AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG038294

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038294 MtrunA17_Chr4g0012861 44.578 415 154 8 1 342 213 624 3.23e-101 318
MsaG038294 MtrunA17_Chr2g0281191 44.590 305 133 5 73 341 320 624 2.08e-76 251
MsaG038294 MtrunA17_Chr7g0244871 95.699 93 4 0 98 190 5 97 1.03e-60 189
MsaG038294 MtrunA17_Chr7g0244881 93.750 96 6 0 1 96 17 112 9.11e-60 187
MsaG038294 MtrunA17_Chr3g0107701 49.302 215 98 7 1 209 233 442 4.60e-55 193
MsaG038294 MtrunA17_Chr3g0107701 51.181 127 49 2 229 342 522 648 5.32e-32 127
MsaG038294 MtrunA17_Chr5g0432721 49.730 185 88 3 36 219 254 434 1.07e-51 182
MsaG038294 MtrunA17_Chr5g0432721 56.944 72 30 1 231 301 507 578 1.62e-17 84.0
MsaG038294 MtrunA17_Chr7g0251891 38.835 103 62 1 105 206 16 118 5.02e-18 81.3
MsaG038294 MtrunA17_Chr7g0237841 39.216 102 60 2 105 204 623 724 1.39e-16 80.9
MsaG038294 MtrunA17_Chr1g0178071 37.857 140 67 7 82 208 50 182 3.14e-16 78.6
MsaG038294 MtrunA17_Chr8g0345771 40.000 110 56 5 105 207 171 277 1.70e-14 74.3
MsaG038294 MtrunA17_Chr7g0266821 41.905 105 54 5 110 210 65 166 4.04e-14 72.0
MsaG038294 MtrunA17_Chr7g0276471 40.659 91 49 3 105 192 117 205 1.49e-13 71.2
MsaG038294 MtrunA17_Chr5g0422501 38.393 112 55 5 105 204 235 344 1.33e-12 68.2
MsaG038294 MtrunA17_Chr1g0198661 34.641 153 69 7 92 215 168 318 2.05e-12 67.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038294 AT4G32010.2 44.699 349 151 6 34 342 210 556 4.99e-90 286
MsaG038294 AT4G32010.1 44.193 353 151 7 34 342 210 560 1.50e-87 280
MsaG038294 AT2G30470.1 45.201 323 123 5 73 342 262 583 9.93e-80 259
MsaG038294 AT4G21550.3 38.225 293 158 8 25 299 239 526 5.82e-50 175
MsaG038294 AT4G21550.1 39.322 295 156 8 25 301 239 528 1.27e-44 163
MsaG038294 AT4G21550.2 37.276 279 152 8 25 285 239 512 4.58e-44 159
MsaG038294 AT3G26790.1 40.385 104 61 1 105 207 91 194 3.39e-18 84.3
MsaG038294 AT1G28300.1 39.167 120 71 2 72 189 136 255 3.68e-18 84.7
MsaG038294 AT3G24650.1 38.211 123 74 2 105 225 571 693 1.45e-17 84.3
MsaG038294 AT5G06250.4 39.695 131 60 5 105 218 45 173 9.01e-17 79.7
MsaG038294 AT5G06250.5 39.695 131 60 5 105 218 45 173 9.48e-17 79.3
MsaG038294 AT5G06250.2 39.695 131 60 5 105 218 45 173 1.11e-16 79.7
MsaG038294 AT5G06250.3 39.695 131 60 5 105 218 45 173 1.20e-16 79.3
MsaG038294 AT5G06250.1 39.695 131 60 5 105 218 45 173 1.41e-16 79.0
MsaG038294 AT1G13260.1 38.983 118 65 5 104 216 186 301 4.08e-16 78.6
MsaG038294 AT3G25730.1 37.815 119 65 5 105 216 182 298 1.09e-15 77.4
MsaG038294 AT2G36080.3 41.667 108 54 4 105 205 37 142 3.02e-15 74.7
MsaG038294 AT2G36080.4 41.667 108 54 4 105 205 37 142 3.21e-15 73.2
MsaG038294 AT2G36080.2 41.667 108 54 4 105 205 37 142 3.21e-15 73.2
MsaG038294 AT2G36080.1 41.667 108 54 4 105 205 37 142 3.42e-15 74.7
MsaG038294 AT1G68840.2 44.086 93 45 4 105 192 187 277 2.57e-14 73.6
MsaG038294 AT1G68840.1 44.086 93 45 4 105 192 187 277 2.57e-14 73.6
MsaG038294 AT3G11580.4 39.316 117 52 5 105 205 28 141 3.83e-14 71.2
MsaG038294 AT3G11580.2 39.316 117 52 5 105 205 28 141 3.83e-14 71.2
MsaG038294 AT3G11580.5 39.316 117 52 5 105 205 28 141 3.83e-14 71.2
MsaG038294 AT2G46870.1 38.889 108 57 5 105 205 34 139 7.23e-14 71.6
MsaG038294 AT3G11580.1 39.316 117 52 5 105 205 28 141 8.71e-14 70.9
MsaG038294 AT1G01030.2 33.588 131 72 5 105 222 55 183 6.46e-13 69.3
MsaG038294 AT3G11580.3 39.316 117 52 5 105 205 28 141 8.37e-13 69.3
MsaG038294 AT3G61970.1 37.037 108 59 4 105 205 22 127 1.13e-12 68.2
MsaG038294 AT1G25560.1 35.938 128 64 6 93 204 178 303 1.15e-12 68.6
MsaG038294 AT4G01500.1 34.921 126 66 4 77 192 2 121 1.96e-12 67.8
MsaG038294 AT1G01030.1 37.288 118 64 5 105 214 55 170 2.23e-12 67.8

Find 75 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAATTGCAAGTTGGAGATTT+TGG 0.162855 7:-74673654 MsaT038294.1:intron
TGGAATCTGTGGAGAATTTA+TGG 0.172380 7:-74672181 MsaT038294.1:CDS
TATATCCTGCTGCTATTATT+TGG 0.179530 7:+74673714 None:intergenic
TGGTGTTTAAATTTAGATTT+TGG 0.182651 7:-74673737 MsaT038294.1:CDS
CTTACTTCAACACATGATTT+TGG 0.195081 7:+74673925 None:intergenic
TGTTTCCTTTGTCGTCTTAC+AGG 0.195568 7:+74674355 None:intergenic
AAGAAGGGTATATTCATAAA+TGG 0.214466 7:-74672597 MsaT038294.1:CDS
ATGACCTTTAATACTCCTTT+TGG 0.228375 7:-74674562 MsaT038294.1:CDS
AATTCTTGATCGGTAATCTT+AGG 0.277029 7:+74674313 None:intergenic
ATTTCCAAAAGGAGTATTAA+AGG 0.297494 7:+74674558 None:intergenic
CATTGATGCTGGAACTTACT+TGG 0.314019 7:-74673025 MsaT038294.1:CDS
GGCTCTCCCTCTGAGAGAAT+TGG 0.328664 7:+74674484 None:intergenic
CAAGAATTACAACAATTATC+TGG 0.354762 7:-74674298 MsaT038294.1:CDS
