AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1100720


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1100720 MtrunA17_Chr7g0219021 87.838 74 9 0 1 74 1 74 5.54e-42 137
Msa1100720 MtrunA17_Chr7g0219031 73.684 76 20 0 1 76 1 76 2.92e-39 126
Msa1100720 MtrunA17_Chr4g0061451 55.000 80 32 2 1 77 1 79 1.09e-20 82.8
Msa1100720 MtrunA17_Chr3g0086861 50.617 81 36 2 1 77 1 81 1.72e-19 80.9
Msa1100720 MtrunA17_Chr3g0121631 40.260 77 42 1 1 77 1 73 1.18e-14 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1100720 AT5G61030.2 51.948 77 37 0 1 77 1 77 2.19e-22 88.2
Msa1100720 AT5G61030.1 51.948 77 37 0 1 77 1 77 2.19e-22 88.2
Msa1100720 AT1G74230.1 46.753 77 35 2 1 77 1 71 3.24e-17 73.9
Msa1100720 AT4G13850.4 37.662 77 43 2 1 77 1 72 8.79e-12 57.0
Msa1100720 AT4G13850.3 37.662 77 43 2 1 77 1 72 1.02e-11 57.4
Msa1100720 AT4G13850.2 37.662 77 43 2 1 77 1 72 1.21e-11 57.4
Msa1100720 AT4G13850.1 37.662 77 43 2 1 77 1 72 1.32e-11 57.4

Find 7 sgRNAs with CRISPR-Local

Find 17 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATGGCGTTCTTTGGTAAAA+TGG 0.181499 7_3:-31022338 Msa1100720:CDS
TGTGCTTGACAGCAGAATTC+TGG 0.293345 7_3:+31022305 None:intergenic
GTTTGAGCAATGGCGTTCTT+TGG 0.330058 7_3:-31022346 Msa1100720:exon
CGCTATGGAGAAGTTCTTGA+TGG 0.365325 7_3:-31022080 Msa1100720:CDS
ATGGCGTTCTTTGGTAAAAT+GGG 0.448549 7_3:-31022337 Msa1100720:CDS
TCATATAGCACTGATGATAG+TGG 0.504538 7_3:-31022122 Msa1100720:CDS
CTGATTGCTTGAAATAACGA+AGG 0.656640 7_3:+31022256 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATCATGTTAAATTTTAAAAA+TGG - chr7_3:31022187-31022206 Msa1100720:intron 10.0%
!! TACCAATTTTTCATCATATC+AGG - chr7_3:31022343-31022362 Msa1100720:exon 25.0%
! AACCTGATATGATGAAAAAT+TGG + chr7_3:31022348-31022367 None:intergenic 25.0%
TCAAATTTCAATCGTAATGC+AGG - chr7_3:31022227-31022246 Msa1100720:CDS 30.0%
AATGGCGTTCTTTGGTAAAA+TGG - chr7_3:31022038-31022057 Msa1100720:CDS 35.0%
ATGGCGTTCTTTGGTAAAAT+GGG - chr7_3:31022039-31022058 Msa1100720:CDS 35.0%
CTGATTGCTTGAAATAACGA+AGG + chr7_3:31022123-31022142 None:intergenic 35.0%
! TCATCTGCCAAGCTTTTTAT+TGG - chr7_3:31022150-31022169 Msa1100720:intron 35.0%
CATACCTCCAATAAAAAGCT+TGG + chr7_3:31022160-31022179 None:intergenic 35.0%
!! TCATATAGCACTGATGATAG+TGG - chr7_3:31022254-31022273 Msa1100720:CDS 35.0%
AAAAAGCTTGGCAGATGACA+TGG + chr7_3:31022148-31022167 None:intergenic 40.0%
! TCTGCCAAGCTTTTTATTGG+AGG - chr7_3:31022153-31022172 Msa1100720:intron 40.0%
CATAGCGAGAAAAAGCTTCT+CGG + chr7_3:31022283-31022302 None:intergenic 40.0%
GTTTGAGCAATGGCGTTCTT+TGG - chr7_3:31022030-31022049 Msa1100720:CDS 45.0%
TGTGCTTGACAGCAGAATTC+TGG + chr7_3:31022074-31022093 None:intergenic 45.0%
!! CGAGAAGCTTTTTCTCGCTA+TGG - chr7_3:31022281-31022300 Msa1100720:CDS 45.0%
CGCTATGGAGAAGTTCTTGA+TGG - chr7_3:31022296-31022315 Msa1100720:CDS 45.0%
Chromosome Type Strat End Strand Name
chr7_3 gene 31022022 31022376 31022022 ID=Msa1100720;Name=Msa1100720
chr7_3 mRNA 31022022 31022376 31022022 ID=Msa1100720-mRNA-1;Parent=Msa1100720;Name=Msa1100720-mRNA-1;_AED=0.09;_eAED=0.09;_QI=17|1|0.5|1|1|1|2|0|87
chr7_3 exon 31022022 31022149 31022022 ID=Msa1100720-mRNA-1:exon:6585;Parent=Msa1100720-mRNA-1
chr7_3 exon 31022224 31022376 31022224 ID=Msa1100720-mRNA-1:exon:6584;Parent=Msa1100720-mRNA-1
chr7_3 five_prime_UTR 31022360 31022376 31022360 ID=Msa1100720-mRNA-1:five_prime_utr;Parent=Msa1100720-mRNA-1
chr7_3 CDS 31022224 31022359 31022224 ID=Msa1100720-mRNA-1:cds;Parent=Msa1100720-mRNA-1
chr7_3 CDS 31022022 31022149 31022022 ID=Msa1100720-mRNA-1:cds;Parent=Msa1100720-mRNA-1
Gene Sequence

>Msa1100720

ATGGCGTTCTTTGGTAAAATGGGAAAGTTAATCCAGAATTCTGCTGTCAAGCACATCAATCATGATTTATCTATGTCTACTCCTTCGTTATTTCAAGCAATCAGATCCATGTCATCTGCCAAGCTTTTTATTGGAGGTGTTTCATATAGCACTGATGATAGTGGTCTCCGAGAAGCTTTTTCTCGCTATGGAGAAGTTCTTGATGGTAATTTTCTTTCTGACTTGCAATCTACCAATTTTTCATCATATCAGGTTGTAATATGA

Protein sequence

>Msa1100720

MAFFGKMGKLIQNSAVKHINHDLSMSTPSLFQAIRSMSSAKLFIGGVSYSTDDSGLREAFSRYGEVLDGNFLSDLQSTNFSSYQVVI*