AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180003405.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180003405.01.T01 MTR_1g061080 81.019 216 3 1 1 216 1 178 1.79e-120 341
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180003405.01.T01 AT4G19830 52.973 185 38 2 32 216 52 187 1.43e-56 179

Find 53 sgRNAs with CRISPR-Local

Find 77 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGATTATAACCAGTAAATT+TGG 0.202272 1:-61855701 MsG0180003405.01.T01:CDS
TTCTCTGAACTCCCCAATTC+TGG 0.241954 1:-61856162 MsG0180003405.01.T01:CDS
TTTGTCTTTGTCCTTGGTTC+TGG 0.255718 1:-61855734 MsG0180003405.01.T01:CDS
TTGGAACTCCTTGTTGGTTC+AGG 0.280949 1:-61856126 MsG0180003405.01.T01:CDS
AAACACCAAACCAAATTTAC+TGG 0.289497 1:+61855691 None:intergenic
GGCCTTAACACCACCAGAAT+TGG 0.297767 1:+61856149 None:intergenic
TTCTGGTGGTGTTAAGGCCT+TGG 0.355031 1:-61856145 MsG0180003405.01.T01:CDS
ATTCTCATCTTTGTGGTCAT+AGG 0.366810 1:+61855772 None:intergenic
GCCTTAACACCACCAGAATT+GGG 0.386314 1:+61856150 None:intergenic
CCCCAATTCTGGTGGTGTTA+AGG 0.386678 1:-61856151 MsG0180003405.01.T01:CDS
TGCTGTGTTCAGGTAATTGC+TGG 0.390936 1:-61855260 MsG0180003405.01.T01:CDS
AGAAGTTAATCTTGTGAGAA+TGG 0.394906 1:-61855285 MsG0180003405.01.T01:CDS
AGAAGGTGAAGGAGAAGAAT+AGG 0.395312 1:+61856206 None:intergenic
CTTTGTCCTTGGTTCTGGTA+AGG 0.410071 1:-61855729 MsG0180003405.01.T01:CDS
ATAATAAAATACTGTGTCCT+TGG 0.418797 1:-61856360 MsG0180003405.01.T01:CDS
GGTCTTCTTGTTATGTTACA+TGG 0.420319 1:+61856294 None:intergenic
GATCACCATTCTCATCTTTG+TGG 0.422175 1:+61855765 None:intergenic
TATAACCAGTAAATTTGGTT+TGG 0.422819 1:-61855696 MsG0180003405.01.T01:CDS
AAGGCCTTGGAACTCCTTGT+TGG 0.425790 1:-61856132 MsG0180003405.01.T01:CDS
GAGAATGGATTGCTGTGTTC+AGG 0.432815 1:-61855270 MsG0180003405.01.T01:CDS
AGTTCAGAGAAATCTGCTAT+TGG 0.443056 1:+61856174 None:intergenic
GAGATTAGAGACAGAGATAA+GGG 0.448579 1:+61856273 None:intergenic
AGGACAAAGACAAAAGGATT+AGG 0.454496 1:+61855743 None:intergenic
AAGGTTGAGATTCATTACTA+TGG 0.463418 1:-61855833 MsG0180003405.01.T01:CDS
GAAGAATAGGAAGGTGGAAG+AGG 0.466133 1:+61856219 None:intergenic
TTTCTTACATTAGGCGGGAT+AGG 0.475564 1:+61855146 None:intergenic
GTCATCATACCTCCCTCACT+TGG 0.492147 1:-61855191 MsG0180003405.01.T01:CDS
AGAGATTAGAGACAGAGATA+AGG 0.501803 1:+61856272 None:intergenic
AAGGATTTCTTACATTAGGC+GGG 0.525661 1:+61855141 None:intergenic
AAAGGATTTCTTACATTAGG+CGG 0.534022 1:+61855140 None:intergenic
GAACCAAGGACAAAGACAAA+AGG 0.544303 1:+61855737 None:intergenic
TCAGGTGAAGTTCCTCAAGA+TGG 0.562507 1:-61856108 MsG0180003405.01.T01:CDS
TCTGAACTCCCCAATTCTGG+TGG 0.572089 1:-61856159 MsG0180003405.01.T01:CDS
TATGACCACAAAGATGAGAA+TGG 0.579877 1:-61855770 MsG0180003405.01.T01:CDS
GAAGGAGAAGAATAGGAAGG+TGG 0.580002 1:+61856213 None:intergenic
GGTAGACTTGCAGCAAAACA+AGG 0.581972 1:-61855812 MsG0180003405.01.T01:CDS
GGTGAAGGAGAAGAATAGGA+AGG 0.585572 1:+61856210 None:intergenic
ACACACGTGTTGCACTTCCA+AGG 0.590396 1:+61856343 None:intergenic
GACTTGCAGCAAAACAAGGA+TGG 0.607232 1:-61855808 MsG0180003405.01.T01:CDS
TATACCTGGTCTCCATCTTG+AGG 0.616605 1:+61856096 None:intergenic
TTCTGATACCCAAGTGAGGG+AGG 0.616633 1:+61855182 None:intergenic
TCATCATACCTCCCTCACTT+GGG 0.617977 1:-61855190 MsG0180003405.01.T01:CDS
TGAACCAACAAGGAGTTCCA+AGG 0.619826 1:+61856128 None:intergenic
CCTTAACACCACCAGAATTG+GGG 0.629737 1:+61856151 None:intergenic
TGGGTATCAGAACACATCAC+AGG 0.647520 1:-61855171 MsG0180003405.01.T01:CDS
GAACTTCACCTGAACCAACA+AGG 0.650571 1:+61856118 None:intergenic
AGTTCCTCAAGATGGAGACC+AGG 0.651081 1:-61856100 MsG0180003405.01.T01:intron
GTGAGATCAATGAAAGTCGG+TGG 0.665800 1:-61855224 MsG0180003405.01.T01:CDS
AGCTTACCTTACCAGAACCA+AGG 0.667313 1:+61855723 None:intergenic
GGTAATTGCTGGAATTGATG+TGG 0.679818 1:-61855249 MsG0180003405.01.T01:CDS
GTGTTCTGATACCCAAGTGA+GGG 0.691969 1:+61855179 None:intergenic
GCAGTGAGATCAATGAAAGT+CGG 0.693946 1:-61855227 MsG0180003405.01.T01:CDS
TGTGTTCTGATACCCAAGTG+AGG 0.735364 1:+61855178 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAATTTCAGACTTATATA+TGG - Chr1:61856157-61856176 MsG0180003405.01.T01:CDS 15.0%
!! TTACATTAGCATTAATTTAA+AGG + Chr1:61855463-61855482 None:intergenic 15.0%
!!! TTATAGATAATTTAATGGAT+AGG - Chr1:61855589-61855608 MsG0180003405.01.T01:intron 15.0%
!! AAAACAAAACATGTTTATCA+AGG + Chr1:61855530-61855549 None:intergenic 20.0%
!! TTGATTATAACCAGTAAATT+TGG - Chr1:61855825-61855844 MsG0180003405.01.T01:CDS 20.0%
!!! AACCATATATTCTAAAATGA+TGG + Chr1:61855502-61855521 None:intergenic 20.0%
!!! ACAAACTTATTTTGATCATT+TGG + Chr1:61855992-61856011 None:intergenic 20.0%
!!! CAAACTTATTTTGATCATTT+GGG + Chr1:61855991-61856010 None:intergenic 20.0%
! AGTAAATGTTGTTACATTGA+AGG - Chr1:61855674-61855693 MsG0180003405.01.T01:CDS 25.0%
! ATAATAAAATACTGTGTCCT+TGG - Chr1:61855166-61855185 MsG0180003405.01.T01:CDS 25.0%
! TATAACCAGTAAATTTGGTT+TGG - Chr1:61855830-61855849 MsG0180003405.01.T01:CDS 25.0%
!! GATAATTTAATGGATAGGTA+AGG - Chr1:61855594-61855613 MsG0180003405.01.T01:intron 25.0%
!! TGAAATTTTTACTGTCCTTA+TGG + Chr1:61856147-61856166 None:intergenic 25.0%
!!! CATACTAAGTTTTTTCCATA+AGG - Chr1:61856129-61856148 MsG0180003405.01.T01:CDS 25.0%
!!! TGCCATCATTTTAGAATATA+TGG - Chr1:61855497-61855516 MsG0180003405.01.T01:intron 25.0%
AAACACCAAACCAAATTTAC+TGG + Chr1:61855838-61855857 None:intergenic 30.0%
AAGGTTGAGATTCATTACTA+TGG - Chr1:61855693-61855712 MsG0180003405.01.T01:CDS 30.0%
AGAAGTTAATCTTGTGAGAA+TGG - Chr1:61856241-61856260 MsG0180003405.01.T01:CDS 30.0%
CAGACTTATATATGGATCTT+TGG - Chr1:61856165-61856184 MsG0180003405.01.T01:CDS 30.0%
CTTAGTATGCAACATGATAA+AGG + Chr1:61856219-61856238 None:intergenic 30.0%
TTAAAGGAGAGAATTATACC+TGG + Chr1:61855447-61855466 None:intergenic 30.0%
! TACATGGATATTTTGTGTGA+GGG + Chr1:61855219-61855238 None:intergenic 30.0%
! TTACATGGATATTTTGTGTG+AGG + Chr1:61855220-61855239 None:intergenic 30.0%
!!! CATGTTTTGTTTTGCTTTGT+TGG - Chr1:61855537-61855556 MsG0180003405.01.T01:intron 30.0%
AGAGATTAGAGACAGAGATA+AGG + Chr1:61855257-61855276 None:intergenic 35.0%
AGGACAAAGACAAAAGGATT+AGG + Chr1:61855786-61855805 None:intergenic 35.0%
AGTTCAGAGAAATCTGCTAT+TGG + Chr1:61855355-61855374 None:intergenic 35.0%
ATTCTCATCTTTGTGGTCAT+AGG + Chr1:61855757-61855776 None:intergenic 35.0%
GAAGCAATTAAGCATCAATG+TGG - Chr1:61856073-61856092 MsG0180003405.01.T01:intron 35.0%
GAGATTAGAGACAGAGATAA+GGG + Chr1:61855256-61855275 None:intergenic 35.0%
GGTAGAGTATGAGAATTTGT+AGG - Chr1:61855558-61855577 MsG0180003405.01.T01:intron 35.0%
TATGACCACAAAGATGAGAA+TGG - Chr1:61855756-61855775 MsG0180003405.01.T01:CDS 35.0%
! AATCCTTTTGTCTTTGTCCT+TGG - Chr1:61855786-61855805 MsG0180003405.01.T01:CDS 35.0%
! ATGCAACATGATAAAGGCAT+AGG + Chr1:61856213-61856232 None:intergenic 35.0%
! CTTAATTGCTTCTTGAGTTG+TGG + Chr1:61856065-61856084 None:intergenic 35.0%
! GGTCTTCTTGTTATGTTACA+TGG + Chr1:61855235-61855254 None:intergenic 35.0%
AGAAGGTGAAGGAGAAGAAT+AGG + Chr1:61855323-61855342 None:intergenic 40.0%
GAACCAAGGACAAAGACAAA+AGG + Chr1:61855792-61855811 None:intergenic 40.0%
GATCACCATTCTCATCTTTG+TGG + Chr1:61855764-61855783 None:intergenic 40.0%
GCAGTGAGATCAATGAAAGT+CGG - Chr1:61856299-61856318 MsG0180003405.01.T01:CDS 40.0%
GGTAATTGCTGGAATTGATG+TGG - Chr1:61856277-61856296 MsG0180003405.01.T01:CDS 40.0%
TTTGTCTTTGTCCTTGGTTC+TGG - Chr1:61855792-61855811 MsG0180003405.01.T01:CDS 40.0%
! ATATTTTGTGTGAGGGAGAG+TGG + Chr1:61855212-61855231 None:intergenic 40.0%
!!! GCTATTGGACGTTTTGAAGA+AGG + Chr1:61855340-61855359 None:intergenic 40.0%
AGCTTACCTTACCAGAACCA+AGG + Chr1:61855806-61855825 None:intergenic 45.0%
CCTTAACACCACCAGAATTG+GGG + Chr1:61855378-61855397 None:intergenic 45.0%
GAACTTCACCTGAACCAACA+AGG + Chr1:61855411-61855430 None:intergenic 45.0%
GAAGAATAGGAAGGTGGAAG+AGG + Chr1:61855310-61855329 None:intergenic 45.0%
GAAGGAGAAGAATAGGAAGG+TGG + Chr1:61855316-61855335 None:intergenic 45.0%
GACTTGCAGCAAAACAAGGA+TGG - Chr1:61855718-61855737 MsG0180003405.01.T01:CDS 45.0%
GCCTTAACACCACCAGAATT+GGG + Chr1:61855379-61855398 None:intergenic 45.0%
GGTAGACTTGCAGCAAAACA+AGG - Chr1:61855714-61855733 MsG0180003405.01.T01:CDS 45.0%
GGTGAAGGAGAAGAATAGGA+AGG + Chr1:61855319-61855338 None:intergenic 45.0%
GTGAGATCAATGAAAGTCGG+TGG - Chr1:61856302-61856321 MsG0180003405.01.T01:CDS 45.0%
GTGTTCTGATACCCAAGTGA+GGG + Chr1:61856350-61856369 None:intergenic 45.0%
TATACCTGGTCTCCATCTTG+AGG + Chr1:61855433-61855452 None:intergenic 45.0%
TCAGGTGAAGTTCCTCAAGA+TGG - Chr1:61855418-61855437 MsG0180003405.01.T01:intron 45.0%
TCATCATACCTCCCTCACTT+GGG - Chr1:61856336-61856355 MsG0180003405.01.T01:CDS 45.0%
TGAACCAACAAGGAGTTCCA+AGG + Chr1:61855401-61855420 None:intergenic 45.0%
TGCTGTGTTCAGGTAATTGC+TGG - Chr1:61856266-61856285 MsG0180003405.01.T01:CDS 45.0%
TGGGTATCAGAACACATCAC+AGG - Chr1:61856355-61856374 MsG0180003405.01.T01:CDS 45.0%
TGTGTTCTGATACCCAAGTG+AGG + Chr1:61856351-61856370 None:intergenic 45.0%
TTCTCTGAACTCCCCAATTC+TGG - Chr1:61855364-61855383 MsG0180003405.01.T01:intron 45.0%
!! CTTTGTCCTTGGTTCTGGTA+AGG - Chr1:61855797-61855816 MsG0180003405.01.T01:CDS 45.0%
!! GAGAATGGATTGCTGTGTTC+AGG - Chr1:61856256-61856275 MsG0180003405.01.T01:CDS 45.0%
!! TTGGAACTCCTTGTTGGTTC+AGG - Chr1:61855400-61855419 MsG0180003405.01.T01:intron 45.0%
!!! GGACGTTTTGAAGAAGGTGA+AGG + Chr1:61855334-61855353 None:intergenic 45.0%
!! TTTATTTATAGATAATTTAA+TGG - Chr1:61855584-61855603 MsG0180003405.01.T01:intron 5.0%
AAGGCCTTGGAACTCCTTGT+TGG - Chr1:61855394-61855413 MsG0180003405.01.T01:intron 50.0%
ACACACGTGTTGCACTTCCA+AGG + Chr1:61855186-61855205 None:intergenic 50.0%
