AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010438

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010438 MtrunA17_Chr2g0324511 85.276 163 21 2 1 160 1 163 9.28e-95 274
MsaG010438 MtrunA17_Chr4g0040201 64.824 199 59 4 9 201 8 201 2.25e-85 251
MsaG010438 MtrunA17_Chr2g0324571 87.288 118 11 2 46 160 2 118 1.22e-67 203
MsaG010438 MtrunA17_Chr2g0324521 81.739 115 21 0 46 160 2 116 9.95e-64 194
MsaG010438 MtrunA17_Chr2g0282341 37.313 134 78 2 50 181 5 134 3.49e-28 103
MsaG010438 MtrunA17_Chr2g0324531 79.661 59 12 0 159 217 2 60 8.51e-28 100
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010438 AT4G20970.1 38.547 179 96 5 13 180 11 186 1.42e-31 114
MsaG010438 AT1G10585.1 29.944 177 114 3 7 182 8 175 1.36e-16 75.1
MsaG010438 AT1G10586.1 26.286 175 119 3 7 180 8 173 4.13e-13 65.5
MsaG010438 AT1G10585.2 27.206 136 93 2 50 184 15 145 9.02e-11 58.5

Find 44 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCAATCTCTCGCTTATTT+TGG 0.185035 2:-73428843 None:intergenic
TATCTCTTCAAATTCTTCTT+TGG 0.234992 2:+73428330 MsaT010438.1:CDS
CAATTGTGGGATCTTGAAAT+TGG 0.247122 2:+73428908 MsaT010438.1:CDS
GGAGAAGAAAGAAAGTTTAA+TGG 0.269701 2:+73428132 MsaT010438.1:CDS
GGTGGCTGCTCGAGTTCTTC+TGG 0.283108 2:+73428175 MsaT010438.1:CDS
TCTATGCTTCATCAAGGATT+TGG 0.339592 2:-73428977 None:intergenic
GAGAGTTGAGTTTAGAAAAG+AGG 0.353043 2:-73427695 None:intergenic
GAGAAGAAAGAAAGTTTAAT+GGG 0.362015 2:+73428133 MsaT010438.1:CDS
CGAGAGATTGAAAGCGTTTG+TGG 0.363389 2:+73428853 MsaT010438.1:CDS
AGCGTTTGTGGAAGGATCTA+TGG 0.366113 2:+73428865 MsaT010438.1:CDS
AATGATCTTTCTTTCGACTT+TGG 0.370678 2:-73427643 None:intergenic
TAGAAAAGAGGATCTTCATT+TGG 0.386590 2:-73427683 None:intergenic
TCTTCAAATTCTTCTTTGGC+TGG 0.403407 2:+73428334 MsaT010438.1:CDS
TTGAAATTGGAAGTGAGAGT+TGG 0.404544 2:+73428921 MsaT010438.1:CDS
TAATTTCACAGAAAATAAAA+TGG 0.425918 2:-73428276 None:intergenic
ATAGCCTCATCTACTTGATC+AGG 0.429867 2:-73428067 None:intergenic
AAAATTGAGATTCATGAAAT+GGG 0.441497 2:+73428214 MsaT010438.1:CDS
TCAAGGATTTGGTAAACTCT+TGG 0.454078 2:-73428966 None:intergenic
TCGACTTTGGTTGAAGAAGA+AGG 0.461998 2:-73427630 None:intergenic
TGAAATTGGAAGTGAGAGTT+GGG 0.469657 2:+73428922 MsaT010438.1:CDS
ATCACCTTTGGATTATAGCT+AGG 0.496982 2:-73427723 None:intergenic
AGGCTATAAACTACATAAAG+AGG 0.505657 2:+73428083 MsaT010438.1:CDS
ATTTCAAGATCCCACAATTG+AGG 0.509351 2:-73428905 None:intergenic
TCACCTTTGGATTATAGCTA+GGG 0.515824 2:-73427722 None:intergenic
TCTTCATACCGTACATGCTC+AGG 0.517547 2:+73428366 MsaT010438.1:CDS
TCATCTACTTGATCAGGTAA+TGG 0.522136 2:-73428061 None:intergenic
TACATATACCTGAGCATGTA+CGG 0.532457 2:-73428374 None:intergenic
TACAAGTGATTGTAACATGT+GGG 0.544345 2:+73428245 MsaT010438.1:CDS
AACAAGAGATCACGTGGTGG+TGG 0.544675 2:+73428157 MsaT010438.1:CDS
GGAAACACAGCCTCAATTGT+GGG 0.559018 2:+73428895 MsaT010438.1:CDS
AGATTGAAAGCGTTTGTGGA+AGG 0.560710 2:+73428857 MsaT010438.1:CDS
GACAAATATAAACTTAGCAA+AGG 0.562346 2:+73428111 MsaT010438.1:CDS
GCGTTTGTGGAAGGATCTAT+GGG 0.563195 2:+73428866 MsaT010438.1:CDS
TGGAAACACAGCCTCAATTG+TGG 0.568137 2:+73428894 MsaT010438.1:CDS
CTACAAGTGATTGTAACATG+TGG 0.615945 2:+73428244 MsaT010438.1:CDS
TCTCCCTAGCTATAATCCAA+AGG 0.625430 2:+73427719 MsaT010438.1:CDS
TGTTACAATCACTTGTAGAG+TGG 0.628540 2:-73428239 None:intergenic
ATTACCTGATCAAGTAGATG+AGG 0.636526 2:+73428063 MsaT010438.1:CDS
TCAATGGATCATAATCAACA+AGG 0.644293 2:+73427600 None:intergenic
GGAAGGATCTATGGGCGATG+TGG 0.675287 2:+73428874 MsaT010438.1:CDS
ATGGGAAACAAGAGATCACG+TGG 0.723193 2:+73428151 MsaT010438.1:CDS
ACAAGTGATTGTAACATGTG+GGG 0.739715 2:+73428246 MsaT010438.1:CDS
ACTGCATGAAGAGAACGTCG+AGG 0.768331 2:+73428306 MsaT010438.1:CDS
GGAAACAAGAGATCACGTGG+TGG 0.788770 2:+73428154 MsaT010438.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 73427603 73428988 73427603 ID=MsaG010438
Chr2 mRNA 73427603 73428988 73427603 ID=MsaT010438.1;Parent=MsaG010438
Chr2 exon 73427603 73427740 73427603 ID=MsaT010438.1.exon1;Parent=MsaT010438.1
Chr2 CDS 73427603 73427740 73427603 ID=cds.MsaT010438.1;Parent=MsaT010438.1
Chr2 exon 73428049 73428387 73428049 ID=MsaT010438.1.exon2;Parent=MsaT010438.1
Chr2 CDS 73428049 73428387 73428049 ID=cds.MsaT010438.1;Parent=MsaT010438.1
Chr2 exon 73428812 73428988 73428812 ID=MsaT010438.1.exon3;Parent=MsaT010438.1
Chr2 CDS 73428812 73428988 73428812 ID=cds.MsaT010438.1;Parent=MsaT010438.1
Gene Sequence

>MsaT010438.1

ATGGATCATAATCAACAAGGAGCTCAACCTTCTTCTTCAACCAAAGTCGAAAGAAAGATCATTGAGAAAAATAGGAGAAACCAAATGAAGATCCTCTTTTCTAAACTCAACTCTCTTCTCCCTAGCTATAATCCAAAGGAATTAGTGTTACCATTACCTGATCAAGTAGATGAGGCTATAAACTACATAAAGAGGCTAGAGACAAATATAAACTTAGCAAAGGAGAAGAAAGAAAGTTTAATGGGAAACAAGAGATCACGTGGTGGTGGCTGCTCGAGTTCTTCTGGAGCAATAAAGTTGCCAAAAATTGAGATTCATGAAATGGGAACCACTCTACAAGTGATTGTAACATGTGGGGTTGATGACCATTTTATTTTCTGTGAAATTATGAGAATACTGCATGAAGAGAACGTCGAGGTTATCTCTTCAAATTCTTCTTTGGCTGGTGATTCACTTCTTCATACCGTACATGCTCAGATTCCGCAATCTTTTTTACAATTTGGAGAAACCAAAATAAGCGAGAGATTGAAAGCGTTTGTGGAAGGATCTATGGGCGATGTGGAAACACAGCCTCAATTGTGGGATCTTGAAATTGGAAGTGAGAGTTGGGAGCTTCTACATTCTGTAGTAACCAAGAGTTTACCAAATCCTTGA
Protein sequence

>MsaT010438.1

MDHNQQGAQPSSSTKVERKIIEKNRRNQMKILFSKLNSLLPSYNPKELVLPLPDQVDEAINYIKRLETNINLAKEKKESLMGNKRSRGGGCSSSSGAIKLPKIEIHEMGTTLQVIVTCGVDDHFIFCEIMRILHEENVEVISSNSSLAGDSLLHTVHAQIPQSFLQFGETKISERLKAFVEGSMGDVETQPQLWDLEIGSESWELLHSVVTKSLPNP*