AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380015671.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 25 sgRNAs with CRISPR-Local

Find 56 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGGTTGTTCCATCGGTATT+TGG 0.253278 3:-73435093 MsG0380015671.01.T01:CDS
CACACGGCGAAGACGCTTCT+TGG 0.328655 3:+73435767 None:intergenic
AGGTTGTTCCATCGGTATTT+GGG 0.366960 3:-73435092 MsG0380015671.01.T01:CDS
GTGAAGAAGCATGATTCTTC+GGG 0.371640 3:-73435837 None:intergenic
AGTACTCTTTGTAACATTGT+TGG 0.406629 3:+73435138 None:intergenic
AGTGAAGAAGCATGATTCTT+CGG 0.422338 3:-73435838 None:intergenic
ATACCGATGGAACAACCTTC+AGG 0.424726 3:+73435097 None:intergenic
GCGAAGACGCTTCTTGGCAT+TGG 0.430692 3:+73435773 None:intergenic
ACTTGCTGAAGGAGCTGGTT+CGG 0.434113 3:+73435174 None:intergenic
GCGTCTTCGCCGTGTGTGGC+AGG 0.469382 3:-73435760 MsG0380015671.01.T01:intron
ACAAAGAGTACTTAAGTTGA+AGG 0.470492 3:-73435127 MsG0380015671.01.T01:CDS
GGCATTGGCTTTACGAGTTG+TGG 0.490914 3:+73435788 None:intergenic
CTTTGTAACATTGTTGGCAC+TGG 0.504174 3:+73435144 None:intergenic
GAAGAACTTGCTGAAGGAGC+TGG 0.514090 3:+73435169 None:intergenic
GAAGAATGAAGCTGTCCTCA+AGG 0.557970 3:-73435203 MsG0380015671.01.T01:intron
CCACCTGAAGGTTGTTCCAT+CGG 0.559409 3:-73435100 MsG0380015671.01.T01:CDS
CAAAGAGTACTTAAGTTGAA+GGG 0.582974 3:-73435126 MsG0380015671.01.T01:CDS
GTTGAAGGGTGTCCACCTGA+AGG 0.585228 3:-73435112 MsG0380015671.01.T01:CDS
AGAAGCGTCTTCGCCGTGTG+TGG 0.603774 3:-73435764 MsG0380015671.01.T01:CDS
ATTGGGATCCCAAATACCGA+TGG 0.610728 3:+73435084 None:intergenic
CTGGCAGAAGAACTTGCTGA+AGG 0.618337 3:+73435163 None:intergenic
ATTGAAATACCTGCCACACA+CGG 0.634795 3:+73435751 None:intergenic
TGAAGAAGCATGATTCTTCG+GGG 0.674050 3:-73435836 None:intergenic
CCGATGGAACAACCTTCAGG+TGG 0.677190 3:+73435100 None:intergenic
CTGGTTCGGAACAAGCCTTG+AGG 0.710113 3:+73435188 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAAGCATGTTATAATTAAAT+AGG - Chr3:73435222-73435241 MsG0380015671.01.T01:intron 15.0%
!! CACAATTATTGTTCAATATT+TGG + Chr3:73435640-73435659 None:intergenic 20.0%
!!! AAACTATTAGTGAAACTTTT+AGG - Chr3:73435438-73435457 MsG0380015671.01.T01:intron 20.0%
! ATACCTAGAAGAAATGATTA+AGG - Chr3:73435251-73435270 MsG0380015671.01.T01:intron 25.0%
! TATGGTTTGAGTAAAGATTA+TGG - Chr3:73435493-73435512 MsG0380015671.01.T01:intron 25.0%
!! GTTTCACTAATAGTTTTTCT+AGG + Chr3:73435434-73435453 None:intergenic 25.0%
!!! ATTTATTGTTTTATCGTCTG+TGG - Chr3:73435280-73435299 MsG0380015671.01.T01:intron 25.0%
!!! TGAAACTTTTAGGAAAAACT+TGG - Chr3:73435448-73435467 MsG0380015671.01.T01:intron 25.0%
AAACTTGGAGATTAATGAGT+TGG - Chr3:73435463-73435482 MsG0380015671.01.T01:intron 30.0%
ACAATAATTGTGACTGTCAA+TGG - Chr3:73435648-73435667 MsG0380015671.01.T01:intron 30.0%
AGTACTCTTTGTAACATTGT+TGG + Chr3:73435766-73435785 None:intergenic 30.0%
ATGATGAGCATTAGTAAAGA+TGG - Chr3:73435308-73435327 MsG0380015671.01.T01:intron 30.0%
CATCCTTAATCATTTCTTCT+AGG + Chr3:73435257-73435276 None:intergenic 30.0%
TCTACTAGTACAAAATCTAC+AGG + Chr3:73435371-73435390 None:intergenic 30.0%
TCTTTACTCAAACCATATCT+TGG + Chr3:73435490-73435509 None:intergenic 30.0%
! TTTTGTACTAGTAGATCAGA+TGG - Chr3:73435376-73435395 MsG0380015671.01.T01:intron 30.0%
!! ACAAAGAGTACTTAAGTTGA+AGG - Chr3:73435774-73435793 MsG0380015671.01.T01:CDS 30.0%
!! CAAAGAGTACTTAAGTTGAA+GGG - Chr3:73435775-73435794 MsG0380015671.01.T01:CDS 30.0%
ACTGTCAATGGCTAATGTTA+TGG - Chr3:73435660-73435679 MsG0380015671.01.T01:intron 35.0%
ATGAGCATTAGTAAAGATGG+TGG - Chr3:73435311-73435330 MsG0380015671.01.T01:intron 35.0%
GTGGAAAATAAGCTTGGTTT+GGG - Chr3:73435330-73435349 MsG0380015671.01.T01:intron 35.0%
! TAATGAGTTGGACCAAGATA+TGG - Chr3:73435475-73435494 MsG0380015671.01.T01:intron 35.0%
!! AAGATGGTGGAAAATAAGCT+TGG - Chr3:73435324-73435343 MsG0380015671.01.T01:intron 35.0%
AAGGTTGTTCCATCGGTATT+TGG - Chr3:73435808-73435827 MsG0380015671.01.T01:CDS 40.0%
AGGTTGTTCCATCGGTATTT+GGG - Chr3:73435809-73435828 MsG0380015671.01.T01:CDS 40.0%
ATTGAAATACCTGCCACACA+CGG + Chr3:73435153-73435172 None:intergenic 40.0%
CTAGTAGATCAGATGGAGAA+TGG - Chr3:73435383-73435402 MsG0380015671.01.T01:intron 40.0%
CTTTGTAACATTGTTGGCAC+TGG + Chr3:73435760-73435779 None:intergenic 40.0%
GGTGGAAAATAAGCTTGGTT+TGG - Chr3:73435329-73435348 MsG0380015671.01.T01:intron 40.0%
TAGATCAGATGGAGAATGGT+CGG - Chr3:73435387-73435406 MsG0380015671.01.T01:intron 40.0%
! ATGATTCTTCGGGGCTTTTA+TGG - Chr3:73435074-73435093 MsG0380015671.01.T01:CDS 40.0%
AAGCCCTATCTCACTAAGTG+GGG + Chr3:73435542-73435561 None:intergenic 45.0%
ACAAGCCCTATCTCACTAAG+TGG + Chr3:73435544-73435563 None:intergenic 45.0%
ATACCGATGGAACAACCTTC+AGG + Chr3:73435807-73435826 None:intergenic 45.0%
ATTGGGATCCCAAATACCGA+TGG + Chr3:73435820-73435839 None:intergenic 45.0%
CAAGCCCTATCTCACTAAGT+GGG + Chr3:73435543-73435562 None:intergenic 45.0%
GAAGAATGAAGCTGTCCTCA+AGG - Chr3:73435698-73435717 MsG0380015671.01.T01:intron 45.0%
CCACCTGAAGGTTGTTCCAT+CGG - Chr3:73435801-73435820 MsG0380015671.01.T01:CDS 50.0%
