AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene57340

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene57340.t1 MTR_8g089830 93.458 107 7 0 1 107 1 107 1.05e-72 211
MS.gene57340.t1 MTR_8g089825 75.238 105 21 4 1 103 1 102 2.15e-49 152
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 26 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATTGTTGTGGTTTCGGTTT+TGG 0.230297 4.2:-11663743 None:intergenic
ACCCGTAATTGTTGTGGTTT+CGG 0.263916 4.2:-11663749 None:intergenic
AACCGAAACCACAACAATTA+CGG 0.350207 4.2:+11663747 MS.gene57340:CDS
GATTGATCTTCCTCAACTAT+TGG 0.360870 4.2:-11663855 None:intergenic
CCTCATTGATGACATGAGTT+TGG 0.382010 4.2:-11664027 None:intergenic
ACCGAAACCACAACAATTAC+GGG 0.390353 4.2:+11663748 MS.gene57340:CDS
AGATCAATCCTACTATTTAG+AGG 0.394992 4.2:+11663869 MS.gene57340:CDS
TTACGAACCCGCATACTATC+CGG 0.409986 4.2:+11663791 MS.gene57340:CDS
TACGAACCCGCATACTATCC+GGG 0.436849 4.2:+11663792 MS.gene57340:CDS
ACGACGAACCTCTAAATAGT+AGG 0.482372 4.2:-11663877 None:intergenic
AGACCGATCGACGAGGTTTG+AGG 0.483942 4.2:+11663913 MS.gene57340:CDS
GATCGACGAGGTTTGAGGTA+TGG 0.517220 4.2:+11663918 MS.gene57340:CDS
GCGTCGTGTTGCAATATATG+AGG 0.518107 4.2:+11663830 MS.gene57340:CDS
ATACCTCAAACCTCGTCGAT+CGG 0.542925 4.2:-11663916 None:intergenic
TTATTCAACACGAGCATAGG+AGG 0.567055 4.2:+11663994 MS.gene57340:CDS
CAAACTCATGTCATCAATGA+GGG 0.571315 4.2:+11664028 MS.gene57340:CDS
GACTCCACCCGTAATTGTTG+TGG 0.580902 4.2:-11663755 None:intergenic
GTGATGCCCCGGATAGTATG+CGG 0.591042 4.2:-11663799 None:intergenic
CCAAACTCATGTCATCAATG+AGG 0.606593 4.2:+11664027 MS.gene57340:CDS
TGATGCCCCGGATAGTATGC+GGG 0.606955 4.2:-11663798 None:intergenic
ATATGAGGAACCAATAGTTG+AGG 0.635820 4.2:+11663845 MS.gene57340:CDS
TCAACACGAGCATAGGAGGA+CGG 0.662040 4.2:+11663998 MS.gene57340:CDS
GAAACCACAACAATTACGGG+TGG 0.673197 4.2:+11663751 MS.gene57340:CDS
ACGAACCCGCATACTATCCG+GGG 0.673282 4.2:+11663793 MS.gene57340:CDS
GAGACTGAGACCGATCGACG+AGG 0.700755 4.2:+11663906 MS.gene57340:CDS
AAGTGTTGATGAAGAAGCTG+AGG 0.703686 4.2:+11663968 MS.gene57340:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AGATCAATCCTACTATTTAG+AGG + chr4.2:11663869-11663888 MS.gene57340:CDS 30.0%
AACCGAAACCACAACAATTA+CGG + chr4.2:11663747-11663766 MS.gene57340:CDS 35.0%
ATATGAGGAACCAATAGTTG+AGG + chr4.2:11663845-11663864 MS.gene57340:CDS 35.0%
CAAACTCATGTCATCAATGA+GGG + chr4.2:11664028-11664047 MS.gene57340:CDS 35.0%
GATTGATCTTCCTCAACTAT+TGG - chr4.2:11663858-11663877 None:intergenic 35.0%
! AATTGTTGTGGTTTCGGTTT+TGG - chr4.2:11663746-11663765 None:intergenic 35.0%
! CTTTTATTCAACACGAGCAT+AGG + chr4.2:11663991-11664010 MS.gene57340:CDS 35.0%
ACCCGTAATTGTTGTGGTTT+CGG - chr4.2:11663752-11663771 None:intergenic 40.0%
ACCGAAACCACAACAATTAC+GGG + chr4.2:11663748-11663767 MS.gene57340:CDS 40.0%
ACGACGAACCTCTAAATAGT+AGG - chr4.2:11663880-11663899 None:intergenic 40.0%
CCAAACTCATGTCATCAATG+AGG + chr4.2:11664027-11664046 MS.gene57340:CDS 40.0%
TTATTCAACACGAGCATAGG+AGG + chr4.2:11663994-11664013 MS.gene57340:CDS 40.0%
! CCTCATTGATGACATGAGTT+TGG - chr4.2:11664030-11664049 None:intergenic 40.0%
!! AAGTGTTGATGAAGAAGCTG+AGG + chr4.2:11663968-11663987 MS.gene57340:CDS 40.0%
ATACCTCAAACCTCGTCGAT+CGG - chr4.2:11663919-11663938 None:intergenic 45.0%
GAAACCACAACAATTACGGG+TGG + chr4.2:11663751-11663770 MS.gene57340:CDS 45.0%
GCGTCGTGTTGCAATATATG+AGG + chr4.2:11663830-11663849 MS.gene57340:CDS 45.0%
TTACGAACCCGCATACTATC+CGG + chr4.2:11663791-11663810 MS.gene57340:CDS 45.0%
! TTGCAACACGACGCTTTTGA+TGG - chr4.2:11663824-11663843 None:intergenic 45.0%
GACTCCACCCGTAATTGTTG+TGG - chr4.2:11663758-11663777 None:intergenic 50.0%
TACGAACCCGCATACTATCC+GGG + chr4.2:11663792-11663811 MS.gene57340:CDS 50.0%
TCAACACGAGCATAGGAGGA+CGG + chr4.2:11663998-11664017 MS.gene57340:CDS 50.0%
! GATCGACGAGGTTTGAGGTA+TGG + chr4.2:11663918-11663937 MS.gene57340:CDS 50.0%
ACGAACCCGCATACTATCCG+GGG + chr4.2:11663793-11663812 MS.gene57340:CDS 55.0%
AGACCGATCGACGAGGTTTG+AGG + chr4.2:11663913-11663932 MS.gene57340:CDS 55.0%
GTGATGCCCCGGATAGTATG+CGG - chr4.2:11663802-11663821 None:intergenic 55.0%
TGATGCCCCGGATAGTATGC+GGG - chr4.2:11663801-11663820 None:intergenic 55.0%
!!! CGCTTTTGATGGTGATGCCC+CGG - chr4.2:11663813-11663832 None:intergenic 55.0%
GAGACTGAGACCGATCGACG+AGG + chr4.2:11663906-11663925 MS.gene57340:CDS 60.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 11663735 11664058 11663735 ID=MS.gene57340
chr4.2 mRNA 11663735 11664058 11663735 ID=MS.gene57340.t1;Parent=MS.gene57340
chr4.2 exon 11663735 11664058 11663735 ID=MS.gene57340.t1.exon1;Parent=MS.gene57340.t1
chr4.2 CDS 11663735 11664058 11663735 ID=cds.MS.gene57340.t1;Parent=MS.gene57340.t1
Gene Sequence

>MS.gene57340

ATGGCATACCAAAACCGAAACCACAACAATTACGGGTGGAGTCACATGCACGAAATTTACGAACCCGCATACTATCCGGGGCATCACCATCAAAAGCGTCGTGTTGCAATATATGAGGAACCAATAGTTGAGGAAGATCAATCCTACTATTTAGAGGTTCGTCGTGAGACTGAGACTGAGACCGATCGACGAGGTTTGAGGTATGGAGATCAAAATGTTAGCACTACTTATGAAAGTGTTGATGAAGAAGCTGAGGCTTTTATTCAACACGAGCATAGGAGGACGGCATTAGCCAAACTCATGTCATCAATGAGGGCTACTTAA
Protein sequence

>MS.gene57340.t1

MAYQNRNHNNYGWSHMHEIYEPAYYPGHHHQKRRVAIYEEPIVEEDQSYYLEVRRETETETDRRGLRYGDQNVSTTYESVDEEAEAFIQHEHRRTALAKLMSSMRAT