AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1086030


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1086030 MtrunA17_Chr8g0355631 100.000 37 0 0 1 37 35 71 2.22e-20 74.7
Msa1086030 MtrunA17_Chr4g0015761 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa1086030 MtrunA17_CPg0492811 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa1086030 MtrunA17_Chr4g0016861 100.000 35 0 0 1 35 1 35 9.96e-19 70.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1086030 ATCG00600.1 97.222 36 1 0 1 36 1 36 2.23e-18 69.3

Find 14 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGATTGAAGTTTCTCTATT+TGG 0.115333 7_2:-87100741 Msa1086030:CDS
TCATGTCAATTGCCAATTCT+TGG 0.245809 7_2:-87100845 Msa1086030:five_prime_UTR
AATAATCCAGCCAAAGTAAT+AGG 0.315680 7_2:+87100699 None:intergenic
AAACTTCAATCATTTGAGTT+TGG 0.328054 7_2:+87100751 None:intergenic
CTAATTCCTATTACTTTGGC+TGG 0.352028 7_2:-87100705 Msa1086030:CDS
TCTCTATTTGGAATCGTGTT+AGG 0.358426 7_2:-87100729 Msa1086030:CDS
AGGTCTAATTCCTATTACTT+TGG 0.388074 7_2:-87100709 Msa1086030:CDS
ATCATTTGAGTTTGGTTGAA+AGG 0.406278 7_2:+87100759 None:intergenic
GAATCTCAATGACCAAGAAT+TGG 0.414372 7_2:+87100833 None:intergenic
AATTGGCAATTGACATGATA+AGG 0.448909 7_2:+87100850 None:intergenic
TTCTTGGTCATTGAGATTCA+CGG 0.471290 7_2:-87100829 Msa1086030:intron
ATATCGACGTGGTGATCAGT+TGG 0.572503 7_2:-87100658 Msa1086030:CDS
TTTGGCTGGATTATTTGTAA+CGG 0.592623 7_2:-87100691 Msa1086030:CDS
GCATATTTACAATATCGACG+TGG 0.789819 7_2:-87100669 Msa1086030:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTTCAATCATTTGAGTT+TGG + chr7_2:87100757-87100776 None:intergenic 25.0%
! ATGATTGAAGTTTCTCTATT+TGG - chr7_2:87100764-87100783 Msa1086030:five_prime_UTR 25.0%
AATTGGCAATTGACATGATA+AGG + chr7_2:87100658-87100677 None:intergenic 30.0%
TCAATACAGATTCCTATTGA+AGG - chr7_2:87100699-87100718 Msa1086030:CDS 30.0%
GGTAATATCTATCCTTCAAT+AGG + chr7_2:87100714-87100733 None:intergenic 30.0%
TGGTTGAAAGGAAAAAAAGT+GGG + chr7_2:87100737-87100756 None:intergenic 30.0%
TTGGTTGAAAGGAAAAAAAG+TGG + chr7_2:87100738-87100757 None:intergenic 30.0%
! ATCATTTGAGTTTGGTTGAA+AGG + chr7_2:87100749-87100768 None:intergenic 30.0%
AGGTCTAATTCCTATTACTT+TGG - chr7_2:87100796-87100815 Msa1086030:intron 30.0%
AATAATCCAGCCAAAGTAAT+AGG + chr7_2:87100809-87100828 None:intergenic 30.0%
TTTGGCTGGATTATTTGTAA+CGG - chr7_2:87100814-87100833 Msa1086030:intron 30.0%
TCATGTCAATTGCCAATTCT+TGG - chr7_2:87100660-87100679 Msa1086030:CDS 35.0%
GAATCTCAATGACCAAGAAT+TGG + chr7_2:87100675-87100694 None:intergenic 35.0%
TTCTTGGTCATTGAGATTCA+CGG - chr7_2:87100676-87100695 Msa1086030:CDS 35.0%
GTTGAAAGGAAAAAAAGTGG+GGG + chr7_2:87100735-87100754 None:intergenic 35.0%
GGTTGAAAGGAAAAAAAGTG+GGG + chr7_2:87100736-87100755 None:intergenic 35.0%
! TCTCTATTTGGAATCGTGTT+AGG - chr7_2:87100776-87100795 Msa1086030:five_prime_UTR 35.0%
CTAATTCCTATTACTTTGGC+TGG - chr7_2:87100800-87100819 Msa1086030:intron 35.0%
GCATATTTACAATATCGACG+TGG - chr7_2:87100836-87100855 Msa1086030:five_prime_UTR 35.0%
ATATCGACGTGGTGATCAGT+TGG - chr7_2:87100847-87100866 Msa1086030:five_prime_UTR 45.0%
Chromosome Type Strat End Strand Name
chr7_2 gene 87100653 87100874 87100653 ID=Msa1086030;Name=Msa1086030
chr7_2 mRNA 87100653 87100874 87100653 ID=Msa1086030-mRNA-1;Parent=Msa1086030;Name=Msa1086030-mRNA-1;_AED=0.41;_eAED=0.66;_QI=83|0|0|1|0|0|2|0|37
chr7_2 exon 87100830 87100874 87100830 ID=Msa1086030-mRNA-1:exon:23709;Parent=Msa1086030-mRNA-1
chr7_2 exon 87100653 87100801 87100653 ID=Msa1086030-mRNA-1:exon:23708;Parent=Msa1086030-mRNA-1
chr7_2 five_prime_UTR 87100830 87100874 87100830 ID=Msa1086030-mRNA-1:five_prime_utr;Parent=Msa1086030-mRNA-1
chr7_2 five_prime_UTR 87100764 87100801 87100764 ID=Msa1086030-mRNA-1:five_prime_utr;Parent=Msa1086030-mRNA-1
chr7_2 CDS 87100653 87100763 87100653 ID=Msa1086030-mRNA-1:cds;Parent=Msa1086030-mRNA-1
Gene Sequence

>Msa1086030

ATGATTGAAGTTTCTCTATTTGGAATCGTGTTAGGTCTAATTCCTATTACTTTGGCTGGATTATTTGTAACGGCATATTTACAATATCGACGTGGTGATCAGTTGGATATT

Protein sequence

>Msa1086030

MIEVSLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDI