AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene55024

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 31 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGATCAGTGTAAGGCAATT+TGG 0.228687 7.2:+24497631 MS.gene55024:CDS
GTCTACCAATGGAGAGGATT+TGG 0.264471 7.2:+24497763 MS.gene55024:CDS
TCTACCAATGGAGAGGATTT+GGG 0.310714 7.2:+24497764 MS.gene55024:CDS
GAAGCTTCATTGCTCATATC+TGG 0.338136 7.2:-24497798 None:intergenic
CAGTGGCTCATAGGACCTTC+TGG 0.346451 7.2:-24497588 None:intergenic
TGATCAGTGTAAGGCAATTT+GGG 0.366956 7.2:+24497632 MS.gene55024:CDS
GTACCTTACTTTGGAGTTTG+TGG 0.381746 7.2:+24497740 MS.gene55024:CDS
AACGAGTTAATCACCATTCC+TGG 0.388834 7.2:-24497835 None:intergenic
TCTATCTTGCAGTGGCTCAT+AGG 0.404363 7.2:-24497597 None:intergenic
TACCTTACTTTGGAGTTTGT+GGG 0.423061 7.2:+24497741 MS.gene55024:CDS
TCTTGAGGATGATCAGTGTA+AGG 0.470969 7.2:+24497623 MS.gene55024:CDS
CTTCTACCTCTCGAGTATCC+AGG 0.495212 7.2:+24497817 MS.gene55024:CDS
GGAGCTGAAAGGTGAGACTC+TGG 0.501297 7.2:+24497653 MS.gene55024:CDS
CCTCATTTGTAGTGCGAACA+AGG 0.509994 7.2:-24497686 None:intergenic
GAAGGTAGAGTACCTTACTT+TGG 0.514894 7.2:+24497731 MS.gene55024:CDS
GGAGTTTGTGGGTCTACCAA+TGG 0.516668 7.2:+24497752 MS.gene55024:CDS
GACCCACAAACTCCAAAGTA+AGG 0.517101 7.2:-24497743 None:intergenic
ATTTGTAGTGCGAACAAGGC+CGG 0.534580 7.2:-24497682 None:intergenic
GCTCCCCAAATCCTCTCCAT+TGG 0.554872 7.2:-24497768 None:intergenic
CCTTGTTCGCACTACAAATG+AGG 0.557277 7.2:+24497686 MS.gene55024:CDS
ACCTCTCGAGTATCCAGGAA+TGG 0.576121 7.2:+24497822 MS.gene55024:CDS
CTACCAATGGAGAGGATTTG+GGG 0.599763 7.2:+24497765 MS.gene55024:CDS
CGCACTACAAATGAGGTCGA+TGG 0.605943 7.2:+24497693 MS.gene55024:CDS
CTGCAAGATAGAGTTTCTTG+AGG 0.626115 7.2:+24497608 MS.gene55024:CDS
TTGTGGGTCTACCAATGGAG+AGG 0.626640 7.2:+24497757 MS.gene55024:CDS
TTCCTACAGATGTTGCCAGA+AGG 0.629071 7.2:+24497573 None:intergenic
AAGGCAATTTGGGAGCTGAA+AGG 0.638835 7.2:+24497642 MS.gene55024:CDS
CAAGAAACTCTATCTTGCAG+TGG 0.642358 7.2:-24497605 None:intergenic
ACCATTCCTGGATACTCGAG+AGG 0.658945 7.2:-24497823 None:intergenic
GGTGAGACTCTGGTTTACAC+CGG 0.688295 7.2:+24497663 MS.gene55024:CDS
TGGTTTGCTTGTGAGCACGA+AGG 0.691002 7.2:+24497713 MS.gene55024:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATGATCAGTGTAAGGCAATT+TGG + chr7.2:24497631-24497650 MS.gene55024:CDS 35.0%
TGATCAGTGTAAGGCAATTT+GGG + chr7.2:24497632-24497651 MS.gene55024:CDS 35.0%
!! TACCTTACTTTGGAGTTTGT+GGG + chr7.2:24497741-24497760 MS.gene55024:CDS 35.0%
CAAGAAACTCTATCTTGCAG+TGG - chr7.2:24497608-24497627 None:intergenic 40.0%
CTGCAAGATAGAGTTTCTTG+AGG + chr7.2:24497608-24497627 MS.gene55024:CDS 40.0%
GAAGCTTCATTGCTCATATC+TGG - chr7.2:24497801-24497820 None:intergenic 40.0%
TCTACCAATGGAGAGGATTT+GGG + chr7.2:24497764-24497783 MS.gene55024:CDS 40.0%
TCTTGAGGATGATCAGTGTA+AGG + chr7.2:24497623-24497642 MS.gene55024:CDS 40.0%
! GAAGGTAGAGTACCTTACTT+TGG + chr7.2:24497731-24497750 MS.gene55024:CDS 40.0%
!! GTACCTTACTTTGGAGTTTG+TGG + chr7.2:24497740-24497759 MS.gene55024:CDS 40.0%
AAGGCAATTTGGGAGCTGAA+AGG + chr7.2:24497642-24497661 MS.gene55024:CDS 45.0%
ATTTGTAGTGCGAACAAGGC+CGG - chr7.2:24497685-24497704 None:intergenic 45.0%
CCTCATTTGTAGTGCGAACA+AGG - chr7.2:24497689-24497708 None:intergenic 45.0%
CCTTGTTCGCACTACAAATG+AGG + chr7.2:24497686-24497705 MS.gene55024:CDS 45.0%
CTACCAATGGAGAGGATTTG+GGG + chr7.2:24497765-24497784 MS.gene55024:CDS 45.0%
GACCCACAAACTCCAAAGTA+AGG - chr7.2:24497746-24497765 None:intergenic 45.0%
GTCTACCAATGGAGAGGATT+TGG + chr7.2:24497763-24497782 MS.gene55024:CDS 45.0%
TCTATCTTGCAGTGGCTCAT+AGG - chr7.2:24497600-24497619 None:intergenic 45.0%
ACCATTCCTGGATACTCGAG+AGG - chr7.2:24497826-24497845 None:intergenic 50.0%
ACCTCTCGAGTATCCAGGAA+TGG + chr7.2:24497822-24497841 MS.gene55024:CDS 50.0%
CGCACTACAAATGAGGTCGA+TGG + chr7.2:24497693-24497712 MS.gene55024:CDS 50.0%
CTTCTACCTCTCGAGTATCC+AGG + chr7.2:24497817-24497836 MS.gene55024:CDS 50.0%
GGAGTTTGTGGGTCTACCAA+TGG + chr7.2:24497752-24497771 MS.gene55024:CDS 50.0%
TTGTGGGTCTACCAATGGAG+AGG + chr7.2:24497757-24497776 MS.gene55024:CDS 50.0%
! GGTGAGACTCTGGTTTACAC+CGG + chr7.2:24497663-24497682 MS.gene55024:CDS 50.0%
!! TGGTTTGCTTGTGAGCACGA+AGG + chr7.2:24497713-24497732 MS.gene55024:CDS 50.0%
CAGTGGCTCATAGGACCTTC+TGG - chr7.2:24497591-24497610 None:intergenic 55.0%
GCTCCCCAAATCCTCTCCAT+TGG - chr7.2:24497771-24497790 None:intergenic 55.0%
GGAGCTGAAAGGTGAGACTC+TGG + chr7.2:24497653-24497672 MS.gene55024:CDS 55.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 24497582 24497851 24497582 ID=MS.gene55024
chr7.2 mRNA 24497582 24497851 24497582 ID=MS.gene55024.t1;Parent=MS.gene55024
chr7.2 exon 24497582 24497851 24497582 ID=MS.gene55024.t1.exon1;Parent=MS.gene55024.t1
chr7.2 CDS 24497582 24497851 24497582 ID=cds.MS.gene55024.t1;Parent=MS.gene55024.t1
Gene Sequence

>MS.gene55024

ATGTTGCCAGAAGGTCCTATGAGCCACTGCAAGATAGAGTTTCTTGAGGATGATCAGTGTAAGGCAATTTGGGAGCTGAAAGGTGAGACTCTGGTTTACACCGGCCTTGTTCGCACTACAAATGAGGTCGATGGTTTGCTTGTGAGCACGAAGGTAGAGTACCTTACTTTGGAGTTTGTGGGTCTACCAATGGAGAGGATTTGGGGAGCTTTACATCCAGATATGAGCAATGAAGCTTCTACCTCTCGAGTATCCAGGAATGGTGATTAA
Protein sequence

>MS.gene55024.t1

MLPEGPMSHCKIEFLEDDQCKAIWELKGETLVYTGLVRTTNEVDGLLVSTKVEYLTLEFVGLPMERIWGALHPDMSNEASTSRVSRNGD