AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG015443

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015443 MtrunA17_Chr3g0118361 91.085 258 10 4 175 429 316 563 1.98e-165 479
MsaG015443 MtrunA17_Chr3g0118361 97.175 177 4 1 1 177 1 176 2.19e-106 327
MsaG015443 MtrunA17_Chr5g0440591 79.661 177 31 4 2 177 1 173 1.18e-86 276
MsaG015443 MtrunA17_Chr5g0440591 51.471 272 108 9 161 429 305 555 2.03e-75 246
MsaG015443 MtrunA17_Chr2g0329151 68.293 123 37 1 41 161 27 149 9.87e-52 183
MsaG015443 MtrunA17_Chr3g0124291 61.818 110 39 1 49 158 29 135 2.21e-42 154
MsaG015443 MtrunA17_Chr8g0382561 56.637 113 46 1 46 158 16 125 2.70e-37 141
MsaG015443 MtrunA17_Chr6g0476301 65.079 63 22 0 106 168 1 63 4.83e-24 102
MsaG015443 MtrunA17_Chr6g0473191 60.274 73 26 1 106 175 1 73 1.05e-23 100
MsaG015443 MtrunA17_Chr6g0476291 57.534 73 28 1 106 175 1 73 5.56e-23 97.8
MsaG015443 MtrunA17_Chr3g0080401 53.968 63 29 0 106 168 1 63 1.54e-18 86.3
MsaG015443 MtrunA17_Chr7g0260281 53.846 65 30 0 95 159 1 65 2.29e-18 80.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015443 AT3G20770.1 71.739 184 32 4 3 177 1 173 6.51e-79 256
MsaG015443 AT3G20770.1 39.914 233 115 9 180 409 321 531 6.10e-39 148
MsaG015443 AT2G27050.1 68.478 184 41 5 2 177 1 175 6.98e-73 239
MsaG015443 AT2G27050.1 37.743 257 121 11 180 429 325 549 1.30e-34 135
MsaG015443 AT1G73730.1 63.636 132 42 2 43 170 29 158 1.47e-49 177
MsaG015443 AT1G73730.2 63.636 132 42 2 43 170 17 146 1.48e-49 177
MsaG015443 AT5G21120.3 47.458 177 87 3 2 175 1 174 2.93e-37 142
MsaG015443 AT5G21120.3 50.000 58 28 1 239 295 359 416 5.22e-12 68.2
MsaG015443 AT5G21120.1 47.458 177 87 3 2 175 1 174 2.93e-37 142
MsaG015443 AT5G21120.1 50.000 58 28 1 239 295 359 416 5.22e-12 68.2
MsaG015443 AT5G21120.2 47.458 177 87 3 2 175 8 181 3.48e-37 142
MsaG015443 AT5G21120.2 50.000 58 28 1 239 295 366 423 5.53e-12 68.2
MsaG015443 AT5G10120.1 50.000 124 60 1 35 158 8 129 1.96e-35 137
MsaG015443 AT5G65100.1 48.031 127 51 1 47 158 33 159 2.29e-32 129

Find 133 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGCTCTTCTTCATCTGATTT+TGG 0.161207 3:+87043377 MsaT015443.1:CDS
CCAAGCTGACAATGCAATTC+CGG 0.279173 3:+87042551 MsaT015443.1:CDS
CCGATGTGAGCTTGGCTATA+AGG 0.303939 3:-87043302 None:intergenic
AATGGCTCAGCCGGTTAATA+TGG 0.309330 3:+87043469 MsaT015443.1:CDS
GGTCACAGGCTTTCCTTTCT+CGG 0.320948 3:-87042448 None:intergenic
CATGTGATGATGATTGTTAT+TGG 0.322259 3:-87043738 None:intergenic
ACCGGCTGAGCCATTGGTTT+CGG 0.323642 3:-87043461 None:intergenic
GGTGCTTCTCAAGCGATTAA+AGG 0.326570 3:+87042263 MsaT015443.1:CDS
GTCAGCTTGGTACTTGGATA+TGG 0.327342 3:-87042538 None:intergenic
CGTTCCTCCACATCAAAATT+CGG 0.328270 3:-87043083 None:intergenic
AGGCTCAAGGGTTTGTTTAC+GGG 0.333360 3:+87042418 MsaT015443.1:CDS
AAGGCTCAAGGGTTTGTTTA+CGG 0.347915 3:+87042417 MsaT015443.1:CDS
GATGAAGAAGAGCCTCTATA+TGG 0.374646 3:-87043368 None:intergenic
GTCACAGGCTTTCCTTTCTC+GGG 0.386577 3:-87042447 None:intergenic
TTCTTCATCAATCCAACATT+GGG 0.399620 3:+87043120 MsaT015443.1:CDS
GAGGAGGATGTGGAGGGATA+AGG 0.401050 3:+87042242 MsaT015443.1:CDS
TGCATTGTCAGCTTGGTACT+TGG 0.401725 3:-87042544 None:intergenic
CCACCTTCCATCGATATAAC+TGG 0.402818 3:+87043494 MsaT015443.1:CDS
ATTGCGAAAGTCTGCTGAAA+TGG 0.405530 3:-87043173 None:intergenic
TTTCCTCCTTGCCTGTTCCT+GGG 0.410461 3:-87042334 None:intergenic
CAAGCTGACAATGCAATTCC+GGG 0.413671 3:+87042552 MsaT015443.1:CDS
TTTGTCGCAGCTGGACCTTT+CGG 0.419285 3:+87043014 MsaT015443.1:intron
TTGCCTCTGCTTGGCCGCAT+CGG 0.422356 3:-87042310 None:intergenic
TCGCCTCAGGTTCAGTTAGC+CGG 0.423673 3:-87042170 None:intergenic
GATTGATGAAGAAGATTCTC+AGG 0.425025 3:-87043110 None:intergenic
TCAATCCAACATTGGGATGA+TGG 0.429901 3:+87043127 MsaT015443.1:CDS
CCGGAATTGCATTGTCAGCT+TGG 0.430474 3:-87042551 None:intergenic
GCCGCATCGGATCCTTCCTT+CGG 0.430698 3:-87042297 None:intergenic
GATCATGAGATGGCTCTATC+TGG 0.431769 3:+87042093 MsaT015443.1:CDS
GGCAACATGAATTTAACTTC+TGG 0.433244 3:+87043587 MsaT015443.1:CDS
ACCTCATTAGCATGAAAACT+TGG 0.436185 3:-87043404 None:intergenic
TTCCTGGGATTGCCTCTGCT+TGG 0.439634 3:-87042319 None:intergenic
CCGCGAATGGTGGAAGGATA+AGG 0.449952 3:+87042488 MsaT015443.1:CDS
GCAGAGGCAATCCCAGGAAC+AGG 0.451574 3:+87042323 MsaT015443.1:CDS
CCTTATCCTTCCACCATTCG+CGG 0.453482 3:-87042488 None:intergenic
GTGAGGAAGCGGAAGATCTC+TGG 0.455579 3:+87043227 MsaT015443.1:CDS
ATGAAGGTCAATTTGACTAA+AGG 0.455863 3:+87043771 MsaT015443.1:CDS
TACGGGATCATTCCCGAGAA+AGG 0.459725 3:+87042435 MsaT015443.1:CDS
GAAGGTGGAACCATATTAAC+CGG 0.463028 3:-87043479 None:intergenic
CTTCTTCATCAATCCAACAT+TGG 0.463424 3:+87043119 MsaT015443.1:CDS
AGCAGCATGAGAATTACTTC+AGG 0.465101 3:+87043666 MsaT015443.1:CDS
TCAGCAGACTTTCGCAATGA+AGG 0.468808 3:+87043178 MsaT015443.1:CDS
ATGATTGTTATTGGACATGT+TGG 0.474263 3:-87043729 None:intergenic
GAGAAAGGAAAGCCTGTGAC+CGG 0.478282 3:+87042450 MsaT015443.1:CDS
ATATTAACCGGCTGAGCCAT+TGG 0.478420 3:-87043467 None:intergenic
GTATCCCTAGAAGCCCTGTC+TGG 0.478900 3:-87043329 None:intergenic
GTCTATGATTCAGATATTCA+AGG 0.479340 3:+87043566 MsaT015443.1:CDS
CGCCTCAGGTTCAGTTAGCC+GGG 0.481589 3:-87042169 None:intergenic
