AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380013891.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380013891.01.T01 MTR_3g035620 98.980 98 1 0 1 98 1 98 4.47e-66 194
MsG0380013891.01.T01 MTR_0002s0250 98.980 98 1 0 1 98 116 213 1.07e-65 197
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 32 sgRNAs with CRISPR-Local

Find 33 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTACGCCCTTCCTCGTCTC+TGG 0.292452 3:-47528070 None:intergenic
GTTCGAAAGGTTGACCTATT+CGG 0.297764 3:-47528144 None:intergenic
TTCGAAAGGTTGACCTATTC+GGG 0.303799 3:-47528143 None:intergenic
CTTCCATCTAGCAGCACCTT+AGG 0.381212 3:+47527980 MsG0380013891.01.T01:CDS
AGTAAGCGACGAAATGCTTC+GGG 0.387147 3:+47528090 MsG0380013891.01.T01:CDS
TTCAAACGAGGAAAGGCTTA+TGG 0.421987 3:+47528032 MsG0380013891.01.T01:CDS
CATCCTAAGGTGCTGCTAGA+TGG 0.431445 3:-47527983 None:intergenic
AGATCCGAGGATTCCCGAAT+AGG 0.444375 3:+47528130 MsG0380013891.01.T01:CDS
ATGGCATAGACTTCAAGTTA+AGG 0.466174 3:+47528003 MsG0380013891.01.T01:CDS
CTACGCCCTTCCTCGTCTCT+GGG 0.469904 3:-47528069 None:intergenic
TAGTAAGCGACGAAATGCTT+CGG 0.471482 3:+47528089 MsG0380013891.01.T01:CDS
CTAAGATGTTTCAGTTCGCC+AGG 0.474627 3:-47528199 None:intergenic
TGGCATAGACTTCAAGTTAA+GGG 0.494299 3:+47528004 MsG0380013891.01.T01:CDS
TTCCTCGTCTCTGGGTGCCT+AGG 0.527345 3:-47528061 None:intergenic
TTGAAGTCTATGCCATCCTA+AGG 0.540537 3:-47527996 None:intergenic
TTGACCTATTCGGGAATCCT+CGG 0.552797 3:-47528134 None:intergenic
CTGCTGCTGAATTCACGAGC+AGG 0.561936 3:+47528166 MsG0380013891.01.T01:CDS
AAGGCTTATGGTGGATACCT+AGG 0.574482 3:+47528044 MsG0380013891.01.T01:CDS
TAGACTTCAAGTTAAGGGCG+AGG 0.584653 3:+47528009 MsG0380013891.01.T01:CDS
GAATTCAGCAGCAGTTCGAA+AGG 0.585525 3:-47528157 None:intergenic
CATCTAGCAGCACCTTAGGA+TGG 0.586134 3:+47527984 MsG0380013891.01.T01:CDS
GGCGAGGTTCAAACGAGGAA+AGG 0.586700 3:+47528025 MsG0380013891.01.T01:CDS
CTAAGGTGCTGCTAGATGGA+AGG 0.592666 3:-47527979 None:intergenic
CGAGCAGGCAAGAGACAACC+TGG 0.594234 3:+47528181 MsG0380013891.01.T01:CDS
AGGCACCCAGAGACGAGGAA+GGG 0.625622 3:+47528064 MsG0380013891.01.T01:CDS
AAACGAGGAAAGGCTTATGG+TGG 0.638319 3:+47528035 MsG0380013891.01.T01:CDS
TAGGCACCCAGAGACGAGGA+AGG 0.640061 3:+47528063 MsG0380013891.01.T01:CDS
TGAAAATAAGCATAGATCCG+AGG 0.646966 3:+47528117 MsG0380013891.01.T01:CDS
TACCTAGGCACCCAGAGACG+AGG 0.649829 3:+47528059 MsG0380013891.01.T01:CDS
TGAAACATCTTAGTAGCCAG+AGG 0.653782 3:+47528209 MsG0380013891.01.T01:CDS
GTAAGCGACGAAATGCTTCG+GGG 0.688898 3:+47528091 MsG0380013891.01.T01:CDS
TTAAGGGCGAGGTTCAAACG+AGG 0.748793 3:+47528020 MsG0380013891.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TGAAAATAAGCATAGATCCG+AGG + Chr3:47528117-47528136 MsG0380013891.01.T01:CDS 35.0%
! ATGGCATAGACTTCAAGTTA+AGG + Chr3:47528003-47528022 MsG0380013891.01.T01:CDS 35.0%
! TGGCATAGACTTCAAGTTAA+GGG + Chr3:47528004-47528023 MsG0380013891.01.T01:CDS 35.0%
GTTCGAAAGGTTGACCTATT+CGG - Chr3:47528147-47528166 None:intergenic 40.0%
TAGTAAGCGACGAAATGCTT+CGG + Chr3:47528089-47528108 MsG0380013891.01.T01:CDS 40.0%
TGAAACATCTTAGTAGCCAG+AGG + Chr3:47528209-47528228 MsG0380013891.01.T01:CDS 40.0%
