AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0268700


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0268700 MtrunA17_Chr8g0355631 100.000 37 0 0 1 37 35 71 2.22e-20 74.7
Msa0268700 MtrunA17_Chr4g0015761 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa0268700 MtrunA17_CPg0492811 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa0268700 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
Msa0268700 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:-70370580 Msa0268700:CDS
TCATGTCAATTGCCAATTCT+TGG 0.245809 2_2:-70370684 Msa0268700:five_prime_UTR
AATAATCCAGCCAAAGTAAT+AGG 0.315680 2_2:+70370538 None:intergenic
AAACTTCAATCATTTGAGTT+TGG 0.328054 2_2:+70370590 None:intergenic
CTAATTCCTATTACTTTGGC+TGG 0.352028 2_2:-70370544 Msa0268700:CDS
TCTCTATTTGGAATCGTGTT+AGG 0.358426 2_2:-70370568 Msa0268700:CDS
AGGTCTAATTCCTATTACTT+TGG 0.388074 2_2:-70370548 Msa0268700:CDS
ATCATTTGAGTTTGGTTGAA+AGG 0.406278 2_2:+70370598 None:intergenic
GAATCTCAATGACCAAGAAT+TGG 0.414372 2_2:+70370672 None:intergenic
AATTGGCAATTGACATGATA+AGG 0.448909 2_2:+70370689 None:intergenic
TTCTTGGTCATTGAGATTCA+CGG 0.471290 2_2:-70370668 Msa0268700:intron
ATATCGACGTGGTGATCAGT+TGG 0.572503 2_2:-70370497 Msa0268700:CDS
TTTGGCTGGATTATTTGTAA+CGG 0.592623 2_2:-70370530 Msa0268700:CDS
GCATATTTACAATATCGACG+TGG 0.789819 2_2:-70370508 Msa0268700:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTTCAATCATTTGAGTT+TGG + chr2_2:70370596-70370615 None:intergenic 25.0%
! ATGATTGAAGTTTCTCTATT+TGG - chr2_2:70370603-70370622 Msa0268700:five_prime_UTR 25.0%
AATTGGCAATTGACATGATA+AGG + chr2_2:70370497-70370516 None:intergenic 30.0%
TCAATACAGATTCCTATTGA+AGG - chr2_2:70370538-70370557 Msa0268700:CDS 30.0%
GGTAATATCTATCCTTCAAT+AGG + chr2_2:70370553-70370572 None:intergenic 30.0%
TGGTTGAAAGGAAAAAAAGT+GGG + chr2_2:70370576-70370595 None:intergenic 30.0%
TTGGTTGAAAGGAAAAAAAG+TGG + chr2_2:70370577-70370596 None:intergenic 30.0%
! ATCATTTGAGTTTGGTTGAA+AGG + chr2_2:70370588-70370607 None:intergenic 30.0%
AGGTCTAATTCCTATTACTT+TGG - chr2_2:70370635-70370654 Msa0268700:intron 30.0%
AATAATCCAGCCAAAGTAAT+AGG + chr2_2:70370648-70370667 None:intergenic 30.0%
TTTGGCTGGATTATTTGTAA+CGG - chr2_2:70370653-70370672 Msa0268700:intron 30.0%
TCATGTCAATTGCCAATTCT+TGG - chr2_2:70370499-70370518 Msa0268700:CDS 35.0%
GAATCTCAATGACCAAGAAT+TGG + chr2_2:70370514-70370533 None:intergenic 35.0%
TTCTTGGTCATTGAGATTCA+CGG - chr2_2:70370515-70370534 Msa0268700:CDS 35.0%
GTTGAAAGGAAAAAAAGTGG+GGG + chr2_2:70370574-70370593 None:intergenic 35.0%
GGTTGAAAGGAAAAAAAGTG+GGG + chr2_2:70370575-70370594 None:intergenic 35.0%
! TCTCTATTTGGAATCGTGTT+AGG - chr2_2:70370615-70370634 Msa0268700:five_prime_UTR 35.0%
CTAATTCCTATTACTTTGGC+TGG - chr2_2:70370639-70370658 Msa0268700:intron 35.0%
GCATATTTACAATATCGACG+TGG - chr2_2:70370675-70370694 Msa0268700:five_prime_UTR 35.0%
ATATCGACGTGGTGATCAGT+TGG - chr2_2:70370686-70370705 Msa0268700:five_prime_UTR 45.0%
Chromosome Type Strat End Strand Name
chr2_2 gene 70370492 70370713 70370492 ID=Msa0268700;Name=Msa0268700
chr2_2 mRNA 70370492 70370713 70370492 ID=Msa0268700-mRNA-1;Parent=Msa0268700;Name=Msa0268700-mRNA-1;_AED=0.42;_eAED=0.67;_QI=83|0|0|1|0|0|2|0|37
chr2_2 exon 70370669 70370713 70370669 ID=Msa0268700-mRNA-1:exon:22615;Parent=Msa0268700-mRNA-1
chr2_2 exon 70370492 70370640 70370492 ID=Msa0268700-mRNA-1:exon:22614;Parent=Msa0268700-mRNA-1
chr2_2 five_prime_UTR 70370669 70370713 70370669 ID=Msa0268700-mRNA-1:five_prime_utr;Parent=Msa0268700-mRNA-1
chr2_2 five_prime_UTR 70370603 70370640 70370603 ID=Msa0268700-mRNA-1:five_prime_utr;Parent=Msa0268700-mRNA-1
chr2_2 CDS 70370492 70370602 70370492 ID=Msa0268700-mRNA-1:cds;Parent=Msa0268700-mRNA-1
Gene Sequence

>Msa0268700

ATGATTGAAGTTTCTCTATTTGGAATCGTGTTAGGTCTAATTCCTATTACTTTGGCTGGATTATTTGTAACGGCATATTTACAATATCGACGTGGTGATCAGTTGGATATT

Protein sequence

>Msa0268700

MIEVSLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDI