010308.1:CDS
TTAGGCAAAGCACTAGTACT+AGG 0.478053 2:-71617274 None:intergenic
AAAGGTAGATTTGTTAAAGC+AGG 0.483112 2:+71619947 MsaT010308.1:CDS
TTGTTAGATCCTTAACATCA+TGG 0.486326 2:-71618262 None:intergenic
GAGCAGAAACCCGAAAAGAA+TGG 0.491985 2:+71617331 MsaT010308.1:CDS
TCACATTGAGACTGCGGTAG+AGG 0.492122 2:+71618463 MsaT010308.1:CDS
TTTCCATCATCAGGGGCTGG+TGG 0.497075 2:+71618743 MsaT010308.1:CDS
ACAAAATACAACCACGGAGA+TGG 0.506317 2:+71618386 MsaT010308.1:CDS
TGGATCAACAAATTTGATGC+AGG 0.507571 2:+71618763 MsaT010308.1:CDS
TTCATCCTGGTGAATCGCAT+TGG 0.508930 2:+71618954 MsaT010308.1:CDS
TTGGCTTTATCCCTTGCTTG+AGG 0.520712 2:-71619001 None:intergenic
GATTCCCAATGCGATTCACC+AGG 0.521167 2:-71618959 None:intergenic
GCAACAGAAGCATGCCTCTA+GGG 0.521759 2:+71618828 MsaT010308.1:CDS
TAACGCACAATCTAGAAGTT+CGG 0.523526 2:-71618921 None:intergenic
GATCCACCAGCCCCTGATGA+TGG 0.526248 2:-71618746 None:intergenic
GCAGTCAAATATTATTTCGT+CGG 0.529373 2:-71618351 None:intergenic
ACGAAATCAAAACCTTCGGT+TGG 0.530911 2:-71617504 None:intergenic
CTGCAAATTCTCTGTCTCGC+AGG 0.534382 2:+71617017 MsaT010308.1:CDS
CTTAGATAAGTCTGCCAAAG+AGG 0.535601 2:-71617200 None:intergenic
CATGTGTCAAATATGAACCT+TGG 0.539470 2:+71617395 MsaT010308.1:CDS
GCGAATGACAAGTTGGGCGA+AGG 0.540796 2:+71617367 MsaT010308.1:CDS
ATTGAAACCTTCACATAGAC+CGG 0.543497 2:-71618297 None:intergenic
TGGTTTGGCGAATGACAAGT+TGG 0.547865 2:+71617360 MsaT010308.1:CDS
CAAGGTTCATATTTGACACA+TGG 0.558681 2:-71617394 None:intergenic
GTTTAGTGGTCGCTCAAAAG+AGG 0.560107 2:-71619989 None:intergenic
GGTTTGGCGAATGACAAGTT+GGG 0.560416 2:+71617361 MsaT010308.1:CDS
GCATTGGGAATCAAATTTGG+AGG 0.563030 2:+71618970 MsaT010308.1:CDS
TGCAACAGAAGCATGCCTCT+AGG 0.563513 2:+71618827 MsaT010308.1:CDS
TTACCTCCAGTGTTTCATCC+TGG 0.565788 2:+71618941 MsaT010308.1:CDS
GATACAAGAAAACGCGTGAA+AGG 0.568988 2:+71619929 MsaT010308.1:CDS
AGGGTGCTTGTCCTCAAGCA+AGG 0.569387 2:+71618990 MsaT010308.1:CDS
CTTATCGCAGAGGAGCGAGC+GGG 0.569512 2:-71617044 None:intergenic
GATATGCGTCTCGCAAAGCA+AGG 0.574066 2:+71619903 MsaT010308.1:CDS
CATTGGGAATCAAATTTGGA+GGG 0.578438 2:+71618971 MsaT010308.1:CDS
GTGCTACTCACTTTCTACAC+TGG 0.583152 2:+71617172 MsaT010308.1:CDS
TTAGATAAGTCTGCCAAAGA+GGG 0.584761 2:-71617199 None:intergenic
TCTGCTCCAAATGTTGATTG+CGG 0.591802 2:-71617315 None:intergenic
TTGTGGGGTTGCAAGAGCTG+TGG 0.597112 2:+71616937 MsaT010308.1:CDS
GCTCCAAATGTTGATTGCGG+CGG 0.597124 2:-71617312 None:intergenic
