AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480020280.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480020280.01.T01 MTR_4g046640 88.542 96 7 1 1 92 1 96 9.78e-55 166
MsG0480020280.01.T01 MTR_4g008050 52.542 59 24 1 36 90 8 66 1.22e-13 64.3
MsG0480020280.01.T01 MTR_2g089310 54.167 48 22 0 35 82 4 51 1.08e-11 58.9
MsG0480020280.01.T01 MTR_2g011450 51.020 49 24 0 36 84 5 53 4.68e-11 55.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480020280.01.T01 AT3G21890 50.575 87 32 2 1 84 1 79 1.12e-20 79.7
MsG0480020280.01.T01 AT4G15248 48.864 88 33 3 1 84 1 80 8.77e-20 77.4
MsG0480020280.01.T01 AT4G27310 53.061 49 23 0 36 84 5 53 2.46e-12 60.5
MsG0480020280.01.T01 AT3G21150 50.000 52 26 0 36 87 5 56 4.08e-12 59.7
MsG0480020280.01.T01 AT5G54470 52.941 51 24 0 32 82 2 52 6.47e-12 59.3

Find 10 sgRNAs with CRISPR-Local

Find 14 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATAATGAAGCAACCTGTTT+AGG 0.277240 4:-38057688 None:intergenic
CAAGAGGTTTCCACCTAAAC+AGG 0.330887 4:+38057675 MsG0480020280.01.T01:CDS
TTTACTAGAAGATGTCTCAT+TGG 0.413760 4:+38057879 MsG0480020280.01.T01:CDS
TCAATATCTTGTGAGCTTTG+TGG 0.421953 4:+38057727 MsG0480020280.01.T01:CDS
TTCATTATGTGAAACAAGAT+CGG 0.461899 4:+38057702 MsG0480020280.01.T01:CDS
ACAAATATGCATTATCAGCT+TGG 0.501513 4:-38057771 None:intergenic
TCATTATGTGAAACAAGATC+GGG 0.509519 4:+38057703 MsG0480020280.01.T01:CDS
AATGAAGCAACCTGTTTAGG+TGG 0.547599 4:-38057685 None:intergenic
AAATTTCTTAAAATGTGCAA+AGG 0.600585 4:+38057619 None:intergenic
TCTCATTGGAGCTTCACTAG+AGG 0.651818 4:+38057893 MsG0480020280.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TTCATTATGTGAAACAAGAT+CGG + Chr4:38057702-38057721 MsG0480020280.01.T01:CDS 25.0%
ACAAATATGCATTATCAGCT+TGG - Chr4:38057774-38057793 None:intergenic 30.0%
ATGTCTAAGTGCCAAAAAAT+TGG - Chr4:38057827-38057846 None:intergenic 30.0%
TCATTATGTGAAACAAGATC+GGG + Chr4:38057703-38057722 MsG0480020280.01.T01:CDS 30.0%
TTTACTAGAAGATGTCTCAT+TGG + Chr4:38057879-38057898 MsG0480020280.01.T01:CDS 30.0%
!!! AGTTCACAAAGCCAATTTTT+TGG + Chr4:38057813-38057832 MsG0480020280.01.T01:CDS 30.0%
ACTATTGAAGAGAAAAAGCG+TGG + Chr4:38057643-38057662 MsG0480020280.01.T01:CDS 35.0%
CATAATGAAGCAACCTGTTT+AGG - Chr4:38057691-38057710 None:intergenic 35.0%
TCAATATCTTGTGAGCTTTG+TGG + Chr4:38057727-38057746 MsG0480020280.01.T01:CDS 35.0%
! TTTTGGCACTTAGACATGTA+CGG + Chr4:38057830-38057849 MsG0480020280.01.T01:CDS 35.0%
AATGAAGCAACCTGTTTAGG+TGG - Chr4:38057688-38057707 None:intergenic 40.0%
! ATTGAAGAGAAAAAGCGTGG+TGG + Chr4:38057646-38057665 MsG0480020280.01.T01:CDS 40.0%
CAAGAGGTTTCCACCTAAAC+AGG + Chr4:38057675-38057694 MsG0480020280.01.T01:CDS 45.0%
! AGCGTGGTGGTTTTTGCAAG+AGG + Chr4:38057659-38057678 MsG0480020280.01.T01:CDS 50.0%
Chromosome Type Strat End Strand Name
Chr4 gene 38057631 38057912 38057631 ID=MsG0480020280.01;Name=MsG0480020280.01
Chr4 mRNA 38057631 38057912 38057631 ID=MsG0480020280.01.T01;Parent=MsG0480020280.01;Name=MsG0480020280.01.T01;_AED=0.03;_eAED=0.18;_QI=0|-1|0|1|-1|0|1|0|93
Chr4 exon 38057631 38057912 38057631 ID=MsG0480020280.01.T01:exon:3600;Parent=MsG0480020280.01.T01
Chr4 CDS 38057631 38057912 38057631 ID=MsG0480020280.01.T01:cds;Parent=MsG0480020280.01.T01
Gene Sequence

>MsG0480020280.01.T01

ATGTGCAAAGGTACTATTGAAGAGAAAAAGCGTGGTGGTTTTTGCAAGAGGTTTCCACCTAAACAGGTTGCTTCATTATGTGAAACAAGATCGGGTTCAATATCTTGTGAGCTTTGTGGCTTGCAAGCTTCATTGTATTGCCAAGCTGATAATGCATATTTGTGTAGAAAATGTGACAATTTAGTTCACAAAGCCAATTTTTTGGCACTTAGACATGTACGGTGTTTTTTGTGTAACACATGTCAAATTTTACTAGAAGATGTCTCATTGGAGCTTCACTAG
Protein sequence

>MsG0480020280.01.T01

MCKGTIEEKKRGGFCKRFPPKQVASLCETRSGSISCELCGLQASLYCQADNAYLCRKCDNLVHKANFLALRHVRCFLCNTCQILLEDVSLELH*