AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0269090


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0269090 MtrunA17_Chr8g0355631 100.000 37 0 0 1 37 35 71 2.22e-20 74.7
Msa0269090 MtrunA17_Chr4g0015761 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa0269090 MtrunA17_CPg0492811 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa0269090 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
Msa0269090 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 2_2:+70504683 Msa0269090:CDS
TCATGTCAATTGCCAATTCT+TGG 0.245809 2_2:+70504579 Msa0269090:five_prime_UTR
AATAATCCAGCCAAAGTAAT+AGG 0.315680 2_2:-70504725 None:intergenic
AAACTTCAATCATTTGAGTT+TGG 0.328054 2_2:-70504673 None:intergenic
CTAATTCCTATTACTTTGGC+TGG 0.352028 2_2:+70504719 Msa0269090:CDS
TCTCTATTTGGAATCGTGTT+AGG 0.358426 2_2:+70504695 Msa0269090:CDS
AGGTCTAATTCCTATTACTT+TGG 0.388074 2_2:+70504715 Msa0269090:CDS
ATCATTTGAGTTTGGTTGAA+AGG 0.406278 2_2:-70504665 None:intergenic
GAATCTCAATGACCAAGAAT+TGG 0.414372 2_2:-70504591 None:intergenic
AATTGGCAATTGACATGATA+AGG 0.448909 2_2:-70504574 None:intergenic
TTCTTGGTCATTGAGATTCA+CGG 0.471290 2_2:+70504595 Msa0269090:five_prime_UTR
ATATCGACGTGGTGATCAGT+TGG 0.572503 2_2:+70504766 Msa0269090:CDS
TTTGGCTGGATTATTTGTAA+CGG 0.592623 2_2:+70504733 Msa0269090:CDS
GCATATTTACAATATCGACG+TGG 0.789819 2_2:+70504755 Msa0269090:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTTCAATCATTTGAGTT+TGG - chr2_2:70504676-70504695 None:intergenic 25.0%
! ATGATTGAAGTTTCTCTATT+TGG + chr2_2:70504683-70504702 Msa0269090:CDS 25.0%
AATTGGCAATTGACATGATA+AGG - chr2_2:70504577-70504596 None:intergenic 30.0%
TCAATACAGATTCCTATTGA+AGG + chr2_2:70504618-70504637 Msa0269090:intron 30.0%
GGTAATATCTATCCTTCAAT+AGG - chr2_2:70504633-70504652 None:intergenic 30.0%
TGGTTGAAAGGAAAAAAAGT+GGG - chr2_2:70504656-70504675 None:intergenic 30.0%
TTGGTTGAAAGGAAAAAAAG+TGG - chr2_2:70504657-70504676 None:intergenic 30.0%
! ATCATTTGAGTTTGGTTGAA+AGG - chr2_2:70504668-70504687 None:intergenic 30.0%
AGGTCTAATTCCTATTACTT+TGG + chr2_2:70504715-70504734 Msa0269090:CDS 30.0%
AATAATCCAGCCAAAGTAAT+AGG - chr2_2:70504728-70504747 None:intergenic 30.0%
TTTGGCTGGATTATTTGTAA+CGG + chr2_2:70504733-70504752 Msa0269090:CDS 30.0%
TCATGTCAATTGCCAATTCT+TGG + chr2_2:70504579-70504598 Msa0269090:five_prime_UTR 35.0%
GAATCTCAATGACCAAGAAT+TGG - chr2_2:70504594-70504613 None:intergenic 35.0%
TTCTTGGTCATTGAGATTCA+CGG + chr2_2:70504595-70504614 Msa0269090:five_prime_UTR 35.0%
GTTGAAAGGAAAAAAAGTGG+GGG - chr2_2:70504654-70504673 None:intergenic 35.0%
GGTTGAAAGGAAAAAAAGTG+GGG - chr2_2:70504655-70504674 None:intergenic 35.0%
! TCTCTATTTGGAATCGTGTT+AGG + chr2_2:70504695-70504714 Msa0269090:CDS 35.0%
CTAATTCCTATTACTTTGGC+TGG + chr2_2:70504719-70504738 Msa0269090:CDS 35.0%
GCATATTTACAATATCGACG+TGG + chr2_2:70504755-70504774 Msa0269090:CDS 35.0%
ATATCGACGTGGTGATCAGT+TGG + chr2_2:70504766-70504785 Msa0269090:CDS 45.0%
Chromosome Type Strat End Strand Name
chr2_2 gene 70504572 70504793 70504572 ID=Msa0269090;Name=Msa0269090
chr2_2 mRNA 70504572 70504793 70504572 ID=Msa0269090-mRNA-1;Parent=Msa0269090;Name=Msa0269090-mRNA-1;_AED=0.41;_eAED=0.66;_QI=83|0|0|1|0|0|2|0|37
chr2_2 exon 70504572 70504616 70504572 ID=Msa0269090-mRNA-1:exon:22773;Parent=Msa0269090-mRNA-1
chr2_2 exon 70504645 70504793 70504645 ID=Msa0269090-mRNA-1:exon:22774;Parent=Msa0269090-mRNA-1
chr2_2 five_prime_UTR 70504572 70504616 70504572 ID=Msa0269090-mRNA-1:five_prime_utr;Parent=Msa0269090-mRNA-1
chr2_2 five_prime_UTR 70504645 70504682 70504645 ID=Msa0269090-mRNA-1:five_prime_utr;Parent=Msa0269090-mRNA-1
chr2_2 CDS 70504683 70504793 70504683 ID=Msa0269090-mRNA-1:cds;Parent=Msa0269090-mRNA-1
Gene Sequence

>Msa0269090

ATGATTGAAGTTTCTCTATTTGGAATCGTGTTAGGTCTAATTCCTATTACTTTGGCTGGATTATTTGTAACGGCATATTTACAATATCGACGTGGTGATCAGTTGGATATT

Protein sequence

>Msa0269090

MIEVSLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDI