AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0880046753.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880046753.01.T01 MTR_4g114050 95.146 103 2 1 1 100 1 103 1.31e-66 195
MsG0880046753.01.T01 MTR_4g011060 55.319 94 30 4 1 83 1 93 5.48e-24 88.6
MsG0880046753.01.T01 MTR_2g103380 40.496 121 46 4 1 98 1 118 2.72e-21 81.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0880046753.01.T01 AT5G20100 47.312 93 33 4 4 81 3 94 1.59e-17 72.0

Find 21 sgRNAs with CRISPR-Local

Find 24 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAACGTTGACCGATCGATA+TGG 0.363606 8:-77679952 None:intergenic
AAGGTTCATCAGGATTGGTT+TGG 0.367840 8:+77679833 MsG0880046753.01.T01:CDS
TGGGATGATAAATTCTTGTC+TGG 0.375061 8:+77679853 MsG0880046753.01.T01:CDS
AGGTTCATCAGGATTGGTTT+GGG 0.391343 8:+77679834 MsG0880046753.01.T01:CDS
TTCAGGAGACAAGGTTCATC+AGG 0.416255 8:+77679823 MsG0880046753.01.T01:CDS
AGAAATCATTAGCATCATTC+AGG 0.448473 8:+77679806 MsG0880046753.01.T01:CDS
GAGACAAGGTTCATCAGGAT+TGG 0.459463 8:+77679828 MsG0880046753.01.T01:CDS
AAACCACATGTTGAAACCTT+AGG 0.466270 8:-77680000 None:intergenic
TTGGAGAGAAGCAGATCAGC+TGG 0.478654 8:+77679922 MsG0880046753.01.T01:CDS
TTTGTGGAAGAAGCAGCAAC+TGG 0.482811 8:-77680042 None:intergenic
GAACAAGAGAGTGCATCAAC+TGG 0.483164 8:+77679895 MsG0880046753.01.T01:CDS
AATTGACCCACCTTCTCCTA+AGG 0.490014 8:+77679984 MsG0880046753.01.T01:CDS
TCTTGATTTAGGATTATTTG+TGG 0.511223 8:-77680058 None:intergenic
TCTCCTAAGGTTTCAACATG+TGG 0.535168 8:+77679997 MsG0880046753.01.T01:CDS
GTTGAAACCTTAGGAGAAGG+TGG 0.589036 8:-77679991 None:intergenic
CATGTTGAAACCTTAGGAGA+AGG 0.634843 8:-77679994 None:intergenic
GAAGGTGGGTCAATTGATGT+TGG 0.642101 8:-77679976 None:intergenic
TGGAGCAAGACCATATCGAT+CGG 0.648883 8:+77679942 MsG0880046753.01.T01:CDS
TTGAAACCTTAGGAGAAGGT+GGG 0.649865 8:-77679990 None:intergenic
TTAGCATCATTCAGGAGACA+AGG 0.658604 8:+77679814 MsG0880046753.01.T01:CDS
GAGTGCATCAACTGGCACGT+TGG 0.684698 8:+77679903 MsG0880046753.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GATCTTCTTTTTCTTGATTT+AGG - Chr8:77680072-77680091 None:intergenic 25.0%
!! TCTTGATTTAGGATTATTTG+TGG - Chr8:77680061-77680080 None:intergenic 25.0%
AGAAATCATTAGCATCATTC+AGG + Chr8:77679806-77679825 MsG0880046753.01.T01:CDS 30.0%
AAACCACATGTTGAAACCTT+AGG - Chr8:77680003-77680022 None:intergenic 35.0%
TGGGATGATAAATTCTTGTC+TGG + Chr8:77679853-77679872 MsG0880046753.01.T01:CDS 35.0%
! GTTTCAACATGTGGTTTTTG+TGG + Chr8:77680006-77680025 MsG0880046753.01.T01:CDS 35.0%
!!! TGTGGTTTTTGTGGTTTGTT+TGG + Chr8:77680015-77680034 MsG0880046753.01.T01:CDS 35.0%
CATGTTGAAACCTTAGGAGA+AGG - Chr8:77679997-77680016 None:intergenic 40.0%
TCTCCTAAGGTTTCAACATG+TGG + Chr8:77679997-77680016 MsG0880046753.01.T01:CDS 40.0%
TTAGCATCATTCAGGAGACA+AGG + Chr8:77679814-77679833 MsG0880046753.01.T01:CDS 40.0%
TTGAAACCTTAGGAGAAGGT+GGG - Chr8:77679993-77680012 None:intergenic 40.0%
!! AAGGTTCATCAGGATTGGTT+TGG + Chr8:77679833-77679852 MsG0880046753.01.T01:CDS 40.0%
!! AGGTTCATCAGGATTGGTTT+GGG + Chr8:77679834-77679853 MsG0880046753.01.T01:CDS 40.0%
AATTGACCCACCTTCTCCTA+AGG + Chr8:77679984-77680003 MsG0880046753.01.T01:CDS 45.0%
GAAGGTGGGTCAATTGATGT+TGG - Chr8:77679979-77679998 None:intergenic 45.0%
GAGACAAGGTTCATCAGGAT+TGG + Chr8:77679828-77679847 MsG0880046753.01.T01:CDS 45.0%
GTTGAAACCTTAGGAGAAGG+TGG - Chr8:77679994-77680013 None:intergenic 45.0%
TGGAGCAAGACCATATCGAT+CGG + Chr8:77679942-77679961 MsG0880046753.01.T01:CDS 45.0%
TTCAGGAGACAAGGTTCATC+AGG + Chr8:77679823-77679842 MsG0880046753.01.T01:CDS 45.0%
TTTGTGGAAGAAGCAGCAAC+TGG - Chr8:77680045-77680064 None:intergenic 45.0%
! GAACAAGAGAGTGCATCAAC+TGG + Chr8:77679895-77679914 MsG0880046753.01.T01:CDS 45.0%
GCAACGTTGACCGATCGATA+TGG - Chr8:77679955-77679974 None:intergenic 50.0%
TTGGAGAGAAGCAGATCAGC+TGG + Chr8:77679922-77679941 MsG0880046753.01.T01:CDS 50.0%
GAGTGCATCAACTGGCACGT+TGG + Chr8:77679903-77679922 MsG0880046753.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr8 gene 77679793 77680095 77679793 ID=MsG0880046753.01;Name=MsG0880046753.01
Chr8 mRNA 77679793 77680095 77679793 ID=MsG0880046753.01.T01;Parent=MsG0880046753.01;Name=MsG0880046753.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|100
Chr8 exon 77679793 77680095 77679793 ID=MsG0880046753.01.T01:exon:33226;Parent=MsG0880046753.01.T01
Chr8 CDS 77679793 77680095 77679793 ID=MsG0880046753.01.T01:cds;Parent=MsG0880046753.01.T01
Gene Sequence

>MsG0880046753.01.T01

ATGGCTGAGCTGCAGAAATCATTAGCATCATTCAGGAGACAAGGTTCATCAGGATTGGTTTGGGATGATAAATTCTTGTCTGGTTTGAATCAGAATCAACTTGAACAAGAGAGTGCATCAACTGGCACGTTGGAGAGAAGCAGATCAGCTGGAGCAAGACCATATCGATCGGTCAACGTTGCACCAACATCAATTGACCCACCTTCTCCTAAGGTTTCAACATGTGGTTTTTGTGGTTTGTTTGGTAAACCAGTTGCTGCTTCTTCCACAAATAATCCTAAATCAAGAAAAAGAAGATCATGA

Protein sequence

>MsG0880046753.01.T01

MAELQKSLASFRRQGSSGLVWDDKFLSGLNQNQLEQESASTGTLERSRSAGARPYRSVNVAPTSIDPPSPKVSTCGFCGLFGKPVAASSTNNPKSRKRRS*