AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580024073.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580024073.01.T01 MTR_5g005330 95.775 71 3 0 1 71 1 71 7.10e-43 133
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580024073.01.T01 AT3G19660 56.667 60 23 1 1 60 1 57 8.16e-14 60.1

Find 11 sgRNAs with CRISPR-Local

Find 8 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCTTGTCCATCTTTATGTA+TGG 0.307750 5:+475552 None:intergenic
AATAAGAATAAGAAATTATA+TGG 0.312903 5:+475425 None:intergenic
ATTATTATCAGCAGCTTTCA+AGG 0.340671 5:+475473 None:intergenic
GGCAAATCAGCTGGGAAATC+TGG 0.362379 5:-475631 MsG0580024073.01.T01:CDS
TAGAAGAATGGCAAATCAGC+TGG 0.458624 5:-475640 None:intergenic
AAAGAAGCCATACATAAAGA+TGG 0.499886 5:-475559 MsG0580024073.01.T01:CDS
TCAACGTTGAAGATGAAGAA+AGG 0.541828 5:-475582 MsG0580024073.01.T01:CDS
TTATATGGTGACGTTGTGCT+TGG 0.562507 5:+475440 None:intergenic
GGTAGAGTCAATAAAGTCAA+AGG 0.566789 5:-475610 MsG0580024073.01.T01:CDS
AGAAGAATGGCAAATCAGCT+GGG 0.603317 5:-475639 None:intergenic
GTGACGTTGTGCTTGGTGTG+TGG 0.620978 5:+475447 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAAGAAGCCATACATAAAGA+TGG - Chr5:475514-475533 MsG0580024073.01.T01:CDS 30.0%
ATTATTATCAGCAGCTTTCA+AGG + Chr5:475603-475622 None:intergenic 30.0%
CTCTTGTCCATCTTTATGTA+TGG + Chr5:475524-475543 None:intergenic 35.0%
GGTAGAGTCAATAAAGTCAA+AGG - Chr5:475463-475482 MsG0580024073.01.T01:CDS 35.0%
TCAACGTTGAAGATGAAGAA+AGG - Chr5:475491-475510 MsG0580024073.01.T01:CDS 35.0%
! TTATATGGTGACGTTGTGCT+TGG + Chr5:475636-475655 None:intergenic 40.0%
GGCAAATCAGCTGGGAAATC+TGG - Chr5:475442-475461 MsG0580024073.01.T01:CDS 50.0%
!! GTGACGTTGTGCTTGGTGTG+TGG + Chr5:475629-475648 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr5 gene 475440 475655 475440 ID=MsG0580024073.01;Name=MsG0580024073.01
Chr5 mRNA 475440 475655 475440 ID=MsG0580024073.01.T01;Parent=MsG0580024073.01;Name=MsG0580024073.01.T01;_AED=0.41;_eAED=0.41;_QI=0|-1|0|1|-1|1|1|0|71
Chr5 exon 475440 475655 475440 ID=MsG0580024073.01.T01:exon:23078;Parent=MsG0580024073.01.T01
Chr5 CDS 475440 475655 475440 ID=MsG0580024073.01.T01:cds;Parent=MsG0580024073.01.T01
Gene Sequence

>MsG0580024073.01.T01

ATGGCAAATCAGCTGGGAAATCTGGTAGAGTCAATAAAGTCAAAGGTGAAGTCAACGTTGAAGATGAAGAAAGGAAAGAAGCCATACATAAAGATGGACAAGAGTGCAAGTGTGAAGATTGAGATTCGAAGCAGAAAAGCTCGTAAGCTTATTGAAAAGACCTTGAAAGCTGCTGATAATAATATTCCACACACCAAGCACAACGTCACCATATAA

Protein sequence

>MsG0580024073.01.T01

MANQLGNLVESIKSKVKSTLKMKKGKKPYIKMDKSASVKIEIRSRKARKLIEKTLKAADNNIPHTKHNVTI*