AGTTCCTCAAGATGGAGACC+AGG - Chr1:61855426-61855445 MsG0180003405.01.T01:intron 50.0%
GGCCTTAACACCACCAGAAT+TGG + Chr1:61855380-61855399 None:intergenic 50.0%
GTCATCATACCTCCCTCACT+TGG - Chr1:61856335-61856354 MsG0180003405.01.T01:CDS 50.0%
TCTGAACTCCCCAATTCTGG+TGG - Chr1:61855367-61855386 MsG0180003405.01.T01:intron 50.0%
TTCTGATACCCAAGTGAGGG+AGG + Chr1:61856347-61856366 None:intergenic 50.0%
! CCCCAATTCTGGTGGTGTTA+AGG - Chr1:61855375-61855394 MsG0180003405.01.T01:intron 50.0%
! TTCTGGTGGTGTTAAGGCCT+TGG - Chr1:61855381-61855400 MsG0180003405.01.T01:intron 50.0%
Chromosome Type Strat End Strand Name
Chr1 gene 61855154 61856394 61855154 ID=MsG0180003405.01;Name=MsG0180003405.01
Chr1 mRNA 61855154 61856394 61855154 ID=MsG0180003405.01.T01;Parent=MsG0180003405.01;Name=MsG0180003405.01.T01;_AED=0.48;_eAED=0.48;_QI=0|0.5|0|1|0.5|0.66|3|0|216
Chr1 exon 61856101 61856394 61856101 ID=MsG0180003405.01.T01:exon:4395;Parent=MsG0180003405.01.T01
Chr1 exon 61855655 61855852 61855655 ID=MsG0180003405.01.T01:exon:4394;Parent=MsG0180003405.01.T01
Chr1 exon 61855154 61855309 61855154 ID=MsG0180003405.01.T01:exon:4393;Parent=MsG0180003405.01.T01
Chr1 CDS 61856101 61856394 61856101 ID=MsG0180003405.01.T01:cds;Parent=MsG0180003405.01.T01
Chr1 CDS 61855655 61855852 61855655 ID=MsG0180003405.01.T01:cds;Parent=MsG0180003405.01.T01
Chr1 CDS 61855154 61855309 61855154 ID=MsG0180003405.01.T01:cds;Parent=MsG0180003405.01.T01
Gene Sequence

>MsG0180003405.01.T01

ATGAAGATGAAGATAATAAAATACTGTGTCCTTGGAAGTGCAACACGTGTGTGTGCCACTCTCCCTCACACAAAATATCCATGTAACATAACAAGAAGACCCTTATCTCTGTCTCTAATCTCTACTACTTTCTCTGCTTTAATCTTCTCACTTCCTCTTCCACCTTCCTATTCTTCTCCTTCACCTTCTTCAAAACGTCCAATAGCAGATTTCTCTGAACTCCCCAATTCTGGTGGTGTTAAGGCCTTGGAACTCCTTGTTGGTTCAGGTGAAGTTCCTCAAGATGGAGACCAGGTTGAGATTCATTACTATGGTAGACTTGCAGCAAAACAAGGATGGCGTTTTGATTCAACCTATGACCACAAAGATGAGAATGGTGATCCTAATCCTTTTGTCTTTGTCCTTGGTTCTGGTAAGGTAAGCTTGATTATAACCAGTAAATTTGGTTTGGTGTTTGACAAACATGATTTGAATCAATTTAAGTTTGAGATAAAAGAAGTTAATCTTGTGAGAATGGATTGCTGTGTTCAGGTAATTGCTGGAATTGATGTGGCAGTGAGATCAATGAAAGTCGGTGGTATTCGCAGAGTCATCATACCTCCCTCACTTGGGTATCAGAACACATCACAGGAACCTATCCCGCCTAAT

Protein sequence

>MsG0180003405.01.T01

MKMKIIKYCVLGSATRVCATLPHTKYPCNITRRPLSLSLISTTFSALIFSLPLPPSYSSPSPSSKRPIADFSELPNSGGVKALELLVGSGEVPQDGDQVEIHYYGRLAAKQGWRFDSTYDHKDENGDPNPFVFVLGSGKVSLIITSKFGLVFDKHDLNQFKFEIKEVNLVRMDCCVQVIAGIDVAVRSMKVGGIRRVIIPPSLGYQNTSQEPIPPN