AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280010098.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010098.01.T01 MTR_2g030380 82.474 97 17 0 5 101 855 951 1.01e-51 174
MsG0280010098.01.T01 MTR_2g030380 82.474 97 17 0 5 101 873 969 1.02e-51 174
MsG0280010098.01.T01 MTR_2g077970 71.287 101 12 1 1 101 2 85 1.51e-43 138
MsG0280010098.01.T01 MTR_5g087780 53.571 84 39 0 9 92 803 886 3.02e-26 102
MsG0280010098.01.T01 MTR_3g094710 52.809 89 41 1 13 101 849 936 4.27e-24 95.9
MsG0280010098.01.T01 MTR_5g083480 47.619 84 42 2 16 99 592 673 6.31e-16 72.4
MsG0280010098.01.T01 MTR_5g083480 47.619 84 42 2 16 99 595 676 6.32e-16 72.4
MsG0280010098.01.T01 MTR_4g014070 42.857 77 43 1 16 92 600 675 1.39e-13 65.9
MsG0280010098.01.T01 MTR_3g102180 43.590 78 40 3 13 90 470 543 3.63e-12 61.6
MsG0280010098.01.T01 MTR_4g094885 39.773 88 48 3 13 100 457 539 2.33e-11 59.3
MsG0280010098.01.T01 MTR_7g059225 41.463 82 45 2 12 91 475 555 2.97e-11 59.3
MsG0280010098.01.T01 MTR_4g109170 39.744 78 44 2 15 90 904 980 5.25e-11 58.5
MsG0280010098.01.T01 MTR_4g097880 41.860 86 46 3 8 90 778 862 5.42e-11 58.5
MsG0280010098.01.T01 MTR_4g014350 43.662 71 34 3 8 73 501 570 5.89e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010098.01.T01 AT4G20940 74.227 97 25 0 5 101 843 939 1.87e-47 162
MsG0280010098.01.T01 AT5G10020 53.086 81 37 1 13 93 817 896 5.86e-24 95.5
MsG0280010098.01.T01 AT5G10020 53.086 81 37 1 13 93 865 944 5.88e-24 95.5
MsG0280010098.01.T01 AT2G27060 52.000 75 36 0 19 93 741 815 9.81e-20 83.6
MsG0280010098.01.T01 AT2G27060 52.000 75 36 0 19 93 834 908 9.87e-20 83.6
MsG0280010098.01.T01 AT3G51740 45.238 84 43 2 11 92 627 709 3.08e-15 70.5
MsG0280010098.01.T01 AT2G26730 32.710 107 56 3 8 114 440 530 6.37e-13 63.9
MsG0280010098.01.T01 AT3G24660 42.683 82 44 2 12 91 467 547 2.26e-12 62.4
MsG0280010098.01.T01 AT1G29720 43.529 85 45 2 8 90 760 843 3.21e-11 59.3
MsG0280010098.01.T01 AT1G15530 38.554 83 48 2 13 93 453 534 5.71e-11 58.5
MsG0280010098.01.T01 AT3G50230 41.772 79 42 3 13 91 480 554 8.67e-11 57.8
MsG0280010098.01.T01 AT3G50230 41.772 79 42 3 13 91 492 566 8.69e-11 57.8

Find 28 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACAACACATTTGTAGCTTTA+AGG 0.084448 2:+64329782 MsG0280010097.01.T01:intron
ATTCTTGATGCTGGTGTCTT+AGG 0.234146 2:-64329679 MsG0280010098.01.T01:CDS
GAAGGAAGGCATTGGCTTCT+TGG 0.275803 2:+64329626 None:intergenic
AACATAGACATCTGACTTGA+AGG 0.416250 2:+64329608 None:intergenic
GAGGAACAGCTCGGTCGAAA+TGG 0.424838 2:+64329812 MsG0280010097.01.T01:intron
TGTCTTAGGTTATCACGTTC+CGG 0.427126 2:-64329665 MsG0280010098.01.T01:CDS
GGTCGAAATGGAGATAGTTC+AGG 0.434244 2:+64329824 MsG0280010097.01.T01:intron
GGCATTGGCTTCTTGGAAGC+AGG 0.455212 2:+64329633 None:intergenic
ATCCTTTGAGCCCATGTTGA+CGG 0.477954 2:+64329874 MsG0280010097.01.T01:intron
TTCGACCGAGCTGTTCCTCA+TGG 0.501348 2:-64329808 MsG0280010098.01.T01:CDS
TGGAAGCAGGCAGTTAACTC+CGG 0.528125 2:+64329646 None:intergenic
CACCGTCAACATGGGCTCAA+AGG 0.529373 2:-64329876 MsG0280010098.01.T01:CDS
ATTGAAATTCTCAGATCGAC+CGG 0.538455 2:-64329911 MsG0280010098.01.T01:CDS
AAAACGGTCCACCGTCAACA+TGG 0.545651 2:-64329885 MsG0280010098.01.T01:CDS
ATTGAACAGATTCTTGATGC+TGG 0.555236 2:-64329688 MsG0280010098.01.T01:CDS
TCTGACTTGAAGGAAGGCAT+TGG 0.560617 2:+64329618 None:intergenic
CTTTGAGCCCATGTTGACGG+TGG 0.591853 2:+64329877 MsG0280010097.01.T01:intron
AAACGGTCCACCGTCAACAT+GGG 0.596418 2:-64329884 MsG0280010098.01.T01:CDS
TTGAAATTCTCAGATCGACC+GGG 0.604402 2:-64329910 MsG0280010098.01.T01:CDS
CATCGACTTATGACTCAGGC+TGG 0.607968 2:-64329715 MsG0280010098.01.T01:CDS
TCTTCATCGACTTATGACTC+AGG 0.614088 2:-64329719 MsG0280010098.01.T01:CDS
TAGACATCTGACTTGAAGGA+AGG 0.620556 2:+64329612 None:intergenic
AACACATGCATTCATACCGA+CGG 0.626540 2:+64329753 None:intergenic
GGTTTCCATGAGGAACAGCT+CGG 0.634183 2:+64329803 MsG0280010097.01.T01:intron
TGAAATTCTCAGATCGACCG+GGG 0.683170 2:-64329909 MsG0280010098.01.T01:CDS
AATGTGTTGTTAGATACCGT+CGG 0.697479 2:-64329769 MsG0280010098.01.T01:CDS
ATAGCAGTCGATGTAGCACG+TGG 0.726604 2:-64329847 MsG0280010098.01.T01:CDS
GTAGCTTTAAGGTTTCCATG+AGG 0.732655 2:+64329793 MsG0280010097.01.T01:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAGTCAGATGTCTATGTTTT+CGG - Chr2:64329895-64329914 MsG0280010098.01.T01:CDS 30.0%
! ACAACACATTTGTAGCTTTA+AGG + Chr2:64329719-64329738 None:intergenic 30.0%
ATTGAACAGATTCTTGATGC+TGG - Chr2:64329810-64329829 MsG0280010098.01.T01:CDS 35.0%
! AACATAGACATCTGACTTGA+AGG + Chr2:64329893-64329912 MsG0280010097.01.T01:intron 35.0%
! AATGTGTTGTTAGATACCGT+CGG - Chr2:64329729-64329748 MsG0280010098.01.T01:CDS 35.0%
AACACATGCATTCATACCGA+CGG + Chr2:64329748-64329767 None:intergenic 40.0%
ATTCTTGATGCTGGTGTCTT+AGG - Chr2:64329819-64329838 MsG0280010098.01.T01:CDS 40.0%
TGTCTTAGGTTATCACGTTC+CGG - Chr2:64329833-64329852 MsG0280010098.01.T01:CDS 40.0%
TTGAAATTCTCAGATCGACC+GGG - Chr2:64329588-64329607 MsG0280010098.01.T01:CDS 40.0%
! TAGACATCTGACTTGAAGGA+AGG + Chr2:64329889-64329908 MsG0280010097.01.T01:intron 40.0%
!! GTAGCTTTAAGGTTTCCATG+AGG + Chr2:64329708-64329727 None:intergenic 40.0%
!! TCTTCATCGACTTATGACTC+AGG - Chr2:64329779-64329798 MsG0280010098.01.T01:CDS 40.0%
ATCCTTTGAGCCCATGTTGA+CGG + Chr2:64329627-64329646 None:intergenic 45.0%
GGTCGAAATGGAGATAGTTC+AGG + Chr2:64329677-64329696 None:intergenic 45.0%
TGAAATTCTCAGATCGACCG+GGG - Chr2:64329589-64329608 MsG0280010098.01.T01:CDS 45.0%
! TCTGACTTGAAGGAAGGCAT+TGG + Chr2:64329883-64329902 MsG0280010097.01.T01:intron 45.0%
AAAACGGTCCACCGTCAACA+TGG - Chr2:64329613-64329632 MsG0280010098.01.T01:CDS 50.0%
AAACGGTCCACCGTCAACAT+GGG - Chr2:64329614-64329633 MsG0280010098.01.T01:CDS 50.0%
ATAGCAGTCGATGTAGCACG+TGG - Chr2:64329651-64329670 MsG0280010098.01.T01:CDS 50.0%
GGTTTCCATGAGGAACAGCT+CGG + Chr2:64329698-64329717 None:intergenic 50.0%
TCAGATCGACCGGGGAAAAA+CGG - Chr2:64329597-64329616 MsG0280010098.01.T01:CDS 50.0%
TGGAAGCAGGCAGTTAACTC+CGG + Chr2:64329855-64329874 MsG0280010097.01.T01:intron 50.0%
!! CATCGACTTATGACTCAGGC+TGG - Chr2:64329783-64329802 MsG0280010098.01.T01:CDS 50.0%
!! GAAGGAAGGCATTGGCTTCT+TGG + Chr2:64329875-64329894 MsG0280010097.01.T01:intron 50.0%
CACCGTCAACATGGGCTCAA+AGG - Chr2:64329622-64329641 MsG0280010098.01.T01:CDS 55.0%
CTTTGAGCCCATGTTGACGG+TGG + Chr2:64329624-64329643 None:intergenic 55.0%
GAGGAACAGCTCGGTCGAAA+TGG + Chr2:64329689-64329708 None:intergenic 55.0%
TTCGACCGAGCTGTTCCTCA+TGG - Chr2:64329690-64329709 MsG0280010098.01.T01:CDS 55.0%
!! GGCATTGGCTTCTTGGAAGC+AGG + Chr2:64329868-64329887 MsG0280010097.01.T01:intron 55.0%
!! GACGGTGGACCGTTTTTCCC+CGG + Chr2:64329609-64329628 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr2 gene 64329588 64329932 64329588 ID=MsG0280010098.01;Name=MsG0280010098.01
Chr2 mRNA 64329588 64329932 64329588 ID=MsG0280010098.01.T01;Parent=MsG0280010098.01;Name=MsG0280010098.01.T01;_AED=0.51;_eAED=0.58;_QI=0|-1|0|1|-1|1|1|0|114
Chr2 exon 64329588 64329932 64329588 ID=MsG0280010098.01.T01:exon:25515;Parent=MsG0280010098.01.T01
Chr2 CDS 64329588 64329932 64329588 ID=MsG0280010098.01.T01:cds;Parent=MsG0280010098.01.T01
Gene Sequence

>MsG0280010098.01.T01

TTGAAATTCTCAGATCGACCGGGGAAAAACGGTCCACCGTCAACATGGGCTCAAAGGATCAAAATAGCAGTCGATGTAGCACGTGGCCTGAACTATCTCCATTTCGACCGAGCTGTTCCTCATGGAAACCTTAAAGCTACAAATGTGTTGTTAGATACCGTCGGTATGAATGCATGTGTTATTGATTATTGTCTTCATCGACTTATGACTCAGGCTGGTACTATTGAACAGATTCTTGATGCTGGTGTCTTAGGTTATCACGTTCCGGAGTTAACTGCCTGCTTCCAAGAAGCCAATGCCTTCCTTCAAGTCAGATGTCTATGTTTTCGGTGTGATGCTTTTTGA
Protein sequence

>MsG0280010098.01.T01

LKFSDRPGKNGPPSTWAQRIKIAVDVARGLNYLHFDRAVPHGNLKATNVLLDTVGMNACVIDYCLHRLMTQAGTIEQILDAGVLGYHVPELTACFQEANAFLQVRCLCFRCDAF*