GATGGCTCTATCTGGTGATC+TGG 0.482695 3:+87042101 MsaT015443.1:CDS
CACATGTTTGCAAGAGATGA+AGG 0.486109 3:+87043755 MsaT015443.1:CDS
GCTCCCCAACCCCAAGTTGA+GGG 0.486678 3:+87042135 MsaT015443.1:CDS
TGCTCCCCAACCCCAAGTTG+AGG 0.487998 3:+87042134 MsaT015443.1:CDS
CTCTGGTGAATTTAACATGA+TGG 0.489439 3:+87043244 MsaT015443.1:CDS
GAGAATTACTTCAGGGGTCA+AGG 0.490089 3:+87043674 MsaT015443.1:CDS
GGCCAAGCAGAGGCAATCCC+AGG 0.494536 3:+87042317 MsaT015443.1:CDS
TTTCTGAAGATGGTGAGAAA+AGG 0.494881 3:+87043525 MsaT015443.1:CDS
CCGAGCTTGAGAGGAGGATG+TGG 0.496132 3:+87042232 MsaT015443.1:CDS
AATGGTGGAAGGATAAGGTT+AGG 0.496339 3:+87042493 MsaT015443.1:CDS
GCAATTCCGGGGAAGAATGA+TGG 0.501691 3:+87042564 MsaT015443.1:CDS
CGGATAATCTCCGCGAATGG+TGG 0.504192 3:+87042478 MsaT015443.1:CDS
ACCGAAACCAATGGCTCAGC+CGG 0.505945 3:+87043460 MsaT015443.1:CDS
TCTTCGTCAACCATCGCCTC+AGG 0.506692 3:-87042183 None:intergenic
GGACTTGGAGTTTCTGAAGA+TGG 0.507451 3:+87043515 MsaT015443.1:CDS
TTATCCGATGCCCCGGTCAC+AGG 0.510724 3:-87042462 None:intergenic
TCTCTCCATCATCCCAATGT+TGG 0.511441 3:-87043132 None:intergenic
ATGGAGGTTTGCAAGGCTCA+AGG 0.517295 3:+87042405 MsaT015443.1:CDS
GGAAGAGGCTGTGACCAACT+TGG 0.519473 3:+87043199 MsaT015443.1:CDS
ACTTGGATTTCGTGAGGAAG+CGG 0.521923 3:+87043216 MsaT015443.1:CDS
CAATTGAGTTGTCCATATAG+AGG 0.522292 3:+87043356 MsaT015443.1:CDS
AAAGCCTGTGACCGGGGCAT+CGG 0.525234 3:+87042458 MsaT015443.1:CDS
GGACCTTTCGGCATCAATGA+AGG 0.525234 3:+87043026 MsaT015443.1:CDS
AGAAAGGAAAGCCTGTGACC+GGG 0.526532 3:+87042451 MsaT015443.1:CDS
CTGGAAAACCGATGTGAGCT+TGG 0.533885 3:-87043310 None:intergenic
TGCTGAATGCTGCTAGCTTG+CGG 0.538137 3:-87043644 None:intergenic
GAAGTACATGCTGAAAATGA+TGG 0.543075 3:+87042386 MsaT015443.1:CDS
GAAAGGAAAGCCTGTGACCG+GGG 0.544653 3:+87042452 MsaT015443.1:CDS
GACTTTCGCAATGAAGGAAG+AGG 0.546905 3:+87043184 MsaT015443.1:CDS
TTGCCTCCATCATTCTTCCC+CGG 0.547718 3:-87042570 None:intergenic
TTGATGTTGCCGAGCTTGAG+AGG 0.548157 3:+87042223 MsaT015443.1:CDS
GCAATGAGTATGATGTCGAT+GGG 0.548446 3:+87043048 MsaT015443.1:CDS
TGGTACTTGGATATGGCAGC+AGG 0.551180 3:-87042531 None:intergenic
GCAGCATGAGAATTACTTCA+GGG 0.554925 3:+87043667 MsaT015443.1:CDS
TAATCTCCGCGAATGGTGGA+AGG 0.556888 3:+87042482 MsaT015443.1:CDS
AGCTTGAGAGGAGGATGTGG+AGG 0.561978 3:+87042235 MsaT015443.1:CDS
TCCAAGTCCAGTTATATCGA+TGG 0.562663 3:-87043501 None:intergenic
GGCAATCCCAGGAACAGGCA+AGG 0.565695 3:+87042328 MsaT015443.1:CDS
TGGAGGTTTGCAAGGCTCAA+GGG 0.571141 3:+87042406 MsaT015443.1:CDS
TCCATCGATATAACTGGACT+TGG 0.575840 3:+87043500 MsaT015443.1:CDS