TTCCTTGCGACATGATGAAT+TGG 0.372803 7:+74674382 None:intergenic
TTTGGAAATTCAAATTCCTT+TGG 0.374583 7:-74674544 MsaT038294.1:CDS
ATACCCTTCTTTGCAATGAT+AGG 0.386942 7:+74672609 None:intergenic
AATTTGCAGTAACATTTAAC+CGG 0.402045 7:-74673486 MsaT038294.1:intron
CTCAATAGCAAGAGTTGACT+TGG 0.413822 7:+74674432 None:intergenic
TTCAAACATTGTGGTGATTG+AGG 0.415224 7:-74672961 MsaT038294.1:CDS
GGAATCTGTGGAGAATTTAT+GGG 0.424748 7:-74672180 MsaT038294.1:CDS
TGCAAAAGATTCTGAGACTT+AGG 0.426953 7:+74674463 None:intergenic
AGACGTGAAAGGGAAGAAAT+TGG 0.434182 7:-74673757 MsaT038294.1:CDS
GGAAATTCAAATTCCTTTGG+TGG 0.453203 7:-74674541 MsaT038294.1:CDS
AGAAGGGTATATTCATAAAT+GGG 0.456876 7:-74672596 MsaT038294.1:intron
TACAAATCGAAGACGTGAAA+GGG 0.459274 7:-74673767 MsaT038294.1:CDS
GTTAATGTCTTCTCGAATAG+TGG 0.460753 7:+74673985 None:intergenic
AATAACATTGCTATGTCTAA+AGG 0.470824 7:-74673158 MsaT038294.1:CDS
TTCCCCTTAGGTTCAACTCA+TGG 0.477460 7:+74672037 None:intergenic
ACAATGTTTGAATTAACTGT+TGG 0.478449 7:+74672972 None:intergenic
AAGGAATTTGAATTTCCAAA+AGG 0.480284 7:+74674547 None:intergenic
TCCCCTTAGGTTCAACTCAT+GGG 0.485137 7:+74672038 None:intergenic
GTGCTCAGAATGGAGAAAGT+TGG 0.489559 7:-74672201 MsaT038294.1:CDS
GCTAGTGATGTTGGTCGACT+TGG 0.492614 7:-74673961 MsaT038294.1:CDS
ACCTCCTATCATTGCAAAGA+AGG 0.496773 7:-74672613 MsaT038294.1:CDS
CCCTTCTTTGCAATGATAGG+AGG 0.497014 7:+74672612 None:intergenic
TGCAGTAACATTTAACCGGA+TGG 0.497340 7:-74673482 MsaT038294.1:intron
AACTGATAATAGGGTTTCGA+AGG 0.500618 7:-74673447 MsaT038294.1:CDS
TGTTGGTCGACTTGGTCGCA+TGG 0.503887 7:-74673953 MsaT038294.1:CDS
GGCATCGGCTTCTTCTATAC+AGG 0.506593 7:-74673425 MsaT038294.1:intron
TTCAATTCCAATTCTCTCAG+AGG 0.508532 7:-74674491 MsaT038294.1:CDS
CCTATTATCAGTTTCTCCCC+CGG 0.509156 7:+74673457 None:intergenic
TTTCCACCTATTTCGGAACC+AGG 0.514336 7:-74673801 MsaT038294.1:CDS
AACATTTAACCGGATGGACC+CGG 0.514859 7:-74673476 MsaT038294.1:CDS
TTTGGCCAAATAATAGCAGC+AGG 0.517585 7:-74673719 MsaT038294.1:CDS
ATTGATGCTGGAACTTACTT+GGG 0.528064 7:-74673024 MsaT038294.1:CDS
ATGGAGAAAGTTGGAATCTG+TGG 0.530973 7:-74672192 MsaT038294.1:CDS
AATAGGGTTTCGAAGGGCAT+CGG 0.532282 7:-74673440 MsaT038294.1:CDS
ATGTTTGAATTAACTGTTGG+AGG 0.534643 7:+74672975 None:intergenic
CAGTCTATGCAATTGCAAGT+TGG 0.537113 7:-74673663 MsaT038294.1:CDS
TAATTGTTGTAATTCTTGAT+CGG 0.538634 7:+74674303 None:intergenic
ACATTAACTGCTAGTGATGT+TGG 0.541192 7:-74673970 MsaT038294.1:CDS
TTCCACCTATTTCGGAACCA+GGG 0.543683 7:-74673800 MsaT038294.1:CDS
TCAATTCCAATTCTCTCAGA+GGG 0.544592 7:-74674490 MsaT038294.1:CDS
TAACAAAGAAGCATTGATGC+TGG 0.545646 7:-74673036 MsaT038294.1:CDS
AGAATTTATGGGGTCAAAGA+AGG 0.549360 7:-74672169 MsaT038294.1:intron
TTTGAATTAACTGTTGGAGG+TGG 0.549434 7:+74672978 None:intergenic
ACATTTAACCGGATGGACCC+GGG 0.549810 7:-74673475 MsaT038294.1:CDS
TTACAAATCGAAGACGTGAA+AGG 0.557247 7:-74673768 MsaT038294.1:CDS
AACAGTTAATTCAAACATTG+TGG 0.562770 7:-74672970 MsaT038294.1:CDS
ACCATAGGATGAACGAGCAA+TGG 0.564796 7:-74672238 MsaT038294.1:intron
CCTCCTATCATTGCAAAGAA+GGG 0.572822 7:-74672612 MsaT038294.1:CDS
TTAGGAACTACTAGCTCTTG+TGG 0.580404 7:+74673110 None:intergenic
AATTCAAATTCCTTTGGTGG+TGG 0.581836 7:-74674538 MsaT038294.1:CDS
CTCCAATTCATCATGTCGCA+AGG 0.583526 7:-74674384 MsaT038294.1:CDS
AGTGTGAGAAGTGCTCAGAA+TGG 0.598771 7:-74672211 MsaT038294.1:CDS
CTCGAATAGTGGCACAATGG+CGG 0.604126 7:+74673996 None:intergenic
TCCACCTATTTCGGAACCAG+GGG 0.606854 7:-74673799 MsaT038294.1:CDS
CATTTAACCGGATGGACCCG+GGG 0.615232 7:-74673474 MsaT038294.1:CDS
GAATCTGTGGAGAATTTATG+GGG 0.628808 7:-74672179 MsaT038294.1:CDS
ACTGATAATAGGGTTTCGAA+GGG 0.642961 7:-74673446 MsaT038294.1:CDS
TCAATAGCAAGAGTTGACTT+GGG 0.655637 7:+74674433 None:intergenic
AATCGCCTGTAAGACGACAA+AGG 0.682009 7:-74674360 MsaT038294.1:CDS
CTTCTCGAATAGTGGCACAA+TGG 0.682280 7:+74673993 None:intergenic
CCACCTATTTCGGAACCAGG+GGG 0.686812 7:-74673798 MsaT038294.1:CDS
ATTTAACCGGATGGACCCGG+GGG 0.732920 7:-74673473 MsaT038294.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 74672049 74674584 74672049 ID=MsaG038294
Chr7 mRNA 74672049 74674584 74672049 ID=MsaT038294.1;Parent=MsaG038294
Chr7 exon 74672049 74672076 74672049 ID=MsaT038294.1.exon8;Parent=MsaT038294.1
Chr7 CDS 74672049 74672076 74672049 ID=cds.MsaT038294.1;Parent=MsaT038294.1
Chr7 exon 74672170 74672253 74672170 ID=MsaT038294.1.exon7;Parent=MsaT038294.1
Chr7 CDS 74672170 74672253 74672170 ID=cds.MsaT038294.1;Parent=MsaT038294.1
Chr7 exon 74672597 74672637 74672597 ID=MsaT038294.1.exon6;Parent=MsaT038294.1
Chr7 CDS 74672597 74672637 74672597 ID=cds.MsaT038294.1;Parent=MsaT038294.1
