AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040370

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040370 MtrunA17_Chr7g0269781 45.643 241 58 4 1 168 1 241 5.94e-57 184
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040370 AT5G06420.1 43.421 228 63 4 3 165 57 283 3.55e-52 174
MsaG040370 AT5G06420.2 43.421 228 63 4 3 165 57 283 3.55e-52 174
MsaG040370 AT1G01350.1 40.964 249 62 5 1 165 1 248 3.30e-51 170

Find 56 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAATGAAAGATGTGCTTCT+TGG 0.227049 7:+99538448 None:intergenic
GACCGAGGCGACTACAATTC+CGG 0.339363 7:-99537273 MsaT040370.1:CDS
TTGAAGTCTTTGCATATGTC+AGG 0.387439 7:+99538269 None:intergenic
TCAGCGCACCCTCCTCTTCT+CGG 0.409916 7:+99538148 None:intergenic
TGACATATGCAAAGACTTCA+AGG 0.411330 7:-99538267 MsaT040370.1:CDS
ACCGAGGCGACTACAATTCC+GGG 0.427387 7:-99537272 MsaT040370.1:CDS
GACCGAGGCGACTACAAGTC+CGG 0.435443 7:-99538200 MsaT040370.1:CDS
TAGCAAAGCAACAGCAACTT+TGG 0.436558 7:-99537459 MsaT040370.1:CDS
TGTGGGTTGTTTAGAAAAGT+TGG 0.448560 7:-99538587 MsaT040370.1:CDS
ACACACTGAAGAAGCAGGTT+TGG 0.459341 7:+99538607 None:intergenic
TGCAAAGACTTCAAGGAGGC+CGG 0.470426 7:-99537331 MsaT040370.1:CDS
TGCAAAGACTTCAAGGAGAC+CGG 0.477457 7:-99538260 MsaT040370.1:CDS
TAGCAAAGCAACATCAACTT+TGG 0.480022 7:-99538393 MsaT040370.1:CDS
AACCTGCTTCTTCAGTGTGT+GGG 0.483768 7:-99538604 MsaT040370.1:CDS
CGACATATGCAAAGACTTCA+AGG 0.486106 7:-99537338 MsaT040370.1:CDS
AAACCTGCTTCTTCAGTGTG+TGG 0.491141 7:-99538605 MsaT040370.1:CDS
TGAGAATGAAGAAGATAATG+AGG 0.496162 7:-99538534 MsaT040370.1:CDS
GGTGGCAGTTGGACAAAGAA+TGG 0.496757 7:-99537251 MsaT040370.1:CDS
GGTGGCAGTTGGACAAAGAA+TGG 0.496757 7:-99538178 MsaT040370.1:CDS
TTCAAGGAGGCCGGGTATTG+TGG 0.508736 7:-99537322 MsaT040370.1:CDS
GAATCGTGAGCCACAATACC+CGG 0.543251 7:+99537312 None:intergenic
TTCAAGGAGACCGGGTATTG+TGG 0.545327 7:-99538251 MsaT040370.1:CDS
GCAAAGACTTCAAGGAGGCC+GGG 0.546627 7:-99537330 MsaT040370.1:CDS
ACCCGGACTTGTAGTCGCCT+CGG 0.548237 7:+99538198 None:intergenic
CTACAATTCCGGGTGGCAGT+TGG 0.548426 7:-99537262 MsaT040370.1:CDS
TTCTTTGTCCAACTGCCACC+CGG 0.548782 7:+99538181 None:intergenic
ACCCGGAATTGTAGTCGCCT+CGG 0.550971 7:+99537271 None:intergenic
TCATACTCACACGGTCCTCT+CGG 0.552911 7:-99537404 MsaT040370.1:CDS
GGAATGAAGCCGAGAAGAGG+AGG 0.558808 7:-99538157 MsaT040370.1:CDS
TTCTTTGTCCAACTGCCACC+CGG 0.562902 7:+99537254 None:intergenic
TGCAAGTTTCTTCACGACCG+AGG 0.564969 7:-99537288 MsaT040370.1:CDS
TGCAAGTTTCTTCACGACCG+AGG 0.564969 7:-99538215 MsaT040370.1:CDS
CTACAAGTCCGGGTGGCAGT+TGG 0.571560 7:-99538189 MsaT040370.1:CDS
ACCGAGGCGACTACAAGTCC+GGG 0.574409 7:-99538199 MsaT040370.1:CDS
GAGACCGGGTATTGTGGCTA+CGG 0.578795 7:-99538245 MsaT040370.1:CDS
TTGGTGCTAAGAAGAATTTG+AGG 0.580649 7:-99538568 MsaT040370.1:CDS
ATCGCCGTAGCCACAATACC+CGG 0.586901 7:+99538241 None:intergenic
AACCCACACACTGAAGAAGC+AGG 0.595301 7:+99538602 None:intergenic
AATGGAATGAAGCCGAGAAG+AGG 0.595307 7:-99538160 MsaT040370.1:CDS
GAAACTCTAATATGAGTCGA+AGG 0.595574 7:+99538311 None:intergenic
GATGAAACTCTAATATGAGT+CGG 0.600634 7:+99537377 None:intergenic
TGTTGAGAAGAACATGAAGA+AGG 0.607739 7:-99538489 MsaT040370.1:CDS
TAGTATGGAAGATTCTTCTG+AGG 0.619198 7:-99538630 None:intergenic
GCAAAGACTTCAAGGAGACC+GGG 0.633254 7:-99538259 MsaT040370.1:CDS
GAATGAAGCCGAGAAGAGGA+GGG 0.646762 7:-99538156 MsaT040370.1:intron
ATCCGTGGGTCATACTCACA+CGG 0.649413 7:-99537413 MsaT040370.1:CDS
ATCCGTGGGTCATACTCACA+CGG 0.649413 7:-99538344 MsaT040370.1:CDS
GTGTGAGTATGACCCACGGA+TGG 0.652577 7:+99537415 None:intergenic
GTGTGAGTATGACCCACGGA+TGG 0.652577 7:+99538346 None:intergenic
ATATGAGTCGGTTGTCCGAG+AGG 0.668042 7:+99537389 None:intergenic
GACCGTGTGAGTATGACCCA+CGG 0.674066 7:+99537411 None:intergenic
GACCGTGTGAGTATGACCCA+CGG 0.674066 7:+99538342 None:intergenic
ATATGAGTCGAAGGTCTGAG+AGG 0.697705 7:+99538320 None:intergenic
GAGGCGACTACAAGTCCGGG+TGG 0.737253 7:-99538196 MsaT040370.1:CDS
GAGGCGACTACAATTCCGGG+TGG 0.758896 7:-99537269 MsaT040370.1:CDS
CATATGCAAAGACTTCAAGG+AGG 0.816481 7:-99537335 MsaT040370.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 99537246 99538648 99537246 ID=MsaG040370
Chr7 mRNA 99537246 99538648 99537246 ID=MsaT040370.1;Parent=MsaG040370
Chr7 exon 99537246 99537500 99537246 ID=MsaT040370.1.exon2;Parent=MsaT040370.1
Chr7 CDS 99537246 99537500 99537246 ID=cds.MsaT040370.1;Parent=MsaT040370.1
Chr7 exon 99538157 99538648 99538157 ID=MsaT040370.1.exon1;Parent=MsaT040370.1
Chr7 CDS 99538157 99538648 99538157 ID=cds.MsaT040370.1;Parent=MsaT040370.1
Gene Sequence

>MsaT040370.1

ATGGAAGATTCTTCTGAGGCCAAACCTGCTTCTTCAGTGTGTGGGTTGTTTAGAAAAGTTGGTGCTAAGAAGAATTTGAGGAAGAGAAGTAGTGAGAATGAAGAAGATAATGAGGATGAAGATTCTTTGATGATGAATGTTGAGAAGAACATGAAGAAGGCTGACAGTAATGAAGAATCCAAGAAGCACATCTTTCATTTTGAGTCTTCAAAAGAGATTCAAGTTCAACATGATAGCAAAGCAACATCAACTTTGGAGACTGAGACTCATTTTTCAAGTTCCATCCGTGGGTCATACTCACACGGTCCTCTCAGACCTTCGACTCATATTAGAGTTTCATCAAGAATCGATTATCAACCTGACATATGCAAAGACTTCAAGGAGACCGGGTATTGTGGCTACGGCGATTCATGCAAGTTTCTTCACGACCGAGGCGACTACAAGTCCGGGTGGCAGTTGGACAAAGAATGGAATGAAGCCGAGAAGAGGAGGAGATTCAAGTTCAACATGATAGCAAAGCAACAGCAACTTTGGAGCGAGACTCATTTTCAAGTTCCATCCGTGGGTCATACTCACACGGTCCTCTCGGACAACCGACTCATATTAGAGTTTCATCAAGAATCGATTATCAACGACATATGCAAAGACTTCAAGGAGGCCGGGTATTGTGGCTCACGATTCATGCAAGTTTCTTCACGACCGAGGCGACTACAATTCCGGGTGGCAGTTGGACAAAGAATGGAATGA
Protein sequence

>MsaT040370.1

MEDSSEAKPASSVCGLFRKVGAKKNLRKRSSENEEDNEDEDSLMMNVEKNMKKADSNEESKKHIFHFESSKEIQVQHDSKATSTLETETHFSSSIRGSYSHGPLRPSTHIRVSSRIDYQPDICKDFKETGYCGYGDSCKFLHDRGDYKSGWQLDKEWNEAEKRRRFKFNMIAKQQQLWSETHFQVPSVGHTHTVLSDNRLILEFHQESIINDICKDFKEAGYCGSRFMQVSSRPRRLQFRVAVGQRME*