AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1380550


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1380550 MtrunA17_Chr8g0355631 100.000 37 0 0 1 37 35 71 2.22e-20 74.7
Msa1380550 MtrunA17_Chr4g0015761 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa1380550 MtrunA17_CPg0492811 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa1380550 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
Msa1380550 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 tig0020386:-7739 Msa1380550:CDS
TCATGTCAATTGCCAATTCT+TGG 0.245809 tig0020386:-7843 Msa1380550:five_prime_UTR
AATAATCCAGCCAAAGTAAT+AGG 0.315680 tig0020386:+7697 None:intergenic
AAACTTCAATCATTTGAGTT+TGG 0.328054 tig0020386:+7749 None:intergenic
CTAATTCCTATTACTTTGGC+TGG 0.352028 tig0020386:-7703 Msa1380550:CDS
TCTCTATTTGGAATCGTGTT+AGG 0.358426 tig0020386:-7727 Msa1380550:CDS
AGGTCTAATTCCTATTACTT+TGG 0.388074 tig0020386:-7707 Msa1380550:CDS
ATCATTTGAGTTTGGTTGAA+AGG 0.406278 tig0020386:+7757 None:intergenic
GAATCTCAATGACCAAGAAT+TGG 0.414372 tig0020386:+7831 None:intergenic
AATTGGCAATTGACATGATA+AGG 0.448909 tig0020386:+7848 None:intergenic
TTCTTGGTCATTGAGATTCA+CGG 0.471290 tig0020386:-7827 Msa1380550:intron
ATATCGACGTGGTGATCAGT+TGG 0.572503 tig0020386:-7656 Msa1380550:CDS
TTTGGCTGGATTATTTGTAA+CGG 0.592623 tig0020386:-7689 Msa1380550:CDS
GCATATTTACAATATCGACG+TGG 0.789819 tig0020386:-7667 Msa1380550:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTTCAATCATTTGAGTT+TGG + tig0020386:7755-7774 None:intergenic 25.0%
! ATGATTGAAGTTTCTCTATT+TGG - tig0020386:7762-7781 Msa1380550:five_prime_UTR 25.0%
AATTGGCAATTGACATGATA+AGG + tig0020386:7656-7675 None:intergenic 30.0%
TCAATACAGATTCCTATTGA+AGG - tig0020386:7697-7716 Msa1380550:CDS 30.0%
GGTAATATCTATCCTTCAAT+AGG + tig0020386:7712-7731 None:intergenic 30.0%
TGGTTGAAAGGAAAAAAAGT+GGG + tig0020386:7735-7754 None:intergenic 30.0%
TTGGTTGAAAGGAAAAAAAG+TGG + tig0020386:7736-7755 None:intergenic 30.0%
! ATCATTTGAGTTTGGTTGAA+AGG + tig0020386:7747-7766 None:intergenic 30.0%
AGGTCTAATTCCTATTACTT+TGG - tig0020386:7794-7813 Msa1380550:intron 30.0%
AATAATCCAGCCAAAGTAAT+AGG + tig0020386:7807-7826 None:intergenic 30.0%
TTTGGCTGGATTATTTGTAA+CGG - tig0020386:7812-7831 Msa1380550:intron 30.0%
TCATGTCAATTGCCAATTCT+TGG - tig0020386:7658-7677 Msa1380550:CDS 35.0%
GAATCTCAATGACCAAGAAT+TGG + tig0020386:7673-7692 None:intergenic 35.0%
TTCTTGGTCATTGAGATTCA+CGG - tig0020386:7674-7693 Msa1380550:CDS 35.0%
GTTGAAAGGAAAAAAAGTGG+GGG + tig0020386:7733-7752 None:intergenic 35.0%
GGTTGAAAGGAAAAAAAGTG+GGG + tig0020386:7734-7753 None:intergenic 35.0%
! TCTCTATTTGGAATCGTGTT+AGG - tig0020386:7774-7793 Msa1380550:five_prime_UTR 35.0%
CTAATTCCTATTACTTTGGC+TGG - tig0020386:7798-7817 Msa1380550:intron 35.0%
GCATATTTACAATATCGACG+TGG - tig0020386:7834-7853 Msa1380550:five_prime_UTR 35.0%
ATATCGACGTGGTGATCAGT+TGG - tig0020386:7845-7864 Msa1380550:five_prime_UTR 45.0%
Chromosome Type Strat End Strand Name
tig0020386 gene 7651 7872 7651 ID=Msa1380550;Name=Msa1380550
tig0020386 mRNA 7651 7872 7651 ID=Msa1380550-mRNA-1;Parent=Msa1380550;Name=Msa1380550-mRNA-1;_AED=0.42;_eAED=0.67;_QI=83|0|0|1|0|0|2|0|37
tig0020386 exon 7828 7872 7828 ID=Msa1380550-mRNA-1:exon:7205;Parent=Msa1380550-mRNA-1
tig0020386 exon 7651 7799 7651 ID=Msa1380550-mRNA-1:exon:7204;Parent=Msa1380550-mRNA-1
tig0020386 five_prime_UTR 7828 7872 7828 ID=Msa1380550-mRNA-1:five_prime_utr;Parent=Msa1380550-mRNA-1
tig0020386 five_prime_UTR 7762 7799 7762 ID=Msa1380550-mRNA-1:five_prime_utr;Parent=Msa1380550-mRNA-1
tig0020386 CDS 7651 7761 7651 ID=Msa1380550-mRNA-1:cds;Parent=Msa1380550-mRNA-1
Gene Sequence

>Msa1380550

ATGATTGAAGTTTCTCTATTTGGAATCGTGTTAGGTCTAATTCCTATTACTTTGGCTGGATTATTTGTAACGGCATATTTACAATATCGACGTGGTGATCAGTTGGATATT

Protein sequence

>Msa1380550

MIEVSLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDI