AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1270730


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1270730 MtrunA17_Chr8g0341501 96.203 79 3 0 1 79 1 79 1.97e-49 150
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 11 sgRNAs with CRISPR-Local

Find 15 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCAGTTGAGGTGGTGTCTA+TGG 0.235479 8_3:+4053951 Msa1270730:CDS
CGTCAAGTTAGTGCTCGTTT+TGG 0.356065 8_3:+4054060 Msa1270730:CDS
AGGAAAGAAGCTGAAAGAAA+TGG 0.356123 8_3:+4053978 Msa1270730:CDS
CTCCTTCTTTAATTTGTGAA+TGG 0.374793 8_3:-4053890 None:intergenic
TGAAAGGTGAGATCAAGAAA+TGG 0.464102 8_3:+4054013 Msa1270730:CDS
GAAAGGTGAGATCAAGAAAT+GGG 0.482363 8_3:+4054014 Msa1270730:CDS
TACCATTCACAAATTAAAGA+AGG 0.518100 8_3:+4053888 Msa1270730:CDS
ATGGATTCAAATAAGTTGAA+AGG 0.552282 8_3:+4053997 Msa1270730:CDS
GAGGTGGTGTCTATGGAGGA+AGG 0.559344 8_3:+4053958 Msa1270730:CDS
TGAGATCAAGAAATGGGCTA+AGG 0.607413 8_3:+4054020 Msa1270730:CDS
AGTTGAGGTGGTGTCTATGG+AGG 0.609297 8_3:+4053954 Msa1270730:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAGAAATCTCTATCTTTTAA+TGG + chr8_3:4053859-4053878 Msa1270730:CDS 20.0%
!! AAATCTCTATCTTTTAATGG+TGG + chr8_3:4053862-4053881 Msa1270730:CDS 25.0%
! TACCATTCACAAATTAAAGA+AGG + chr8_3:4053888-4053907 Msa1270730:CDS 25.0%
!! ATGGATTCAAATAAGTTGAA+AGG + chr8_3:4053997-4054016 Msa1270730:CDS 25.0%
!! CTCCTTCTTTAATTTGTGAA+TGG - chr8_3:4053893-4053912 None:intergenic 30.0%
!!! TCGTTGTTTTTCTTCAGTTG+AGG + chr8_3:4053939-4053958 Msa1270730:CDS 35.0%
!! TTGTTTTTCTTCAGTTGAGG+TGG + chr8_3:4053942-4053961 Msa1270730:CDS 35.0%
AGGAAAGAAGCTGAAAGAAA+TGG + chr8_3:4053978-4053997 Msa1270730:CDS 35.0%
TGAAAGGTGAGATCAAGAAA+TGG + chr8_3:4054013-4054032 Msa1270730:CDS 35.0%
GAAAGGTGAGATCAAGAAAT+GGG + chr8_3:4054014-4054033 Msa1270730:CDS 35.0%
!! TGAGATCAAGAAATGGGCTA+AGG + chr8_3:4054020-4054039 Msa1270730:CDS 40.0%
TTCAGTTGAGGTGGTGTCTA+TGG + chr8_3:4053951-4053970 Msa1270730:CDS 45.0%
! CGTCAAGTTAGTGCTCGTTT+TGG + chr8_3:4054060-4054079 Msa1270730:CDS 45.0%
AGTTGAGGTGGTGTCTATGG+AGG + chr8_3:4053954-4053973 Msa1270730:CDS 50.0%
GAGGTGGTGTCTATGGAGGA+AGG + chr8_3:4053958-4053977 Msa1270730:CDS 55.0%
Chromosome Type Strat End Strand Name
chr8_3 gene 4053850 4054089 4053850 ID=Msa1270730;Name=Msa1270730
chr8_3 mRNA 4053850 4054089 4053850 ID=Msa1270730-mRNA-1;Parent=Msa1270730;Name=Msa1270730-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0|-1|0|1|-1|1|1|0|79
chr8_3 exon 4053850 4054089 4053850 ID=Msa1270730-mRNA-1:exon:1301;Parent=Msa1270730-mRNA-1
chr8_3 CDS 4053850 4054089 4053850 ID=Msa1270730-mRNA-1:cds;Parent=Msa1270730-mRNA-1
Gene Sequence

>Msa1270730

ATGTCTGTGAAGAAATCTCTATCTTTTAATGGTGGAAGTACCATTCACAAATTAAAGAAGGAGAAATCTACAAAACGAAGACGTTTTGATCGTTGTTTTTCTTCAGTTGAGGTGGTGTCTATGGAGGAAGGAAAGAAGCTGAAAGAAATGGATTCAAATAAGTTGAAAGGTGAGATCAAGAAATGGGCTAAGGCTGTTGTTGCATATGCTCGTCAAGTTAGTGCTCGTTTTGGAAGCTAG

Protein sequence

>Msa1270730

MSVKKSLSFNGGSTIHKLKKEKSTKRRRFDRCFSSVEVVSMEEGKKLKEMDSNKLKGEIKKWAKAVVAYARQVSARFGS*