AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG034983

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG034983 MtrunA17_Chr7g0215281 97.010 301 9 0 1 301 1 301 0.0 597
MsaG034983 MtrunA17_Chr6g0457431 80.625 160 26 2 1 160 1 155 3.19e-91 268
MsaG034983 MtrunA17_Chr6g0469271 44.395 223 114 4 1 213 1 223 1.95e-58 187
MsaG034983 MtrunA17_Chr4g0053911 50.888 169 67 2 3 159 1 165 6.11e-55 178
MsaG034983 MtrunA17_Chr6g0470651 51.724 174 67 6 1 164 1 167 3.58e-53 173
MsaG034983 MtrunA17_Chr5g0401401 64.545 110 39 0 3 112 1 110 6.10e-52 170
MsaG034983 MtrunA17_Chr6g0470631 50.575 174 69 6 1 164 1 167 6.94e-52 170
MsaG034983 MtrunA17_Chr1g0209841 42.029 207 98 5 1 196 1 196 1.44e-45 154
MsaG034983 MtrunA17_Chr1g0207471 60.577 104 41 0 3 106 1 104 8.01e-45 150
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG034983 AT3G02550.1 59.649 285 71 4 1 281 1 245 3.59e-112 325
MsaG034983 AT1G67100.1 82.270 141 22 2 1 138 1 141 1.42e-82 249
MsaG034983 AT1G68510.1 62.941 170 53 2 1 160 1 170 3.25e-74 228
MsaG034983 AT3G49940.1 55.769 156 63 2 3 158 1 150 3.70e-55 179
MsaG034983 AT5G67420.2 65.455 110 38 0 3 112 1 110 6.05e-54 176
MsaG034983 AT5G67420.1 65.455 110 38 0 3 112 1 110 6.05e-54 176
MsaG034983 AT4G37540.1 66.667 111 37 0 3 113 1 111 4.57e-53 174

Find 99 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGGCATTAGCTTGTGATTC+AGG 0.204656 7:+5539049 None:intergenic
AAACCGACTGAACCGTAAAT+TGG 0.257065 7:+5538612 None:intergenic
GGCTCATGGAATGTGGAGTT+GGG 0.290152 7:-5537985 MsaT034983.1:CDS
ACCAGCACGACCGTAGAATT+TGG 0.324902 7:+5539015 None:intergenic
TGGAGAGGAAAAGGTTGGTT+TGG 0.330903 7:-5538097 MsaT034983.1:CDS
GCAGCTGCTTCCGAAGTTAT+TGG 0.331265 7:+5538519 None:intergenic
TTGACATAGCTGCCAGCTTC+CGG 0.350615 7:+5538581 None:intergenic
GTTGGTTTGGAGCTGACTCT+TGG 0.364251 7:-5538084 MsaT034983.1:CDS
CTCTCACCGGTTCGGTCAAC+CGG 0.370315 7:+5538120 None:intergenic
CGAATAGTGAATCCAATTTA+CGG 0.370383 7:-5538624 MsaT034983.1:CDS
CTCTTCTTGTATCTTCGGCT+TGG 0.390746 7:+5538368 None:intergenic
GCCTACCGGTTCGGTTGAAC+CGG 0.395865 7:-5538298 MsaT034983.1:CDS
GAAAAGAAGGGTTGTATTGA+AGG 0.400262 7:-5538019 MsaT034983.1:CDS
CGAGACATGACGGATGTCAT+AGG 0.402077 7:+5538470 None:intergenic
TGGCTCATGGAATGTGGAGT+TGG 0.402516 7:-5537986 MsaT034983.1:CDS
CCTCTCCACTCTCACCGGTT+CGG 0.407185 7:+5538112 None:intergenic
TTGGTTTGGAGCTGACTCTT+GGG 0.409856 7:-5538083 MsaT034983.1:CDS
GATCTTATTTAGAGATGAAC+CGG 0.409879 7:-5538163 MsaT034983.1:CDS
GCTGACTCTTGGGCTTGAAC+CGG 0.417029 7:-5538073 MsaT034983.1:CDS
CGGTTCATCACCTCCTCAAC+CGG 0.421068 7:+5538279 None:intergenic
GTTTATTATGGTCCGGAAGC+TGG 0.428216 7:-5538593 MsaT034983.1:CDS
ACCGGTAGGCTCAGTTGAAC+CGG 0.436384 7:+5538311 None:intergenic
AAGCCAAACCCGGTCTAAGC+CGG 0.439276 7:+5537952 None:intergenic
TTCAACTGAGCCTACCGGTT+CGG 0.441943 7:-5538307 MsaT034983.1:CDS
ACGGTTCAGTCGGTTTATTA+TGG 0.442488 7:-5538605 MsaT034983.1:CDS
CGGTGAGAGTGGAGAGGAAA+AGG 0.443712 7:-5538106 MsaT034983.1:CDS
CGAACCTGGACGAAGATGTT+CGG 0.443982 7:+5538967 None:intergenic
GTCTGAGGCAGTTGCGGTGG+TGG 0.444002 7:-5538223 MsaT034983.1:CDS
TGGCATTAGCTTGTGATTCA+GGG 0.445704 7:+5539050 None:intergenic
GAACCTGGACGAAGATGTTC+GGG 0.446611 7:+5538968 None:intergenic
GTATTGAAGGATTGTGGTGT+TGG 0.451012 7:-5538006 MsaT034983.1:CDS
CTTCGGAAGCAGCTGCTAAC+GGG 0.456571 7:-5538512 MsaT034983.1:CDS
GCCAAATTCTACGGTCGTGC+TGG 0.457716 7:-5539016 MsaT034983.1:CDS
GAAGCAGCTGCTAACGGGAG+GGG 0.464479 7:-5538507 MsaT034983.1:CDS
ACATGATAAACACGTGAAAC+CGG 0.466817 7:+5538054 None:intergenic
GTGTTTCTCGCCAAATTCTA+CGG 0.467341 7:-5539025 MsaT034983.1:CDS
GAGAGTGGAGAGGAAAAGGT+TGG 0.474231 7:-5538102 MsaT034983.1:CDS
GAGAACAAGGGATTTGAATC+CGG 0.474733 7:-5538330 MsaT034983.1:CDS
ATGAAGCCGGTTGACCGAAC+CGG 0.475639 7:-5538126 MsaT034983.1:CDS
CTCAACCGGTTCAACCGAAC+CGG 0.484741 7:+5538293 None:intergenic
CGGTTCGGTTGAACCGGTTG+AGG 0.488130 7:-5538292 MsaT034983.1:CDS
ATTTAGAGATGAACCGGAGT+TGG 0.489333 7:-5538157 MsaT034983.1:CDS
AAAGAGTAGTAATGAGAACA+AGG 0.495367 7:-5538343 MsaT034983.1:CDS
TGGTTCCTGTGAAGAAAAGA+AGG 0.496741 7:-5538032 MsaT034983.1:CDS
GGAGTTGGGGCTTCAATACC+CGG 0.500139 7:-5537971 MsaT034983.1:CDS
TCCGAAGTTATTGGTGTGAT+CGG 0.501864 7:+5538528 None:intergenic
ATGTCATAGGCTTTGAGTGG+TGG 0.508004 7:+5538483 None:intergenic
GAGATGAACCGGAGTTGGAC+CGG 0.508299 7:-5538152 MsaT034983.1:CDS
AGGATTGTGGTGTTGGCTCA+TGG 0.516288 7:-5537999 MsaT034983.1:CDS
CCACCGCAACTGCCTCAGAC+TGG 0.516711 7:+5538226 None:intergenic
GAGGCAGTTGCGGTGGTGGA+TGG 0.517838 7:-5538219 MsaT034983.1:CDS
GTTCGGGACCGGCGTTAACA+AGG 0.520425 7:+5538984 None:intergenic
AGCCAAACCCGGTCTAAGCC+GGG 0.527879 7:+5537953 None:intergenic
CGGTTGAGGAGGTGATGAAC+CGG 0.528263 7:-5538278 MsaT034983.1:CDS
GTTGACCGAACCGGTGAGAG+TGG 0.534361 7:-5538117 MsaT034983.1:CDS
CATCCGTCATGTCTCGAAAG+AGG 0.536392 7:-5538463 MsaT034983.1:CDS
ACTTCGGAAGCAGCTGCTAA+CGG 0.537457 7:-5538513 MsaT034983.1:CDS
AACTCGCTGTTGAGTTAACT+CGG 0.540543 7:+5538422 None:intergenic
TGTCATAGGCTTTGAGTGGT+GGG 0.543552 7:+5538484 None:intergenic
GGTTGTAGAGTACTAAGAAA+AGG 0.544678 7:-5539121 MsaT034983.1:CDS
GCTCATGGAATGTGGAGTTG+GGG 0.544869 7:-5537984 MsaT034983.1:CDS
CCACCAGTCTGAGGCAGTTG+CGG 0.548486 7:-5538229 MsaT034983.1:CDS
TTCGGTTGAACCGGTTGAGG+AGG 0.552024 7:-5538289 MsaT034983.1:CDS
GGTCCCGAACATCTTCGTCC+AGG 0.558956 7:-5538971 MsaT034983.1:intron
CCAGTCTGAGGCAGTTGCGG+TGG 0.561750 7:-5538226 MsaT034983.1:CDS
CGGAAGCAGCTGCTAACGGG+AGG 0.561761 7:-5538509 MsaT034983.1:CDS
TCCGGTTCAACTGAGCCTAC+CGG 0.563007 7:-5538312 MsaT034983.1:CDS
TCAGTCGGTTTATTATGGTC+CGG 0.563725 7:-5538600 MsaT034983.1:CDS
TGGACGAAGATGTTCGGGAC+CGG 0.564250 7:+5538973 None:intergenic
GGAAGCAGCTGCTAACGGGA+GGG 0.580906 7:-5538508 MsaT034983.1:CDS
TTGAGTTAACTCGGTTGACA+CGG 0.580941 7:+5538431 None:intergenic
AATCCAATTTACGGTTCAGT+CGG 0.582091 7:-5538615 MsaT034983.1:CDS
TGGTGTTGGCTCATGGAATG+TGG 0.583661 7:-5537992 MsaT034983.1:CDS
GGTTTCACGTGTTTATCATG+TGG 0.585512 7:-5538052 MsaT034983.1:CDS
GTGGATGGAGAGAGTAAAGA+TGG 0.594798 7:-5538204 MsaT034983.1:CDS
CTCAACAGCGAGTTAAGACT+CGG 0.596868 7:-5538413 MsaT034983.1:CDS
TTTCCTCTTTCGAGACATGA+CGG 0.597148 7:+5538460 None:intergenic
CTGGCAGCTATGTCAAGCCG+CGG 0.599587 7:-5538574 MsaT034983.1:CDS
GCAGCTATGTCAAGCCGCGG+TGG 0.604170 7:-5538571 MsaT034983.1:CDS
GTCGATTAGCCACCAGTCTG+AGG 0.606588 7:-5538238 MsaT034983.1:CDS
AGGGTTGTATTGAAGGATTG+TGG 0.614044 7:-5538012 MsaT034983.1:CDS
AAAATGCGGATGAGTTGTAA+CGG 0.616520 7:-5539142 MsaT034983.1:CDS
GCCGATCACACCAATAACTT+CGG 0.617983 7:-5538529 MsaT034983.1:CDS
GTAGAATTTGGCGAGAAACA+CGG 0.619114 7:+5539027 None:intergenic
TTAAGACTCGGTCGCGTAAG+CGG 0.620497 7:-5538401 MsaT034983.1:CDS
CAAGCCGAAGATACAAGAAG+AGG 0.623975 7:-5538367 MsaT034983.1:CDS
GTTGGACCGGAAAATGAAGC+CGG 0.627386 7:-5538139 MsaT034983.1:CDS
GCATAAGACCTTGTTTACAG+TGG 0.631728 7:-5539081 MsaT034983.1:CDS
CCGCAACTGCCTCAGACTGG+TGG 0.634353 7:+5538229 None:intergenic
AAGAGTAGTAATGAGAACAA+GGG 0.634462 7:-5538342 MsaT034983.1:CDS
ACGACTCATGACTAGCTGAC+CGG 0.638954 7:+5538259 None:intergenic
TGTCTCGAAAGAGGAAAACT+CGG 0.644691 7:-5538454 MsaT034983.1:CDS
CTCATGAACCTTGTTAACGC+CGG 0.654635 7:-5538992 MsaT034983.1:CDS
TCGTTGTTGTACGAAGCATG+TGG 0.660850 7:-5538648 MsaT034983.1:CDS
CCGAACCGGTGAGAGTGGAG+AGG 0.672740 7:-5538112 MsaT034983.1:CDS
ACCGGTTCAACCGAACCGGT+AGG 0.689298 7:+5538297 None:intergenic
CGGATGTCATAGGCTTTGAG+TGG 0.702654 7:+5538480 None:intergenic
GGTTCCTGTGAAGAAAAGAA+GGG 0.756021 7:-5538031 MsaT034983.1:CDS
GAATTTGGCGAGAAACACGG+TGG 0.783343 7:+5539030 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 5537966 5539161 5537966 ID=MsaG034983
Chr7 mRNA 5537966 5539161 5537966 ID=MsaT034983.1;Parent=MsaG034983
Chr7 exon 5537966 5538681 5537966 ID=MsaT034983.1.exon2;Parent=MsaT034983.1
Chr7 CDS 5537966 5538681 5537966 ID=cds.MsaT034983.1;Parent=MsaT034983.1
Chr7 exon 5538972 5539161 5538972 ID=MsaT034983.1.exon1;Parent=MsaT034983.1
Chr7 CDS 5538972 5539161 5538972 ID=cds.MsaT034983.1;Parent=MsaT034983.1
Gene Sequence

>MsaT034983.1

ATGCGGATGAGTTGTAACGGTTGTAGAGTACTAAGAAAAGGTTGCAGTGAAAACTGTAGCATAAGACCTTGTTTACAGTGGATCAAAAGCCCTGAATCACAAGCTAATGCCACCGTGTTTCTCGCCAAATTCTACGGTCGTGCTGGTCTCATGAACCTTGTTAACGCCGGTCCCGAACATCTTCGTCCAGCAATTTTTCGTTCGTTGTTGTACGAAGCATGTGGTCGAATAGTGAATCCAATTTACGGTTCAGTCGGTTTATTATGGTCCGGAAGCTGGCAGCTATGTCAAGCCGCGGTGGAAGCCGTTTTAAAAGGCGCGCCGATCACACCAATAACTTCGGAAGCAGCTGCTAACGGGAGGGGCCCACCACTCAAAGCCTATGACATCCGTCATGTCTCGAAAGAGGAAAACTCGGCCGTGTCAACCGAGTTAACTCAACAGCGAGTTAAGACTCGGTCGCGTAAGCGGTCGAGTTTAGCCAAGCCGAAGATACAAGAAGAGGAAAAGAGTAGTAATGAGAACAAGGGATTTGAATCCGGTTCAACTGAGCCTACCGGTTCGGTTGAACCGGTTGAGGAGGTGATGAACCGGTCAGCTAGTCATGAGTCGTCGATTAGCCACCAGTCTGAGGCAGTTGCGGTGGTGGATGGAGAGAGTAAAGATGGTGAAAGTGAGACTTCGATGATCTTATTTAGAGATGAACCGGAGTTGGACCGGAAAATGAAGCCGGTTGACCGAACCGGTGAGAGTGGAGAGGAAAAGGTTGGTTTGGAGCTGACTCTTGGGCTTGAACCGGTTTCACGTGTTTATCATGTGGTTCCTGTGAAGAAAAGAAGGGTTGTATTGAAGGATTGTGGTGTTGGCTCATGGAATGTGGAGTTGGGGCTTCAATACCCGGCTTAG
Protein sequence

>MsaT034983.1

MRMSCNGCRVLRKGCSENCSIRPCLQWIKSPESQANATVFLAKFYGRAGLMNLVNAGPEHLRPAIFRSLLYEACGRIVNPIYGSVGLLWSGSWQLCQAAVEAVLKGAPITPITSEAAANGRGPPLKAYDIRHVSKEENSAVSTELTQQRVKTRSRKRSSLAKPKIQEEEKSSNENKGFESGSTEPTGSVEPVEEVMNRSASHESSISHQSEAVAVVDGESKDGESETSMILFRDEPELDRKMKPVDRTGESGEEKVGLELTLGLEPVSRVYHVVPVKKRRVVLKDCGVGSWNVELGLQYPA*