AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene065710

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene065710.t1 MTR_1g058090 92.308 91 5 1 1 89 1 91 6.91e-58 172
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 23 sgRNAs with CRISPR-Local

Find 24 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTAGTGATCATTTCTTTCA+TGG 0.293801 1.2:-45680887 None:intergenic
AGGAGGAGAAGAAATTGATT+TGG 0.338250 1.2:+45680963 MS.gene065710:CDS
TCTCCTCCTTGACTTGGACT+TGG 0.356989 1.2:-45680949 None:intergenic
ATTTCTTCTCCTCCTTGACT+TGG 0.410406 1.2:-45680955 None:intergenic
TCCTTGACTTGGACTTGGAT+TGG 0.422024 1.2:-45680944 None:intergenic
GACTCTCATGTGACCATTCA+AGG 0.426545 1.2:-45680842 None:intergenic
AGACTTATAACTTGAGGTCT+AGG 0.432547 1.2:-45681032 None:intergenic
TCAAGAGTGAATGCCTTGAA+TGG 0.452902 1.2:+45680829 MS.gene065710:CDS
GTGCTAGGAGTAGCCTTGGT+TGG 0.456915 1.2:-45681000 None:intergenic
GGCTACTCCTAGCACTAAGT+TGG 0.507989 1.2:+45681008 MS.gene065710:CDS
CTTCATAGACTTATAACTTG+AGG 0.541664 1.2:-45681038 None:intergenic
CTTAGTGCTAGGAGTAGCCT+TGG 0.543078 1.2:-45681004 None:intergenic
TTTGGTTCTTCGCCTCATGT+TGG 0.548092 1.2:-45680915 None:intergenic
ATGAATTTCCCTATGATCCA+TGG 0.571015 1.2:-45680779 None:intergenic
ATTGATTTGGAACTAAGACT+TGG 0.574413 1.2:+45680976 MS.gene065710:CDS
TCTAGGTCCAACTTAGTGCT+AGG 0.576797 1.2:-45681015 None:intergenic
ATGGTCACATGAGAGTCCAC+AGG 0.587507 1.2:+45680848 MS.gene065710:CDS
ACCAATCCAAGTCCAAGTCA+AGG 0.611700 1.2:+45680943 MS.gene065710:CDS
TGGTCACATGAGAGTCCACA+GGG 0.650216 1.2:+45680849 MS.gene065710:CDS
CACTACTCTCAACCAACATG+AGG 0.659174 1.2:+45680903 MS.gene065710:CDS
ACTAAGACTTGGTCCAACCA+AGG 0.676612 1.2:+45680987 MS.gene065710:CDS
AATCCAAGTCCAAGTCAAGG+AGG 0.729846 1.2:+45680946 MS.gene065710:CDS
TCACATGAGAGTCCACAGGG+AGG 0.780305 1.2:+45680852 MS.gene065710:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AGTAGTGATCATTTCTTTCA+TGG - chr1.2:45680890-45680909 None:intergenic 30.0%
!! ATTGATTTGGAACTAAGACT+TGG + chr1.2:45680976-45680995 MS.gene065710:CDS 30.0%
AGGAGGAGAAGAAATTGATT+TGG + chr1.2:45680963-45680982 MS.gene065710:CDS 35.0%
CATTCACTCTTGAAAAAGTC+AGG - chr1.2:45680822-45680841 None:intergenic 35.0%
ATTTCTTCTCCTCCTTGACT+TGG - chr1.2:45680958-45680977 None:intergenic 40.0%
TCAAGAGTGAATGCCTTGAA+TGG + chr1.2:45680829-45680848 MS.gene065710:CDS 40.0%
!!! GACTTGGATTGGTGACTTTT+TGG - chr1.2:45680936-45680955 None:intergenic 40.0%
AATCCAAGTCCAAGTCAAGG+AGG + chr1.2:45680946-45680965 MS.gene065710:CDS 45.0%
ACCAATCCAAGTCCAAGTCA+AGG + chr1.2:45680943-45680962 MS.gene065710:CDS 45.0%
CACTACTCTCAACCAACATG+AGG + chr1.2:45680903-45680922 MS.gene065710:CDS 45.0%
CCACAGGGAGGAGAAAAATA+AGG + chr1.2:45680864-45680883 MS.gene065710:CDS 45.0%
GACTCTCATGTGACCATTCA+AGG - chr1.2:45680845-45680864 None:intergenic 45.0%
TCTAGGTCCAACTTAGTGCT+AGG - chr1.2:45681018-45681037 None:intergenic 45.0%
! ACTAAGACTTGGTCCAACCA+AGG + chr1.2:45680987-45681006 MS.gene065710:CDS 45.0%
!! TCCTTGACTTGGACTTGGAT+TGG - chr1.2:45680947-45680966 None:intergenic 45.0%
!! TTTGGTTCTTCGCCTCATGT+TGG - chr1.2:45680918-45680937 None:intergenic 45.0%
!!! CCTTATTTTTCTCCTCCCTG+TGG - chr1.2:45680867-45680886 None:intergenic 45.0%
ATGGTCACATGAGAGTCCAC+AGG + chr1.2:45680848-45680867 MS.gene065710:CDS 50.0%
CTTAGTGCTAGGAGTAGCCT+TGG - chr1.2:45681007-45681026 None:intergenic 50.0%
GGCTACTCCTAGCACTAAGT+TGG + chr1.2:45681008-45681027 MS.gene065710:CDS 50.0%
TGGTCACATGAGAGTCCACA+GGG + chr1.2:45680849-45680868 MS.gene065710:CDS 50.0%
!! TCTCCTCCTTGACTTGGACT+TGG - chr1.2:45680952-45680971 None:intergenic 50.0%
TCACATGAGAGTCCACAGGG+AGG + chr1.2:45680852-45680871 MS.gene065710:CDS 55.0%
! GTGCTAGGAGTAGCCTTGGT+TGG - chr1.2:45681003-45681022 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 45680781 45681050 45680781 ID=MS.gene065710
chr1.2 mRNA 45680781 45681050 45680781 ID=MS.gene065710.t1;Parent=MS.gene065710
chr1.2 exon 45680781 45681050 45680781 ID=MS.gene065710.t1.exon1;Parent=MS.gene065710.t1
chr1.2 CDS 45680781 45681050 45680781 ID=cds.MS.gene065710.t1;Parent=MS.gene065710.t1
Gene Sequence

>MS.gene065710

ATGGATCATAGGGAAATTCATGCTTGTAAGTTTTGCAACCTGACTTTTTCAAGAGTGAATGCCTTGAATGGTCACATGAGAGTCCACAGGGAGGAGAAAAATAAGGCCATGAAAGAAATGATCACTACTCTCAACCAACATGAGGCGAAGAACCAAAAAGTCACCAATCCAAGTCCAAGTCAAGGAGGAGAAGAAATTGATTTGGAACTAAGACTTGGTCCAACCAAGGCTACTCCTAGCACTAAGTTGGACCTAGACCTCAAGTTATAA
Protein sequence

>MS.gene065710.t1

MDHREIHACKFCNLTFSRVNALNGHMRVHREEKNKAMKEMITTLNQHEAKNQKVTNPSPSQGGEEIDLELRLGPTKATPSTKLDLDLKL