Chr7 exon 74672938 74673183 74672938 ID=MsaT038294.1.exon5;Parent=MsaT038294.1
Chr7 CDS 74672938 74673183 74672938 ID=cds.MsaT038294.1;Parent=MsaT038294.1
Chr7 exon 74673426 74673499 74673426 ID=MsaT038294.1.exon4;Parent=MsaT038294.1
Chr7 CDS 74673426 74673499 74673426 ID=cds.MsaT038294.1;Parent=MsaT038294.1
Chr7 exon 74673655 74673829 74673655 ID=MsaT038294.1.exon3;Parent=MsaT038294.1
Chr7 CDS 74673655 74673829 74673655 ID=cds.MsaT038294.1;Parent=MsaT038294.1
Chr7 exon 74673930 74674026 74673930 ID=MsaT038294.1.exon2;Parent=MsaT038294.1
Chr7 CDS 74673930 74674026 74673930 ID=cds.MsaT038294.1;Parent=MsaT038294.1
Chr7 exon 74674295 74674584 74674295 ID=MsaT038294.1.exon1;Parent=MsaT038294.1
Chr7 CDS 74674295 74674584 74674295 ID=cds.MsaT038294.1;Parent=MsaT038294.1
Gene Sequence

>MsaT038294.1

ATGACCTTTAATACTCCTTTTGGAAATTCAAATTCCTTTGGTGGTGGTGAAAAGCAACAACAAACTGAAAATTCAATTCCAATTCTCTCAGAGGGAGAGCCTAAGTCTCAGAATCTTTTGCACAAGCTTCCCAAGTCAACTCTTGCTATTGAGTCAGAGAAAAATGTGTGCATGGCATCTCCAATTCATCATGTCGCAAGGAAATCGCCTGTAAGACGACAAAGGAAACACATATCTGCACGTAATTTGCCTAAGATTACCGATCAAGAATTACAACAATTATCTGGATACTTAAATTCCGCCATTGTGCCACTATTCGAGAAGACATTAACTGCTAGTGATGTTGGTCGACTTGGTCGCATGGTTCTTCCAAAATCATGTGTTGAAACATATTTTCCACCTATTTCGGAACCAGGGGGTATTTATTTACAAATCGAAGACGTGAAAGGGAAGAAATTGGTGTTTAAATTTAGATTTTGGCCAAATAATAGCAGCAGGATATATGTTTTAGAAGGAGTACATGCTTGGATTCAGTCTATGCAATTGCAAGTTGGAGATTTTGTAACATTTAACCGGATGGACCCGGGGGAGAAACTGATAATAGGGTTTCGAAGGGCATCGGCTTCTTCTATACAGGTGAATAACATTGCTATGTCTAAAGGCATGAAAAGAAAGAGAATGTGTTTGCCACAAGAGCTAGTAGTTCCTAAGAAGAAAAGAACATGTGACATTGTGTCAAAAAGTAAGAGCTTGCTTATTGATAACAAAGAAGCATTGATGCTGGAACTTACTTGGGAAGAAGCTCAAGATTTTCTTCATCCACCTCCAACAGTTAATTCAAACATTGTGGTGATTGAGGATCATGTCTTTGAAGAATATGAAGAACCTCCTATCATTGCAAAGAAGGGTATATTCATAAATGGGATGAACGAGCAATGGATACAGTGTGAGAAGTGCTCAGAATGGAGAAAGTTGGAATCTGTGGAGAATTTATGGGGTCAAAGAAGGTGTTCATGTTCTGCTCCCATGAGTTGA
Protein sequence

>MsaT038294.1

MTFNTPFGNSNSFGGGEKQQQTENSIPILSEGEPKSQNLLHKLPKSTLAIESEKNVCMASPIHHVARKSPVRRQRKHISARNLPKITDQELQQLSGYLNSAIVPLFEKTLTASDVGRLGRMVLPKSCVETYFPPISEPGGIYLQIEDVKGKKLVFKFRFWPNNSSRIYVLEGVHAWIQSMQLQVGDFVTFNRMDPGEKLIIGFRRASASSIQVNNIAMSKGMKRKRMCLPQELVVPKKKRTCDIVSKSKSLLIDNKEALMLELTWEEAQDFLHPPPTVNSNIVVIEDHVFEEYEEPPIIAKKGIFINGMNEQWIQCEKCSEWRKLESVENLWGQRRCSCSAPMS*