AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG025705

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025705 MtrunA17_Chr5g0404781 87.349 332 20 8 1 319 1 323 0.0 520
MsaG025705 MtrunA17_Chr8g0372461 53.757 346 118 12 1 319 1 331 1.34e-94 283
MsaG025705 MtrunA17_Chr3g0142171 42.138 318 150 11 1 314 1 288 2.31e-61 197
MsaG025705 MtrunA17_Chr1g0155791 53.043 230 83 7 104 319 120 338 4.00e-60 195
MsaG025705 MtrunA17_Chr5g0441921 50.314 159 55 4 106 246 124 276 1.13e-39 142
MsaG025705 MtrunA17_Chr4g0035591 45.890 146 59 1 103 248 17 142 2.79e-39 137
MsaG025705 MtrunA17_Chr3g0082511 43.750 160 74 3 106 251 134 291 3.15e-38 138
MsaG025705 MtrunA17_Chr8g0353111 42.857 168 76 3 106 254 124 290 3.50e-34 127
MsaG025705 MtrunA17_Chr2g0281741 31.707 123 54 5 22 140 88 184 4.38e-14 69.7
MsaG025705 MtrunA17_Chr0c01g0489181 29.268 123 58 4 22 140 4 101 3.44e-12 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025705 AT3G51060.1 43.669 387 133 13 1 319 1 370 1.86e-76 239
MsaG025705 AT5G66350.1 48.045 358 120 16 1 319 1 331 3.33e-75 234
MsaG025705 AT5G66350.3 48.116 345 115 15 1 306 1 320 9.22e-73 228
MsaG025705 AT5G66350.2 48.116 345 115 15 1 306 1 320 1.48e-72 228
MsaG025705 AT1G19790.2 40.437 366 148 14 1 318 1 344 3.45e-66 211
MsaG025705 AT1G19790.1 40.437 366 148 14 1 318 1 344 3.45e-66 211
MsaG025705 AT1G75520.1 51.667 240 80 9 102 319 121 346 5.12e-65 208
MsaG025705 AT4G36260.1 38.757 338 167 14 1 317 1 319 1.69e-48 165
MsaG025705 AT2G18120.1 41.961 255 87 10 1 248 6 206 3.17e-46 156
MsaG025705 AT2G18120.2 41.339 254 88 10 1 248 6 204 2.41e-44 151
MsaG025705 AT2G21400.4 52.055 146 55 3 103 246 6 138 3.85e-44 150
MsaG025705 AT2G21400.2 52.055 146 55 3 103 246 7 139 4.14e-44 149
MsaG025705 AT2G21400.1 50.676 148 39 3 103 246 6 123 2.80e-43 147
MsaG025705 AT2G21400.3 50.676 148 39 3 103 246 7 124 2.92e-43 147
MsaG025705 AT5G12330.1 45.570 158 69 2 106 246 112 269 5.80e-37 135
MsaG025705 AT5G12330.2 45.570 158 69 2 106 246 112 269 5.80e-37 135
MsaG025705 AT5G12330.4 45.570 158 69 2 106 246 199 356 1.13e-36 136
MsaG025705 AT5G33210.2 60.920 87 26 1 104 182 15 101 7.36e-29 107
MsaG025705 AT5G33210.1 60.920 87 26 1 104 182 50 136 2.34e-28 108
MsaG025705 AT3G54430.1 39.597 149 77 4 102 249 37 173 2.55e-27 105
MsaG025705 AT5G12330.3 86.957 46 6 0 106 151 112 157 6.75e-23 95.1

Find 75 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GACAGAAGAGATAAGGTTTA+AGG 0.199519 5:-11654889 None:intergenic
CCATGTTGTTGAGATGATTT+AGG 0.214641 5:-11653950 None:intergenic
TACTCCTCTGGTGTTGTGTT+AGG 0.305453 5:+11653686 MsaT025705.1:CDS
ATAATCCAACAACAGAATTC+TGG 0.358326 5:+11653534 MsaT025705.1:CDS
ACTAGAATTAGAGGCGTTTC+CGG 0.373528 5:-11654838 None:intergenic
TCCCTGATGCTACTGCTGTT+GGG 0.375712 5:+11654910 MsaT025705.1:CDS
TGGGAATAATAGTTACAATA+TGG 0.377378 5:+11654812 MsaT025705.1:CDS
AGAGTGAGTGAAGGGTTTGT+AGG 0.387801 5:-11654022 None:intergenic
TTATACCAGAATTCTGTTGT+TGG 0.398181 5:-11653539 None:intergenic
TTGGATTATTATTATTCTGT+TGG 0.399176 5:-11653520 None:intergenic
TAACTATTATTCCCATGATC+TGG 0.405584 5:-11654804 None:intergenic
TGAATTCTCCAGCAGAGTTC+AGG 0.409422 5:+11654676 MsaT025705.1:CDS
TATGATTATGGTCCAGATCA+TGG 0.413474 5:+11654792 MsaT025705.1:CDS
TGAATGATGAATCAAGATCT+TGG 0.413551 5:-11655014 None:intergenic
CTTTCTCTTCTTCTAGCAGC+AGG 0.421698 5:-11653905 None:intergenic
GTCCCTGATGCTACTGCTGT+TGG 0.422352 5:+11654909 MsaT025705.1:CDS
AAACTCATGTTAAGAGTACT+TGG 0.425175 5:+11653879 MsaT025705.1:CDS
ACAGAAGAGATAAGGTTTAA+GGG 0.430955 5:-11654888 None:intergenic
GTGGGAAGTGGAAGTGGAAG+TGG 0.430984 5:+11653761 MsaT025705.1:CDS
TCCCCAACAGCAGTAGCATC+AGG 0.439192 5:-11654912 None:intergenic
TGTTAGGAGTGGGACCTACT+AGG 0.445348 5:+11653702 MsaT025705.1:CDS
GAGTGTACCACTAGAATTAG+AGG 0.455284 5:-11654847 None:intergenic
GCTGGAGAATTCACCACAGC+TGG 0.457156 5:-11654666 None:intergenic
GGTATAAGTTGTCAAGATTG+TGG 0.462555 5:+11653785 MsaT025705.1:CDS
TGGAATAGTAGTAGTATGGC+TGG 0.464468 5:+11653464 None:intergenic
CAACAAGATCTTTACTCCTC+TGG 0.470648 5:+11653674 MsaT025705.1:CDS
AAGAATTGCGTACCACTAGA+AGG 0.471301 5:-11654984 None:intergenic
GAATGATGAATCAAGATCTT+GGG 0.474567 5:-11655013 None:intergenic
GTGTTTGTGGGAAGTGGAAG+TGG 0.476364 5:+11653755 MsaT025705.1:CDS
CCCTGATGCTACTGCTGTTG+GGG 0.488129 5:+11654911 MsaT025705.1:CDS
CTCACGCACCTGAACTCTGC+TGG 0.492218 5:-11654684 None:intergenic
TCTAGTGGTACACTCCTTGA+AGG 0.496019 5:+11654855 MsaT025705.1:CDS
TCTACTGTGTTTGTGGGAAG+TGG 0.498034 5:+11653749 MsaT025705.1:CDS
