AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680030906.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 13 sgRNAs with CRISPR-Local

Find 17 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTCAGGTCCCATCCTTTC+AGG 0.164802 6:-11401891 MsG0680030906.01.T01:CDS
TTTATTTCATTCACTTGTTT+TGG 0.234633 6:-11401919 MsG0680030906.01.T01:CDS
ATATAGATGATGGGTTTGAT+TGG 0.393563 6:-11401795 MsG0680030906.01.T01:CDS
GATGATGGGTTTGATTGGTT+TGG 0.407984 6:-11401790 MsG0680030906.01.T01:CDS
GGTTTGGTGATGAAGTTTGC+TGG 0.429867 6:-11401774 MsG0680030906.01.T01:CDS
TTGACAAATTCCTGAAAGGA+TGG 0.507451 6:+11401881 None:intergenic
TTTGGTTACATATAGATGAT+GGG 0.522179 6:-11401804 MsG0680030906.01.T01:CDS
AGCACGACGTTGATTGTGAA+AGG 0.588604 6:-11401709 MsG0680030906.01.T01:CDS
AGACGCATTGAGAAAATCAA+AGG 0.589980 6:-11401988 MsG0680030906.01.T01:CDS
GAATTCAAACACAAAATCAT+CGG 0.605670 6:+11401849 None:intergenic
ACAGTTGACAAATTCCTGAA+AGG 0.607677 6:+11401877 None:intergenic
TGACAAATTCCTGAAAGGAT+GGG 0.614992 6:+11401882 None:intergenic
TCCGAAAATCAAGAATGCAG+AGG 0.649659 6:+11401738 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTATTTCATTCACTTGTTT+TGG - Chr6:11401825-11401844 MsG0680030906.01.T01:CDS 20.0%
! GAATTCAAACACAAAATCAT+CGG + Chr6:11401898-11401917 None:intergenic 25.0%
! TTTGGTTACATATAGATGAT+GGG - Chr6:11401940-11401959 MsG0680030906.01.T01:CDS 25.0%
!!! CTTGCTATGATTTTCAATTT+TGG - Chr6:11401922-11401941 MsG0680030906.01.T01:CDS 25.0%
!!! TTTTGGTTACATATAGATGA+TGG - Chr6:11401939-11401958 MsG0680030906.01.T01:CDS 25.0%
!! ATATAGATGATGGGTTTGAT+TGG - Chr6:11401949-11401968 MsG0680030906.01.T01:CDS 30.0%
ACAGTTGACAAATTCCTGAA+AGG + Chr6:11401870-11401889 None:intergenic 35.0%
AGACGCATTGAGAAAATCAA+AGG - Chr6:11401756-11401775 MsG0680030906.01.T01:CDS 35.0%
TGACAAATTCCTGAAAGGAT+GGG + Chr6:11401865-11401884 None:intergenic 35.0%
TTGACAAATTCCTGAAAGGA+TGG + Chr6:11401866-11401885 None:intergenic 35.0%
! TCCTCTGCATTCTTGATTTT+CGG - Chr6:11402005-11402024 MsG0680030906.01.T01:CDS 35.0%
!!! CTTGTTTTGGTTCAATTCTC+AGG - Chr6:11401838-11401857 MsG0680030906.01.T01:CDS 35.0%
TCCGAAAATCAAGAATGCAG+AGG + Chr6:11402009-11402028 None:intergenic 40.0%
!! GATGATGGGTTTGATTGGTT+TGG - Chr6:11401954-11401973 MsG0680030906.01.T01:CDS 40.0%
! AGCACGACGTTGATTGTGAA+AGG - Chr6:11402035-11402054 MsG0680030906.01.T01:CDS 45.0%
!! GGTTTGGTGATGAAGTTTGC+TGG - Chr6:11401970-11401989 MsG0680030906.01.T01:CDS 45.0%
TTCTCAGGTCCCATCCTTTC+AGG - Chr6:11401853-11401872 MsG0680030906.01.T01:CDS 50.0%
Chromosome Type Strat End Strand Name
Chr6 gene 11401699 11402067 11401699 ID=MsG0680030906.01;Name=MsG0680030906.01
Chr6 mRNA 11401699 11402067 11401699 ID=MsG0680030906.01.T01;Parent=MsG0680030906.01;Name=MsG0680030906.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|122
Chr6 exon 11401699 11402067 11401699 ID=MsG0680030906.01.T01:exon:8475;Parent=MsG0680030906.01.T01
Chr6 CDS 11401699 11402067 11401699 ID=MsG0680030906.01.T01:cds;Parent=MsG0680030906.01.T01
Gene Sequence

>MsG0680030906.01.T01

ATGATAGTGATTCTGAAAGTTCACATGTATTGTGAAGCTTGTTCACAAGAAATCAAGAGACGCATTGAGAAAATCAAAGGTATGTTACTGTGTTCTGTTTTGATTGAAATTCATATTTTCTTCACTTTTATTTCATTCACTTGTTTTGGTTCAATTCTCAGGTCCCATCCTTTCAGGAATTTGTCAACTGTTACTACCGATGATTTTGTGTTTGAATTCGAATCTTGCTATGATTTTCAATTTTGGTTACATATAGATGATGGGTTTGATTGGTTTGGTGATGAAGTTTGCTGGAGATTTTCAAGTTCCTCTGCATTCTTGATTTTCGGAAGAAAAAGCACGACGTTGATTGTGAAAGGACGACGTTGA
Protein sequence

>MsG0680030906.01.T01

MIVILKVHMYCEACSQEIKRRIEKIKGMLLCSVLIEIHIFFTFISFTCFGSILRSHPFRNLSTVTTDDFVFEFESCYDFQFWLHIDDGFDWFGDEVCWRFSSSSAFLIFGRKSTTLIVKGRR*