AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680035582.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680035582.01.T01 MTR_6g084600 89.407 236 16 3 1 232 1 231 6.65e-147 409
MsG0680035582.01.T01 MTR_8g104140 37.131 237 90 9 1 232 4 186 4.35e-25 97.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680035582.01.T01 AT1G13360 32.547 212 88 11 49 231 8 193 4.11e-11 60.5

Find 63 sgRNAs with CRISPR-Local

Find 73 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGGGATGGGTTGTTTGAATA+TGG 0.265419 6:+108802881 MsG0680035582.01.T01:CDS
ATCAACTCTCTTTCTCTTGT+CGG 0.351509 6:-108802273 None:intergenic
GATGACTTTGGTTATGGAAC+TGG 0.354739 6:+108802815 MsG0680035582.01.T01:CDS
GCCACCAACTGTCACTGAAC+CGG 0.360188 6:+108802694 MsG0680035582.01.T01:CDS
CTGGTTCAAATGACCGGTTC+AGG 0.389592 6:+108802614 MsG0680035582.01.T01:CDS
GAGGCTTCTGATGATGAACT+TGG 0.430006 6:+108802668 MsG0680035582.01.T01:CDS
GAACTTAGGTTACTTGTTTG+AGG 0.431948 6:+108802649 MsG0680035582.01.T01:CDS
TCGGAGAGTGATGGCGGGTC+CGG 0.442269 6:+108802845 MsG0680035582.01.T01:CDS
GTCAGACCTGGTTCAGTCCC+AGG 0.443869 6:-108802566 None:intergenic
TGAACCAGGTCGGTCTGAAC+CGG 0.443902 6:-108802599 None:intergenic
CATCTCCATCTCACCTGAAC+CGG 0.455184 6:-108802627 None:intergenic
CCGGTCAGGTCCACCTTCTC+CGG 0.459201 6:-108802758 None:intergenic
AGGTCTGACTGAACCGGAAC+CGG 0.460456 6:+108802580 MsG0680035582.01.T01:CDS
AGGTCGGTCTGAACCGGTTC+CGG 0.460806 6:-108802593 None:intergenic
GTCATCAAACCCAACAAAAC+CGG 0.463575 6:-108802777 None:intergenic
TCAAGACCCATCACTGAGTC+AGG 0.467138 6:-108802506 None:intergenic
TGAACCAGGTCTGACTGAAC+CGG 0.472252 6:+108802574 MsG0680035582.01.T01:CDS
TTCTGAGCCTGACTCAGTGA+TGG 0.480676 6:+108802499 MsG0680035582.01.T01:CDS
TGAACCGGGTTCGAATGAAC+CGG 0.486228 6:+108802709 MsG0680035582.01.T01:CDS
TGAACCGGGTTCGAATGAAC+CGG 0.486862 6:+108802724 MsG0680035582.01.T01:CDS
TGACTCGAGTGAGTCGAGTC+AGG 0.489034 6:+108802415 MsG0680035582.01.T01:CDS
TTTGCACCTGGGACTGAACC+AGG 0.491336 6:+108802560 MsG0680035582.01.T01:CDS
CCACCAACTGTCACTGAACC+GGG 0.496666 6:+108802695 MsG0680035582.01.T01:CDS
GGTGAGATGGAGATGAACTT+AGG 0.499586 6:+108802635 MsG0680035582.01.T01:CDS
TCGACTCACTCGAGTCAACT+CGG 0.500752 6:-108802409 None:intergenic
ATAACCAAAGTCATCAAAAC+CGG 0.504257 6:-108802807 None:intergenic
TTATGGAACTGGCTTGTTGT+CGG 0.511227 6:+108802826 MsG0680035582.01.T01:CDS
AACTCTCTTTCTCTTGTCGG+TGG 0.513345 6:-108802270 None:intergenic
AGGCTTCTGATGATGAACTT+GGG 0.517202 6:+108802669 MsG0680035582.01.T01:CDS
GGGTCCGGAGAATTTGTGAC+GGG 0.519177 6:+108802860 MsG0680035582.01.T01:CDS
CCCGGTTCAGTGACAGTTGG+TGG 0.523123 6:-108802695 None:intergenic
CAGTTGATGCTAAGATTCGT+AGG 0.534819 6:+108802330 MsG0680035582.01.T01:CDS
TGAACCGGGTTCGAATGAAC+CGG 0.540334 6:+108802739 MsG0680035582.01.T01:CDS
ACCGACCTGGTTCAAATGAC+CGG 0.543645 6:+108802608 MsG0680035582.01.T01:CDS
GTTGTTTGAATATGGTGAAC+CGG 0.543772 6:+108802889 MsG0680035582.01.T01:CDS
CCGGAGAAGGTGGACCTGAC+CGG 0.544040 6:+108802758 MsG0680035582.01.T01:CDS
CACAAAACATCCGCAGCCAC+CGG 0.546264 6:-108802908 None:intergenic
AATGACCGGTTCAGGTGAGA+TGG 0.546414 6:+108802622 MsG0680035582.01.T01:CDS
TCTGAGCCTGACTCAGTGAT+GGG 0.558261 6:+108802500 MsG0680035582.01.T01:CDS
CGACTCACTCGAGTCAACTC+GGG 0.566994 6:-108802408 None:intergenic
TGTTGTCGGAGAGTGATGGC+GGG 0.575499 6:+108802840 MsG0680035582.01.T01:CDS
CAAACCCAACAAAACCGGTC+AGG 0.575768 6:-108802772 None:intergenic
TTCTCCGGTTCATTCGAACC+CGG 0.578357 6:-108802743 None:intergenic
TTCGAATGAACCGGAGAAGG+TGG 0.582710 6:+108802748 MsG0680035582.01.T01:CDS
AGTTGATGCTAAGATTCGTA+GGG 0.588681 6:+108802331 MsG0680035582.01.T01:CDS
ATATGGTGAACCGGTGGCTG+CGG 0.589695 6:+108802898 MsG0680035582.01.T01:CDS
CTGAACCGGTCATTTGAACC+AGG 0.593475 6:-108802613 None:intergenic
GGGTTCGAATGAACCGGAGA+AGG 0.595558 6:+108802745 MsG0680035582.01.T01:CDS
GAACCGGGTTCGAATGAACC+GGG 0.621763 6:+108802725 MsG0680035582.01.T01:CDS
CGGGTCCGGAGAATTTGTGA+CGG 0.628887 6:+108802859 MsG0680035582.01.T01:CDS
TTGTTGTCGGAGAGTGATGG+CGG 0.629129 6:+108802839 MsG0680035582.01.T01:CDS
GAACCCGGTTCATTCGAACC+CGG 0.633517 6:-108802713 None:intergenic
GAACCCGGTTCATTCGAACC+CGG 0.633517 6:-108802728 None:intergenic
GAACCGGGTTCGAATGAACC+GGG 0.634647 6:+108802710 MsG0680035582.01.T01:CDS
ACCGGTCATTTGAACCAGGT+CGG 0.640805 6:-108802609 None:intergenic
GTCCGGAGAATTTGTGACGG+GGG 0.642674 6:+108802862 MsG0680035582.01.T01:CDS
GGCTTGTTGTCGGAGAGTGA+TGG 0.645676 6:+108802836 MsG0680035582.01.T01:CDS
GAACCCGGTTCAGTGACAGT+TGG 0.648924 6:-108802698 None:intergenic
AGATGACTTAACATCAGACA+AGG 0.658455 6:-108802360 None:intergenic
GGTTCCGGTTCAGTCAGACC+TGG 0.663444 6:-108802578 None:intergenic
GGTCCGGAGAATTTGTGACG+GGG 0.680756 6:+108802861 MsG0680035582.01.T01:CDS
GTTTGAATATGGTGAACCGG+TGG 0.685498 6:+108802892 MsG0680035582.01.T01:CDS
GGAACCGGTTCAGACCGACC+TGG 0.727527 6:+108802595 MsG0680035582.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATAACCAAAGTCATCAAAAC+CGG - Chr6:108802810-108802829 None:intergenic 30.0%
AGATGACTTAACATCAGACA+AGG - Chr6:108802363-108802382 None:intergenic 35.0%
ATCAACTCTCTTTCTCTTGT+CGG - Chr6:108802276-108802295 None:intergenic 35.0%
GAACTTAGGTTACTTGTTTG+AGG + Chr6:108802649-108802668 MsG0680035582.01.T01:CDS 35.0%
GTTGTTTGAATATGGTGAAC+CGG + Chr6:108802889-108802908 MsG0680035582.01.T01:CDS 35.0%
! AAGAAGAGATTTTTGCACCT+GGG + Chr6:108802549-108802568 MsG0680035582.01.T01:CDS 35.0%
! AGTTGATGCTAAGATTCGTA+GGG + Chr6:108802331-108802350 MsG0680035582.01.T01:CDS 35.0%
!! GGTTTTGATGACTTTGGTTA+TGG + Chr6:108802809-108802828 MsG0680035582.01.T01:CDS 35.0%
!!! TTTACCGGTTTTGATGACTT+TGG + Chr6:108802803-108802822 MsG0680035582.01.T01:CDS 35.0%
GATGACTTTGGTTATGGAAC+TGG + Chr6:108802815-108802834 MsG0680035582.01.T01:CDS 40.0%
GTCATCAAACCCAACAAAAC+CGG - Chr6:108802780-108802799 None:intergenic 40.0%
! AGGCTTCTGATGATGAACTT+GGG + Chr6:108802669-108802688 MsG0680035582.01.T01:CDS 40.0%
! CAGTTGATGCTAAGATTCGT+AGG + Chr6:108802330-108802349 MsG0680035582.01.T01:CDS 40.0%
! GAAGAAGAGATTTTTGCACC+TGG + Chr6:108802548-108802567 MsG0680035582.01.T01:CDS 40.0%
!! GTCGAGTCAGGTTTTTGATT+CGG + Chr6:108802427-108802446 MsG0680035582.01.T01:CDS 40.0%
!! TTATGGAACTGGCTTGTTGT+CGG + Chr6:108802826-108802845 MsG0680035582.01.T01:CDS 40.0%
!!! GGGTTTGATGACGATTTTAC+CGG + Chr6:108802788-108802807 MsG0680035582.01.T01:CDS 40.0%
AACTCTCTTTCTCTTGTCGG+TGG - Chr6:108802273-108802292 None:intergenic 45.0%
GGTGAGATGGAGATGAACTT+AGG + Chr6:108802635-108802654 MsG0680035582.01.T01:CDS 45.0%
GTTTGAATATGGTGAACCGG+TGG + Chr6:108802892-108802911 MsG0680035582.01.T01:CDS 45.0%
! GAGGCTTCTGATGATGAACT+TGG + Chr6:108802668-108802687 MsG0680035582.01.T01:CDS 45.0%
!! GGGGATGGGTTGTTTGAATA+TGG + Chr6:108802881-108802900 MsG0680035582.01.T01:CDS 45.0%
ACCGACCTGGTTCAAATGAC+CGG + Chr6:108802608-108802627 MsG0680035582.01.T01:CDS 50.0%
ACCGGTCATTTGAACCAGGT+CGG - Chr6:108802612-108802631 None:intergenic 50.0%
ATCCCCCGTCACAAATTCTC+CGG - Chr6:108802867-108802886 None:intergenic 50.0%
CAAACCCAACAAAACCGGTC+AGG - Chr6:108802775-108802794 None:intergenic 50.0%
CATCTCCATCTCACCTGAAC+CGG - Chr6:108802630-108802649 None:intergenic 50.0%
CTGAACCGGTCATTTGAACC+AGG - Chr6:108802616-108802635 None:intergenic 50.0%
TCAAGACCCATCACTGAGTC+AGG - Chr6:108802509-108802528 None:intergenic 50.0%
TCGACTCACTCGAGTCAACT+CGG - Chr6:108802412-108802431 None:intergenic 50.0%
TCTGAGCCTGACTCAGTGAT+GGG + Chr6:108802500-108802519 MsG0680035582.01.T01:CDS 50.0%
