AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0582590


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0582590 MtrunA17_Chr8g0355631 100.000 37 0 0 1 37 35 71 2.22e-20 74.7
Msa0582590 MtrunA17_Chr4g0015761 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa0582590 MtrunA17_CPg0492811 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa0582590 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
Msa0582590 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 4_2:-1102968 Msa0582590:CDS
TCATGTCAATTGCCAATTCT+TGG 0.245809 4_2:-1103072 Msa0582590:five_prime_UTR
AATAATCCAGCCAAAGTAAT+AGG 0.315680 4_2:+1102926 None:intergenic
AAACTTCAATCATTTGAGTT+TGG 0.328054 4_2:+1102978 None:intergenic
CTAATTCCTATTACTTTGGC+TGG 0.352028 4_2:-1102932 Msa0582590:CDS
TCTCTATTTGGAATCGTGTT+AGG 0.358426 4_2:-1102956 Msa0582590:CDS
AGGTCTAATTCCTATTACTT+TGG 0.388074 4_2:-1102936 Msa0582590:CDS
ATCATTTGAGTTTGGTTGAA+AGG 0.406278 4_2:+1102986 None:intergenic
GAATCTCAATGACCAAGAAT+TGG 0.414372 4_2:+1103060 None:intergenic
AATTGGCAATTGACATGATA+AGG 0.448909 4_2:+1103077 None:intergenic
TTCTTGGTCATTGAGATTCA+CGG 0.471290 4_2:-1103056 Msa0582590:intron
ATATCGACGTGGTGATCAGT+TGG 0.572503 4_2:-1102885 Msa0582590:CDS
TTTGGCTGGATTATTTGTAA+CGG 0.592623 4_2:-1102918 Msa0582590:CDS
GCATATTTACAATATCGACG+TGG 0.789819 4_2:-1102896 Msa0582590:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTTCAATCATTTGAGTT+TGG + chr4_2:1102984-1103003 None:intergenic 25.0%
! ATGATTGAAGTTTCTCTATT+TGG - chr4_2:1102991-1103010 Msa0582590:five_prime_UTR 25.0%
AATTGGCAATTGACATGATA+AGG + chr4_2:1102885-1102904 None:intergenic 30.0%
TCAATACAGATTCCTATTGA+AGG - chr4_2:1102926-1102945 Msa0582590:CDS 30.0%
GGTAATATCTATCCTTCAAT+AGG + chr4_2:1102941-1102960 None:intergenic 30.0%
TGGTTGAAAGGAAAAAAAGT+GGG + chr4_2:1102964-1102983 None:intergenic 30.0%
TTGGTTGAAAGGAAAAAAAG+TGG + chr4_2:1102965-1102984 None:intergenic 30.0%
! ATCATTTGAGTTTGGTTGAA+AGG + chr4_2:1102976-1102995 None:intergenic 30.0%
AGGTCTAATTCCTATTACTT+TGG - chr4_2:1103023-1103042 Msa0582590:intron 30.0%
AATAATCCAGCCAAAGTAAT+AGG + chr4_2:1103036-1103055 None:intergenic 30.0%
TTTGGCTGGATTATTTGTAA+CGG - chr4_2:1103041-1103060 Msa0582590:intron 30.0%
TCATGTCAATTGCCAATTCT+TGG - chr4_2:1102887-1102906 Msa0582590:CDS 35.0%
GAATCTCAATGACCAAGAAT+TGG + chr4_2:1102902-1102921 None:intergenic 35.0%
TTCTTGGTCATTGAGATTCA+CGG - chr4_2:1102903-1102922 Msa0582590:CDS 35.0%
GTTGAAAGGAAAAAAAGTGG+GGG + chr4_2:1102962-1102981 None:intergenic 35.0%
GGTTGAAAGGAAAAAAAGTG+GGG + chr4_2:1102963-1102982 None:intergenic 35.0%
! TCTCTATTTGGAATCGTGTT+AGG - chr4_2:1103003-1103022 Msa0582590:five_prime_UTR 35.0%
CTAATTCCTATTACTTTGGC+TGG - chr4_2:1103027-1103046 Msa0582590:intron 35.0%
GCATATTTACAATATCGACG+TGG - chr4_2:1103063-1103082 Msa0582590:five_prime_UTR 35.0%
ATATCGACGTGGTGATCAGT+TGG - chr4_2:1103074-1103093 Msa0582590:five_prime_UTR 45.0%
Chromosome Type Strat End Strand Name
chr4_2 gene 1102880 1103101 1102880 ID=Msa0582590;Name=Msa0582590
chr4_2 mRNA 1102880 1103101 1102880 ID=Msa0582590-mRNA-1;Parent=Msa0582590;Name=Msa0582590-mRNA-1;_AED=0.41;_eAED=0.66;_QI=83|0|0|1|0|0|2|0|37
chr4_2 exon 1103057 1103101 1103057 ID=Msa0582590-mRNA-1:exon:266;Parent=Msa0582590-mRNA-1
chr4_2 exon 1102880 1103028 1102880 ID=Msa0582590-mRNA-1:exon:265;Parent=Msa0582590-mRNA-1
chr4_2 five_prime_UTR 1103057 1103101 1103057 ID=Msa0582590-mRNA-1:five_prime_utr;Parent=Msa0582590-mRNA-1
chr4_2 five_prime_UTR 1102991 1103028 1102991 ID=Msa0582590-mRNA-1:five_prime_utr;Parent=Msa0582590-mRNA-1
chr4_2 CDS 1102880 1102990 1102880 ID=Msa0582590-mRNA-1:cds;Parent=Msa0582590-mRNA-1
Gene Sequence

>Msa0582590

ATGATTGAAGTTTCTCTATTTGGAATCGTGTTAGGTCTAATTCCTATTACTTTGGCTGGATTATTTGTAACGGCATATTTACAATATCGACGTGGTGATCAGTTGGATATT

Protein sequence

>Msa0582590

MIEVSLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDI