AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG004278

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004278 MtrunA17_Chr1g0194681 95.395 152 5 1 1 152 1 150 1.24e-103 293
MsaG004278 MtrunA17_Chr7g0269951 48.344 151 63 2 1 151 1 136 1.08e-31 110
MsaG004278 MtrunA17_Chr4g0035414 36.090 133 70 2 15 132 16 148 1.40e-23 90.1
MsaG004278 MtrunA17_Chr1g0155551 36.076 158 88 4 7 151 2 159 3.50e-23 89.4
MsaG004278 MtrunA17_Chr3g0144941 44.211 95 53 0 15 109 16 110 3.96e-23 89.0
MsaG004278 MtrunA17_Chr8g0378901 37.415 147 82 4 1 140 1 144 2.40e-22 87.0
MsaG004278 MtrunA17_Chr3g0141881 41.558 77 45 0 26 102 60 136 2.09e-15 68.9
MsaG004278 MtrunA17_Chr7g0225661 38.298 94 55 1 7 97 59 152 3.00e-14 66.6
MsaG004278 MtrunA17_Chr5g0400901 36.667 90 53 1 8 93 36 125 1.93e-13 63.9
MsaG004278 MtrunA17_Chr8g0341311 40.217 92 51 2 10 97 51 142 9.63e-13 62.4
MsaG004278 MtrunA17_Chr4g0054291 28.244 131 76 2 6 121 37 164 3.15e-12 60.8
MsaG004278 MtrunA17_Chr7g0220571 36.697 109 62 2 26 133 84 186 4.77e-12 60.8
MsaG004278 MtrunA17_Chr3g0135061 34.375 96 63 0 13 108 40 135 6.44e-12 59.7
MsaG004278 MtrunA17_Chr1g0152241 40.000 85 47 1 28 108 59 143 7.15e-11 57.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004278 AT3G62420.1 45.614 114 59 1 27 140 23 133 2.96e-27 99.8
MsaG004278 AT2G18160.1 45.545 101 54 1 24 124 26 125 5.34e-25 94.7
MsaG004278 AT1G75390.1 40.000 120 68 1 26 141 38 157 2.81e-23 90.1
MsaG004278 AT4G34590.1 48.810 84 43 0 26 109 24 107 3.31e-22 87.0
MsaG004278 AT1G75390.2 50.000 88 39 2 10 93 19 105 1.37e-19 79.3
MsaG004278 AT5G38800.1 38.462 91 56 0 8 98 51 141 4.39e-13 63.5
MsaG004278 AT3G30530.1 37.755 98 55 1 7 98 53 150 8.13e-13 62.8
MsaG004278 AT2G22850.1 43.038 79 44 1 24 101 123 201 1.97e-11 60.1
MsaG004278 AT2G22850.2 43.038 79 44 1 24 101 123 201 1.97e-11 60.1
MsaG004278 AT5G15830.1 43.284 67 37 1 3 69 49 114 6.39e-11 58.2
MsaG004278 AT1G13600.1 36.364 110 65 2 10 119 67 171 8.91e-11 57.8

Find 33 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTGATGCCATAGAATAATT+TGG 0.207768 1:+67683315 None:intergenic
ACCTTATCCAAATTATTCTA+TGG 0.288233 1:-67683322 MsaT004278.1:CDS
TCAGGTTCAGGTTCAGGTTC+AGG 0.293663 1:-67683705 MsaT004278.1:CDS
GTAAGTTCAGGTTCAGGTTC+AGG 0.297252 1:-67683711 MsaT004278.1:CDS
CTGTTGTTGCTTCCTCAGTC+TGG 0.324562 1:+67683602 None:intergenic
GAACCTGAACCTGAACTTAC+AGG 0.327424 1:+67683714 None:intergenic
ATGATCCTCTTCTCAAACCT+TGG 0.395871 1:-67683350 MsaT004278.1:CDS
CAGAGCGCAGACAAAAGAAT+TGG 0.420236 1:-67683463 MsaT004278.1:CDS
ATTCAACGTCCTGTAAGTTC+AGG 0.426014 1:-67683723 MsaT004278.1:CDS
CGTCCTGTAAGTTCAGGTTC+AGG 0.436352 1:-67683717 MsaT004278.1:CDS
AAGAATTGGAGGCTCAGTTT+CGG 0.458820 1:-67683449 MsaT004278.1:CDS
TTTCAATCTACCGGCTTCTC+CGG 0.462286 1:+67683566 None:intergenic
GCCATAGAATAATTTGGATA+AGG 0.470081 1:+67683321 None:intergenic
TTCAGGAGGTTCAGACGGTA+TGG 0.508548 1:-67683688 MsaT004278.1:CDS
GGAGGAAGCGTATGTGAAGA+TGG 0.510835 1:-67683505 MsaT004278.1:CDS
CCGTCTCGCGCGGAGTATCA+AGG 0.514004 1:-67683532 MsaT004278.1:CDS
TGGATCGTCTCGCGGATTCA+CGG 0.514018 1:+67683622 None:intergenic
CAGACTGAGGAAGCAACAAC+AGG 0.520449 1:-67683601 MsaT004278.1:CDS
GAAGATCTGACCGGAGAAGC+CGG 0.539519 1:-67683576 MsaT004278.1:CDS
AGATGCTGCTGCTGCTGAAG+AGG 0.541104 1:-67683409 MsaT004278.1:CDS
AGCGCAGACAAAAGAATTGG+AGG 0.555181 1:-67683460 MsaT004278.1:CDS
CCTTGATACTCCGCGCGAGA+CGG 0.556302 1:+67683532 None:intergenic
CGCGCGGAGTATCAAGGCGA+CGG 0.572349 1:-67683526 MsaT004278.1:CDS
GGTTCAGGTTCAGGTTCAGG+AGG 0.572738 1:-67683702 MsaT004278.1:CDS
AGAAGAGGATCATCAATCAA+AGG 0.595685 1:+67683360 None:intergenic
ATGAACCAAGGTTTGAGAAG+AGG 0.601064 1:+67683345 None:intergenic
TTTGGATAAGGTATGAACCA+AGG 0.606535 1:+67683333 None:intergenic
TCAGGTTCAGGAGGTTCAGA+CGG 0.613881 1:-67683693 MsaT004278.1:CDS
TAGAGAATGACCGTCTCGCG+CGG 0.619664 1:-67683542 MsaT004278.1:CDS
CCTCAGTCTGGATCGTCTCG+CGG 0.620361 1:+67683614 None:intergenic
CCGCGAGACGATCCAGACTG+AGG 0.625229 1:-67683614 MsaT004278.1:CDS
CAACAGGTTGAAGATCTGAC+CGG 0.629630 1:-67683585 MsaT004278.1:CDS
GCGGAGTATCAAGGCGACGG+AGG 0.704246 1:-67683523 MsaT004278.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 67683296 67683754 67683296 ID=MsaG004278
Chr1 mRNA 67683296 67683754 67683296 ID=MsaT004278.1;Parent=MsaG004278
Chr1 exon 67683296 67683754 67683296 ID=MsaT004278.1.exon1;Parent=MsaT004278.1
Chr1 CDS 67683296 67683754 67683296 ID=cds.MsaT004278.1;Parent=MsaT004278.1
Gene Sequence

>MsaT004278.1

ATGGCTTCGATTCAACGTCCTGTAAGTTCAGGTTCAGGTTCAGGTTCAGGAGGTTCAGACGGTATGGATCTACAAATCGACGAACGAAAACGCAAGAGAATGCTGTCAAACCGTGAATCCGCGAGACGATCCAGACTGAGGAAGCAACAACAGGTTGAAGATCTGACCGGAGAAGCCGGTAGATTGAAAATAGAGAATGACCGTCTCGCGCGGAGTATCAAGGCGACGGAGGAAGCGTATGTGAAGATGGAAGCTGCTAATGATGTTATCAGAGCGCAGACAAAAGAATTGGAGGCTCAGTTTCGGTTTTTGAATTCTGTTATAGATGCTGCTGCTGCTGAAGAGGCTAATAGTTTCTCTGTCGATGATGTGCCTTTGATTGATGATCCTCTTCTCAAACCTTGGTTCATACCTTATCCAAATTATTCTATGGCATCACATGAAATGATGCTGCGTTGA
Protein sequence

>MsaT004278.1

MASIQRPVSSGSGSGSGGSDGMDLQIDERKRKRMLSNRESARRSRLRKQQQVEDLTGEAGRLKIENDRLARSIKATEEAYVKMEAANDVIRAQTKELEAQFRFLNSVIDAAAAEEANSFSVDDVPLIDDPLLKPWFIPYPNYSMASHEMMLR*