AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780041446.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780041446.01.T01 MTR_7g111230 64.706 170 30 2 1 140 1 170 1.31e-60 184
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 30 sgRNAs with CRISPR-Local

Find 37 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAACCGTACAAATTTGATTT+TGG 0.169923 7:+90988998 MsG0780041446.01.T01:CDS
AATATGTGGGTTGCATTCTT+TGG 0.230059 7:-90989353 None:intergenic
TGAGTAAATTTAGGATCATT+AGG 0.266602 7:-90989289 None:intergenic
AACATAGAATGAGTAAATTT+AGG 0.270517 7:-90989298 None:intergenic
AACTTTACGAATTTGATTCT+TGG 0.278934 7:-90989053 None:intergenic
ACTACTGCTCGAAATGGATT+TGG 0.361001 7:+90989202 MsG0780041446.01.T01:CDS
CAACCCACATATTGAATCAT+TGG 0.366896 7:+90989363 MsG0780041446.01.T01:CDS
CACTACTAGGTGACCCATTA+GGG 0.368316 7:-90989264 None:intergenic
TCACTACTAGGTGACCCATT+AGG 0.381962 7:-90989265 None:intergenic
CACCGTCACTACCTCCTCTT+TGG 0.383526 7:-90988932 None:intergenic
TCAACCAATGATTCAATATG+TGG 0.398275 7:-90989367 None:intergenic
AATGTATTGGAAAACCCTAA+TGG 0.409235 7:+90989250 MsG0780041446.01.T01:CDS
AATAGTACTACTGCTCGAAA+TGG 0.417979 7:+90989196 MsG0780041446.01.T01:CDS
ATGTATTGGAAAACCCTAAT+GGG 0.448914 7:+90989251 MsG0780041446.01.T01:CDS
GAGTAAATTTAGGATCATTA+GGG 0.451665 7:-90989288 None:intergenic
GGATCATTAGGGTCACTACT+AGG 0.487924 7:-90989277 None:intergenic
TCTTTGGTAACCGTTTCGAT+TGG 0.500194 7:-90988916 None:intergenic
TTTCCAAAATCAAATTTGTA+CGG 0.504736 7:-90989001 None:intergenic
GGTAAGGTGGTGATTATTCA+AGG 0.506037 7:+90989163 MsG0780041446.01.T01:CDS
AAATGTCAGTTGCAGAGGTA+AGG 0.537678 7:+90989147 MsG0780041446.01.T01:intron
GGTGGTGATTATTCAAGGTG+AGG 0.564226 7:+90989168 MsG0780041446.01.T01:CDS
GTGGTGATTATTCAAGGTGA+GGG 0.564991 7:+90989169 MsG0780041446.01.T01:CDS
GAAGAGATCTCCAATCGAAA+CGG 0.567195 7:+90988906 MsG0780041446.01.T01:CDS
AATGTAAATGTCAGTTGCAG+AGG 0.578785 7:+90989142 MsG0780041446.01.T01:intron
CAACCAATGATTCAATATGT+GGG 0.591152 7:-90989366 None:intergenic
AATCGAAACGGTTACCAAAG+AGG 0.604417 7:+90988918 MsG0780041446.01.T01:CDS
TGTCAGTTGCAGAGGTAAGG+TGG 0.614185 7:+90989150 MsG0780041446.01.T01:intron
TACCAAAGAGGAGGTAGTGA+CGG 0.624361 7:+90988930 MsG0780041446.01.T01:CDS
ATGACGAACAAGATGCAACT+CGG 0.624974 7:+90988955 MsG0780041446.01.T01:CDS
CGAAACGGTTACCAAAGAGG+AGG 0.685843 7:+90988921 MsG0780041446.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AACATAGAATGAGTAAATTT+AGG - Chr7:90989301-90989320 None:intergenic 20.0%
!! TTTCCAAAATCAAATTTGTA+CGG - Chr7:90989004-90989023 None:intergenic 20.0%
!!! ACAAATTTGATTTTGGAAAA+AGG + Chr7:90989005-90989024 MsG0780041446.01.T01:CDS 20.0%
! AACTTTACGAATTTGATTCT+TGG - Chr7:90989056-90989075 None:intergenic 25.0%
! TTTACATTCCTAGAAAAAGA+CGG - Chr7:90989130-90989149 None:intergenic 25.0%
!! GAGTAAATTTAGGATCATTA+GGG - Chr7:90989291-90989310 None:intergenic 25.0%
!! TGAGTAAATTTAGGATCATT+AGG - Chr7:90989292-90989311 None:intergenic 25.0%
AATGTATTGGAAAACCCTAA+TGG + Chr7:90989250-90989269 MsG0780041446.01.T01:CDS 30.0%
ATGTATTGGAAAACCCTAAT+GGG + Chr7:90989251-90989270 MsG0780041446.01.T01:CDS 30.0%
CAACCAATGATTCAATATGT+GGG - Chr7:90989369-90989388 None:intergenic 30.0%
TCAACCAATGATTCAATATG+TGG - Chr7:90989370-90989389 None:intergenic 30.0%
! ATTAGGGTTTTCCAATACAT+TGG - Chr7:90989251-90989270 None:intergenic 30.0%
! TTAGGGTTTTCCAATACATT+GGG - Chr7:90989250-90989269 None:intergenic 30.0%
!! GAACCGTACAAATTTGATTT+TGG + Chr7:90988998-90989017 MsG0780041446.01.T01:CDS 30.0%
AATAGTACTACTGCTCGAAA+TGG + Chr7:90989196-90989215 MsG0780041446.01.T01:CDS 35.0%
AATGTAAATGTCAGTTGCAG+AGG + Chr7:90989142-90989161 MsG0780041446.01.T01:intron 35.0%
CAACCCACATATTGAATCAT+TGG + Chr7:90989363-90989382 MsG0780041446.01.T01:CDS 35.0%
! AATATGTGGGTTGCATTCTT+TGG - Chr7:90989356-90989375 None:intergenic 35.0%
AAATGTCAGTTGCAGAGGTA+AGG + Chr7:90989147-90989166 MsG0780041446.01.T01:intron 40.0%
AATCGAAACGGTTACCAAAG+AGG + Chr7:90988918-90988937 MsG0780041446.01.T01:CDS 40.0%
ATGACGAACAAGATGCAACT+CGG + Chr7:90988955-90988974 MsG0780041446.01.T01:CDS 40.0%
GAAGAGATCTCCAATCGAAA+CGG + Chr7:90988906-90988925 MsG0780041446.01.T01:CDS 40.0%
GGTAAGGTGGTGATTATTCA+AGG + Chr7:90989163-90989182 MsG0780041446.01.T01:CDS 40.0%
GTGGTGATTATTCAAGGTGA+GGG + Chr7:90989169-90989188 MsG0780041446.01.T01:CDS 40.0%
! ACTACTGCTCGAAATGGATT+TGG + Chr7:90989202-90989221 MsG0780041446.01.T01:CDS 40.0%
! TCTTTGGTAACCGTTTCGAT+TGG - Chr7:90988919-90988938 None:intergenic 40.0%
! TTTTTCGCGTCCCAATGTAT+TGG + Chr7:90989237-90989256 MsG0780041446.01.T01:CDS 40.0%
!! TGCTGTTGTTGATGATGAAG+AGG - Chr7:90989104-90989123 None:intergenic 40.0%
CACTACTAGGTGACCCATTA+GGG - Chr7:90989267-90989286 None:intergenic 45.0%
GGATCATTAGGGTCACTACT+AGG - Chr7:90989280-90989299 None:intergenic 45.0%
GGTGGTGATTATTCAAGGTG+AGG + Chr7:90989168-90989187 MsG0780041446.01.T01:CDS 45.0%
TACCAAAGAGGAGGTAGTGA+CGG + Chr7:90988930-90988949 MsG0780041446.01.T01:CDS 45.0%
TCACTACTAGGTGACCCATT+AGG - Chr7:90989268-90989287 None:intergenic 45.0%
! CAGCAACACCGTCTTTTTCT+AGG + Chr7:90989119-90989138 MsG0780041446.01.T01:intron 45.0%
CGAAACGGTTACCAAAGAGG+AGG + Chr7:90988921-90988940 MsG0780041446.01.T01:CDS 50.0%
TGTCAGTTGCAGAGGTAAGG+TGG + Chr7:90989150-90989169 MsG0780041446.01.T01:intron 50.0%
CACCGTCACTACCTCCTCTT+TGG - Chr7:90988935-90988954 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr7 gene 90988888 90989393 90988888 ID=MsG0780041446.01;Name=MsG0780041446.01
Chr7 mRNA 90988888 90989393 90988888 ID=MsG0780041446.01.T01;Parent=MsG0780041446.01;Name=MsG0780041446.01.T01;_AED=0.36;_eAED=0.40;_QI=0|0|0|1|1|1|2|0|140
Chr7 exon 90988888 90989072 90988888 ID=MsG0780041446.01.T01:exon:17743;Parent=MsG0780041446.01.T01
Chr7 exon 90989156 90989393 90989156 ID=MsG0780041446.01.T01:exon:17744;Parent=MsG0780041446.01.T01
Chr7 CDS 90988888 90989072 90988888 ID=MsG0780041446.01.T01:cds;Parent=MsG0780041446.01.T01
Chr7 CDS 90989156 90989393 90989156 ID=MsG0780041446.01.T01:cds;Parent=MsG0780041446.01.T01
Gene Sequence