GGCATGCTTCTGTTGCAACT+AGG 0.602723 2:-71618821 None:intergenic
GGATCAACAAATTTGATGCA+GGG 0.606350 2:+71618764 MsaT010308.1:CDS
AAGGATCTAACAATTCATGA+GGG 0.609923 2:+71618272 MsaT010308.1:CDS
TAAGGATCTAACAATTCATG+AGG 0.611539 2:+71618271 MsaT010308.1:CDS
AAATACAACCACGGAGATGG+AGG 0.615014 2:+71618389 MsaT010308.1:CDS
TCAAGACTCAAACCAACCGA+AGG 0.626760 2:+71617492 MsaT010308.1:CDS
GGGTGCTTGTCCTCAAGCAA+GGG 0.627728 2:+71618991 MsaT010308.1:CDS
CCTGAATGAGTTTGACTCTG+AGG 0.628593 2:-71618854 None:intergenic
TTGATGCAGGGCATCAACAA+TGG 0.635140 2:+71618776 MsaT010308.1:CDS
TTATCGCAGAGGAGCGAGCG+GGG 0.642930 2:-71617043 None:intergenic
GAATTTGCATCAACCAAATG+TGG 0.648426 2:-71617229 None:intergenic
GGATCTAACAATTCATGAGG+GGG 0.652382 2:+71618274 MsaT010308.1:CDS
CGAAATTACACTTATCGCAG+AGG 0.654750 2:-71617054 None:intergenic
ATATGCGTCTCGCAAAGCAA+GGG 0.656822 2:+71619904 MsaT010308.1:CDS
ATTCTATTCCTCCATCTCCG+TGG 0.663894 2:-71618397 None:intergenic
ACTTATCGCAGAGGAGCGAG+CGG 0.664690 2:-71617045 None:intergenic
ACAATTTATGATCGACGCAG+CGG 0.677265 2:-71617090 None:intergenic
AGGATCTAACAATTCATGAG+GGG 0.678362 2:+71618273 MsaT010308.1:CDS
TAGCAGTCACATTGAGACTG+CGG 0.699859 2:+71618457 MsaT010308.1:CDS
GATTCACCAGGATGAAACAC+TGG 0.703479 2:-71618947 None:intergenic
TGACTCTGAGGAAACCCTAG+AGG 0.704907 2:-71618842 None:intergenic
ACAATGCAAGCAAAGACGAG+CGG 0.710081 2:-71616978 None:intergenic
TCACCAGGATGAAACACTGG+AGG 0.717611 2:-71618944 None:intergenic
ACTGCCACAAAATACAACCA+CGG 0.722467 2:+71618380 MsaT010308.1:CDS
TCTATGTGAAGGTTTCAATG+TGG 0.759135 2:+71618301 MsaT010308.1:CDS
GAGACAGAGAATTTGCAGAG+TGG 0.767566 2:-71617012 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 71616917 71620009 71616917 ID=MsaG010308
Chr2 mRNA 71616917 71620009 71616917 ID=MsaT010308.1;Parent=MsaG010308
Chr2 exon 71616917 71617513 71616917 ID=MsaT010308.1.exon1;Parent=MsaT010308.1
Chr2 CDS 71616917 71617513 71616917 ID=cds.MsaT010308.1;Parent=MsaT010308.1
Chr2 exon 71618251 71618484 71618251 ID=MsaT010308.1.exon2;Parent=MsaT010308.1
Chr2 CDS 71618251 71618484 71618251 ID=cds.MsaT010308.1;Parent=MsaT010308.1
Chr2 exon 71618710 71619056 71618710 ID=MsaT010308.1.exon3;Parent=MsaT010308.1
Chr2 CDS 71618710 71619056 71618710 ID=cds.MsaT010308.1;Parent=MsaT010308.1
Chr2 exon 71619886 71620009 71619886 ID=MsaT010308.1.exon4;Parent=MsaT010308.1
Chr2 CDS 71619886 71620009 71619886 ID=cds.MsaT010308.1;Parent=MsaT010308.1
Gene Sequence

