AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1270660


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1270660 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:+4004058 Msa1270660:CDS
CGTCAAGTTAGTGCTCGTTT+TGG 0.356065 8_3:+4004167 Msa1270660:CDS
AGGAAAGAAGCTGAAAGAAA+TGG 0.356123 8_3:+4004085 Msa1270660:CDS
CTCCTTCTTTAATTTGTGAA+TGG 0.374793 8_3:-4003997 None:intergenic
TGAAAGGTGAGATCAAGAAA+TGG 0.464102 8_3:+4004120 Msa1270660:CDS
GAAAGGTGAGATCAAGAAAT+GGG 0.482363 8_3:+4004121 Msa1270660:CDS
TACCATTCACAAATTAAAGA+AGG 0.518100 8_3:+4003995 Msa1270660:CDS
ATGGATTCAAATAAGTTGAA+AGG 0.552282 8_3:+4004104 Msa1270660:CDS
GAGGTGGTGTCTATGGAGGA+AGG 0.559344 8_3:+4004065 Msa1270660:CDS
TGAGATCAAGAAATGGGCTA+AGG 0.607413 8_3:+4004127 Msa1270660:CDS
AGTTGAGGTGGTGTCTATGG+AGG 0.609297 8_3:+4004061 Msa1270660:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAGAAATCTCTATCTTTTAA+TGG + chr8_3:4003966-4003985 Msa1270660:CDS 20.0%
!! AAATCTCTATCTTTTAATGG+TGG + chr8_3:4003969-4003988 Msa1270660:CDS 25.0%
! TACCATTCACAAATTAAAGA+AGG + chr8_3:4003995-4004014 Msa1270660:CDS 25.0%
!! ATGGATTCAAATAAGTTGAA+AGG + chr8_3:4004104-4004123 Msa1270660:CDS 25.0%
!! CTCCTTCTTTAATTTGTGAA+TGG - chr8_3:4004000-4004019 None:intergenic 30.0%
!!! TCGTTGTTTTTCTTCAGTTG+AGG + chr8_3:4004046-4004065 Msa1270660:CDS 35.0%
!! TTGTTTTTCTTCAGTTGAGG+TGG + chr8_3:4004049-4004068 Msa1270660:CDS 35.0%
AGGAAAGAAGCTGAAAGAAA+TGG + chr8_3:4004085-4004104 Msa1270660:CDS 35.0%
TGAAAGGTGAGATCAAGAAA+TGG + chr8_3:4004120-4004139 Msa1270660:CDS 35.0%
GAAAGGTGAGATCAAGAAAT+GGG + chr8_3:4004121-4004140 Msa1270660:CDS 35.0%
!! TGAGATCAAGAAATGGGCTA+AGG + chr8_3:4004127-4004146 Msa1270660:CDS 40.0%
TTCAGTTGAGGTGGTGTCTA+TGG + chr8_3:4004058-4004077 Msa1270660:CDS 45.0%
! CGTCAAGTTAGTGCTCGTTT+TGG + chr8_3:4004167-4004186 Msa1270660:CDS 45.0%
AGTTGAGGTGGTGTCTATGG+AGG + chr8_3:4004061-4004080 Msa1270660:CDS 50.0%
GAGGTGGTGTCTATGGAGGA+AGG + chr8_3:4004065-4004084 Msa1270660:CDS 55.0%
Chromosome Type Strat End Strand Name
chr8_3 gene 4003957 4004196 4003957 ID=Msa1270660;Name=Msa1270660
chr8_3 mRNA 4003957 4004196 4003957 ID=Msa1270660-mRNA-1;Parent=Msa1270660;Name=Msa1270660-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0|-1|0|1|-1|1|1|0|79
chr8_3 exon 4003957 4004196 4003957 ID=Msa1270660-mRNA-1:exon:1300;Parent=Msa1270660-mRNA-1
chr8_3 CDS 4003957 4004196 4003957 ID=Msa1270660-mRNA-1:cds;Parent=Msa1270660-mRNA-1
Gene Sequence

>Msa1270660

ATGTCTGTGAAGAAATCTCTATCTTTTAATGGTGGAAGTACCATTCACAAATTAAAGAAGGAGAAATCTACAAAACGAAGACGTTTTGATCGTTGTTTTTCTTCAGTTGAGGTGGTGTCTATGGAGGAAGGAAAGAAGCTGAAAGAAATGGATTCAAATAAGTTGAAAGGTGAGATCAAGAAATGGGCTAAGGCTGTTGTTGCATATGCTCGTCAAGTTAGTGCTCGTTTTGGAAGCTAG

Protein sequence

>Msa1270660

MSVKKSLSFNGGSTIHKLKKEKSTKRRRFDRCFSSVEVVSMEEGKKLKEMDSNKLKGEIKKWAKAVVAYARQVSARFGS*