CCTATCTCACTAAGTGGGGT+CGG + Chr3:73435538-73435557 None:intergenic 50.0%
CGACCCCACTTAGTGAGATA+GGG - Chr3:73435536-73435555 MsG0380015671.01.T01:intron 50.0%
GAGAATGGTCGGATCACTAG+AGG - Chr3:73435398-73435417 MsG0380015671.01.T01:intron 50.0%
GGTTTGGGCATGTAGAGTGA+AGG - Chr3:73435345-73435364 MsG0380015671.01.T01:intron 50.0%
! ACTTGCTGAAGGAGCTGGTT+CGG + Chr3:73435730-73435749 None:intergenic 50.0%
!! CTGGCAGAAGAACTTGCTGA+AGG + Chr3:73435741-73435760 None:intergenic 50.0%
!! GAAGAACTTGCTGAAGGAGC+TGG + Chr3:73435735-73435754 None:intergenic 50.0%
!! GGCATTGGCTTTACGAGTTG+TGG + Chr3:73435116-73435135 None:intergenic 50.0%
ACTAAGTGGGGTCGGCTACA+TGG + Chr3:73435530-73435549 None:intergenic 55.0%
CCGACCCCACTTAGTGAGAT+AGG - Chr3:73435535-73435554 MsG0380015671.01.T01:intron 55.0%
CCGATGGAACAACCTTCAGG+TGG + Chr3:73435804-73435823 None:intergenic 55.0%
GCGAAGACGCTTCTTGGCAT+TGG + Chr3:73435131-73435150 None:intergenic 55.0%
GGTCGGATCACTAGAGGAAG+AGG - Chr3:73435404-73435423 MsG0380015671.01.T01:intron 55.0%
!! CTGGTTCGGAACAAGCCTTG+AGG + Chr3:73435716-73435735 None:intergenic 55.0%
!! GTTGAAGGGTGTCCACCTGA+AGG - Chr3:73435789-73435808 MsG0380015671.01.T01:CDS 55.0%
CACACGGCGAAGACGCTTCT+TGG + Chr3:73435137-73435156 None:intergenic 60.0%
!! AGAAGCGTCTTCGCCGTGTG+TGG - Chr3:73435137-73435156 MsG0380015671.01.T01:CDS 60.0%
GCGTCTTCGCCGTGTGTGGC+AGG - Chr3:73435141-73435160 MsG0380015671.01.T01:CDS 70.0%
Chromosome Type Strat End Strand Name
Chr3 gene 73435074 73435849 73435074 ID=MsG0380015671.01;Name=MsG0380015671.01
Chr3 mRNA 73435074 73435849 73435074 ID=MsG0380015671.01.T01;Parent=MsG0380015671.01;Name=MsG0380015671.01.T01;_AED=0.50;_eAED=1.00;_QI=0|0|0|1|0|0|2|0|78
Chr3 exon 73435074 73435221 73435074 ID=MsG0380015671.01.T01:exon:793;Parent=MsG0380015671.01.T01
Chr3 exon 73435761 73435849 73435761 ID=MsG0380015671.01.T01:exon:792;Parent=MsG0380015671.01.T01
Chr3 CDS 73435761 73435849 73435761 ID=MsG0380015671.01.T01:cds;Parent=MsG0380015671.01.T01
Chr3 CDS 73435074 73435221 73435074 ID=MsG0380015671.01.T01:cds;Parent=MsG0380015671.01.T01
Gene Sequence

>MsG0380015671.01.T01

ATGATTCTTCGGGGCTTTTATGGAAGCGAATCAAACTCACCACAACTCGTAAAGCCAATGCCAAGAAGCGTCTTCGCCGTGTGTGGCAGAATGAAGCTGTCCTCAAGGCTTGTTCCGAACCAGCTCCTTCAGCAAGTTCTTCTGCCAGTGCCAACAATGTTACAAAGAGTACTTAAGTTGAAGGGTGTCCACCTGAAGGTTGTTCCATCGGTATTTGGGATCCCAATTCTATATTAG
Protein sequence

>MsG0380015671.01.T01

MILRGFYGSESNSPQLVKPMPRSVFAVCGRMKLSSRLVPNQLLQQVLLPVPTMLQRVLKLKGVHLKVVPSVFGIPILY*