AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene050359


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 22 sgRNAs with CRISPR-Local

Find 23 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTGGACAAGATTCTCTTAT+TGG 0.169877 1.2:-64906953 MS.gene050359:CDS
TTCCTCATCAGGCTGTTTGC+TGG 0.368418 1.2:+64906856 None:intergenic
ACAGCCTGATGAGGAATTCT+TGG 0.370002 1.2:-64906849 MS.gene050359:CDS
AGTTCATCTGCCTGTATCTC+AGG 0.383485 1.2:+64906995 None:intergenic
TGCTTCTGAGACTGCAAAGC+AGG 0.410534 1.2:-64907053 MS.gene050359:CDS
CATTGAAGTTCCTGAGATAC+AGG 0.433135 1.2:-64907005 MS.gene050359:CDS
AAAGAAGTTACGGATAACTT+TGG 0.441223 1.2:-64906971 MS.gene050359:CDS
CTTATTGGAGAGGGATCCTA+TGG 0.446332 1.2:-64906938 MS.gene050359:CDS
CTGTATCTCAGGAACTTCAA+TGG 0.462128 1.2:+64907006 None:intergenic
TGTATCTCAGGAACTTCAAT+GGG 0.493707 1.2:+64907007 None:intergenic
TGGGCCAAGAATTCCTCATC+AGG 0.502609 1.2:+64906845 None:intergenic
AGATGAACTAAAAGAAGTTA+CGG 0.504386 1.2:-64906981 MS.gene050359:CDS
CGGAGTTCTTAAAAGTGGGC+AGG 0.504728 1.2:-64906903 MS.gene050359:CDS
TCCTATGGAAGAGTATATTA+CGG 0.506028 1.2:-64906923 MS.gene050359:CDS
TATTACGGAGTTCTTAAAAG+TGG 0.520090 1.2:-64906908 MS.gene050359:CDS
CAAGATTCTCTTATTGGAGA+GGG 0.543469 1.2:-64906947 MS.gene050359:CDS
ATTACGGAGTTCTTAAAAGT+GGG 0.559389 1.2:-64906907 MS.gene050359:CDS
TGATGAGGAATTCTTGGCCC+AGG 0.560419 1.2:-64906843 None:intergenic
GCTTCTGAGACTGCAAAGCA+GGG 0.589080 1.2:-64907052 MS.gene050359:CDS
ACAAGATTCTCTTATTGGAG+AGG 0.607728 1.2:-64906948 MS.gene050359:CDS
TCCGTAATATACTCTTCCAT+AGG 0.629281 1.2:+64906922 None:intergenic
TGCCAGCAAACAGCCTGATG+AGG 0.629888 1.2:-64906858 MS.gene050359:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AGATGAACTAAAAGAAGTTA+CGG - chr1.2:64906935-64906954 MS.gene050359:CDS 25.0%
AAAGAAGTTACGGATAACTT+TGG - chr1.2:64906945-64906964 MS.gene050359:CDS 30.0%
ATTACGGAGTTCTTAAAAGT+GGG - chr1.2:64907009-64907028 MS.gene050359:CDS 30.0%
TATTACGGAGTTCTTAAAAG+TGG - chr1.2:64907008-64907027 MS.gene050359:CDS 30.0%
TTTGGACAAGATTCTCTTAT+TGG - chr1.2:64906963-64906982 MS.gene050359:CDS 30.0%
! TCCTATGGAAGAGTATATTA+CGG - chr1.2:64906993-64907012 MS.gene050359:CDS 30.0%
ACAAGATTCTCTTATTGGAG+AGG - chr1.2:64906968-64906987 MS.gene050359:CDS 35.0%
CAAGATTCTCTTATTGGAGA+GGG - chr1.2:64906969-64906988 MS.gene050359:CDS 35.0%
TCCGTAATATACTCTTCCAT+AGG + chr1.2:64906997-64907016 None:intergenic 35.0%
TGTATCTCAGGAACTTCAAT+GGG + chr1.2:64906912-64906931 None:intergenic 35.0%
CATTGAAGTTCCTGAGATAC+AGG - chr1.2:64906911-64906930 MS.gene050359:CDS 40.0%
CTGTATCTCAGGAACTTCAA+TGG + chr1.2:64906913-64906932 None:intergenic 40.0%
ACAGCCTGATGAGGAATTCT+TGG - chr1.2:64907067-64907086 MS.gene050359:CDS 45.0%
AGTTCATCTGCCTGTATCTC+AGG + chr1.2:64906924-64906943 None:intergenic 45.0%
CTTATTGGAGAGGGATCCTA+TGG - chr1.2:64906978-64906997 MS.gene050359:CDS 45.0%
CGGAGTTCTTAAAAGTGGGC+AGG - chr1.2:64907013-64907032 MS.gene050359:CDS 50.0%
GATGAGGAATTCTTGGCCCA+GGG - chr1.2:64907074-64907093 MS.gene050359:CDS 50.0%
TGATGAGGAATTCTTGGCCC+AGG - chr1.2:64907073-64907092 MS.gene050359:CDS 50.0%
TGGGCCAAGAATTCCTCATC+AGG + chr1.2:64907074-64907093 None:intergenic 50.0%
TTCCTCATCAGGCTGTTTGC+TGG + chr1.2:64907063-64907082 None:intergenic 50.0%
!! GCTTCTGAGACTGCAAAGCA+GGG - chr1.2:64906864-64906883 MS.gene050359:CDS 50.0%
!! TGCTTCTGAGACTGCAAAGC+AGG - chr1.2:64906863-64906882 MS.gene050359:CDS 50.0%
TGCCAGCAAACAGCCTGATG+AGG - chr1.2:64907058-64907077 MS.gene050359:CDS 55.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 64906844 64907094 64906844 ID=MS.gene050359
chr1.2 mRNA 64906844 64907094 64906844 ID=MS.gene050359.t1;Parent=MS.gene050359
chr1.2 exon 64906844 64907094 64906844 ID=MS.gene050359.t1.exon1;Parent=MS.gene050359.t1
chr1.2 CDS 64906844 64907094 64906844 ID=cds.MS.gene050359.t1;Parent=MS.gene050359.t1
Gene Sequence

>MS.gene050359

GGAATGATGGAAATTATCATGCTTCTGAGACTGCAAAGCAGGGAGCTCAGACTGTTAAAGTGCAACCCATTGAAGTTCCTGAGATACAGGCAGATGAACTAAAAGAAGTTACGGATAACTTTGGACAAGATTCTCTTATTGGAGAGGGATCCTATGGAAGAGTATATTACGGAGTTCTTAAAAGTGGGCAGGCTGCAGCAATCAAGAAGTTAGATGCCAGCAAACAGCCTGATGAGGAATTCTTGGCCCAG

Protein sequence

>MS.gene050359.t1

GMMEIIMLLRLQSRELRLLKCNPLKFLRYRQMNUKKLRITLDKILLLERDPMEEYITEFLKVGRLQQSRSUMPANSLMRNSWP