AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene057706

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene057706.t1 MTR_2g035930 97.778 135 3 0 1 135 1 135 1.05e-92 264
MS.gene057706.t1 MTR_2g006170 97.037 135 4 0 1 135 1 135 3.41e-92 263
MS.gene057706.t1 MTR_3g048580 60.870 69 26 1 67 135 29 96 7.48e-19 75.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene057706.t1 AT3G22230 85.926 135 19 0 1 135 1 135 6.64e-83 239
MS.gene057706.t1 AT4G15000 85.185 135 20 0 1 135 1 135 9.35e-82 236
MS.gene057706.t1 AT2G32220 80.000 135 27 0 1 135 1 135 2.78e-77 225
MS.gene057706.t1 AT4G15000 83.740 123 20 0 1 123 1 123 5.34e-71 209

Find 39 sgRNAs with CRISPR-Local

Find 38 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACGATGACGGCTTTCTTCC+CGG 0.266318 4.4:+35819142 None:intergenic
TACGGCCATTGTCTTGTTGC+AGG 0.322088 4.4:-35819086 MS.gene057706:CDS
CACACTTGATGTTGATTTGA+AGG 0.351053 4.4:-35818943 MS.gene057706:CDS
AGGACGATGACGGCCTTGTT+TGG 0.382413 4.4:+35819179 None:intergenic
GGTTTAAGACTGGGAAGAAT+AGG 0.401208 4.4:-35818839 MS.gene057706:CDS
TCCTTCTTGATAACTTTAGC+TGG 0.410794 4.4:+35819050 None:intergenic
TACTGATGTTCTTCAGAGTA+AGG 0.417538 4.4:-35818910 MS.gene057706:CDS
TCCCGGCGTAGCGTCCTTGA+AGG 0.429146 4.4:+35819159 None:intergenic
TAAGAAGGTGACTGCTTTGA+AGG 0.432710 4.4:-35818886 MS.gene057706:CDS
TCCTTCAAGGACGCTACGCC+GGG 0.449272 4.4:-35819160 MS.gene057706:CDS
CTTCACACGCGATTTCTTCG+CGG 0.465894 4.4:+35819013 None:intergenic
GGTGGTTCTTTACCAAGCTT+AGG 0.481134 4.4:-35818818 MS.gene057706:CDS
GTCGAAATTCTTCACGATGA+CGG 0.503904 4.4:+35819130 None:intergenic
TTCGAGGAGAGGTTTAAGAC+TGG 0.506310 4.4:-35818849 MS.gene057706:CDS
AAGGCCGTCATCGTCCTTCA+AGG 0.506838 4.4:-35819173 MS.gene057706:CDS
CGCGAAGAAATCGCGTGTGA+AGG 0.515996 4.4:-35819012 MS.gene057706:CDS
AACAGCTCAAAACCTAAGCT+TGG 0.523953 4.4:+35818806 None:intergenic
GGAACCTGTGACCGTGCATA+CGG 0.527101 4.4:-35819104 MS.gene057706:CDS
GCGAAGAAATCGCGTGTGAA+GGG 0.527543 4.4:-35819011 MS.gene057706:CDS
CGAAGAAGAGGTTCGAGGAG+AGG 0.532977 4.4:-35818860 MS.gene057706:CDS
AACGCGTCGGCATCATATGC+TGG 0.536923 4.4:+35818967 None:intergenic
TCGAGGAGAGGTTTAAGACT+GGG 0.540939 4.4:-35818848 MS.gene057706:CDS
ACGGCCATTGTCTTGTTGCA+GGG 0.554142 4.4:-35819085 MS.gene057706:CDS
GTCCTTCAAGGACGCTACGC+CGG 0.559359 4.4:-35819161 MS.gene057706:CDS
TCTTCAGAGTAAGGATAAGA+AGG 0.568239 4.4:-35818901 MS.gene057706:CDS
TCCAGCTAAAGTTATCAAGA+AGG 0.575607 4.4:-35819051 MS.gene057706:CDS
CAAGTTTCTGAAGCCAAACA+AGG 0.581514 4.4:-35819192 MS.gene057706:CDS
ATGGCCGTATGCACGGTCAC+AGG 0.582267 4.4:+35819100 None:intergenic
CAAGACAATGGCCGTATGCA+CGG 0.597016 4.4:+35819093 None:intergenic
CTTTGAAGGAGGCGAAGAAG+AGG 0.602084 4.4:-35818872 MS.gene057706:CDS
CGAAGAAATCGCGTGTGAAG+GGG 0.603203 4.4:-35819010 MS.gene057706:CDS
GGAGGCGAAGAAGAGGTTCG+AGG 0.607573 4.4:-35818865 MS.gene057706:CDS
TTAAGACTGGGAAGAATAGG+TGG 0.614047 4.4:-35818836 MS.gene057706:CDS
GCGTCCTTGAAGGACGATGA+CGG 0.637453 4.4:+35819169 None:intergenic
TGATCCCTGCAACAAGACAA+TGG 0.637766 4.4:+35819081 None:intergenic
GAAGGTGACTGCTTTGAAGG+AGG 0.640915 4.4:-35818883 MS.gene057706:CDS
ACATCAAGTGTGTAACGCGT+CGG 0.653766 4.4:+35818954 None:intergenic
ACTTGATGTTGATTTGAAGG+AGG 0.687643 4.4:-35818940 MS.gene057706:CDS