GTTAGGAGTGGGACCTACTA+GGG 0.499651 5:+11653703 MsaT025705.1:CDS
AGGGCTGAGCCACACCTTCA+AGG 0.502705 5:-11654869 None:intergenic
CATCAGGGACAGAAGAGATA+AGG 0.508932 5:-11654896 None:intergenic
TCAGAAGAACAAACCCTAGT+AGG 0.513659 5:-11653716 None:intergenic
TCACTCACTCTCCCTTCAGC+AGG 0.521572 5:+11654034 MsaT025705.1:CDS
GTATAAGTTGTCAAGATTGT+GGG 0.521679 5:+11653786 MsaT025705.1:CDS
GAATAGATCTACTGTGTTTG+TGG 0.527218 5:+11653742 MsaT025705.1:CDS
CTCTGGTGTTGTGTTAGGAG+TGG 0.527736 5:+11653691 MsaT025705.1:CDS
TAAACGAGTGCAAGCTAAAG+AGG 0.530926 5:-11653999 None:intergenic
TCTGGTGTTGTGTTAGGAGT+GGG 0.532211 5:+11653692 MsaT025705.1:CDS
ATGAAGGAATTAAGTGGAGC+TGG 0.538890 5:-11654960 None:intergenic
AGTGTTGTTGATGTTGATGT+TGG 0.543270 5:-11653616 None:intergenic
AGAACTTGTTGTAAGAGTAG+AGG 0.544764 5:+11653845 MsaT025705.1:CDS
AATAGTTACAATATGGCTAC+CGG 0.553111 5:+11654819 MsaT025705.1:CDS
GGAGCTGGATACAAAGAAGA+AGG 0.554978 5:-11654945 None:intergenic
AATAGATCTACTGTGTTTGT+GGG 0.559670 5:+11653743 MsaT025705.1:CDS
TCAACAGCTGTAAACATTGG+AGG 0.560848 5:+11654747 MsaT025705.1:CDS
CAAGTTCTACATCTCATATG+AGG 0.561087 5:-11653830 None:intergenic
GAAGGCATGAAGGAATTAAG+TGG 0.562752 5:-11654966 None:intergenic
ATGATTATGGTCCAGATCAT+GGG 0.563960 5:+11654793 MsaT025705.1:CDS
GTTGTTTCTAATTCATACCG+TGG 0.564425 5:+11653578 MsaT025705.1:CDS
TGGTACACTCCTTGAAGGTG+TGG 0.567365 5:+11654860 MsaT025705.1:CDS
ATGAATCAAGATCTTGGGTG+GGG 0.569684 5:-11655008 None:intergenic
AATTCCTTCATGCCTTCTAG+TGG 0.576741 5:+11654972 MsaT025705.1:CDS
ATATATAATATACCTGCTGA+AGG 0.587423 5:-11654046 None:intergenic
TGATGAATCAAGATCTTGGG+TGG 0.587902 5:-11655010 None:intergenic
TATTCAACAGCTGTAAACAT+TGG 0.588034 5:+11654744 MsaT025705.1:CDS
CTGAAGGGAGAGTGAGTGAA+GGG 0.593490 5:-11654030 None:intergenic
CCTAAATCATCTCAACAACA+TGG 0.595265 5:+11653950 MsaT025705.1:CDS
CAACAGCTGTAAACATTGGA+GGG 0.602052 5:+11654748 MsaT025705.1:CDS
GATGAATCAAGATCTTGGGT+GGG 0.609126 5:-11655009 None:intergenic
CCCCAACAGCAGTAGCATCA+GGG 0.616436 5:-11654911 None:intergenic
CTCAGTTGATGAGAACGAAG+AGG 0.617435 5:+11654713 MsaT025705.1:CDS
CGTACCACTAGAAGGCATGA+AGG 0.617919 5:-11654976 None:intergenic
AACTCATGTTAAGAGTACTT+GGG 0.622414 5:+11653880 MsaT025705.1:CDS