TGAACCAGGTCTGACTGAAC+CGG + Chr6:108802574-108802593 MsG0680035582.01.T01:CDS 50.0%
TGAACCGGGTTCGAATGAAC+CGG + Chr6:108802709-108802728 MsG0680035582.01.T01:CDS 50.0%
TTCGAATGAACCGGAGAAGG+TGG + Chr6:108802748-108802767 MsG0680035582.01.T01:CDS 50.0%
TTCTCCGGTTCATTCGAACC+CGG - Chr6:108802746-108802765 None:intergenic 50.0%
TTCTGAGCCTGACTCAGTGA+TGG + Chr6:108802499-108802518 MsG0680035582.01.T01:CDS 50.0%
TTGTTGTCGGAGAGTGATGG+CGG + Chr6:108802839-108802858 MsG0680035582.01.T01:CDS 50.0%
! AATGACCGGTTCAGGTGAGA+TGG + Chr6:108802622-108802641 MsG0680035582.01.T01:CDS 50.0%
! CTGGTTCAAATGACCGGTTC+AGG + Chr6:108802614-108802633 MsG0680035582.01.T01:CDS 50.0%
! GAGAATTTGTGACGGGGGAT+GGG + Chr6:108802867-108802886 MsG0680035582.01.T01:CDS 50.0%
!!! TGGACCTGACCGGTTTTGTT+GGG + Chr6:108802768-108802787 MsG0680035582.01.T01:CDS 50.0%
AGGTCTGACTGAACCGGAAC+CGG + Chr6:108802580-108802599 MsG0680035582.01.T01:CDS 55.0%
ATATGGTGAACCGGTGGCTG+CGG + Chr6:108802898-108802917 MsG0680035582.01.T01:CDS 55.0%
CACAAAACATCCGCAGCCAC+CGG - Chr6:108802911-108802930 None:intergenic 55.0%
CCACCAACTGTCACTGAACC+GGG + Chr6:108802695-108802714 MsG0680035582.01.T01:CDS 55.0%
CGACTCACTCGAGTCAACTC+GGG - Chr6:108802411-108802430 None:intergenic 55.0%
CGGGTCCGGAGAATTTGTGA+CGG + Chr6:108802859-108802878 MsG0680035582.01.T01:CDS 55.0%
GAACCCGGTTCAGTGACAGT+TGG - Chr6:108802701-108802720 None:intergenic 55.0%
GAACCCGGTTCATTCGAACC+CGG - Chr6:108802716-108802735 None:intergenic 55.0%
GAACCGGGTTCGAATGAACC+GGG + Chr6:108802710-108802729 MsG0680035582.01.T01:CDS 55.0%
GCCACCAACTGTCACTGAAC+CGG + Chr6:108802694-108802713 MsG0680035582.01.T01:CDS 55.0%
GGGTCCGGAGAATTTGTGAC+GGG + Chr6:108802860-108802879 MsG0680035582.01.T01:CDS 55.0%
GGGTTCGAATGAACCGGAGA+AGG + Chr6:108802745-108802764 MsG0680035582.01.T01:CDS 55.0%
GGTCCGGAGAATTTGTGACG+GGG + Chr6:108802861-108802880 MsG0680035582.01.T01:CDS 55.0%
GTCCGGAGAATTTGTGACGG+GGG + Chr6:108802862-108802881 MsG0680035582.01.T01:CDS 55.0%
TGAACCAGGTCGGTCTGAAC+CGG - Chr6:108802602-108802621 None:intergenic 55.0%
TGACTCGAGTGAGTCGAGTC+AGG + Chr6:108802415-108802434 MsG0680035582.01.T01:CDS 55.0%
TGTTGTCGGAGAGTGATGGC+GGG + Chr6:108802840-108802859 MsG0680035582.01.T01:CDS 55.0%
TTTGCACCTGGGACTGAACC+AGG + Chr6:108802560-108802579 MsG0680035582.01.T01:CDS 55.0%
! GGAGAATTTGTGACGGGGGA+TGG + Chr6:108802866-108802885 MsG0680035582.01.T01:CDS 55.0%
! TGCGGATGTTTTGTGGCGGT+CGG + Chr6:108802916-108802935 MsG0680035582.01.T01:CDS 55.0%
! TGGCTGCGGATGTTTTGTGG+CGG + Chr6:108802912-108802931 MsG0680035582.01.T01:CDS 55.0%
!! GGCTTGTTGTCGGAGAGTGA+TGG + Chr6:108802836-108802855 MsG0680035582.01.T01:CDS 55.0%
!! GTGGACCTGACCGGTTTTGT+TGG + Chr6:108802767-108802786 MsG0680035582.01.T01:CDS 55.0%
CCCGGTTCAGTGACAGTTGG+TGG - Chr6:108802698-108802717 None:intergenic 60.0%
GGTTCCGGTTCAGTCAGACC+TGG - Chr6:108802581-108802600 None:intergenic 60.0%
GTCAGACCTGGTTCAGTCCC+AGG - Chr6:108802569-108802588 None:intergenic 60.0%
! AGGTCGGTCTGAACCGGTTC+CGG - Chr6:108802596-108802615 None:intergenic 60.0%
! CGGTGGCTGCGGATGTTTTG+TGG + Chr6:108802909-108802928 MsG0680035582.01.T01:CDS 60.0%
CCGGAGAAGGTGGACCTGAC+CGG + Chr6:108802758-108802777 MsG0680035582.01.T01:CDS 65.0%
CCGGTCAGGTCCACCTTCTC+CGG - Chr6:108802761-108802780 None:intergenic 65.0%
! GGAACCGGTTCAGACCGACC+TGG + Chr6:108802595-108802614 MsG0680035582.01.T01:CDS 65.0%
!! TCGGAGAGTGATGGCGGGTC+CGG + Chr6:108802845-108802864 MsG0680035582.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr6 gene 108802260 108802958 108802260 ID=MsG0680035582.01;Name=MsG0680035582.01
Chr6 mRNA 108802260 108802958 108802260 ID=MsG0680035582.01.T01;Parent=MsG0680035582.01;Name=MsG0680035582.01.T01;_AED=0.17;_eAED=0.17;_QI=0|-1|0|1|-1|1|1|0|232
Chr6 exon 108802260 108802958 108802260 ID=MsG0680035582.01.T01:exon:8348;Parent=MsG0680035582.01.T01
Chr6 CDS 108802260 108802958 108802260 ID=MsG0680035582.01.T01:cds;Parent=MsG0680035582.01.T01
Gene Sequence

>MsG0680035582.01.T01

ATGGAGAATTCCACCGACAAGAGAAAGAGAGTTGATGATGAGTTTGAAACTCAAACTCACTGTGTTGACTCAGTTGATGCTAAGATTCGTAGGGTTAACTCCTTGTCTGATGTTAAGTCATCTGAAACGAAAACTGAGACTCAGCTTACCCGAGTTGACTCGAGTGAGTCGAGTCAGGTTTTTGATTCGGATGAGATTTTTAACATACTTGATGATGAAAACAATGCTCATGAACGTGATTCTGAGCCTGACTCAGTGATGGGTCTTGACTCAGTTATCAAAAGCTTTGAAGAAGAGATTTTTGCACCTGGGACTGAACCAGGTCTGACTGAACCGGAACCGGTTCAGACCGACCTGGTTCAAATGACCGGTTCAGGTGAGATGGAGATGAACTTAGGTTACTTGTTTGAGGCTTCTGATGATGAACTTGGGTTGCCACCAACTGTCACTGAACCGGGTTCGAATGAACCGGGTTCGAATGAACCGGGTTCGAATGAACCGGAGAAGGTGGACCTGACCGGTTTTGTTGGGTTTGATGACGATTTTACCGGTTTTGATGACTTTGGTTATGGAACTGGCTTGTTGTCGGAGAGTGATGGCGGGTCCGGAGAATTTGTGACGGGGGATGGGTTGTTTGAATATGGTGAACCGGTGGCTGCGGATGTTTTGTGGCGGTCGGAGTCTTTACAAGCTATGTAA

Protein sequence

>MsG0680035582.01.T01

MENSTDKRKRVDDEFETQTHCVDSVDAKIRRVNSLSDVKSSETKTETQLTRVDSSESSQVFDSDEIFNILDDENNAHERDSEPDSVMGLDSVIKSFEEEIFAPGTEPGLTEPEPVQTDLVQMTGSGEMEMNLGYLFEASDDELGLPPTVTEPGSNEPGSNEPGSNEPEKVDLTGFVGFDDDFTGFDDFGYGTGLLSESDGGSGEFVTGDGLFEYGEPVAADVLWRSESLQAM*