ATCGTGAAGAATTTCGACGA+CGG 0.729202 4.4:-35819125 MS.gene057706:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TACTGATGTTCTTCAGAGTA+AGG - chr4.4:35819099-35819118 MS.gene057706:CDS 35.0%
TCCAGCTAAAGTTATCAAGA+AGG - chr4.4:35818958-35818977 MS.gene057706:CDS 35.0%
TCTTCAGAGTAAGGATAAGA+AGG - chr4.4:35819108-35819127 MS.gene057706:CDS 35.0%
! TCCTTCTTGATAACTTTAGC+TGG + chr4.4:35818962-35818981 None:intergenic 35.0%
!! ACTTGATGTTGATTTGAAGG+AGG - chr4.4:35819069-35819088 MS.gene057706:CDS 35.0%
!! CACACTTGATGTTGATTTGA+AGG - chr4.4:35819066-35819085 MS.gene057706:CDS 35.0%
ATCGTGAAGAATTTCGACGA+CGG - chr4.4:35818884-35818903 MS.gene057706:CDS 40.0%
GTCGAAATTCTTCACGATGA+CGG + chr4.4:35818882-35818901 None:intergenic 40.0%
TAAGAAGGTGACTGCTTTGA+AGG - chr4.4:35819123-35819142 MS.gene057706:CDS 40.0%
TTAAGACTGGGAAGAATAGG+TGG - chr4.4:35819173-35819192 MS.gene057706:CDS 40.0%
! GGTTTAAGACTGGGAAGAAT+AGG - chr4.4:35819170-35819189 MS.gene057706:CDS 40.0%
!! CAAGTTTCTGAAGCCAAACA+AGG - chr4.4:35818817-35818836 MS.gene057706:CDS 40.0%
ACATCAAGTGTGTAACGCGT+CGG + chr4.4:35819058-35819077 None:intergenic 45.0%
GGTGGTTCTTTACCAAGCTT+AGG - chr4.4:35819191-35819210 MS.gene057706:CDS 45.0%
TGATCCCTGCAACAAGACAA+TGG + chr4.4:35818931-35818950 None:intergenic 45.0%
! TCGAGGAGAGGTTTAAGACT+GGG - chr4.4:35819161-35819180 MS.gene057706:CDS 45.0%
! TTCGAGGAGAGGTTTAAGAC+TGG - chr4.4:35819160-35819179 MS.gene057706:CDS 45.0%
CAAGACAATGGCCGTATGCA+CGG + chr4.4:35818919-35818938 None:intergenic 50.0%
CGAAGAAATCGCGTGTGAAG+GGG - chr4.4:35818999-35819018 MS.gene057706:CDS 50.0%
CTTCACACGCGATTTCTTCG+CGG + chr4.4:35818999-35819018 None:intergenic 50.0%
GCGAAGAAATCGCGTGTGAA+GGG - chr4.4:35818998-35819017 MS.gene057706:CDS 50.0%
! ACGGCCATTGTCTTGTTGCA+GGG - chr4.4:35818924-35818943 MS.gene057706:CDS 50.0%
! CTTTGAAGGAGGCGAAGAAG+AGG - chr4.4:35819137-35819156 MS.gene057706:CDS 50.0%
! TACGGCCATTGTCTTGTTGC+AGG - chr4.4:35818923-35818942 MS.gene057706:CDS 50.0%
!! GAAGGTGACTGCTTTGAAGG+AGG - chr4.4:35819126-35819145 MS.gene057706:CDS 50.0%
AAGGCCGTCATCGTCCTTCA+AGG - chr4.4:35818836-35818855 MS.gene057706:CDS 55.0%
CGAAGAAGAGGTTCGAGGAG+AGG - chr4.4:35819149-35819168 MS.gene057706:CDS 55.0%
CGCGAAGAAATCGCGTGTGA+AGG - chr4.4:35818997-35819016 MS.gene057706:CDS 55.0%
GCGTCCTTGAAGGACGATGA+CGG + chr4.4:35818843-35818862 None:intergenic 55.0%
GGAACCTGTGACCGTGCATA+CGG - chr4.4:35818905-35818924 MS.gene057706:CDS 55.0%
! AACGCGTCGGCATCATATGC+TGG + chr4.4:35819045-35819064 None:intergenic 55.0%
! CACGATGACGGCTTTCTTCC+CGG + chr4.4:35818870-35818889 None:intergenic 55.0%
!! AGGACGATGACGGCCTTGTT+TGG + chr4.4:35818833-35818852 None:intergenic 55.0%
ATGGCCGTATGCACGGTCAC+AGG + chr4.4:35818912-35818931 None:intergenic 60.0%
GGAGGCGAAGAAGAGGTTCG+AGG - chr4.4:35819144-35819163 MS.gene057706:CDS 60.0%
GTCCTTCAAGGACGCTACGC+CGG - chr4.4:35818848-35818867 MS.gene057706:CDS 60.0%
TCCTTCAAGGACGCTACGCC+GGG - chr4.4:35818849-35818868 MS.gene057706:CDS 60.0%
TCCCGGCGTAGCGTCCTTGA+AGG + chr4.4:35818853-35818872 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr4.4 gene 35818812 35819219 35818812 ID=MS.gene057706
chr4.4 mRNA 35818812 35819219 35818812 ID=MS.gene057706.t1;Parent=MS.gene057706
chr4.4 exon 35818812 35819219 35818812 ID=MS.gene057706.t1.exon1;Parent=MS.gene057706.t1
chr4.4 CDS 35818812 35819219 35818812 ID=cds.MS.gene057706.t1;Parent=MS.gene057706.t1
Gene Sequence

>MS.gene057706

ATGGTCAAGTTTCTGAAGCCAAACAAGGCCGTCATCGTCCTTCAAGGACGCTACGCCGGGAAGAAAGCCGTCATCGTGAAGAATTTCGACGACGGAACCTGTGACCGTGCATACGGCCATTGTCTTGTTGCAGGGATCAAGAAGTATCCAGCTAAAGTTATCAAGAAGGATTCAGCGAAGAAAACCGCGAAGAAATCGCGTGTGAAGGGGTTCGTCAAGCTTGTTAACTACCAGCATATGATGCCGACGCGTTACACACTTGATGTTGATTTGAAGGAGGTTGTTACTACTGATGTTCTTCAGAGTAAGGATAAGAAGGTGACTGCTTTGAAGGAGGCGAAGAAGAGGTTCGAGGAGAGGTTTAAGACTGGGAAGAATAGGTGGTTCTTTACCAAGCTTAGGTTTTGA
Protein sequence

>MS.gene057706.t1

MVKFLKPNKAVIVLQGRYAGKKAVIVKNFDDGTCDRAYGHCLVAGIKKYPAKVIKKDSAKKTAKKSRVKGFVKLVNYQHMMPTRYTLDVDLKEVVTTDVLQSKDKKVTALKEAKKRFEERFKTGKNRWFFTKLRF