AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480020719.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480020719.01.T01 MTR_4g057565 96.923 65 2 0 1 65 1 65 4.07e-40 131
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480020719.01.T01 AT5G22950 84.615 65 10 0 1 65 1 65 8.71e-35 117

Find 17 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCAATAACTGTTGCGGATT+TGG 0.162141 4:-46953217 None:intergenic
ATTATATATACAAAATAAAA+TGG 0.182644 4:-46953144 None:intergenic
AACTGTTGCGGATTTGGTTT+CGG 0.312520 4:-46953211 None:intergenic
CGCAACAGTTATTGAGAGAT+TGG 0.341374 4:+46953224 MsG0480020719.01.T01:CDS
TTATATATACAAAATAAAAT+GGG 0.355594 4:-46953143 None:intergenic
GGAATATAAATTATCGAAGA+AGG 0.474281 4:-46953051 None:intergenic
TGATTTAGATATTCAGAGAG+AGG 0.474813 4:+46953388 MsG0480020719.01.T01:intron
AACATTGAACGTCAAATTCG+CGG 0.513409 4:+46953274 MsG0480020719.01.T01:CDS
CTATTAAAGAAGCTGCTAAG+AGG 0.518339 4:+46953429 MsG0480020719.01.T01:CDS
GGTGGGTGTGTTCTTCGTAA+AGG 0.525188 4:+46952983 MsG0480020719.01.T01:five_prime_UTR
CAATCTCTCAATAACTGTTG+CGG 0.557549 4:-46953223 None:intergenic
AAAGGAGAAGATATTGAAGG+TGG 0.564984 4:+46952965 None:intergenic
TATATATACAAAATAAAATG+GGG 0.596746 4:-46953142 None:intergenic
TGAAGATTAGATCTTACTGA+AGG 0.602356 4:-46953072 None:intergenic
GAATGACATTGGTTCTGCAA+AGG 0.618815 4:+46953451 MsG0480020719.01.T01:CDS
AAGGAGAAGATATTGAAGGT+GGG 0.620093 4:+46952966 None:intergenic
GCTGCTAAGAGGAATGACAT+TGG 0.677222 4:+46953440 MsG0480020719.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATATATACAAAATAAAATG+GGG - Chr4:46953145-46953164 None:intergenic 10.0%
! AGAAGAATCAAGTATCAATT+AGG - Chr4:46953328-46953347 None:intergenic 25.0%
! GAAGAATCAAGTATCAATTA+GGG - Chr4:46953327-46953346 None:intergenic 25.0%
! GGAATATAAATTATCGAAGA+AGG - Chr4:46953054-46953073 None:intergenic 25.0%
! TGATTATTTGTGGTTATGAT+TGG + Chr4:46953347-46953366 MsG0480020719.01.T01:intron 25.0%
! TTGATTCTTCTGATTATTTG+TGG + Chr4:46953337-46953356 MsG0480020719.01.T01:intron 25.0%
!!! ATAAAATGGGGATTTTTTGA+AGG - Chr4:46953133-46953152 None:intergenic 25.0%
GGTTTAAGAGAGATCAAAAA+TGG - Chr4:46953306-46953325 None:intergenic 30.0%
TGAAGATTAGATCTTACTGA+AGG - Chr4:46953075-46953094 None:intergenic 30.0%
TGATTTAGATATTCAGAGAG+AGG + Chr4:46953388-46953407 MsG0480020719.01.T01:intron 30.0%
!!! ATTTTGGGATCAGTGAAAAA+TGG + Chr4:46953165-46953184 MsG0480020719.01.T01:exon 30.0%
AACATTGAACGTCAAATTCG+CGG + Chr4:46953274-46953293 MsG0480020719.01.T01:CDS 35.0%
CAATCTCTCAATAACTGTTG+CGG - Chr4:46953226-46953245 None:intergenic 35.0%
CTATTAAAGAAGCTGCTAAG+AGG + Chr4:46953429-46953448 MsG0480020719.01.T01:CDS 35.0%
!!! ATGGGGATTTTTTGAAGGAT+TGG - Chr4:46953128-46953147 None:intergenic 35.0%
CGCAACAGTTATTGAGAGAT+TGG + Chr4:46953224-46953243 MsG0480020719.01.T01:CDS 40.0%
CTCAATAACTGTTGCGGATT+TGG - Chr4:46953220-46953239 None:intergenic 40.0%
GGATCAGTGAAAAATGGAGA+AGG + Chr4:46953171-46953190 MsG0480020719.01.T01:exon 40.0%
! AACTGTTGCGGATTTGGTTT+CGG - Chr4:46953214-46953233 None:intergenic 40.0%
!! GAATGACATTGGTTCTGCAA+AGG + Chr4:46953451-46953470 MsG0480020719.01.T01:CDS 40.0%
GCTGCTAAGAGGAATGACAT+TGG + Chr4:46953440-46953459 MsG0480020719.01.T01:CDS 45.0%
!! ATTATATATACAAAATAAAA+TGG - Chr4:46953147-46953166 None:intergenic 5.0%
!! TTATATATACAAAATAAAAT+GGG - Chr4:46953146-46953165 None:intergenic 5.0%
!!! TATTTTGTATATATAATTTT+GGG + Chr4:46953150-46953169 MsG0480020719.01.T01:five_prime_UTR 5.0%
!!! TTATTTTGTATATATAATTT+TGG + Chr4:46953149-46953168 MsG0480020719.01.T01:five_prime_UTR 5.0%
GGTGGGTGTGTTCTTCGTAA+AGG + Chr4:46952983-46953002 MsG0480020719.01.T01:five_prime_UTR 50.0%
Chromosome Type Strat End Strand Name
Chr4 gene 46952977 46953490 46952977 ID=MsG0480020719.01;Name=MsG0480020719.01
Chr4 mRNA 46952977 46953490 46952977 ID=MsG0480020719.01.T01;Parent=MsG0480020719.01;Name=MsG0480020719.01.T01;_AED=0.48;_eAED=0.49;_QI=207|1|0.5|1|1|1|2|0|68
Chr4 exon 46952977 46953295 46952977 ID=MsG0480020719.01.T01:exon:7264;Parent=MsG0480020719.01.T01
Chr4 exon 46953396 46953490 46953396 ID=MsG0480020719.01.T01:exon:7265;Parent=MsG0480020719.01.T01
Chr4 five_prime_UTR 46952977 46953183 46952977 ID=MsG0480020719.01.T01:five_prime_utr;Parent=MsG0480020719.01.T01
Chr4 CDS 46953184 46953295 46953184 ID=MsG0480020719.01.T01:cds;Parent=MsG0480020719.01.T01
Chr4 CDS 46953396 46953490 46953396 ID=MsG0480020719.01.T01:cds;Parent=MsG0480020719.01.T01
Gene Sequence

>MsG0480020719.01.T01

ATGGAGAAGGTGATGAACATTCTGAAACCGAAACCAAATCCGCAACAGTTATTGAGAGATTGGCAACGTAAGCTTCGACAAGAGTGTCGAAACATTGAACGTCAAATTCGCGATATTCAGAGAGAGGAGAAAAATGTGCAGAAAGCTATTAAAGAAGCTGCTAAGAGGAATGACATTGGTTCTGCAAAGGTAATTTTTTTAATTTAA

Protein sequence

>MsG0480020719.01.T01

MEKVMNILKPKPNPQQLLRDWQRKLRQECRNIERQIRDIQREEKNVQKAIKEAAKRNDIGSAKVIFLI*