TTCAAACGAGGAAAGGCTTA+TGG + Chr3:47528032-47528051 MsG0380013891.01.T01:CDS 40.0%
TTCGAAAGGTTGACCTATTC+GGG - Chr3:47528146-47528165 None:intergenic 40.0%
TTGAAGTCTATGCCATCCTA+AGG - Chr3:47527999-47528018 None:intergenic 40.0%
! GCTTTTGCTTTCTTTTCCTC+TGG - Chr3:47528228-47528247 None:intergenic 40.0%
AAACGAGGAAAGGCTTATGG+TGG + Chr3:47528035-47528054 MsG0380013891.01.T01:CDS 45.0%
AGTAAGCGACGAAATGCTTC+GGG + Chr3:47528090-47528109 MsG0380013891.01.T01:CDS 45.0%
CTAAGATGTTTCAGTTCGCC+AGG - Chr3:47528202-47528221 None:intergenic 45.0%
GAATTCAGCAGCAGTTCGAA+AGG - Chr3:47528160-47528179 None:intergenic 45.0%
TTGACCTATTCGGGAATCCT+CGG - Chr3:47528137-47528156 None:intergenic 45.0%
! TAGACTTCAAGTTAAGGGCG+AGG + Chr3:47528009-47528028 MsG0380013891.01.T01:CDS 45.0%
!! AAGGCTTATGGTGGATACCT+AGG + Chr3:47528044-47528063 MsG0380013891.01.T01:CDS 45.0%
AGATCCGAGGATTCCCGAAT+AGG + Chr3:47528130-47528149 MsG0380013891.01.T01:CDS 50.0%
CATCTAGCAGCACCTTAGGA+TGG + Chr3:47527984-47528003 MsG0380013891.01.T01:CDS 50.0%
CTTCCATCTAGCAGCACCTT+AGG + Chr3:47527980-47527999 MsG0380013891.01.T01:CDS 50.0%
GTAAGCGACGAAATGCTTCG+GGG + Chr3:47528091-47528110 MsG0380013891.01.T01:CDS 50.0%
TTAAGGGCGAGGTTCAAACG+AGG + Chr3:47528020-47528039 MsG0380013891.01.T01:CDS 50.0%
!! CATCCTAAGGTGCTGCTAGA+TGG - Chr3:47527986-47528005 None:intergenic 50.0%
!! CTAAGGTGCTGCTAGATGGA+AGG - Chr3:47527982-47528001 None:intergenic 50.0%
CTGCTGCTGAATTCACGAGC+AGG + Chr3:47528166-47528185 MsG0380013891.01.T01:CDS 55.0%
GGCGAGGTTCAAACGAGGAA+AGG + Chr3:47528025-47528044 MsG0380013891.01.T01:CDS 55.0%
ACTACGCCCTTCCTCGTCTC+TGG - Chr3:47528073-47528092 None:intergenic 60.0%
AGGCACCCAGAGACGAGGAA+GGG + Chr3:47528064-47528083 MsG0380013891.01.T01:CDS 60.0%
CGAGCAGGCAAGAGACAACC+TGG + Chr3:47528181-47528200 MsG0380013891.01.T01:CDS 60.0%
CTACGCCCTTCCTCGTCTCT+GGG - Chr3:47528072-47528091 None:intergenic 60.0%
TACCTAGGCACCCAGAGACG+AGG + Chr3:47528059-47528078 MsG0380013891.01.T01:CDS 60.0%
TAGGCACCCAGAGACGAGGA+AGG + Chr3:47528063-47528082 MsG0380013891.01.T01:CDS 60.0%
TTCCTCGTCTCTGGGTGCCT+AGG - Chr3:47528064-47528083 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr3 gene 47527962 47528258 47527962 ID=MsG0380013891.01;Name=MsG0380013891.01
Chr3 mRNA 47527962 47528258 47527962 ID=MsG0380013891.01.T01;Parent=MsG0380013891.01;Name=MsG0380013891.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|98
Chr3 exon 47527962 47528258 47527962 ID=MsG0380013891.01.T01:exon:156;Parent=MsG0380013891.01.T01
Chr3 CDS 47527962 47528258 47527962 ID=MsG0380013891.01.T01:cds;Parent=MsG0380013891.01.T01
Gene Sequence

>MsG0380013891.01.T01

ATGGACGTTGATAAGATCCTTCCATCTAGCAGCACCTTAGGATGGCATAGACTTCAAGTTAAGGGCGAGGTTCAAACGAGGAAAGGCTTATGGTGGATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGTAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGCATAGATCCGAGGATTCCCGAATAGGTCAACCTTTCGAACTGCTGCTGAATTCACGAGCAGGCAAGAGACAACCTGGCGAACTGAAACATCTTAGTAGCCAGAGGAAAAGAAAGCAAAAGCGATTCCCGTAG

Protein sequence

>MsG0380013891.01.T01

MDVDKILPSSSTLGWHRLQVKGEVQTRKGLWWIPRHPETRKGVVSDEMLRGVENKHRSEDSRIGQPFELLLNSRAGKRQPGELKHLSSQRKRKQKRFP*