AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380013985.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380013985.01.T01 MTR_3g035620 98.980 98 1 0 1 98 1 98 4.47e-66 194
MsG0380013985.01.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:-48576087 None:intergenic
GTTCGAAAGGTTGACCTATT+CGG 0.297764 3:-48576161 None:intergenic
TTCGAAAGGTTGACCTATTC+GGG 0.303799 3:-48576160 None:intergenic
CTTCCATCTAGCAGCACCTT+AGG 0.381212 3:+48575997 MsG0380013985.01.T01:CDS
AGTAAGCGACGAAATGCTTC+GGG 0.387147 3:+48576107 MsG0380013985.01.T01:CDS
TTCAAACGAGGAAAGGCTTA+TGG 0.421987 3:+48576049 MsG0380013985.01.T01:CDS
CATCCTAAGGTGCTGCTAGA+TGG 0.431445 3:-48576000 None:intergenic
AGATCCGAGGATTCCCGAAT+AGG 0.444375 3:+48576147 MsG0380013985.01.T01:CDS
ATGGCATAGACTTCAAGTTA+AGG 0.466174 3:+48576020 MsG0380013985.01.T01:CDS
CTACGCCCTTCCTCGTCTCT+GGG 0.469904 3:-48576086 None:intergenic
TAGTAAGCGACGAAATGCTT+CGG 0.471482 3:+48576106 MsG0380013985.01.T01:CDS
CTAAGATGTTTCAGTTCGCC+AGG 0.474627 3:-48576216 None:intergenic
TGGCATAGACTTCAAGTTAA+GGG 0.494299 3:+48576021 MsG0380013985.01.T01:CDS
TTCCTCGTCTCTGGGTGCCT+AGG 0.527345 3:-48576078 None:intergenic
TTGAAGTCTATGCCATCCTA+AGG 0.540537 3:-48576013 None:intergenic
TTGACCTATTCGGGAATCCT+CGG 0.552797 3:-48576151 None:intergenic
CTGCTGCTGAATTCACGAGC+AGG 0.561936 3:+48576183 MsG0380013985.01.T01:CDS
AAGGCTTATGGTGGATACCT+AGG 0.574482 3:+48576061 MsG0380013985.01.T01:CDS
TAGACTTCAAGTTAAGGGCG+AGG 0.584653 3:+48576026 MsG0380013985.01.T01:CDS
GAATTCAGCAGCAGTTCGAA+AGG 0.585525 3:-48576174 None:intergenic
CATCTAGCAGCACCTTAGGA+TGG 0.586134 3:+48576001 MsG0380013985.01.T01:CDS
GGCGAGGTTCAAACGAGGAA+AGG 0.586700 3:+48576042 MsG0380013985.01.T01:CDS
CTAAGGTGCTGCTAGATGGA+AGG 0.592666 3:-48575996 None:intergenic
CGAGCAGGCAAGAGACAACC+TGG 0.594234 3:+48576198 MsG0380013985.01.T01:CDS
AGGCACCCAGAGACGAGGAA+GGG 0.625622 3:+48576081 MsG0380013985.01.T01:CDS
AAACGAGGAAAGGCTTATGG+TGG 0.638319 3:+48576052 MsG0380013985.01.T01:CDS
TAGGCACCCAGAGACGAGGA+AGG 0.640061 3:+48576080 MsG0380013985.01.T01:CDS
TGAAAATAAGCATAGATCCG+AGG 0.646966 3:+48576134 MsG0380013985.01.T01:CDS
TACCTAGGCACCCAGAGACG+AGG 0.649829 3:+48576076 MsG0380013985.01.T01:CDS
TGAAACATCTTAGTAGCCAG+AGG 0.653782 3:+48576226 MsG0380013985.01.T01:CDS
GTAAGCGACGAAATGCTTCG+GGG 0.688898 3:+48576108 MsG0380013985.01.T01:CDS
TTAAGGGCGAGGTTCAAACG+AGG 0.748793 3:+48576037 MsG0380013985.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TGAAAATAAGCATAGATCCG+AGG + Chr3:48576134-48576153 MsG0380013985.01.T01:CDS 35.0%
! ATGGCATAGACTTCAAGTTA+AGG + Chr3:48576020-48576039 MsG0380013985.01.T01:CDS 35.0%
! TGGCATAGACTTCAAGTTAA+GGG + Chr3:48576021-48576040 MsG0380013985.01.T01:CDS 35.0%
GTTCGAAAGGTTGACCTATT+CGG - Chr3:48576164-48576183 None:intergenic 40.0%
TAGTAAGCGACGAAATGCTT+CGG + Chr3:48576106-48576125 MsG0380013985.01.T01:CDS 40.0%
TGAAACATCTTAGTAGCCAG+AGG + Chr3:48576226-48576245 MsG0380013985.01.T01:CDS 40.0%
TTCAAACGAGGAAAGGCTTA+TGG + Chr3:48576049-48576068 MsG0380013985.01.T01:CDS 40.0%
TTCGAAAGGTTGACCTATTC+GGG - Chr3:48576163-48576182 None:intergenic 40.0%
TTGAAGTCTATGCCATCCTA+AGG - Chr3:48576016-48576035 None:intergenic 40.0%
! GCTTTTGCTTTCTTTTCCTC+TGG - Chr3:48576245-48576264 None:intergenic 40.0%
AAACGAGGAAAGGCTTATGG+TGG + Chr3:48576052-48576071 MsG0380013985.01.T01:CDS 45.0%
AGTAAGCGACGAAATGCTTC+GGG + Chr3:48576107-48576126 MsG0380013985.01.T01:CDS 45.0%
CTAAGATGTTTCAGTTCGCC+AGG - Chr3:48576219-48576238 None:intergenic 45.0%
GAATTCAGCAGCAGTTCGAA+AGG - Chr3:48576177-48576196 None:intergenic 45.0%
TTGACCTATTCGGGAATCCT+CGG - Chr3:48576154-48576173 None:intergenic 45.0%
! TAGACTTCAAGTTAAGGGCG+AGG + Chr3:48576026-48576045 MsG0380013985.01.T01:CDS 45.0%
!! AAGGCTTATGGTGGATACCT+AGG + Chr3:48576061-48576080 MsG0380013985.01.T01:CDS 45.0%
AGATCCGAGGATTCCCGAAT+AGG + Chr3:48576147-48576166 MsG0380013985.01.T01:CDS 50.0%
CATCTAGCAGCACCTTAGGA+TGG + Chr3:48576001-48576020 MsG0380013985.01.T01:CDS 50.0%
CTTCCATCTAGCAGCACCTT+AGG + Chr3:48575997-48576016 MsG0380013985.01.T01:CDS 50.0%
GTAAGCGACGAAATGCTTCG+GGG + Chr3:48576108-48576127 MsG0380013985.01.T01:CDS 50.0%
TTAAGGGCGAGGTTCAAACG+AGG + Chr3:48576037-48576056 MsG0380013985.01.T01:CDS 50.0%
!! CATCCTAAGGTGCTGCTAGA+TGG - Chr3:48576003-48576022 None:intergenic 50.0%
!! CTAAGGTGCTGCTAGATGGA+AGG - Chr3:48575999-48576018 None:intergenic 50.0%
CTGCTGCTGAATTCACGAGC+AGG + Chr3:48576183-48576202 MsG0380013985.01.T01:CDS 55.0%
GGCGAGGTTCAAACGAGGAA+AGG + Chr3:48576042-48576061 MsG0380013985.01.T01:CDS 55.0%
ACTACGCCCTTCCTCGTCTC+TGG - Chr3:48576090-48576109 None:intergenic 60.0%
AGGCACCCAGAGACGAGGAA+GGG + Chr3:48576081-48576100 MsG0380013985.01.T01:CDS 60.0%
CGAGCAGGCAAGAGACAACC+TGG + Chr3:48576198-48576217 MsG0380013985.01.T01:CDS 60.0%
CTACGCCCTTCCTCGTCTCT+GGG - Chr3:48576089-48576108 None:intergenic 60.0%
TACCTAGGCACCCAGAGACG+AGG + Chr3:48576076-48576095 MsG0380013985.01.T01:CDS 60.0%
TAGGCACCCAGAGACGAGGA+AGG + Chr3:48576080-48576099 MsG0380013985.01.T01:CDS 60.0%
TTCCTCGTCTCTGGGTGCCT+AGG - Chr3:48576081-48576100 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr3 gene 48575979 48576275 48575979 ID=MsG0380013985.01;Name=MsG0380013985.01
Chr3 mRNA 48575979 48576275 48575979 ID=MsG0380013985.01.T01;Parent=MsG0380013985.01;Name=MsG0380013985.01.T01;_AED=0.48;_eAED=0.48;_QI=0|-1|0|1|-1|0|1|0|98
Chr3 exon 48575979 48576275 48575979 ID=MsG0380013985.01.T01:exon:26402;Parent=MsG0380013985.01.T01
Chr3 CDS 48575979 48576275 48575979 ID=MsG0380013985.01.T01:cds;Parent=MsG0380013985.01.T01
Gene Sequence

>MsG0380013985.01.T01

ATGGACGTTGATAAGATCCTTCCATCTAGCAGCACCTTAGGATGGCATAGACTTCAAGTTAAGGGCGAGGTTCAAACGAGGAAAGGCTTATGGTGGATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGTAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGCATAGATCCGAGGATTCCCGAATAGGTCAACCTTTCGAACTGCTGCTGAATTCACGAGCAGGCAAGAGACAACCTGGCGAACTGAAACATCTTAGTAGCCAGAGGAAAAGAAAGCAAAAGCGATTCCCGTAG

Protein sequence

>MsG0380013985.01.T01

MDVDKILPSSSTLGWHRLQVKGEVQTRKGLWWIPRHPETRKGVVSDEMLRGVENKHRSEDSRIGQPFELLLNSRAGKRQPGELKHLSSQRKRKQKRFP*