AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG034828


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG034828 MtrunA17_Chr7g0215281 97.368 266 7 0 11 276 36 301 0.0 502
MsaG034828 MtrunA17_Chr6g0457431 77.165 127 24 2 9 135 34 155 8.57e-65 200
MsaG034828 MtrunA17_Chr6g0469271 39.362 188 104 4 11 188 36 223 1.33e-33 122
MsaG034828 MtrunA17_Chr4g0053911 44.118 136 60 2 11 134 34 165 4.51e-31 115
MsaG034828 MtrunA17_Chr6g0470651 45.578 147 63 6 3 139 28 167 5.89e-30 112
MsaG034828 MtrunA17_Chr5g0401401 59.740 77 31 0 11 87 34 110 5.26e-29 110
MsaG034828 MtrunA17_Chr6g0470631 44.898 147 64 6 3 139 28 167 1.47e-28 108
MsaG034828 MtrunA17_Chr1g0207471 53.425 73 34 0 9 81 32 104 5.07e-23 93.6
MsaG034828 MtrunA17_Chr1g0209841 36.257 171 87 5 12 171 37 196 5.17e-21 89.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG034828 AT3G02550.1 55.039 258 71 5 9 261 34 251 1.32e-85 257
MsaG034828 AT1G67100.1 72.807 114 28 2 3 113 28 141 1.14e-55 179
MsaG034828 AT1G68510.1 55.944 143 53 2 3 135 28 170 3.96e-49 162
MsaG034828 AT5G67420.2 62.338 77 29 0 11 87 34 110 8.15e-32 118
MsaG034828 AT5G67420.1 62.338 77 29 0 11 87 34 110 8.15e-32 118
MsaG034828 AT3G49940.1 64.935 77 27 0 11 87 34 110 2.99e-31 117
MsaG034828 AT4G37540.1 60.256 78 31 0 11 88 34 111 1.80e-30 114

Find 95 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGGCATTAGGCTTGTGATTC+AGG 0.170473 7:+1620460 None:intergenic
AAACCGACTGAACCGTAAAT+TGG 0.188374 7:+1620035 None:intergenic
GGCTCATGGAATGTGGAGTT+GGG 0.290152 7:-1619408 MsaT034828.1:CDS
ACCAGCACGACCGTAGAATT+TGG 0.324902 7:+1620425 None:intergenic
CGAATAGTGAACCCAATTTA+CGG 0.368957 7:-1620047 MsaT034828.1:CDS
GTCTGAGGCGGTTGCGGTGG+TGG 0.368975 7:-1619646 MsaT034828.1:CDS
GCGAGAAACACGGTGGCATT+AGG 0.378123 7:+1620447 None:intergenic
GCAGCTGCTTCCGAAGTTAT+CGG 0.380995 7:+1619942 None:intergenic
TTGACATAGCTGCCAACTTC+CGG 0.388062 7:+1620004 None:intergenic
CTCTTCTTGTATCTTCGGCT+TGG 0.390746 7:+1619791 None:intergenic
GGAGTTGGGGCTTCAATATC+CGG 0.399627 7:-1619394 MsaT034828.1:CDS
GAAAAGAAGGGTTGTATTGA+AGG 0.400262 7:-1619442 MsaT034828.1:CDS
ACGTGATAAACGCGTGAAAC+CGG 0.400688 7:+1619477 None:intergenic
TGGCTCATGGAATGTGGAGT+TGG 0.402516 7:-1619409 MsaT034828.1:CDS
CCTCTCCACTCTCACCGGTT+CGG 0.407185 7:+1619535 None:intergenic
GATCTTATTTAGAGATGAAC+CGG 0.409879 7:-1619586 MsaT034828.1:CDS
CGGTTCATTACCTCCTCAAC+CGG 0.413622 7:+1619702 None:intergenic
CCACCAGTCTGAGGCGGTTG+CGG 0.421397 7:-1619652 MsaT034828.1:CDS
GTTGGTTTAGAGCTGACTCT+TGG 0.426866 7:-1619507 MsaT034828.1:CDS
CGACACATGACGGATGTCAT+AGG 0.427071 7:+1619893 None:intergenic
GGCATTAGGCTTGTGATTCA+GGG 0.430013 7:+1620461 None:intergenic
TTGGTTTAGAGCTGACTCTT+GGG 0.430742 7:-1619506 MsaT034828.1:CDS
ACCGGTCGGCTCAGTTGAAC+CGG 0.430775 7:+1619734 None:intergenic
AACCGACTGAACCGTAAATT+GGG 0.433750 7:+1620036 None:intergenic
GAGGCGGTTGCGGTGGTGGA+TGG 0.434659 7:-1619642 MsaT034828.1:CDS
ACGGTTCAGTCGGTTTATTA+TGG 0.442488 7:-1620028 MsaT034828.1:CDS
GCCGACCGGTTCGGTTGAAC+CGG 0.442999 7:-1619721 MsaT034828.1:CDS
CGGTGAGAGTGGAGAGGAAA+AGG 0.443712 7:-1619529 MsaT034828.1:CDS
CGAACCTGGACGAAGATGTT+CGG 0.443982 7:+1620377 None:intergenic
GAACCTGGACGAAGATGTTC+GGG 0.446611 7:+1620378 None:intergenic
GCTGACTCTTGGGCTTGAAC+CGG 0.449902 7:-1619496 MsaT034828.1:CDS
GTATTGAAGGATTGTGGTGT+TGG 0.451012 7:-1619429 MsaT034828.1:CDS
CTTCGGAAGCAGCTGCTAAC+GGG 0.456571 7:-1619935 MsaT034828.1:CDS
GCCAAATTCTACGGTCGTGC+TGG 0.457716 7:-1620426 MsaT034828.1:CDS
GAAGCAGCTGCTAACGGGAG+GGG 0.464479 7:-1619930 MsaT034828.1:CDS
GTGTTTCTCGCCAAATTCTA+CGG 0.467341 7:-1620435 MsaT034828.1:CDS
TTCAACTGAGCCGACCGGTT+CGG 0.472535 7:-1619730 MsaT034828.1:CDS
GAGAGTGGAGAGGAAAAGGT+TGG 0.474231 7:-1619525 MsaT034828.1:CDS
GAGAACAAGGGATTTGAATC+CGG 0.474733 7:-1619753 MsaT034828.1:CDS
CTCAACCGGTTCAACCGAAC+CGG 0.476475 7:+1619716 None:intergenic
ATTTAGAGATGAACCGGAGT+TGG 0.489333 7:-1619580 MsaT034828.1:CDS
CGGTTCGGTTGAACCGGTTG+AGG 0.489995 7:-1619715 MsaT034828.1:CDS
AAAGAGTAGTAATGAGAACA+AGG 0.495367 7:-1619766 MsaT034828.1:CDS
ATGAAGACAGCTGACCGAAC+CGG 0.501290 7:-1619549 MsaT034828.1:CDS
TGGTTCCTGTGAAGAAAAGA+AGG 0.501528 7:-1619455 MsaT034828.1:CDS
TCCGAAGTTATCGGCGTGAT+CGG 0.502268 7:+1619951 None:intergenic
GTTTATTATGGTCCGGAAGT+TGG 0.502610 7:-1620016 MsaT034828.1:CDS
ATGTCATAGGCTTTGAGTGG+TGG 0.508004 7:+1619906 None:intergenic
GAGATGAACCGGAGTTGGAC+CGG 0.508299 7:-1619575 MsaT034828.1:CDS
GACTCTTTGTTGAGTTAACT+CGG 0.513097 7:+1619845 None:intergenic
CCACCGCAACCGCCTCAGAC+TGG 0.514674 7:+1619649 None:intergenic
AGGATTGTGGTGTTGGCTCA+TGG 0.516288 7:-1619422 MsaT034828.1:CDS
GTTCGGGACCGGCGTTAACA+AGG 0.520425 7:+1620394 None:intergenic
CCAGTCTGAGGCGGTTGCGG+TGG 0.522968 7:-1619649 MsaT034828.1:CDS
GAACCAAACCGGGTCTAAGC+CGG 0.534041 7:+1619375 None:intergenic
ACTTCGGAAGCAGCTGCTAA+CGG 0.537457 7:-1619936 MsaT034828.1:CDS
TGTCATAGGCTTTGAGTGGT+GGG 0.543552 7:+1619907 None:intergenic
GCTCATGGAATGTGGAGTTG+GGG 0.544869 7:-1619407 MsaT034828.1:CDS
GGTCCCGAACATCTTCGTCC+AGG 0.558956 7:-1620381 MsaT034828.1:intron
GCTGACCGAACCGGTGAGAG+TGG 0.561364 7:-1619540 MsaT034828.1:CDS
CGGAAGCAGCTGCTAACGGG+AGG 0.561761 7:-1619932 MsaT034828.1:CDS
TCAGTCGGTTTATTATGGTC+CGG 0.563725 7:-1620023 MsaT034828.1:CDS
TGGACGAAGATGTTCGGGAC+CGG 0.564250 7:+1620383 None:intergenic
ACCGATCACGCCGATAACTT+CGG 0.564329 7:-1619952 MsaT034828.1:CDS
AACCCAATTTACGGTTCAGT+CGG 0.566554 7:-1620038 MsaT034828.1:CDS
TTCGGTTGAACCGGTTGAGG+AGG 0.569657 7:-1619712 MsaT034828.1:CDS
CGGTTGAGGAGGTAATGAAC+CGG 0.580729 7:-1619701 MsaT034828.1:CDS
GGAAGCAGCTGCTAACGGGA+GGG 0.580906 7:-1619931 MsaT034828.1:CDS
CTCAACAAAGAGTCAAGACT+CGG 0.582942 7:-1619836 MsaT034828.1:CDS
TGGTGTTGGCTCATGGAATG+TGG 0.583661 7:-1619415 MsaT034828.1:CDS
TCCGGTTCAACTGAGCCGAC+CGG 0.592967 7:-1619735 MsaT034828.1:CDS
GGTTTCACGCGTTTATCACG+TGG 0.593523 7:-1619475 MsaT034828.1:CDS
TGACATCCGTCATGTGTCGA+AGG 0.595504 7:-1619889 MsaT034828.1:CDS
TTTCCTCCTTCGACACATGA+CGG 0.600098 7:+1619883 None:intergenic
TCAAGACTCGGTCGCGTAAG+CGG 0.609713 7:-1619824 MsaT034828.1:CDS
AGGGTTGTATTGAAGGATTG+TGG 0.614044 7:-1619435 MsaT034828.1:CDS
TGTGTCGAAGGAGGAAAACT+CGG 0.616290 7:-1619877 MsaT034828.1:CDS
GTCGATTAGCCACCAGTCTG+AGG 0.618436 7:-1619661 MsaT034828.1:CDS
GTAGAATTTGGCGAGAAACA+CGG 0.619114 7:+1620437 None:intergenic
CAAGCCGAAGATACAAGAAG+AGG 0.623975 7:-1619790 MsaT034828.1:CDS
CATCCGTCATGTGTCGAAGG+AGG 0.629554 7:-1619886 MsaT034828.1:CDS
CCGCAACCGCCTCAGACTGG+TGG 0.630942 7:+1619652 None:intergenic
AAGAGTAGTAATGAGAACAA+GGG 0.634462 7:-1619765 MsaT034828.1:CDS
ACCGGTTCAACCGAACCGGT+CGG 0.636400 7:+1619720 None:intergenic
ACGACTCATGACTAGCTGAC+CGG 0.638954 7:+1619682 None:intergenic
GCAGCTATGTCAAGCCGCAG+TGG 0.645652 7:-1619994 MsaT034828.1:CDS
TTGAGTTAACTCGGTCGACG+CGG 0.651446 7:+1619854 None:intergenic
CCGAACCGGTGAGAGTGGAG+AGG 0.652917 7:-1619535 MsaT034828.1:CDS
CTCATGAACCTTGTTAACGC+CGG 0.654635 7:-1620402 MsaT034828.1:CDS
TCGTTGTTGTACGAAGCATG+TGG 0.660850 7:-1620071 MsaT034828.1:CDS
GGTTCCTGTGAAGAAAAGAA+GGG 0.688577 7:-1619454 MsaT034828.1:CDS
GATTAGCCACCAGTCTGAGG+CGG 0.698548 7:-1619658 MsaT034828.1:CDS
CGGATGTCATAGGCTTTGAG+TGG 0.702654 7:+1619903 None:intergenic
GAATTTGGCGAGAAACACGG+TGG 0.783343 7:+1620440 None:intergenic
TTTCAAAACAGCTTCCACTG+CGG 0.791709 7:+1619980 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 1619389 1620572 1619389 ID=MsaG034828
Chr7 mRNA 1619389 1620572 1619389 ID=MsaT034828.1;Parent=MsaG034828
Chr7 exon 1619389 1620104 1619389 ID=MsaT034828.1.exon3;Parent=MsaT034828.1
Chr7 CDS 1619389 1620104 1619389 ID=cds.MsaT034828.1;Parent=MsaT034828.1
Chr7 exon 1620382 1620483 1620382 ID=MsaT034828.1.exon2;Parent=MsaT034828.1
Chr7 CDS 1620382 1620483 1620382 ID=cds.MsaT034828.1;Parent=MsaT034828.1
Chr7 exon 1620560 1620572 1620560 ID=MsaT034828.1.exon1;Parent=MsaT034828.1
Chr7 CDS 1620560 1620572 1620560 ID=cds.MsaT034828.1;Parent=MsaT034828.1
Gene Sequence

>MsaT034828.1

ATGCGGATGAGTTCCCTGAATCACAAGCCTAATGCCACCGTGTTTCTCGCCAAATTCTACGGTCGTGCTGGTCTCATGAACCTTGTTAACGCCGGTCCCGAACATCTTCGTCCAGCAATTTTTCGTTCGTTGTTGTACGAAGCATGTGGTCGAATAGTGAACCCAATTTACGGTTCAGTCGGTTTATTATGGTCCGGAAGTTGGCAGCTATGTCAAGCCGCAGTGGAAGCTGTTTTGAAAGGCGCACCGATCACGCCGATAACTTCGGAAGCAGCTGCTAACGGGAGGGGCCCACCACTCAAAGCCTATGACATCCGTCATGTGTCGAAGGAGGAAAACTCGGCCGCGTCGACCGAGTTAACTCAACAAAGAGTCAAGACTCGGTCGCGTAAGCGGTCGAGTTTAGCCAAGCCGAAGATACAAGAAGAGGAAAAGAGTAGTAATGAGAACAAGGGATTTGAATCCGGTTCAACTGAGCCGACCGGTTCGGTTGAACCGGTTGAGGAGGTAATGAACCGGTCAGCTAGTCATGAGTCGTCGATTAGCCACCAGTCTGAGGCGGTTGCGGTGGTGGATGGAGAGAGTAAAGATAGTGAGAGTGAAACTTCGATGATCTTATTTAGAGATGAACCGGAGTTGGACCGGAAAATGAAGACAGCTGACCGAACCGGTGAGAGTGGAGAGGAAAAGGTTGGTTTAGAGCTGACTCTTGGGCTTGAACCGGTTTCACGCGTTTATCACGTGGTTCCTGTGAAGAAAAGAAGGGTTGTATTGAAGGATTGTGGTGTTGGCTCATGGAATGTGGAGTTGGGGCTTCAATATCCGGCTTAG

Protein sequence

>MsaT034828.1

MRMSSLNHKPNATVFLAKFYGRAGLMNLVNAGPEHLRPAIFRSLLYEACGRIVNPIYGSVGLLWSGSWQLCQAAVEAVLKGAPITPITSEAAANGRGPPLKAYDIRHVSKEENSAASTELTQQRVKTRSRKRSSLAKPKIQEEEKSSNENKGFESGSTEPTGSVEPVEEVMNRSASHESSISHQSEAVAVVDGESKDSESETSMILFRDEPELDRKMKTADRTGESGEEKVGLELTLGLEPVSRVYHVVPVKKRRVVLKDCGVGSWNVELGLQYPA*