TTACTTCAGGGGTCAAGGAA+TGG 0.577986 3:+87043679 MsaT015443.1:CDS
GATCCGATGCGGCCAAGCAG+AGG 0.578212 3:+87042307 MsaT015443.1:CDS
GCTAACTGAACCTGAGGCGA+TGG 0.580269 3:+87042173 MsaT015443.1:CDS
CTCCCCAACCCCAAGTTGAG+GGG 0.581721 3:+87042136 MsaT015443.1:CDS
CTTCCTCACGAAATCCAAGT+TGG 0.583208 3:-87043213 None:intergenic
GAAAATGATGGAGGTTTGCA+AGG 0.591397 3:+87042398 MsaT015443.1:CDS
AAGATGTCAAGGGCTCAAGA+TGG 0.596334 3:+87042357 MsaT015443.1:CDS
GGTCAAGGAATGGTGATGGA+AGG 0.597963 3:+87043689 MsaT015443.1:CDS
CAGGGGTCAAGGAATGGTGA+TGG 0.599899 3:+87043685 MsaT015443.1:CDS
TTGCCTTCATTGATGCCGAA+AGG 0.600278 3:-87043029 None:intergenic
GAAGATGGTGAGAAAAGGAT+TGG 0.601828 3:+87043530 MsaT015443.1:CDS
GAGCAAGTCAAACCGAAGGA+AGG 0.602432 3:+87042285 MsaT015443.1:CDS
AAGGTTAGGTTTGACCGCAA+CGG 0.602662 3:+87042507 MsaT015443.1:CDS
AATGACTGAGGATATATGAC+TGG 0.604420 3:-87043431 None:intergenic
CCAGTTATATCGATGGAAGG+TGG 0.610149 3:-87043494 None:intergenic
TCCCCAACCCCAAGTTGAGG+GGG 0.613156 3:+87042137 MsaT015443.1:CDS
CGCCCGGCTAACTGAACCTG+AGG 0.614118 3:+87042167 MsaT015443.1:CDS
CCACATCCTCCTCTCAAGCT+CGG 0.615219 3:-87042232 None:intergenic
GGCAATGAGTATGATGTCGA+TGG 0.618237 3:+87043047 MsaT015443.1:CDS
CATCGGATAATCTCCGCGAA+TGG 0.620613 3:+87042475 MsaT015443.1:CDS
GCGGAGATTATCCGATGCCC+CGG 0.628966 3:-87042469 None:intergenic
GATGATGTTTGATCATGAGA+TGG 0.631968 3:+87042083 MsaT015443.1:CDS
AATGATGGAGGCAATCCGAT+CGG 0.634526 3:+87042579 MsaT015443.1:CDS
GCTTGAGAGGAGGATGTGGA+GGG 0.637705 3:+87042236 MsaT015443.1:CDS
TGACCAACTTGGATTTCGTG+AGG 0.639847 3:+87043210 MsaT015443.1:CDS
CCTTATAGCCAAGCTCACAT+CGG 0.641231 3:+87043302 MsaT015443.1:CDS
ATTCGTTCAACCGAAACCAA+TGG 0.641894 3:+87043451 MsaT015443.1:CDS
AGTCCAGTTATATCGATGGA+AGG 0.642356 3:-87043497 None:intergenic
AAAGGAGCAAGTCAAACCGA+AGG 0.648111 3:+87042281 MsaT015443.1:CDS
GATGGTGAGAAAAGGATTGG+TGG 0.649012 3:+87043533 MsaT015443.1:CDS
ATATGGCAGCAGGACCGTTG+CGG 0.650469 3:-87042521 None:intergenic
TATAAGGACATGTTGAGTGT+TGG 0.651109 3:-87043286 None:intergenic
TTCGGTTGAACGAATGACTG+AGG 0.658942 3:-87043443 None:intergenic
CAATGAGTATGATGTCGATG+GGG 0.670997 3:+87043049 MsaT015443.1:CDS
AATGAGTATGATGTCGATGG+GGG 0.671000 3:+87043050 MsaT015443.1:CDS
AATCCCAGGAACAGGCAAGG+AGG 0.672658 3:+87042331 MsaT015443.1:CDS
ATGTTGCCGAGCTTGAGAGG+AGG 0.673867 3:+87042226 MsaT015443.1:CDS
ATTCCGGGGAAGAATGATGG+AGG 0.679869 3:+87042567 MsaT015443.1:CDS
AAGCTGACAATGCAATTCCG+GGG 0.692590 3:+87042553 MsaT015443.1:CDS
CTGAATCATAGACAGTCATG+AGG 0.695799 3:-87043556 None:intergenic
CAGCATGAGAATTACTTCAG+GGG 0.700026 3:+87043668 MsaT015443.1:CDS
