AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780040110.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780040110.01.T01 MTR_2g094040 70.089 224 35 9 1 219 1 197 8.35e-95 276
MsG0780040110.01.T01 MTR_3g005800 55.245 143 57 4 77 219 4 139 2.94e-46 152
MsG0780040110.01.T01 MTR_3g005790 50.350 143 63 4 77 219 5 139 7.76e-45 147
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780040110.01.T01 AT1G22510 44.961 129 65 3 91 219 10 132 3.55e-31 113
MsG0780040110.01.T01 AT1G72175 44.186 129 66 3 91 219 10 132 7.47e-29 107
MsG0780040110.01.T01 AT1G22510 44.340 106 53 3 114 219 51 150 6.71e-20 84.3
MsG0780040110.01.T01 AT1G72175 42.574 101 52 3 119 219 4 98 1.35e-16 74.3
MsG0780040110.01.T01 AT4G33940 29.365 126 82 3 91 216 74 192 4.09e-14 68.9
MsG0780040110.01.T01 AT4G33940 29.008 131 86 3 91 221 74 197 1.03e-13 68.9

Find 51 sgRNAs with CRISPR-Local

Find 58 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAAGAAAAGAAAGGGAAAT+TGG 0.154216 7:+73162788 MsG0780040110.01.T01:CDS
GGCTAAGATAGAAGAAGAAT+TGG 0.288794 7:+73162713 MsG0780040110.01.T01:CDS
TCATCGACCCGTTACCCTTT+TGG 0.297940 7:+73163010 MsG0780040110.01.T01:CDS
GGTTGAAGAGAAAGTGAAAT+TGG 0.301053 7:+73162674 MsG0780040110.01.T01:CDS
GAAGAATTGGGTGAAGAGAT+AGG 0.309675 7:+73162726 MsG0780040110.01.T01:CDS
TGAATTCCAATCAGAACTTC+AGG 0.330596 7:-73163089 None:intergenic
TCTATCTTAGCCTCTAACCC+TGG 0.356011 7:-73162702 None:intergenic
CCCTTTCTCTTCTTCTACCT+CGG 0.361185 7:-73162829 None:intergenic
CACGACCCTGAAGTTCTGAT+TGG 0.390853 7:+73163083 MsG0780040110.01.T01:CDS
TCAAAGAGTCTCTGAGTAAT+GGG 0.393871 7:-73163149 None:intergenic
AGAGATAGGGAAAGGGAAAT+CGG 0.401158 7:+73162740 MsG0780040110.01.T01:CDS
GAAGAAAAGAAAGGGAAATT+GGG 0.405478 7:+73162789 MsG0780040110.01.T01:CDS
ATTGGAAAACCCAGGGTTAG+AGG 0.416917 7:+73162692 MsG0780040110.01.T01:CDS
GGGTGAAGAGAAAGGGAAAT+CGG 0.418833 7:+73162611 MsG0780040110.01.T01:CDS
GTGAAGCTACATGCTCTCAT+TGG 0.435563 7:+73162913 MsG0780040110.01.T01:CDS
CTATCTTAGCCTCTAACCCT+GGG 0.438058 7:-73162701 None:intergenic
AAAAGCCTCCGCACGAGAAA+AGG 0.442906 7:-73163176 None:intergenic
AACTTGTACAATCGCTGATT+GGG 0.444017 7:+73162944 MsG0780040110.01.T01:CDS
GCTAAGATAGAAGAAGAATT+GGG 0.456108 7:+73162714 MsG0780040110.01.T01:CDS
ATGTAGCTTCACATATAATC+TGG 0.464921 7:-73162902 None:intergenic
CAACTTGTACAATCGCTGAT+TGG 0.465387 7:+73162943 MsG0780040110.01.T01:CDS
GTAGGAACCAAAAGGGTAAC+GGG 0.484752 7:-73163017 None:intergenic
CTACCTCGGCTTCTAACCCT+AGG 0.485273 7:-73162815 None:intergenic
ACACGAGCTCTGAAAAGAAA+AGG 0.485582 7:-73163230 None:intergenic
GGAGACTGAGAGAGAAGAAA+TGG 0.487507 7:+73162653 MsG0780040110.01.T01:CDS
ATCAAAGAGTCTCTGAGTAA+TGG 0.493238 7:-73163150 None:intergenic
AAAGGGAAATTGGGAAACCT+AGG 0.493922 7:+73162798 MsG0780040110.01.T01:CDS
AGAAAAGGAAGAGATGTATC+GGG 0.501383 7:-73163215 None:intergenic
AAGAAAAGGAAGAGATGTAT+CGG 0.504612 7:-73163216 None:intergenic
CTGAGATAGAAGAAAAGAAA+GGG 0.504970 7:+73162781 MsG0780040110.01.T01:CDS
AAGAATTGGGTGAAGAGATA+GGG 0.506623 7:+73162727 MsG0780040110.01.T01:CDS
GCTGAGATAGAAGAAAAGAA+AGG 0.507021 7:+73162780 MsG0780040110.01.T01:CDS
AACTACAACTGCGACGATGA+TGG 0.510417 7:+73163047 MsG0780040110.01.T01:CDS
GCCGAGGTAGAAGAAGAGAA+AGG 0.510966 7:+73162828 MsG0780040110.01.T01:CDS
TTGGGTGAAGAGATAGGGAA+AGG 0.515644 7:+73162732 MsG0780040110.01.T01:CDS
CTCTCTCAGTCTCCAACGCT+AGG 0.520593 7:-73162644 None:intergenic
TGGGTGAAGAGATAGGGAAA+GGG 0.539493 7:+73162733 MsG0780040110.01.T01:CDS
CCGAGGTAGAAGAAGAGAAA+GGG 0.540345 7:+73162829 MsG0780040110.01.T01:CDS
GAATTCCAATCAGAACTTCA+GGG 0.553145 7:-73163088 None:intergenic
CATTTGACAAAGTTTGATGA+TGG 0.560705 7:-73162858 None:intergenic
AGTAGGAACCAAAAGGGTAA+CGG 0.564577 7:-73163018 None:intergenic
TGACAGTGTGGACATTTACA+AGG 0.564971 7:-73162990 None:intergenic
GGAAAACGAAAACCTAGCGT+TGG 0.582482 7:+73162632 MsG0780040110.01.T01:CDS
AAGGGAAATTGGGAAACCTA+GGG 0.602237 7:+73162799 MsG0780040110.01.T01:CDS
AAACCTAGGGTTAGAAGCCG+AGG 0.616185 7:+73162812 MsG0780040110.01.T01:CDS
ATCGGAAGAAATATCGTCAG+AGG 0.632265 7:+73162758 MsG0780040110.01.T01:CDS
AAGTGAAATTGGAAAACCCA+GGG 0.639009 7:+73162685 MsG0780040110.01.T01:CDS
ACATTTACAAGGTTCAATGT+CGG 0.657703 7:-73162979 None:intergenic
GAAAAGGAAGAGATGTATCG+GGG 0.659357 7:-73163214 None:intergenic
AAAGTGAAATTGGAAAACCC+AGG 0.679877 7:+73162684 MsG0780040110.01.T01:CDS
GTAACGGGTCGATGACAGTG+TGG 0.759412 7:-73163002 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CAGACTTATAACACTATTTT+TGG + Chr7:73163110-73163129 MsG0780040110.01.T01:CDS 25.0%
AAGAAAAGGAAGAGATGTAT+CGG - Chr7:73163219-73163238 None:intergenic 30.0%
ACATTTACAAGGTTCAATGT+CGG - Chr7:73162982-73163001 None:intergenic 30.0%
AGAAGAAAAGAAAGGGAAAT+TGG + Chr7:73162788-73162807 MsG0780040110.01.T01:CDS 30.0%
ATGTAGCTTCACATATAATC+TGG - Chr7:73162905-73162924 None:intergenic 30.0%
CATTTGACAAAGTTTGATGA+TGG - Chr7:73162861-73162880 None:intergenic 30.0%
CTGAGATAGAAGAAAAGAAA+GGG + Chr7:73162781-73162800 MsG0780040110.01.T01:CDS 30.0%
GAAGAAAAGAAAGGGAAATT+GGG + Chr7:73162789-73162808 MsG0780040110.01.T01:CDS 30.0%
GCTAAGATAGAAGAAGAATT+GGG + Chr7:73162714-73162733 MsG0780040110.01.T01:CDS 30.0%
!! TTTTTCAGTAGGAACCAAAA+GGG - Chr7:73163027-73163046 None:intergenic 30.0%
!!! CAGTTGTAGTTTTTTTCAGT+AGG - Chr7:73163038-73163057 None:intergenic 30.0%
!!! TTTTTTCAGTAGGAACCAAA+AGG - Chr7:73163028-73163047 None:intergenic 30.0%
AAAGTGAAATTGGAAAACCC+AGG + Chr7:73162684-73162703 MsG0780040110.01.T01:CDS 35.0%
AAGAATTGGGTGAAGAGATA+GGG + Chr7:73162727-73162746 MsG0780040110.01.T01:CDS 35.0%
AAGTGAAATTGGAAAACCCA+GGG + Chr7:73162685-73162704 MsG0780040110.01.T01:CDS 35.0%
AGAAAAGGAAGAGATGTATC+GGG - Chr7:73163218-73163237 None:intergenic 35.0%
ATCAAAGAGTCTCTGAGTAA+TGG - Chr7:73163153-73163172 None:intergenic 35.0%
GAATTCCAATCAGAACTTCA+GGG - Chr7:73163091-73163110 None:intergenic 35.0%
GCTGAGATAGAAGAAAAGAA+AGG + Chr7:73162780-73162799 MsG0780040110.01.T01:CDS 35.0%
GGCTAAGATAGAAGAAGAAT+TGG + Chr7:73162713-73162732 MsG0780040110.01.T01:CDS 35.0%
GGTTGAAGAGAAAGTGAAAT+TGG + Chr7:73162674-73162693 MsG0780040110.01.T01:CDS 35.0%
TCAAAGAGTCTCTGAGTAAT+GGG - Chr7:73163152-73163171 None:intergenic 35.0%
TGAATTCCAATCAGAACTTC+AGG - Chr7:73163092-73163111 None:intergenic 35.0%
! AACTTGTACAATCGCTGATT+GGG + Chr7:73162944-73162963 MsG0780040110.01.T01:CDS 35.0%
AAAGGGAAATTGGGAAACCT+AGG + Chr7:73162798-73162817 MsG0780040110.01.T01:CDS 40.0%
AAGGGAAATTGGGAAACCTA+GGG + Chr7:73162799-73162818 MsG0780040110.01.T01:CDS 40.0%
AGAGATAGGGAAAGGGAAAT+CGG + Chr7:73162740-73162759 MsG0780040110.01.T01:CDS 40.0%
AGTAGGAACCAAAAGGGTAA+CGG - Chr7:73163021-73163040 None:intergenic 40.0%
ATCGGAAGAAATATCGTCAG+AGG + Chr7:73162758-73162777 MsG0780040110.01.T01:CDS 40.0%
CAACTTGTACAATCGCTGAT+TGG + Chr7:73162943-73162962 MsG0780040110.01.T01:CDS 40.0%
GAAAAGGAAGAGATGTATCG+GGG - Chr7:73163217-73163236 None:intergenic 40.0%
GAAGAATTGGGTGAAGAGAT+AGG + Chr7:73162726-73162745 MsG0780040110.01.T01:CDS 40.0%
TGACAGTGTGGACATTTACA+AGG - Chr7:73162993-73163012 None:intergenic 40.0%
! TTGATCTTCCTTTTCTCGTG+CGG + Chr7:73163168-73163187 MsG0780040110.01.T01:CDS 40.0%
!! ACACGAGCTCTGAAAAGAAA+AGG - Chr7:73163233-73163252 None:intergenic 40.0%
AACTACAACTGCGACGATGA+TGG + Chr7:73163047-73163066 MsG0780040110.01.T01:CDS 45.0%
ATTGGAAAACCCAGGGTTAG+AGG + Chr7:73162692-73162711 MsG0780040110.01.T01:CDS 45.0%
CCCTTTCTCTTCTTCTACCT+CGG - Chr7:73162832-73162851 None:intergenic 45.0%
CCGAGGTAGAAGAAGAGAAA+GGG + Chr7:73162829-73162848 MsG0780040110.01.T01:CDS 45.0%
CTATCTTAGCCTCTAACCCT+GGG - Chr7:73162704-73162723 None:intergenic 45.0%
GGAAAACGAAAACCTAGCGT+TGG + Chr7:73162632-73162651 MsG0780040110.01.T01:CDS 45.0%
GGAGACTGAGAGAGAAGAAA+TGG + Chr7:73162653-73162672 MsG0780040110.01.T01:CDS 45.0%
GGGTGAAGAGAAAGGGAAAT+CGG + Chr7:73162611-73162630 MsG0780040110.01.T01:CDS 45.0%
GTAGGAACCAAAAGGGTAAC+GGG - Chr7:73163020-73163039 None:intergenic 45.0%
GTGAAGCTACATGCTCTCAT+TGG + Chr7:73162913-73162932 MsG0780040110.01.T01:CDS 45.0%
TCTATCTTAGCCTCTAACCC+TGG - Chr7:73162705-73162724 None:intergenic 45.0%
TGGGTGAAGAGATAGGGAAA+GGG + Chr7:73162733-73162752 MsG0780040110.01.T01:CDS 45.0%
TTGGGTGAAGAGATAGGGAA+AGG + Chr7:73162732-73162751 MsG0780040110.01.T01:CDS 45.0%
AAAAGCCTCCGCACGAGAAA+AGG - Chr7:73163179-73163198 None:intergenic 50.0%
AAACCTAGGGTTAGAAGCCG+AGG + Chr7:73162812-73162831 MsG0780040110.01.T01:CDS 50.0%
GCCGAGGTAGAAGAAGAGAA+AGG + Chr7:73162828-73162847 MsG0780040110.01.T01:CDS 50.0%
! ATCTTCCTTTTCTCGTGCGG+AGG + Chr7:73163171-73163190 MsG0780040110.01.T01:CDS 50.0%
! CACGACCCTGAAGTTCTGAT+TGG + Chr7:73163083-73163102 MsG0780040110.01.T01:CDS 50.0%
! TCATCGACCCGTTACCCTTT+TGG + Chr7:73163010-73163029 MsG0780040110.01.T01:CDS 50.0%
CTACCTCGGCTTCTAACCCT+AGG - Chr7:73162818-73162837 None:intergenic 55.0%
CTCTCTCAGTCTCCAACGCT+AGG - Chr7:73162647-73162666 None:intergenic 55.0%
! TCTCGTGCGGAGGCTTTTCA+TGG + Chr7:73163181-73163200 MsG0780040110.01.T01:CDS 55.0%
!! GTAACGGGTCGATGACAGTG+TGG - Chr7:73163005-73163024 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr7 gene 73162609 73163286 73162609 ID=MsG0780040110.01;Name=MsG0780040110.01
Chr7 mRNA 73162609 73163286 73162609 ID=MsG0780040110.01.T01;Parent=MsG0780040110.01;Name=MsG0780040110.01.T01;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|1|1|0|225
Chr7 exon 73162609 73163286 73162609 ID=MsG0780040110.01.T01:exon:13129;Parent=MsG0780040110.01.T01
Chr7 CDS 73162609 73163286 73162609 ID=MsG0780040110.01.T01:cds;Parent=MsG0780040110.01.T01
Gene Sequence

>MsG0780040110.01.T01

ATGGGTGAAGAGAAAGGGAAATCGGAAAACGAAAACCTAGCGTTGGAGACTGAGAGAGAAGAAATGGTTGAAGAGAAAGTGAAATTGGAAAACCCAGGGTTAGAGGCTAAGATAGAAGAAGAATTGGGTGAAGAGATAGGGAAAGGGAAATCGGAAGAAATATCGTCAGAGGCTGAGATAGAAGAAAAGAAAGGGAAATTGGGAAACCTAGGGTTAGAAGCCGAGGTAGAAGAAGAGAAAGGGAAATTACCATCATCAAACTTTGTCAAATGCTCAAAATGTCACGTAAAATTCCAGATTATATGTGAAGCTACATGCTCTCATTGGTTTTGTGCAACTTGTACAATCGCTGATTGGGAACAACAATCTACCGACATTGAACCTTGTAAATGTCCACACTGTCATCGACCCGTTACCCTTTTGGTTCCTACTGAAAAAAACTACAACTGCGACGATGATGGCAACAAGTATTTTCACGACCCTGAAGTTCTGATTGGAATTCAGACTTATAACACTATTTTTGGTGATCAATCTAAAGCTCCCATTACTCAGAGACTCTTTGATCTTCCTTTTCTCGTGCGGAGGCTTTTCATGGATTTCGTTCACCCCGATACATCTCTTCCTTTTCTTTTCAGAGCTCGTGTCTTCATTACTGTTAGTTCTGATTGTTGTTGTTGA

Protein sequence

>MsG0780040110.01.T01

MGEEKGKSENENLALETEREEMVEEKVKLENPGLEAKIEEELGEEIGKGKSEEISSEAEIEEKKGKLGNLGLEAEVEEEKGKLPSSNFVKCSKCHVKFQIICEATCSHWFCATCTIADWEQQSTDIEPCKCPHCHRPVTLLVPTEKNYNCDDDGNKYFHDPEVLIGIQTYNTIFGDQSKAPITQRLFDLPFLVRRLFMDFVHPDTSLPFLFRARVFITVSSDCCC*