GGAAGTGGAAGTGGAAGTGG+AGG 0.626200 5:+11653764 MsaT025705.1:CDS
TGAATCAAGATCTTGGGTGG+GGG 0.629021 5:-11655007 None:intergenic
TATATAATATACCTGCTGAA+GGG 0.636400 5:-11654045 None:intergenic
GCTGAAGGGAGAGTGAGTGA+AGG 0.652710 5:-11654031 None:intergenic
CACTCCTAACACAACACCAG+AGG 0.667381 5:-11653690 None:intergenic
GGAAACGCCTCTAATTCTAG+TGG 0.698556 5:+11654840 MsaT025705.1:CDS
GGTTCCAAATCTCAAAACCA+CGG 0.709690 5:-11653595 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 11653479 11655025 11653479 ID=MsaG025705
Chr5 mRNA 11653479 11655025 11653479 ID=MsaT025705.1;Parent=MsaG025705
Chr5 exon 11653479 11654055 11653479 ID=MsaT025705.1.exon1;Parent=MsaT025705.1
Chr5 CDS 11653479 11654055 11653479 ID=cds.MsaT025705.1;Parent=MsaT025705.1
Chr5 exon 11654643 11655025 11654643 ID=MsaT025705.1.exon2;Parent=MsaT025705.1
Chr5 CDS 11654643 11655025 11654643 ID=cds.MsaT025705.1;Parent=MsaT025705.1
Gene Sequence

>MsaT025705.1

ATGGCTGGTTTATTTTCATTAGGAAGAACTGAAGAAGAAAACCAACAGAATAATAATAATCCAACAACAGAATTCTGGTATAATAAGAATGATGATTCTGTTGTTTCTAATTCATACCGTGGTTTTGAGATTTGGAACCAACATCAACATCAACAACACTTGTTTTCTTTACAACAACCTCAGCAGCAGCAGCAGCAACAAGATCTTTACTCCTCTGGTGTTGTGTTAGGAGTGGGACCTACTAGGGTTTGTTCTTCTGATGAGAATAGATCTACTGTGTTTGTGGGAAGTGGAAGTGGAAGTGGAGGTATAAGTTGTCAAGATTGTGGGAATCAAGCTAAGAAAGATTGTCCTCATATGAGATGTAGAACTTGTTGTAAGAGTAGAGGTTTTGATTGTCAAACTCATGTTAAGAGTACTTGGGTTCCTGCTGCTAGAAGAAGAGAAAGACAACAACAACAACTTTCTGCTCCTAAATCATCTCAACAACATGGAGAGAGAGATCTTAACAATAACAATTCCTCTTTAGCTTGCACTCGTTTACCTACAAACCCTTCACTCACTCTCCCTTCAGCAGGGCTATTAGAGGAGATGAATTTTCCAGCTGTGGTGAATTCTCCAGCAGAGTTCAGGTGCGTGAGAGTTAGCTCAGTTGATGAGAACGAAGAGGAGTATGCATATTCAACAGCTGTAAACATTGGAGGGCATGTTTTTAGAGGAATTTTGTATGATTATGGTCCAGATCATGGGAATAATAGTTACAATATGGCTACCGGAAACGCCTCTAATTCTAGTGGTACACTCCTTGAAGGTGTGGCTCAGCCCTTAAACCTTATCTCTTCTGTCCCTGATGCTACTGCTGTTGGGGAAATTGTTGATCCTTCTTCTTTGTATCCAGCTCCACTTAATTCCTTCATGCCTTCTAGTGGTACGCAATTCTTCCCCCACCCAAGATCTTGA
Protein sequence

>MsaT025705.1

MAGLFSLGRTEEENQQNNNNPTTEFWYNKNDDSVVSNSYRGFEIWNQHQHQQHLFSLQQPQQQQQQQDLYSSGVVLGVGPTRVCSSDENRSTVFVGSGSGSGGISCQDCGNQAKKDCPHMRCRTCCKSRGFDCQTHVKSTWVPAARRRERQQQQLSAPKSSQQHGERDLNNNNSSLACTRLPTNPSLTLPSAGLLEEMNFPAVVNSPAEFRCVRVSSVDENEEEYAYSTAVNIGGHVFRGILYDYGPDHGNNSYNMATGNASNSSGTLLEGVAQPLNLISSVPDATAVGEIVDPSSLYPAPLNSFMPSSGTQFFPHPRS*