AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016953

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016953 MtrunA17_Chr3g0133181 95.142 247 5 2 1 245 29 270 2.88e-174 481
MsaG016953 MtrunA17_Chr5g0427051 65.625 256 69 5 6 249 20 268 1.45e-99 291
MsaG016953 MtrunA17_Chr5g0412501 54.167 216 70 7 46 249 74 272 4.67e-62 196
MsaG016953 MtrunA17_Chr4g0076821 43.515 239 92 6 49 248 112 346 1.20e-55 182
MsaG016953 MtrunA17_Chr1g0188441 44.554 202 91 3 47 248 6 186 3.72e-53 170
MsaG016953 MtrunA17_Chr5g0404271 43.333 210 105 3 45 248 94 295 3.99e-48 160
MsaG016953 MtrunA17_Chr2g0315941 43.541 209 99 5 50 248 68 267 8.59e-48 159
MsaG016953 MtrunA17_Chr8g0367691 42.788 208 103 3 49 248 68 267 4.65e-47 157
MsaG016953 MtrunA17_Chr7g0217231 41.121 214 98 5 47 248 85 282 3.31e-46 157
MsaG016953 MtrunA17_Chr6g0453231 41.463 205 103 5 50 248 91 284 4.95e-39 138
MsaG016953 MtrunA17_Chr3g0092371 61.290 62 24 0 48 109 18 79 5.19e-21 84.3
MsaG016953 MtrunA17_Chr8g0357741 54.667 75 33 1 174 248 23 96 1.50e-20 83.6
MsaG016953 MtrunA17_Chr8g0357721 34.756 164 68 5 60 223 15 139 2.04e-20 84.3
MsaG016953 MtrunA17_Chr7g0243651 85.366 41 6 0 48 88 1 41 1.90e-19 79.7
MsaG016953 MtrunA17_Chr8g0361671 53.968 63 29 0 186 248 271 333 1.38e-18 84.0
MsaG016953 MtrunA17_Chr8g0361671 56.364 55 22 1 47 99 61 115 3.66e-13 68.2
MsaG016953 MtrunA17_Chr6g0479901 55.000 60 26 1 186 244 101 160 4.78e-17 76.6
MsaG016953 MtrunA17_Chr6g0479901 52.000 50 23 1 50 98 19 68 6.40e-11 59.7
MsaG016953 MtrunA17_Chr4g0060731 61.111 54 18 1 47 100 22 72 8.74e-16 70.1
MsaG016953 MtrunA17_Chr6g0453221 55.769 52 19 1 47 98 18 65 3.87e-13 63.5
MsaG016953 MtrunA17_Chr2g0278381 93.103 29 2 0 60 88 19 47 2.10e-11 58.9
MsaG016953 MtrunA17_Chr8g0349871 48.000 50 26 0 187 236 14 63 5.00e-11 57.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016953 AT4G24660.1 53.202 203 65 5 48 249 47 220 2.86e-66 205
MsaG016953 AT4G24660.2 52.261 199 65 5 48 245 47 216 4.84e-63 197
MsaG016953 AT2G02540.2 38.314 261 130 6 7 248 36 284 5.59e-60 192
MsaG016953 AT2G02540.1 38.314 261 130 6 7 248 36 284 5.59e-60 192
MsaG016953 AT1G14440.1 45.366 205 96 4 48 248 88 280 2.03e-54 177
MsaG016953 AT1G14440.2 45.366 205 96 4 48 248 88 280 2.03e-54 177
MsaG016953 AT5G65410.1 45.536 224 74 5 40 249 65 254 6.73e-51 167
MsaG016953 AT2G18350.1 47.291 203 87 4 46 248 78 260 2.60e-50 166
MsaG016953 AT3G50890.1 43.216 199 98 3 49 247 59 242 1.98e-46 155
MsaG016953 AT1G75240.1 41.126 231 108 2 47 249 73 303 4.79e-46 156
MsaG016953 AT5G15210.1 38.863 211 100 5 40 242 46 235 5.66e-38 134
MsaG016953 AT1G69600.1 40.291 206 96 7 48 245 29 215 7.58e-37 130
MsaG016953 AT3G28920.1 33.333 231 92 4 48 245 50 251 4.74e-34 125
MsaG016953 AT5G60480.1 37.931 203 88 4 47 243 34 204 1.35e-32 119
MsaG016953 AT5G42780.1 31.553 206 100 5 50 245 64 238 1.39e-24 98.6
MsaG016953 AT1G74660.1 69.355 62 19 0 48 109 37 98 1.40e-24 94.4
MsaG016953 AT1G74660.2 72.414 58 16 0 48 105 37 94 2.56e-24 93.6
MsaG016953 AT3G28917.1 66.667 60 19 1 47 105 30 89 8.08e-22 87.0
MsaG016953 AT1G18835.1 60.317 63 22 1 47 109 23 82 1.19e-19 81.3
MsaG016953 AT5G39760.1 53.846 65 30 0 184 248 198 262 2.73e-19 85.9
MsaG016953 AT1G14687.1 26.866 201 104 7 46 242 3 164 5.22e-14 68.6

Find 82 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTGCATTTGCGGAGAAAAT+TGG 0.226300 3:+104035951 MsaT016953.1:CDS
TAACATGCCACCGGCGTAAC+AGG 0.280829 3:-104035357 None:intergenic
TTTCTTTGCGGTGAAAGTTC+CGG 0.342082 3:-104035623 None:intergenic
GGTGGTAGTGGAGGAGGAAG+TGG 0.392563 3:+104035876 MsaT016953.1:CDS
TATCAAGAGACATGTGCTTA+AGG 0.397983 3:+104036031 MsaT016953.1:CDS
AGAGACATGTGCTTAAGGTT+TGG 0.408486 3:+104036036 MsaT016953.1:CDS
GGATAAGATGCTTGCATTTG+CGG 0.410009 3:+104035941 MsaT016953.1:CDS
CCACCACCACCGCTGCTGCT+TGG 0.417998 3:-104035855 None:intergenic
AGCAGCAGCGGTGGTGGTGG+TGG 0.434714 3:+104035858 MsaT016953.1:CDS
AAAATTCACACAGGAACAAA+AGG 0.449497 3:+104035920 MsaT016953.1:CDS
AACGGACGATGTTGTGATAT+CGG 0.449782 3:-104035771 None:intergenic
TTGTATCTGACCGTTCCTGC+TGG 0.450197 3:-104035477 None:intergenic
CACAATAACAAGCACACTCT+TGG 0.453753 3:+104036062 MsaT016953.1:CDS
ATTGATGGTGGTGGTGTTGA+GGG 0.453905 3:-104035680 None:intergenic
GGTGGTGGTGGTAGTGGAGG+AGG 0.457454 3:+104035870 MsaT016953.1:CDS
TTGTGATATCGGTGGAGTTA+CGG 0.462629 3:-104035760 None:intergenic
ATTCACCGTCGATTTCTTTG+CGG 0.470970 3:-104035635 None:intergenic
CCAAGCAGCAGCGGTGGTGG+TGG 0.471348 3:+104035855 MsaT016953.1:CDS
TTGCATTTGCGGAGAAAATT+GGG 0.474261 3:+104035952 MsaT016953.1:CDS
GTTGAGGGTGATGAGACCGC+TGG 0.475704 3:-104035665 None:intergenic
TGGTGGAAACCAGGCGGAGG+AGG 0.482300 3:-104035732 None:intergenic
CGCTTGGAAACTCAGGAGTT+AGG 0.485005 3:+104035385 MsaT016953.1:CDS
AATTGATGGTGGTGGTGTTG+AGG 0.486125 3:-104035681 None:intergenic
AACGCTGCACGGTGGTAGTA+AGG 0.486813 3:-104035708 None:intergenic
TCCACCAGCTGCATCGAGTA+GGG 0.488823 3:+104035800 MsaT016953.1:CDS
AATGGGGTTCCCTGTTACGC+CGG 0.489920 3:+104035347 None:intergenic
GCAGCGTTACCTCCTCCGCC+TGG 0.493199 3:+104035723 MsaT016953.1:CDS
TTCCAGTGTTCCTTCTTCTC+CGG 0.499051 3:-104035571 None:intergenic
GAGGAAGTGGAACGAAGAAA+AGG 0.501558 3:+104035889 MsaT016953.1:CDS
ACAGGCGGTGGTGTCAAAAG+TGG 0.503495 3:+104035453 MsaT016953.1:CDS
AATCCAAGCAGCAGCGGTGG+TGG 0.510288 3:+104035852 MsaT016953.1:CDS
TTGAGGGTGATGAGACCGCT+GGG 0.515445 3:-104035664 None:intergenic
GGTGGAATCGGTTCAGCGGA+CGG 0.518412 3:+104035420 MsaT016953.1:CDS
GGTGTCAAAAGTGGGCCAGC+AGG 0.527350 3:+104035462 MsaT016953.1:CDS
TGGTGGTGGAAACCAGGCGG+AGG 0.539701 3:-104035735 None:intergenic
GGTAGTAAGGTGATAATTGA+TGG 0.540087 3:-104035695 None:intergenic
GTGGAGTTACGGAGTGGTGG+TGG 0.542600 3:-104035749 None:intergenic
AGAAGAAGGAACACTGGAAG+CGG 0.543572 3:+104035575 MsaT016953.1:CDS
GTGCTGCTTGTAACTGTCAC+CGG 0.544839 3:+104035604 MsaT016953.1:CDS
CAAAAGTGGGCCAGCAGGAA+CGG 0.546267 3:+104035467 MsaT016953.1:CDS
GGGGTTCCCTGTTACGCCGG+TGG 0.551765 3:+104035350 MsaT016953.1:CDS
GGAGGAGCAGCCACAGGCGG+TGG 0.554790 3:+104035441 MsaT016953.1:CDS
GTGGCATGTTACGACTCGCT+TGG 0.557648 3:+104035369 MsaT016953.1:CDS
AAGAATCACGCCGTCAGCAT+AGG 0.558884 3:+104035510 MsaT016953.1:CDS
ACGGAGTGGTGGTGGAAACC+AGG 0.562207 3:-104035741 None:intergenic
AATCCCCTACTCGATGCAGC+TGG 0.564604 3:-104035804 None:intergenic
GCGGACGGAGGAGCAGCCAC+AGG 0.565208 3:+104035435 MsaT016953.1:CDS
TACGACTCGCTTGGAAACTC+AGG 0.569322 3:+104035378 MsaT016953.1:CDS
AATCACGCCGTCAGCATAGG+TGG 0.574956 3:+104035513 MsaT016953.1:CDS
ATAGGTGGTCACGCCGTGGA+TGG 0.576462 3:+104035528 MsaT016953.1:CDS
CCCCTACTCGATGCAGCTGG+TGG 0.577449 3:-104035801 None:intergenic
CAGGCGGTGGTGTCAAAAGT+GGG 0.580393 3:+104035454 MsaT016953.1:CDS
AATTGGGTGGAGAATTCAGA+AGG 0.584858 3:+104035968 MsaT016953.1:CDS
AACATGCCACCGGCGTAACA+GGG 0.586523 3:-104035356 None:intergenic
TCAAATCCAAGCAGCAGCGG+TGG 0.591349 3:+104035849 MsaT016953.1:CDS
AGCGAGTCGTAACATGCCAC+CGG 0.591718 3:-104035366 None:intergenic
AGAATTCAGAAGGAAGATGA+AGG 0.605493 3:+104035978 MsaT016953.1:CDS
GCAGCTGGTGGAAGAGCCAA+CGG 0.605589 3:-104035789 None:intergenic
GACGGAGGAGCAGCCACAGG+CGG 0.606719 3:+104035438 MsaT016953.1:CDS
CATTTGCGGAGAAAATTGGG+TGG 0.607411 3:+104035955 MsaT016953.1:CDS
GCGGAGGAGGTAACGCTGCA+CGG 0.609223 3:-104035719 None:intergenic
TCGGTGGAGTTACGGAGTGG+TGG 0.614261 3:-104035752 None:intergenic
GGCGTGACCACCTATGCTGA+CGG 0.619665 3:-104035520 None:intergenic
CCACCAGCTGCATCGAGTAG+GGG 0.624461 3:+104035801 MsaT016953.1:CDS
TTCCACCAGCTGCATCGAGT+AGG 0.625338 3:+104035799 MsaT016953.1:CDS
