AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280009322.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280009322.01.T01 MTR_2g028885 76.923 39 9 0 2 40 30 68 6.70e-13 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 21 sgRNAs with CRISPR-Local

Find 28 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCATTCGTCAACCACAATTT+TGG 0.155209 2:-50305881 MsG0280009322.01.T01:CDS
CATTTCATTCAAAATTAATT+AGG 0.192306 2:+50305560 None:intergenic
TTCATTGCTTGGAGTAAAAT+AGG 0.214721 2:+50305750 None:intergenic
TTTACTCCAAGCAATGAATT+TGG 0.215422 2:-50305745 MsG0280009322.01.T01:CDS
ATTAAAGTGGCTATTTCAAA+TGG 0.352718 2:-50305829 MsG0280009322.01.T01:CDS
ACTTTGCAGTGTCGTATACT+AGG 0.448784 2:-50305678 MsG0280009322.01.T01:CDS
AGATCACCAAATTCATTGCT+TGG 0.456034 2:+50305739 None:intergenic
TTAATTAGGAATACAAAGTA+AGG 0.457114 2:+50305574 None:intergenic
TGGAGTAAAATAGGAGTTGA+TGG 0.462779 2:+50305759 None:intergenic
CGAGTAAGAGACTTCTACAT+TGG 0.465982 2:+50305710 None:intergenic
TTAAAGTGGCTATTTCAAAT+GGG 0.504412 2:-50305828 MsG0280009322.01.T01:CDS
CTTACTTGACGCTATTAAAG+TGG 0.506705 2:-50305842 MsG0280009322.01.T01:CDS
AGTATACGACACTGCAAAGT+CGG 0.515473 2:+50305681 None:intergenic
TAATAGCGTCAAGTAAGCCT+AGG 0.525085 2:+50305848 None:intergenic
CCAAAATTGTGGTTGACGAA+TGG 0.537366 2:+50305881 None:intergenic
GTATACGACACTGCAAAGTC+GGG 0.543811 2:+50305682 None:intergenic
ATGTTGCTCATAGTATTGCT+AGG 0.585668 2:-50305642 MsG0280009322.01.T01:CDS
TGTAGAAGTCTCTTACTCGA+TGG 0.591334 2:-50305706 MsG0280009322.01.T01:CDS
AATAGCGTCAAGTAAGCCTA+GGG 0.619515 2:+50305849 None:intergenic
AGTGTCGTATACTAGGATGC+AGG 0.622405 2:-50305671 MsG0280009322.01.T01:CDS
GGACTCGACCTCCAAAATTG+TGG 0.624531 2:+50305870 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTACATGATGAAAAATATG+GGG + Chr2:50305879-50305898 None:intergenic 20.0%
!! CATTACATGATGAAAAATAT+GGG + Chr2:50305880-50305899 None:intergenic 20.0%
!! TTAATTAGGAATACAAAGTA+AGG + Chr2:50305903-50305922 None:intergenic 20.0%
! GCATTACATGATGAAAAATA+TGG + Chr2:50305881-50305900 None:intergenic 25.0%
! TTACATGATGAAAAATATGG+GGG + Chr2:50305878-50305897 None:intergenic 25.0%
!! ATTAAAGTGGCTATTTCAAA+TGG - Chr2:50305645-50305664 MsG0280009322.01.T01:CDS 25.0%
!! TTAAAGTGGCTATTTCAAAT+GGG - Chr2:50305646-50305665 MsG0280009322.01.T01:CDS 25.0%
TTCATTGCTTGGAGTAAAAT+AGG + Chr2:50305727-50305746 None:intergenic 30.0%
TTTACTCCAAGCAATGAATT+TGG - Chr2:50305729-50305748 MsG0280009322.01.T01:CDS 30.0%
AGATCACCAAATTCATTGCT+TGG + Chr2:50305738-50305757 None:intergenic 35.0%
ATGTTGCTCATAGTATTGCT+AGG - Chr2:50305832-50305851 MsG0280009322.01.T01:CDS 35.0%
CTTACTTGACGCTATTAAAG+TGG - Chr2:50305632-50305651 MsG0280009322.01.T01:CDS 35.0%
TGGAGTAAAATAGGAGTTGA+TGG + Chr2:50305718-50305737 None:intergenic 35.0%
AATAGCGTCAAGTAAGCCTA+GGG + Chr2:50305628-50305647 None:intergenic 40.0%
ACTTTGCAGTGTCGTATACT+AGG - Chr2:50305796-50305815 MsG0280009322.01.T01:CDS 40.0%
AGTATACGACACTGCAAAGT+CGG + Chr2:50305796-50305815 None:intergenic 40.0%
CCAAAATTGTGGTTGACGAA+TGG + Chr2:50305596-50305615 None:intergenic 40.0%
CGAGTAAGAGACTTCTACAT+TGG + Chr2:50305767-50305786 None:intergenic 40.0%
TAATAGCGTCAAGTAAGCCT+AGG + Chr2:50305629-50305648 None:intergenic 40.0%
TGATGAAAAATATGGGGGCT+AGG + Chr2:50305873-50305892 None:intergenic 40.0%
TGTAGAAGTCTCTTACTCGA+TGG - Chr2:50305768-50305787 MsG0280009322.01.T01:CDS 40.0%
! CCATTCGTCAACCACAATTT+TGG - Chr2:50305593-50305612 MsG0280009322.01.T01:CDS 40.0%
! GCTCTTTTGCTTGGAAAATC+AGG - Chr2:50305564-50305583 MsG0280009322.01.T01:CDS 40.0%
! TTCGTCAACCACAATTTTGG+AGG - Chr2:50305596-50305615 MsG0280009322.01.T01:CDS 40.0%
AGTGTCGTATACTAGGATGC+AGG - Chr2:50305803-50305822 MsG0280009322.01.T01:CDS 45.0%
GTATACGACACTGCAAAGTC+GGG + Chr2:50305795-50305814 None:intergenic 45.0%
GGACTCGACCTCCAAAATTG+TGG + Chr2:50305607-50305626 None:intergenic 50.0%
!! ATTTTGGAGGTCGAGTCCCT+AGG - Chr2:50305609-50305628 MsG0280009322.01.T01:CDS 50.0%
Chromosome Type Strat End Strand Name
Chr2 gene 50305564 50305932 50305564 ID=MsG0280009322.01;Name=MsG0280009322.01
Chr2 mRNA 50305564 50305932 50305564 ID=MsG0280009322.01.T01;Parent=MsG0280009322.01;Name=MsG0280009322.01.T01;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|0|1|0|122
Chr2 exon 50305564 50305932 50305564 ID=MsG0280009322.01.T01:exon:8913;Parent=MsG0280009322.01.T01
Chr2 CDS 50305564 50305932 50305564 ID=MsG0280009322.01.T01:cds;Parent=MsG0280009322.01.T01
Gene Sequence

>MsG0280009322.01.T01

GCTCTTTTGCTTGGAAAATCAGGCTTTTACCATTCGTCAACCACAATTTTGGAGGTCGAGTCCCTAGGCTTACTTGACGCTATTAAAGTGGCTATTTCAAATGGGATGCACGTTGTACTATTTGAAATAGATTCAAAAAAATTTTCTGATGCCATCAACTCCTATTTTACTCCAAGCAATGAATTTGGTGATCTTGTAATCCAATGTAGAAGTCTCTTACTCGATGGACCCGACTTTGCAGTGTCGTATACTAGGATGCAGGCAAATGATGTTGCTCATAGTATTGCTAGGACATCATTATCTTATCCTAGCCCCCATATTTTTCATCATGTAATGCCTTACTTTGTATTCCTAATTAATTTTGAATGA
Protein sequence

>MsG0280009322.01.T01

ALLLGKSGFYHSSTTILEVESLGLLDAIKVAISNGMHVVLFEIDSKKFSDAINSYFTPSNEFGDLVIQCRSLLLDGPDFAVSYTRMQANDVAHSIARTSLSYPSPHIFHHVMPYFVFLINFE*