>MsG0780041446.01.T01

ATGTCTGCTTCTTCTGATGAAGAGATCTCCAATCGAAACGGTTACCAAAGAGGAGGTAGTGACGGTGATGACGAACAAGATGCAACTCGGAAGAAGAAGAAGAAGAAGAAGAACCGTACAAATTTGATTTTGGAAAAAGGTTGCTACTTAATCAATTTTCAAAAGCCAAGAATCAAATTCGTAAATTGCAGAGGTAAGGTGGTGATTATTCAAGGTGAGGGTAATAATAGTACTACTGCTCGAAATGGATTTGGTTGCAAGTTTTGTTTTTCGCGTCCCAATGTATTGGAAAACCCTAATGGGTCACCTAGTAGTGACCCTAATGATCCTAAATTTACTCATTCTATGTTGAAGAGTTTATTAGAGAAGAATGATTTTTGTTCCAAAGAATGCAACCCACATATTGAATCATTGGTTGAATGA
Protein sequence

>MsG0780041446.01.T01

MSASSDEEISNRNGYQRGGSDGDDEQDATRKKKKKKKNRTNLILEKGCYLINFQKPRIKFVNCRGKVVIIQGEGNNSTTARNGFGCKFCFSRPNVLENPNGSPSSDPNDPKFTHSMLKSLLEKNDFCSKECNPHIESLVE*