>MsaT010308.1

ATGGAAGCTCTATGTGAGTTTTGTGGGGTTGCAAGAGCTGTGGTTTACTGCAAGCCTGATTCCGCTCGTCTTTGCTTGCATTGTGATGGGATTGTCCACTCTGCAAATTCTCTGTCTCGCAGGCATCCCCGCTCGCTCCTCTGCGATAAGTGTAATTTCGACTCAGCAATCGTCCGCTGCGTCGATCATAAATTGTCTCTCTGTCAAGTTTGTGATTGGAATACAAATGACTGTTTTGTATTGGGACATAAACATGTGCTACTCACTTTCTACACTGGTTGTCCCTCTTTGGCAGACTTATCTAAGATTTGGCCACATTTGGTTGATGCAAATTCATCAAATGCTGCTTGGGAATCACCTAGTACTAGTGCTTTGCCTAAAACTGAAATCAGTGACCGCCGCAATCAACATTTGGAGCAGAAACCCGAAAAGAATGGCTTCGTTGGTTTGGCGAATGACAAGTTGGGCGAAGGAGATCCATGTGTCAAATATGAACCTTGGATTGAAAATTCTCCTATTATTCCATCAAATTCAAACTGCACACAATACTTCAAAGATCAAGCATTTTTATTTAATCAAGACTCAAACCAACCGAAGCTTCAAGGATGCCATGATGTTAAGGATCTAACAATTCATGAGGGGGCCGGTCTATGTGAAGGTTTCAATGTGGATGATGTTCAATTAAACTTTGAAAGTGCCGACGAAATAATATTTGACTGCTCTCAAACTGCCACAAAATACAACCACGGAGATGGAGGAATAGAATGTCTATTAATGGATAAAAACATTCCAGTCACAAAATGTAGCAGTCACATTGAGACTGCGGTAGAGGCTTCTTCATCAGTTCAACAAGATTGTATGATTTTTCCATCATCAGGGGCTGGTGGATCAACAAATTTGATGCAGGGCATCAACAATGGTGCAAATTGTGCACTTATGACTCCTAGTTGCAACAGAAGCATGCCTCTAGGGTTTCCTCAGAGTCAAACTCATTCAGGCATATCAATTCAATTACCTAACATAAATGGTGAAAGCAGTGTTACCGAACTTCTAGATTGTGCGTTACCTCCAGTGTTTCATCCTGGTGAATCGCATTGGGAATCAAATTTGGAGGGTGCTTGTCCTCAAGCAAGGGATAAAGCCAAAATGAGATACCAAGAGAAAAAGAAAACTCGAACGTTTGGTAAGCAAATAAGATATGCGTCTCGCAAAGCAAGGGCTGATACAAGAAAACGCGTGAAAGGTAGATTTGTTAAAGCAGGTGAAGCATATGACTATGATCCTCTTTTGAGCGACCACTAA

Protein sequence

>MsaT010308.1

MEALCEFCGVARAVVYCKPDSARLCLHCDGIVHSANSLSRRHPRSLLCDKCNFDSAIVRCVDHKLSLCQVCDWNTNDCFVLGHKHVLLTFYTGCPSLADLSKIWPHLVDANSSNAAWESPSTSALPKTEISDRRNQHLEQKPEKNGFVGLANDKLGEGDPCVKYEPWIENSPIIPSNSNCTQYFKDQAFLFNQDSNQPKLQGCHDVKDLTIHEGAGLCEGFNVDDVQLNFESADEIIFDCSQTATKYNHGDGGIECLLMDKNIPVTKCSSHIETAVEASSSVQQDCMIFPSSGAGGSTNLMQGINNGANCALMTPSCNRSMPLGFPQSQTHSGISIQLPNINGESSVTELLDCALPPVFHPGESHWESNLEGACPQARDKAKMRYQEKKKTRTFGKQIRYASRKARADTRKRVKGRFVKAGEAYDYDPLLSDH*