AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1423820


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1423820 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 tig0025581:-7172 Msa1423820:CDS
CGTCAAGTTAGTGCTCGTTT+TGG 0.356065 tig0025581:-7063 Msa1423820:CDS
AGGAAAGAAGCTGAAAGAAA+TGG 0.356123 tig0025581:-7145 Msa1423820:CDS
CTCCTTCTTTAATTTGTGAA+TGG 0.374793 tig0025581:+7233 None:intergenic
TGAAAGGTGAGATCAAGAAA+TGG 0.464102 tig0025581:-7110 Msa1423820:CDS
GAAAGGTGAGATCAAGAAAT+GGG 0.482363 tig0025581:-7109 Msa1423820:CDS
TACCATTCACAAATTAAAGA+AGG 0.518100 tig0025581:-7235 Msa1423820:CDS
ATGGATTCAAATAAGTTGAA+AGG 0.552282 tig0025581:-7126 Msa1423820:CDS
GAGGTGGTGTCTATGGAGGA+AGG 0.559344 tig0025581:-7165 Msa1423820:CDS
TGAGATCAAGAAATGGGCTA+AGG 0.607413 tig0025581:-7103 Msa1423820:CDS
AGTTGAGGTGGTGTCTATGG+AGG 0.609297 tig0025581:-7169 Msa1423820:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAGAAATCTCTATCTTTTAA+TGG - tig0025581:7065-7084 Msa1423820:CDS 20.0%
!! AAATCTCTATCTTTTAATGG+TGG - tig0025581:7068-7087 Msa1423820:CDS 25.0%
! TACCATTCACAAATTAAAGA+AGG - tig0025581:7094-7113 Msa1423820:CDS 25.0%
!! ATGGATTCAAATAAGTTGAA+AGG - tig0025581:7203-7222 Msa1423820:CDS 25.0%
!! CTCCTTCTTTAATTTGTGAA+TGG + tig0025581:7099-7118 None:intergenic 30.0%
!!! TCGTTGTTTTTCTTCAGTTG+AGG - tig0025581:7145-7164 Msa1423820:CDS 35.0%
!! TTGTTTTTCTTCAGTTGAGG+TGG - tig0025581:7148-7167 Msa1423820:CDS 35.0%
AGGAAAGAAGCTGAAAGAAA+TGG - tig0025581:7184-7203 Msa1423820:CDS 35.0%
TGAAAGGTGAGATCAAGAAA+TGG - tig0025581:7219-7238 Msa1423820:CDS 35.0%
GAAAGGTGAGATCAAGAAAT+GGG - tig0025581:7220-7239 Msa1423820:CDS 35.0%
!! TGAGATCAAGAAATGGGCTA+AGG - tig0025581:7226-7245 Msa1423820:CDS 40.0%
TTCAGTTGAGGTGGTGTCTA+TGG - tig0025581:7157-7176 Msa1423820:CDS 45.0%
! CGTCAAGTTAGTGCTCGTTT+TGG - tig0025581:7266-7285 Msa1423820:CDS 45.0%
AGTTGAGGTGGTGTCTATGG+AGG - tig0025581:7160-7179 Msa1423820:CDS 50.0%
GAGGTGGTGTCTATGGAGGA+AGG - tig0025581:7164-7183 Msa1423820:CDS 55.0%
Chromosome Type Strat End Strand Name
tig0025581 gene 7056 7295 7056 ID=Msa1423820;Name=Msa1423820
tig0025581 mRNA 7056 7295 7056 ID=Msa1423820-mRNA-1;Parent=Msa1423820;Name=Msa1423820-mRNA-1;_AED=0.27;_eAED=0.28;_QI=0|-1|0|1|-1|1|1|0|79
tig0025581 exon 7056 7295 7056 ID=Msa1423820-mRNA-1:exon:3474;Parent=Msa1423820-mRNA-1
tig0025581 CDS 7056 7295 7056 ID=Msa1423820-mRNA-1:cds;Parent=Msa1423820-mRNA-1
Gene Sequence

>Msa1423820

ATGTCTGTGAAGAAATCTCTATCTTTTAATGGTGGAAGTACCATTCACAAATTAAAGAAGGAGAAATCTACAAAACGAAGACGTTTTGATCGTTGTTTTTCTTCAGTTGAGGTGGTGTCTATGGAGGAAGGAAAGAAGCTGAAAGAAATGGATTCAAATAAGTTGAAAGGTGAGATCAAGAAATGGGCTAAGGCTGTTGTTGCATATGCTCGTCAAGTTAGTGCTCGTTTTGGAAGCTAG

Protein sequence

>Msa1423820

MSVKKSLSFNGGSTIHKLKKEKSTKRRRFDRCFSSVEVVSMEEGKKLKEMDSNKLKGEIKKWAKAVVAYARQVSARFGS*