AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010437

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010437 MtrunA17_Chr2g0324511 84.663 163 22 1 1 160 1 163 4.50e-95 275
MsaG010437 MtrunA17_Chr4g0040201 62.814 199 63 4 9 201 8 201 5.31e-81 240
MsaG010437 MtrunA17_Chr2g0324571 84.746 118 14 2 46 160 2 118 1.98e-64 195
MsaG010437 MtrunA17_Chr2g0324521 79.130 115 24 0 46 160 2 116 9.69e-61 186
MsaG010437 MtrunA17_Chr2g0324531 76.271 59 14 0 159 217 2 60 1.96e-26 96.7
MsaG010437 MtrunA17_Chr2g0282341 35.556 135 81 2 49 181 4 134 1.20e-25 97.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010437 AT4G20970.1 37.989 179 97 5 13 180 11 186 2.33e-29 108
MsaG010437 AT1G10585.1 28.977 176 113 5 11 184 12 177 4.51e-15 70.9
MsaG010437 AT1G10586.1 25.714 175 120 4 7 180 8 173 1.33e-11 61.2

Find 50 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCAATCTCTCGCCTATTT+TGG 0.215651 2:-73414172 None:intergenic
TATCTCTTCAAATTCTTCTT+TGG 0.234992 2:+73413293 MsaT010437.1:CDS
ATTTCATGAATCTCTATTTC+TGG 0.237037 2:-73413174 None:intergenic
CAATTGTGGGATCTTGAAAT+TGG 0.248893 2:+73414237 MsaT010437.1:CDS
GGTGGCTGCTCGAGTTCTTC+TGG 0.260572 2:+73413138 MsaT010437.1:CDS
GGAGAAGAAAGAAAGTTTAA+TGG 0.269701 2:+73413095 MsaT010437.1:CDS
CCGCAATCTTTGTTACGATT+TGG 0.283657 2:+73414144 MsaT010437.1:CDS
TCAAGGATTTGGTAAACTTT+TGG 0.300456 2:-73414295 None:intergenic
TTCACCTTTGGATTATAGTT+AGG 0.301144 2:-73412003 None:intergenic
AGAAATAGAGATTCATGAAA+TGG 0.340707 2:+73413176 MsaT010437.1:CDS
GAGAGTTGAGTTTAGAAAAG+AGG 0.353043 2:-73411975 None:intergenic
GAGAAGAAAGAAAGTTTAAT+GGG 0.362015 2:+73413096 MsaT010437.1:CDS
CGATTTGGAGAAACCAAAAT+AGG 0.365801 2:+73414159 MsaT010437.1:CDS
AACTATCTTTCTTTCGACTT+TGG 0.382287 2:-73411923 None:intergenic
TAGAAAAGAGGATCTTCATT+TGG 0.386590 2:-73411963 None:intergenic
TCTATGCTACATCAAGGATT+TGG 0.399023 2:-73414306 None:intergenic
TCTTCAAATTCTTCTTTGGC+TGG 0.403407 2:+73413297 MsaT010437.1:CDS
TCACCTTTGGATTATAGTTA+GGG 0.404073 2:-73412002 None:intergenic
TTGAAATTGGAAGTGAGAGT+TGG 0.404544 2:+73414250 MsaT010437.1:CDS
CGAGAGATTGAAAGCATTTG+TGG 0.420058 2:+73414182 MsaT010437.1:CDS
TAATTTCACAGAAAATAAAA+TGG 0.425918 2:-73413239 None:intergenic
ATAGCCTCATCTACTTGATC+AGG 0.429867 2:-73413030 None:intergenic
GAAATAGAGATTCATGAAAT+GGG 0.448568 2:+73413177 MsaT010437.1:CDS
TCTTCATACCGTGCTTGCTC+AGG 0.463347 2:+73413329 MsaT010437.1:CDS
TGAAATTGGAAGTGAGAGTT+GGG 0.469657 2:+73414251 MsaT010437.1:CDS
ATTTCAAGATCCCACAATTG+AGG 0.491118 2:-73414234 None:intergenic
AGGCTATAAACTACATAAAG+AGG 0.505657 2:+73413046 MsaT010437.1:CDS
TGGAAACACAACCTCAATTG+TGG 0.511551 2:+73414223 MsaT010437.1:CDS
TCATCTACTTGATCAGGTAA+TGG 0.522136 2:-73413024 None:intergenic
TACAAGTGATTGCAACATGT+GGG 0.544480 2:+73413208 MsaT010437.1:CDS
GGAAGGATCCGTGAGGGATG+TGG 0.548169 2:+73414203 MsaT010437.1:CDS
GACAAATATAAACTTAGCAA+AGG 0.562346 2:+73413074 MsaT010437.1:CDS
TCGACTTTGGTTGAAGAACA+AGG 0.563919 2:-73411910 None:intergenic
GGAAACACAACCTCAATTGT+GGG 0.567014 2:+73414224 MsaT010437.1:CDS
TTGTGTTTCCACATCCCTCA+CGG 0.577515 2:-73414211 None:intergenic
AGATTGAAAGCATTTGTGGA+AGG 0.584279 2:+73414186 MsaT010437.1:CDS
TATATATACCTGAGCAAGCA+CGG 0.595399 2:-73413337 None:intergenic
CCAAATCGTAACAAAGATTG+CGG 0.605051 2:-73414144 None:intergenic
AAGAAGAGATCACGTGATGG+TGG 0.623508 2:+73413120 MsaT010437.1:CDS
CTACAAGTGATTGCAACATG+TGG 0.624700 2:+73413207 MsaT010437.1:CDS
TCTCCCTAACTATAATCCAA+AGG 0.627898 2:+73411999 MsaT010437.1:CDS
TGTTGCAATCACTTGTAGAG+TGG 0.633339 2:-73413202 None:intergenic
ATTACCTGATCAAGTAGATG+AGG 0.636526 2:+73413026 MsaT010437.1:CDS
TCAATGGATCATAATCAACA+AGG 0.673310 2:+73411880 None:intergenic
ATTTGTGGAAGGATCCGTGA+GGG 0.686444 2:+73414197 MsaT010437.1:CDS
GGAAAGAAGAGATCACGTGA+TGG 0.687606 2:+73413117 MsaT010437.1:CDS
ATGGATCATAATCAACAAGG+AGG 0.711780 2:+73411883 MsaT010437.1:CDS
ACAAGTGATTGCAACATGTG+GGG 0.725275 2:+73413209 MsaT010437.1:CDS
ACTGCATGAAGAGAACGTCG+AGG 0.768331 2:+73413269 MsaT010437.1:CDS
CATTTGTGGAAGGATCCGTG+AGG 0.787277 2:+73414196 MsaT010437.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 73411883 73414317 73411883 ID=MsaG010437
Chr2 mRNA 73411883 73414317 73411883 ID=MsaT010437.1;Parent=MsaG010437
Chr2 exon 73411883 73412020 73411883 ID=MsaT010437.1.exon1;Parent=MsaT010437.1
Chr2 CDS 73411883 73412020 73411883 ID=cds.MsaT010437.1;Parent=MsaT010437.1
Chr2 exon 73413012 73413350 73413012 ID=MsaT010437.1.exon2;Parent=MsaT010437.1
Chr2 CDS 73413012 73413350 73413012 ID=cds.MsaT010437.1;Parent=MsaT010437.1
Chr2 exon 73414141 73414317 73414141 ID=MsaT010437.1.exon3;Parent=MsaT010437.1
Chr2 CDS 73414141 73414317 73414141 ID=cds.MsaT010437.1;Parent=MsaT010437.1
Gene Sequence

>MsaT010437.1

ATGGATCATAATCAACAAGGAGGTCGACCTTGTTCTTCAACCAAAGTCGAAAGAAAGATAGTTGAGAAAAATAGGAGAAACCAAATGAAGATCCTCTTTTCTAAACTCAACTCTCTTCTCCCTAACTATAATCCAAAGGAATTAGCGTTACCATTACCTGATCAAGTAGATGAGGCTATAAACTACATAAAGAGGCTAGAGACAAATATAAACTTAGCAAAGGAGAAGAAAGAAAGTTTAATGGGAAAGAAGAGATCACGTGATGGTGGCTGCTCGAGTTCTTCTGGAGCAATAAAGTTGCCAGAAATAGAGATTCATGAAATGGGAACCACTCTACAAGTGATTGCAACATGTGGGGTTGATGACCATTTTATTTTCTGTGAAATTATGAGAATACTGCATGAAGAGAACGTCGAGGTTATCTCTTCAAATTCTTCTTTGGCTGGTGATTCACTTCTTCATACCGTGCTTGCTCAGATTCCGCAATCTTTGTTACGATTTGGAGAAACCAAAATAGGCGAGAGATTGAAAGCATTTGTGGAAGGATCCGTGAGGGATGTGGAAACACAACCTCAATTGTGGGATCTTGAAATTGGAAGTGAGAGTTGGGAGCTTCTACATTCTGTAGTAACCAAAAGTTTACCAAATCCTTGA
Protein sequence

>MsaT010437.1

MDHNQQGGRPCSSTKVERKIVEKNRRNQMKILFSKLNSLLPNYNPKELALPLPDQVDEAINYIKRLETNINLAKEKKESLMGKKRSRDGGCSSSSGAIKLPEIEIHEMGTTLQVIATCGVDDHFIFCEIMRILHEENVEVISSNSSLAGDSLLHTVLAQIPQSLLRFGETKIGERLKAFVEGSVRDVETQPQLWDLEIGSESWELLHSVVTKSLPNP*