AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1158310


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 19 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACGAAGACGGTGATGGGTTT+TGG 0.278053 7_4:+47588378 Msa1158310:CDS
AATCACATCTATCTTGGATT+TGG 0.279348 7_4:-47588243 None:intergenic
ATTCTTAATCACATCTATCT+TGG 0.309134 7_4:-47588249 None:intergenic
AGCTGTGAACGCACGCGCCT+TGG 0.353951 7_4:-47588327 None:intergenic
TGGCTTCTTGCGATTCCTCA+AGG 0.523121 7_4:-47588307 None:intergenic
GAAACATAGTAGATCTGAGA+AGG 0.527259 7_4:+47588277 Msa1158310:CDS
GAGTTGACGAAGACGGTGAT+GGG 0.529556 7_4:+47588372 Msa1158310:CDS
AGAGTTGACGAAGACGGTGA+TGG 0.546853 7_4:+47588371 Msa1158310:CDS
GCTTGTGACAAAACTTATGA+CGG 0.595410 7_4:+47588048 Msa1158310:CDS
TGAGGAATCGCAAGAAGCCA+AGG 0.595901 7_4:+47588310 Msa1158310:CDS
AGAGAAAGAGTTGACGAAGA+CGG 0.626905 7_4:+47588365 Msa1158310:CDS
AAACATAGTAGATCTGAGAA+GGG 0.640880 7_4:+47588278 Msa1158310:CDS
TGAGAAGGGTGAATACCTTG+AGG 0.654845 7_4:+47588292 Msa1158310:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTATTTGTGCATTACTTT+AGG - chr7_4:47588171-47588190 None:intergenic 20.0%
!!! TTAATTTTGAAGGTATTGAG+TGG - chr7_4:47588201-47588220 None:intergenic 25.0%
! ACCTTCAAAATTAAATCAAC+AGG + chr7_4:47588207-47588226 Msa1158310:intron 25.0%
!!! TCCTGTTGATTTAATTTTGA+AGG - chr7_4:47588211-47588230 None:intergenic 25.0%
! ATTCTTAATCACATCTATCT+TGG - chr7_4:47588252-47588271 None:intergenic 25.0%
AATCACATCTATCTTGGATT+TGG - chr7_4:47588246-47588265 None:intergenic 30.0%
AAACATAGTAGATCTGAGAA+GGG + chr7_4:47588278-47588297 Msa1158310:CDS 30.0%
GCTTGTGACAAAACTTATGA+CGG + chr7_4:47588048-47588067 Msa1158310:CDS 35.0%
! GTACTGTCATCGATTACTTT+AGG - chr7_4:47588127-47588146 None:intergenic 35.0%
GAAACATAGTAGATCTGAGA+AGG + chr7_4:47588277-47588296 Msa1158310:CDS 35.0%
! GATCTGTTGCTGCTGAATTT+TGG - chr7_4:47588149-47588168 None:intergenic 40.0%
AGAGAAAGAGTTGACGAAGA+CGG + chr7_4:47588365-47588384 Msa1158310:CDS 40.0%
TGAGAAGGGTGAATACCTTG+AGG + chr7_4:47588292-47588311 Msa1158310:CDS 45.0%
TGGCTTCTTGCGATTCCTCA+AGG - chr7_4:47588310-47588329 None:intergenic 50.0%
TGAGGAATCGCAAGAAGCCA+AGG + chr7_4:47588310-47588329 Msa1158310:CDS 50.0%
AGAGTTGACGAAGACGGTGA+TGG + chr7_4:47588371-47588390 Msa1158310:CDS 50.0%
GAGTTGACGAAGACGGTGAT+GGG + chr7_4:47588372-47588391 Msa1158310:CDS 50.0%
!!! ACGAAGACGGTGATGGGTTT+TGG + chr7_4:47588378-47588397 Msa1158310:CDS 50.0%
AGCTGTGAACGCACGCGCCT+TGG - chr7_4:47588330-47588349 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
chr7_4 gene 47588045 47588409 47588045 ID=Msa1158310;Name=Msa1158310
chr7_4 mRNA 47588045 47588409 47588045 ID=Msa1158310-mRNA-1;Parent=Msa1158310;Name=Msa1158310-mRNA-1;_AED=0.49;_eAED=0.48;_QI=0|0|0|0.5|1|1|2|0|71
chr7_4 exon 47588045 47588079 47588045 ID=Msa1158310-mRNA-1:exon:12698;Parent=Msa1158310-mRNA-1
chr7_4 exon 47588229 47588409 47588229 ID=Msa1158310-mRNA-1:exon:12699;Parent=Msa1158310-mRNA-1
chr7_4 CDS 47588045 47588079 47588045 ID=Msa1158310-mRNA-1:cds;Parent=Msa1158310-mRNA-1
chr7_4 CDS 47588229 47588409 47588229 ID=Msa1158310-mRNA-1:cds;Parent=Msa1158310-mRNA-1
Gene Sequence

>Msa1158310

ATGGCTTGTGACAAAACTTATGACGGAAAAGTTCAGAACAACAATTTAACCAAATCCAAGATAGATGTGATTAAGAATTTAAAGAAACATAGTAGATCTGAGAAGGGTGAATACCTTGAGGAATCGCAAGAAGCCAAGGCGCGTGCGTTCACAGCTCAGCGATTCGCGATGAGAGAAAGAGTTGACGAAGACGGTGATGGGTTTTGGTTCTTCTAA

Protein sequence

>Msa1158310

MACDKTYDGKVQNNNLTKSKIDVIKNLKKHSRSEKGEYLEESQEAKARAFTAQRFAMRERVDEDGDGFWFF*