AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG027955

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027955 MtrunA17_Chr5g0428351 96.063 127 3 1 1 127 78 202 6.55e-84 248
MsaG027955 MtrunA17_Chr3g0128671 47.244 127 45 7 20 127 23 146 2.51e-22 89.7
MsaG027955 MtrunA17_Chr7g0244981 38.462 143 70 6 1 127 1 141 1.24e-17 76.6
MsaG027955 MtrunA17_Chr7g0244971 35.252 139 74 4 4 127 5 142 4.46e-17 75.5
MsaG027955 MtrunA17_Chr8g0334541 35.043 117 70 2 15 126 6 121 4.21e-15 69.7
MsaG027955 MtrunA17_Chr8g0350621 34.146 123 69 5 15 126 8 129 1.41e-12 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027955 AT3G56400.1 35.135 148 66 7 1 127 1 139 3.21e-16 73.2
MsaG027955 AT2G40750.1 30.994 171 70 10 2 127 4 171 3.79e-12 62.4

Find 24 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTTTCTTTCTAACACTTTC+AGG 0.226424 5:+54885747 None:intergenic
AATCATTCATGGAGAAAGTA+TGG 0.268191 5:-54883205 MsaT027955.1:CDS
CTGAAGAAGAATCTTGAGTT+TGG 0.329999 5:+54885686 None:intergenic
AATGATTATCAACAATGGTT+TGG 0.347556 5:+54883221 None:intergenic
AAATCATCACAACTTGAGTT+TGG 0.348658 5:+54885582 None:intergenic
ATGATTATCAACAATGGTTT+GGG 0.360761 5:+54883222 None:intergenic
CCATTGTTGATAATCATTCA+TGG 0.368964 5:-54883216 MsaT027955.1:CDS
GGAAGAGTGCAGCTGAGATA+TGG 0.391667 5:-54883255 MsaT027955.1:CDS
AACAATGGTTTGGGAAACTA+TGG 0.395929 5:+54883231 None:intergenic
ATTAGTGAAAGTAGAAAGAA+GGG 0.442638 5:-54885531 MsaT027955.1:CDS
CTTTCTTTCTAACACTTTCA+GGG 0.446465 5:+54885748 None:intergenic
AATTAGTGAAAGTAGAAAGA+AGG 0.462260 5:-54885532 MsaT027955.1:CDS
GATAATCAAAGAACTTGTAA+AGG 0.473711 5:-54885724 MsaT027955.1:CDS
ATAATCAAAGAACTTGTAAA+GGG 0.477175 5:-54885723 MsaT027955.1:CDS
GAAGAGGTTGCTACAAAAGA+AGG 0.499456 5:-54885506 MsaT027955.1:intron
CTTCAGAACGAGAATCCCTA+TGG 0.526631 5:-54885669 MsaT027955.1:CDS
AGTAGAAAGAAGGGAAGAAG+AGG 0.527985 5:-54885522 MsaT027955.1:CDS
GTATGGGCAGAAGAAAATCA+TGG 0.554126 5:-54883188 MsaT027955.1:CDS
AGCAAGATGATCAGCTCCAT+AGG 0.557040 5:+54885653 None:intergenic
CCATGAATGATTATCAACAA+TGG 0.572348 5:+54883216 None:intergenic
TCATGGATTCTGAATTCCCC+AGG 0.575030 5:-54883171 MsaT027955.1:intron
GCAAGATGATCAGCTCCATA+GGG 0.589366 5:+54885654 None:intergenic
ATCATTCATGGAGAAAGTAT+GGG 0.593517 5:-54883204 MsaT027955.1:CDS
CGTGCTGAGATCTTTCACTG+AGG 0.697606 5:-54885625 MsaT027955.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 54882290 54885784 54882290 ID=MsaG027955
Chr5 mRNA 54882290 54885784 54882290 ID=MsaT027955.1;Parent=MsaG027955
Chr5 exon 54882290 54882314 54882290 ID=MsaT027955.1.exon3;Parent=MsaT027955.1
Chr5 CDS 54882290 54882314 54882290 ID=cds.MsaT027955.1;Parent=MsaT027955.1
Chr5 exon 54883172 54883276 54883172 ID=MsaT027955.1.exon2;Parent=MsaT027955.1
Chr5 CDS 54883172 54883276 54883172 ID=cds.MsaT027955.1;Parent=MsaT027955.1
Chr5 exon 54885507 54885784 54885507 ID=MsaT027955.1.exon1;Parent=MsaT027955.1
Chr5 CDS 54885507 54885784 54885507 ID=cds.MsaT027955.1;Parent=MsaT027955.1
Gene Sequence

>MsaT027955.1

ATGGATAATAATATCCCTGAAAGTGTTAGAAAGAAAGTGATAATCAAAGAACTTGTAAAGGGTCAAGAAGCTGCAACCAAACTCAAGATTCTTCTTCAGAACGAGAATCCCTATGGAGCTGATCATCTTGCTGCAAACGTGCTGAGATCTTTCACTGAGGCTCTTTCTATTATCTCTCAACCAAACTCAAGTTGTGATGATTTTCTGAATCTGATTAAATCTGCAGATTCAATTAGTGAAAGTAGAAAGAAGGGAAGAAGAGGTTGCTACAAAAGAAGGAAGAGTGCAGCTGAGATATGGACCATAGTTTCCCAAACCATTGTTGATAATCATTCATGGAGAAAGTATGGGCAGAAGAAAATCATGGATTCTGAATTCCCCAGCCAAAAACAATTTCCAAGGTTTTGA
Protein sequence

>MsaT027955.1

MDNNIPESVRKKVIIKELVKGQEAATKLKILLQNENPYGADHLAANVLRSFTEALSIISQPNSSCDDFLNLIKSADSISESRKKGRRGCYKRRKSAAEIWTIVSQTIVDNHSWRKYGQKKIMDSEFPSQKQFPRF*