CTCAGGTTCAGTTAGCCGGG+CGG 0.704152 3:-87042166 None:intergenic
TGGCAGCCACTTAACCGCAG+CGG 0.706818 3:+87043607 MsaT015443.1:CDS
ACCGAAGGAAGGATCCGATG+CGG 0.718950 3:+87042296 MsaT015443.1:CDS
GTACATGCTGAAAATGATGG+AGG 0.724912 3:+87042389 MsaT015443.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 87042078 87043790 87042078 ID=MsaG015443
Chr3 mRNA 87042078 87043790 87042078 ID=MsaT015443.1;Parent=MsaG015443
Chr3 exon 87042078 87042600 87042078 ID=MsaT015443.1.exon1;Parent=MsaT015443.1
Chr3 CDS 87042078 87042600 87042078 ID=cds.MsaT015443.1;Parent=MsaT015443.1
Chr3 exon 87043024 87043790 87043024 ID=MsaT015443.1.exon2;Parent=MsaT015443.1
Chr3 CDS 87043024 87043790 87043024 ID=cds.MsaT015443.1;Parent=MsaT015443.1
Gene Sequence

>MsaT015443.1

ATGATGATGATGTTTGATCATGAGATGGCTCTATCTGGTGATCTGGAAGTGTTTTCTGCTCCCCAACCCCAAGTTGAGGGGGATATTACCGCCCGGCTAACTGAACCTGAGGCGATGGTTGACGAAGATTACAGCGACGATGATATTGATGTTGCCGAGCTTGAGAGGAGGATGTGGAGGGATAAGGTGCTTCTCAAGCGATTAAAGGAGCAAGTCAAACCGAAGGAAGGATCCGATGCGGCCAAGCAGAGGCAATCCCAGGAACAGGCAAGGAGGAAAAAGATGTCAAGGGCTCAAGATGGAATCTTGAAGTACATGCTGAAAATGATGGAGGTTTGCAAGGCTCAAGGGTTTGTTTACGGGATCATTCCCGAGAAAGGAAAGCCTGTGACCGGGGCATCGGATAATCTCCGCGAATGGTGGAAGGATAAGGTTAGGTTTGACCGCAACGGTCCTGCTGCCATATCCAAGTACCAAGCTGACAATGCAATTCCGGGGAAGAATGATGGAGGCAATCCGATCGCTGGACCTTTCGGCATCAATGAAGGCAATGAGTATGATGTCGATGGGGGAGAAGAGGAGCCGAATTTTGATGTGGAGGAACGGAAACCTGAGAATCTTCTTCATCAATCCAACATTGGGATGATGGAGAGAATGAGAAATGTAAGACTGCCATTTCAGCAGACTTTCGCAATGAAGGAAGAGGCTGTGACCAACTTGGATTTCGTGAGGAAGCGGAAGATCTCTGGTGAATTTAACATGATGGATCCTAAAATTTTCACTTGCCAACACTCAACATGTCCTTATAGCCAAGCTCACATCGGTTTTCCAGACAGGGCTTCTAGGGATACTCATCAATTGAGTTGTCCATATAGAGGCTCTTCTTCATCTGATTTTGGTGGTCCAAGTTTTCATGCTAATGAGGTAAAACCAGTCATATATCCTCAGTCATTCGTTCAACCGAAACCAATGGCTCAGCCGGTTAATATGGTTCCACCTTCCATCGATATAACTGGACTTGGAGTTTCTGAAGATGGTGAGAAAAGGATTGGTGGCCTCATGACTGTCTATGATTCAGATATTCAAGGCAACATGAATTTAACTTCTGGCAGCCACTTAACCGCAGCGGAAAATCACATCTTACCGCAAGCTAGCAGCATTCAGCAGCAGCATGAGAATTACTTCAGGGGTCAAGGAATGGTGATGGAAGGAAACATGTTTGAAGAAACCAACATGTCCAATAACAATCATCATCACATGTTTGCAAGAGATGAAGGTCAATTTGACTAA
Protein sequence

>MsaT015443.1

MMMMFDHEMALSGDLEVFSAPQPQVEGDITARLTEPEAMVDEDYSDDDIDVAELERRMWRDKVLLKRLKEQVKPKEGSDAAKQRQSQEQARRKKMSRAQDGILKYMLKMMEVCKAQGFVYGIIPEKGKPVTGASDNLREWWKDKVRFDRNGPAAISKYQADNAIPGKNDGGNPIAGPFGINEGNEYDVDGGEEEPNFDVEERKPENLLHQSNIGMMERMRNVRLPFQQTFAMKEEAVTNLDFVRKRKISGEFNMMDPKIFTCQHSTCPYSQAHIGFPDRASRDTHQLSCPYRGSSSSDFGGPSFHANEVKPVIYPQSFVQPKPMAQPVNMVPPSIDITGLGVSEDGEKRIGGLMTVYDSDIQGNMNLTSGSHLTAAENHILPQASSIQQQHENYFRGQGMVMEGNMFEETNMSNNNHHHMFARDEGQFD*