AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580028437.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580028437.01.T01 MTR_4g123470 83.962 106 17 0 1 106 120 225 1.01e-62 190
MsG0580028437.01.T01 MTR_7g113060 84.211 38 6 0 68 105 3 40 1.47e-17 73.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 27 sgRNAs with CRISPR-Local

Find 28 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAGTTCCTATCGTTGGATA+TGG 0.258835 5:+80497517 MsG0580028437.01.T01:CDS
TATGGACTACCTCATACTTT+TGG 0.324519 5:+80497652 MsG0580028437.01.T01:intron
AATCGTGATGTTTCACTCTA+AGG 0.342040 5:-80497681 None:intergenic
CATAAGGTCCCCACAACATT+AGG 0.363936 5:-80497705 None:intergenic
TCCGAACATCACATTTGGTA+TGG 0.409212 5:-80497767 None:intergenic
ACCTTTGAAGTTCCTATCGT+TGG 0.439777 5:+80497511 MsG0580028437.01.T01:CDS
TTGTGCTGCCAATGGTATTG+AGG 0.463000 5:+80497807 MsG0580028437.01.T01:CDS
CCCATACCAAATGTGATGTT+CGG 0.470215 5:+80497766 MsG0580028437.01.T01:CDS
GTCATGTGTTTATTAACGCT+TGG 0.474103 5:-80497890 None:intergenic
CCAAATGTGATGTTCGGAAA+AGG 0.475440 5:+80497772 MsG0580028437.01.T01:CDS
AAACGATGCTGCCACACTCA+TGG 0.481669 5:-80497482 None:intergenic
CCGAACATCACATTTGGTAT+GGG 0.484360 5:-80497766 None:intergenic
AGGAATTTGCCAAAAGTATG+AGG 0.497368 5:-80497661 None:intergenic
TGTGCTGCCAATGGTATTGA+GGG 0.501205 5:+80497808 MsG0580028437.01.T01:CDS
ATCACGATTACCTAATGTTG+TGG 0.515574 5:+80497695 MsG0580028437.01.T01:CDS
TCACGATTACCTAATGTTGT+GGG 0.516456 5:+80497696 MsG0580028437.01.T01:CDS
ACAGGAATGATATTGTCATA+AGG 0.528831 5:-80497721 None:intergenic
TCTGTATATTTGAGTCTCAC+AGG 0.541156 5:-80497739 None:intergenic
TTTCAAGTGCAAGTGCGTCA+TGG 0.567746 5:+80497846 MsG0580028437.01.T01:CDS
GTCTCCGCCCTCAATACCAT+TGG 0.581950 5:-80497815 None:intergenic
ATGTGATGTTCGGAAAAGGT+TGG 0.606400 5:+80497776 MsG0580028437.01.T01:CDS
TCCAACGATAGGAACTTCAA+AGG 0.611311 5:-80497512 None:intergenic
GTCGATCCATATCCAACGAT+AGG 0.629633 5:-80497523 None:intergenic
ACCCTATCATTCCATGAGTG+TGG 0.630625 5:+80497471 None:intergenic
CACGATTACCTAATGTTGTG+GGG 0.648368 5:+80497697 MsG0580028437.01.T01:CDS
TGGATCGACGATATCACCGA+AGG 0.688446 5:+80497537 MsG0580028437.01.T01:CDS
GCTGCCAATGGTATTGAGGG+CGG 0.739556 5:+80497811 MsG0580028437.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAAACAATAAACAACCTT+CGG - Chr5:80497556-80497575 None:intergenic 20.0%
ACAGGAATGATATTGTCATA+AGG - Chr5:80497724-80497743 None:intergenic 30.0%
AATCGTGATGTTTCACTCTA+AGG - Chr5:80497684-80497703 None:intergenic 35.0%
ATCACGATTACCTAATGTTG+TGG + Chr5:80497695-80497714 MsG0580028437.01.T01:CDS 35.0%
TCACGATTACCTAATGTTGT+GGG + Chr5:80497696-80497715 MsG0580028437.01.T01:CDS 35.0%
TCTGTATATTTGAGTCTCAC+AGG - Chr5:80497742-80497761 None:intergenic 35.0%
! AGGAATTTGCCAAAAGTATG+AGG - Chr5:80497664-80497683 None:intergenic 35.0%
!! TATGGACTACCTCATACTTT+TGG + Chr5:80497652-80497671 MsG0580028437.01.T01:intron 35.0%
ATGTGATGTTCGGAAAAGGT+TGG + Chr5:80497776-80497795 MsG0580028437.01.T01:CDS 40.0%
CACGATTACCTAATGTTGTG+GGG + Chr5:80497697-80497716 MsG0580028437.01.T01:CDS 40.0%
CCAAATGTGATGTTCGGAAA+AGG + Chr5:80497772-80497791 MsG0580028437.01.T01:CDS 40.0%
CCCATACCAAATGTGATGTT+CGG + Chr5:80497766-80497785 MsG0580028437.01.T01:CDS 40.0%
CCGAACATCACATTTGGTAT+GGG - Chr5:80497769-80497788 None:intergenic 40.0%
GAAGTTCCTATCGTTGGATA+TGG + Chr5:80497517-80497536 MsG0580028437.01.T01:CDS 40.0%
TCCAACGATAGGAACTTCAA+AGG - Chr5:80497515-80497534 None:intergenic 40.0%
TCCGAACATCACATTTGGTA+TGG - Chr5:80497770-80497789 None:intergenic 40.0%
! CCTTTTCCGAACATCACATT+TGG - Chr5:80497775-80497794 None:intergenic 40.0%
!! ACCTTTGAAGTTCCTATCGT+TGG + Chr5:80497511-80497530 MsG0580028437.01.T01:CDS 40.0%
CATAAGGTCCCCACAACATT+AGG - Chr5:80497708-80497727 None:intergenic 45.0%
GTCGATCCATATCCAACGAT+AGG - Chr5:80497526-80497545 None:intergenic 45.0%
TTGTGCTGCCAATGGTATTG+AGG + Chr5:80497807-80497826 MsG0580028437.01.T01:CDS 45.0%
! ACGAGTTTTTGTGCTGCCAA+TGG + Chr5:80497799-80497818 MsG0580028437.01.T01:CDS 45.0%
! TGTGCTGCCAATGGTATTGA+GGG + Chr5:80497808-80497827 MsG0580028437.01.T01:CDS 45.0%
! TTTCAAGTGCAAGTGCGTCA+TGG + Chr5:80497846-80497865 MsG0580028437.01.T01:CDS 45.0%
!!! TTTTTTTTTCTTTTTTTTTA+TGG + Chr5:80497634-80497653 MsG0580028437.01.T01:intron 5.0%
TGGATCGACGATATCACCGA+AGG + Chr5:80497537-80497556 MsG0580028437.01.T01:CDS 50.0%
GTCTCCGCCCTCAATACCAT+TGG - Chr5:80497818-80497837 None:intergenic 55.0%
! GCTGCCAATGGTATTGAGGG+CGG + Chr5:80497811-80497830 MsG0580028437.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr5 gene 80497484 80497900 80497484 ID=MsG0580028437.01;Name=MsG0580028437.01
Chr5 mRNA 80497484 80497900 80497484 ID=MsG0580028437.01.T01;Parent=MsG0580028437.01;Name=MsG0580028437.01.T01;_AED=0.24;_eAED=0.24;_QI=0|0|0|1|0|0|2|0|106
Chr5 exon 80497484 80497558 80497484 ID=MsG0580028437.01.T01:exon:23789;Parent=MsG0580028437.01.T01
Chr5 exon 80497655 80497900 80497655 ID=MsG0580028437.01.T01:exon:23790;Parent=MsG0580028437.01.T01
Chr5 CDS 80497484 80497558 80497484 ID=MsG0580028437.01.T01:cds;Parent=MsG0580028437.01.T01
Chr5 CDS 80497655 80497900 80497655 ID=MsG0580028437.01.T01:cds;Parent=MsG0580028437.01.T01
Gene Sequence

>MsG0580028437.01.T01

ATGAGTGTGGCAGCATCGTTTTATTGTACCTTTGAAGTTCCTATCGTTGGATATGGATCGACGATATCACCGAAGGGACTACCTCATACTTTTGGCAAATTCCTTAGAGTGAAACATCACGATTACCTAATGTTGTGGGGACCTTATGACAATATCATTCCTGTGAGACTCAAATATACAGACGAACCCATACCAAATGTGATGTTCGGAAAAGGTTGGACGAGTTTTTGTGCTGCCAATGGTATTGAGGGCGGAGACGTGTTGATTTTCAAGTGCAAGTGCGTCATGGACGAAAAATATGTTATCGTATCCAAGCGTTAA
Protein sequence

>MsG0580028437.01.T01

MSVAASFYCTFEVPIVGYGSTISPKGLPHTFGKFLRVKHHDYLMLWGPYDNIIPVRLKYTDEPIPNVMFGKGWTSFCAANGIEGGDVLIFKCKCVMDEKYVIVSKR*