AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680033965.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680033965.01.T02 MTR_4g077730 87.037 54 7 0 1 54 18 71 4.54e-30 100
MsG0680033965.01.T02 MTR_4g034690 87.037 54 7 0 1 54 141 194 2.40e-27 97.1
MsG0680033965.01.T02 MTR_0002s0730 50.909 55 27 0 1 55 141 195 4.67e-14 63.2
MsG0680033965.01.T03 MTR_4g077730 86.667 45 6 0 1 45 27 71 1.61e-24 85.9
MsG0680033965.01.T03 MTR_4g034690 86.667 45 6 0 1 45 150 194 6.43e-23 85.5
MsG0680033965.01.T03 MTR_0002s0730 50.000 46 23 0 1 46 150 195 6.92e-11 54.3
MsG0680033965.01.T01 MTR_4g034690 88.732 71 8 0 1 71 124 194 5.92e-43 137
MsG0680033965.01.T01 MTR_4g077730 87.324 71 9 0 1 71 1 71 3.14e-42 132
MsG0680033965.01.T01 MTR_0002s0730 48.611 72 37 0 1 72 124 195 1.82e-20 80.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680033965.01.T02 ATCG00670 64.815 54 19 0 1 54 141 194 1.67e-18 74.3
MsG0680033965.01.T03 ATCG00670 62.222 45 17 0 1 45 150 194 1.07e-13 61.6
MsG0680033965.01.T01 ATCG00670 66.197 71 24 0 1 71 124 194 1.42e-29 103

Find 12 sgRNAs with CRISPR-Local

Find 14 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACCTGCTACTTCTTTGTATG+AGG 0.330245 6:+77573684 MsG0680033965.01.T01:CDS
AAAGAACAGACAAAGCTTCC+TGG 0.394503 6:+77573782 MsG0680033965.01.T01:CDS
ACAAAGAAGTAGCAGGTTGA+TGG 0.439076 6:-77573678 None:intergenic
CATGTCTTTGTATATCTGCC+AGG 0.488452 6:-77573800 None:intergenic
TCTTTGTATGAGGGACAAGC+AGG 0.526283 6:+77573694 MsG0680033965.01.T01:CDS
AGCCCACAAAATTGTTGATA+CGG 0.530102 6:+77573858 MsG0680033965.01.T01:CDS
AGATATACAAAGACATGGAA+AGG 0.533735 6:+77573806 MsG0680033965.01.T01:CDS
CCCTCATACAAAGAAGTAGC+AGG 0.552930 6:-77573685 None:intergenic
GATATACAAAGACATGGAAA+GGG 0.558351 6:+77573807 MsG0680033965.01.T01:CDS
CTGGCAGATATACAAAGACA+TGG 0.577986 6:+77573801 MsG0680033965.01.T01:CDS
CCTGCTACTTCTTTGTATGA+GGG 0.586451 6:+77573685 MsG0680033965.01.T01:CDS
ACAAGCAGGAGAATGTATGC+TGG 0.593455 6:+77573708 MsG0680033965.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AGATATACAAAGACATGGAA+AGG + Chr6:77573806-77573825 MsG0680033965.01.T01:CDS 30.0%
GATATACAAAGACATGGAAA+GGG + Chr6:77573807-77573826 MsG0680033965.01.T01:CDS 30.0%
AGCCCACAAAATTGTTGATA+CGG + Chr6:77573858-77573877 MsG0680033965.01.T01:CDS 35.0%
! GACCGTATCAACAATTTTGT+GGG - Chr6:77573863-77573882 None:intergenic 35.0%
AAAGAACAGACAAAGCTTCC+TGG + Chr6:77573782-77573801 MsG0680033965.01.T01:CDS 40.0%
CATGTCTTTGTATATCTGCC+AGG - Chr6:77573803-77573822 None:intergenic 40.0%
CTGGCAGATATACAAAGACA+TGG + Chr6:77573801-77573820 MsG0680033965.01.T01:CDS 40.0%
! ACAAAGAAGTAGCAGGTTGA+TGG - Chr6:77573681-77573700 None:intergenic 40.0%
! ACCTGCTACTTCTTTGTATG+AGG + Chr6:77573684-77573703 MsG0680033965.01.T01:CDS 40.0%
! CCTGCTACTTCTTTGTATGA+GGG + Chr6:77573685-77573704 MsG0680033965.01.T01:CDS 40.0%
! CGACCGTATCAACAATTTTG+TGG - Chr6:77573864-77573883 None:intergenic 40.0%
ACAAGCAGGAGAATGTATGC+TGG + Chr6:77573708-77573727 MsG0680033965.01.T01:CDS 45.0%
CCCTCATACAAAGAAGTAGC+AGG - Chr6:77573688-77573707 None:intergenic 45.0%
TCTTTGTATGAGGGACAAGC+AGG + Chr6:77573694-77573713 MsG0680033965.01.T01:CDS 45.0%
Chromosome Type Strat End Strand Name
Chr6 gene 77573673 77573891 77573673 ID=MsG0680033965.01;Name=MsG0680033965.01
Chr6 mRNA 77573673 77573891 77573673 ID=MsG0680033965.01.T01;Parent=MsG0680033965.01;Name=MsG0680033965.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|72
Chr6 exon 77573673 77573891 77573673 ID=MsG0680033965.01.T01:exon:621;Parent=MsG0680033965.01.T01
Chr6 CDS 77573673 77573891 77573673 ID=MsG0680033965.01.T01:cds;Parent=MsG0680033965.01.T01
Chr6 mRNA 77573724 77573891 77573724 ID=MsG0680033965.01.T02;Parent=MsG0680033965.01;Name=MsG0680033965.01.T02;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|55
Chr6 exon 77573724 77573891 77573724 ID=MsG0680033965.01.T02:exon:622;Parent=MsG0680033965.01.T02
Chr6 CDS 77573724 77573891 77573724 ID=MsG0680033965.01.T02:cds;Parent=MsG0680033965.01.T02
Chr6 mRNA 77573751 77573891 77573751 ID=MsG0680033965.01.T03;Parent=MsG0680033965.01;Name=MsG0680033965.01.T03;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|46
Chr6 exon 77573751 77573891 77573751 ID=MsG0680033965.01.T03:exon:623;Parent=MsG0680033965.01.T03
Chr6 CDS 77573751 77573891 77573751 ID=MsG0680033965.01.T03:cds;Parent=MsG0680033965.01.T03
Gene Sequence

>MsG0680033965.01.T02

ATGCTGGAAGCGAATGAATTACTGAAAATGCGAAAAACTATGACAAATATTTATGCACAAAGAACAGACAAAGCTTCCTGGCAGATATACAAAGACATGGAAAGGGATCTTTATATGTCAGCAGAAGAAGCTCAAGCCCACAAAATTGTTGATACGGTCGCAGATTAA

>MsG0680033965.01.T03

ATGCGAAAAACTATGACAAATATTTATGCACAAAGAACAGACAAAGCTTCCTGGCAGATATACAAAGACATGGAAAGGGATCTTTATATGTCAGCAGAAGAAGCTCAAGCCCACAAAATTGTTGATACGGTCGCAGATTAA

>MsG0680033965.01.T01

ATGATCCATCAACCTGCTACTTCTTTGTATGAGGGACAAGCAGGAGAATGTATGCTGGAAGCGAATGAATTACTGAAAATGCGAAAAACTATGACAAATATTTATGCACAAAGAACAGACAAAGCTTCCTGGCAGATATACAAAGACATGGAAAGGGATCTTTATATGTCAGCAGAAGAAGCTCAAGCCCACAAAATTGTTGATACGGTCGCAGATTAA
Protein sequence

>MsG0680033965.01.T02

MLEANELLKMRKTMTNIYAQRTDKASWQIYKDMERDLYMSAEEAQAHKIVDTVAD*

>MsG0680033965.01.T03

MRKTMTNIYAQRTDKASWQIYKDMERDLYMSAEEAQAHKIVDTVAD*

>MsG0680033965.01.T01

MIHQPATSLYEGQAGECMLEANELLKMRKTMTNIYAQRTDKASWQIYKDMERDLYMSAEEAQAHKIVDTVAD*