CAGCATAGGTGGTCACGCCG+TGG 0.632841 3:+104035524 MsaT016953.1:CDS
TGGCGGTGGAATCGGTTCAG+CGG 0.633285 3:+104035416 MsaT016953.1:CDS
GATATCACAACATCGTCCGT+TGG 0.638979 3:+104035773 MsaT016953.1:CDS
TGCCGGAGAAGAAGGAACAC+TGG 0.644421 3:+104035569 MsaT016953.1:CDS
GGACGATGTTGTGATATCGG+TGG 0.659157 3:-104035768 None:intergenic
AGTAAGGTGATAATTGATGG+TGG 0.668303 3:-104035692 None:intergenic
AAGGTGATAATTGATGGTGG+TGG 0.673505 3:-104035689 None:intergenic
GAGTGGTGGTGGAAACCAGG+CGG 0.674377 3:-104035738 None:intergenic
GGAATCGGTTCAGCGGACGG+AGG 0.678169 3:+104035423 MsaT016953.1:CDS
GTTTAGAACAAAATTCACAC+AGG 0.682835 3:+104035911 MsaT016953.1:CDS
AAACTCGCAACATCCATCCA+CGG 0.687116 3:-104035541 None:intergenic
GTGTCAAATCCAAGCAGCAG+CGG 0.696717 3:+104035846 MsaT016953.1:CDS
TTTCACCGCAAAGAAATCGA+CGG 0.699703 3:+104035630 MsaT016953.1:CDS
ATATCGGTGGAGTTACGGAG+TGG 0.773672 3:-104035755 None:intergenic
ACGGTGAATTCACTCCCCAG+CGG 0.785774 3:+104035649 MsaT016953.1:CDS
GAGGAGGTAACGCTGCACGG+TGG 0.795380 3:-104035716 None:intergenic
TGAGGGTGATGAGACCGCTG+GGG 0.809094 3:-104035663 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 104035348 104036097 104035348 ID=MsaG016953
Chr3 mRNA 104035348 104036097 104035348 ID=MsaT016953.1;Parent=MsaG016953
Chr3 exon 104035348 104036097 104035348 ID=MsaT016953.1.exon1;Parent=MsaT016953.1
Chr3 CDS 104035348 104036097 104035348 ID=cds.MsaT016953.1;Parent=MsaT016953.1
Gene Sequence

>MsaT016953.1

ATGGGGTTCCCTGTTACGCCGGTGGCATGTTACGACTCGCTTGGAAACTCAGGAGTTAGGTCCAAAAATGGCGGTGGAATCGGTTCAGCGGACGGAGGAGCAGCCACAGGCGGTGGTGTCAAAAGTGGGCCAGCAGGAACGGTCAGATACAAAGAATGTCAAAAGAATCACGCCGTCAGCATAGGTGGTCACGCCGTGGATGGATGTTGCGAGTTTTTAGCTGCCGGAGAAGAAGGAACACTGGAAGCGGTGATTTGTGCTGCTTGTAACTGTCACCGGAACTTTCACCGCAAAGAAATCGACGGTGAATTCACTCCCCAGCGGTCTCATCACCCTCAACACCACCACCATCAATTATCACCTTACTACCACCGTGCAGCGTTACCTCCTCCGCCTGGTTTCCACCACCACTCCGTAACTCCACCGATATCACAACATCGTCCGTTGGCTCTTCCACCAGCTGCATCGAGTAGGGGATTCAGCAGAGAAGAAGATAACGTGTCAAATCCAAGCAGCAGCGGTGGTGGTGGTGGTAGTGGAGGAGGAAGTGGAACGAAGAAAAGGTTTAGAACAAAATTCACACAGGAACAAAAGGATAAGATGCTTGCATTTGCGGAGAAAATTGGGTGGAGAATTCAGAAGGAAGATGAAGGTGCAATCGAACAATTCTGTGCTGACAATTTTATCAAGAGACATGTGCTTAAGGTTTGGATGCACAATAACAAGCACACTCTTGGTAAGAAACCCTAA
Protein sequence

>MsaT016953.1

MGFPVTPVACYDSLGNSGVRSKNGGGIGSADGGAATGGGVKSGPAGTVRYKECQKNHAVSIGGHAVDGCCEFLAAGEEGTLEAVICAACNCHRNFHRKEIDGEFTPQRSHHPQHHHHQLSPYYHRAALPPPPGFHHHSVTPPISQHRPLALPPAASSRGFSREEDNVSNPSSSGGGGGSGGGSGTKKRFRTKFTQEQKDKMLAFAEKIGWRIQKEDEGAIEQFCADNFIKRHVLKVWMHNNKHTLGKKP*