AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene05718

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene05718.t1 MTR_3g061090 99.422 173 1 0 1 173 86 258 3.18e-125 352
MS.gene05718.t1 MTR_3g061090 99.422 173 1 0 1 173 158 330 1.51e-124 353
MS.gene05718.t1 MTR_5g096700 68.023 172 54 1 1 171 99 270 2.02e-79 237
MS.gene05718.t1 MTR_5g096700 68.023 172 54 1 1 171 158 329 1.44e-78 237
MS.gene05718.t1 MTR_1g029850 53.801 171 79 0 1 171 158 328 5.59e-61 192
MS.gene05718.t1 MTR_3g088560 56.098 164 71 1 1 163 32 195 1.54e-58 182
MS.gene05718.t1 MTR_5g096790 57.059 170 71 1 1 168 154 323 3.92e-58 184
MS.gene05718.t1 MTR_3g088560 56.098 164 71 1 1 163 84 247 1.18e-57 181
MS.gene05718.t1 MTR_3g088560 56.098 164 71 1 1 163 99 262 2.53e-57 181
MS.gene05718.t1 MTR_3g088560 56.098 164 71 1 1 163 154 317 7.58e-57 181
MS.gene05718.t1 MTR_7g094490 27.703 148 92 3 1 135 200 345 2.07e-11 61.6
MS.gene05718.t1 MTR_1g072650 28.188 149 92 3 1 136 204 350 3.60e-11 60.8
MS.gene05718.t1 MTR_3g088660 35.484 93 55 2 17 107 93 182 7.82e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene05718.t1 AT1G55760 73.410 173 46 0 1 173 157 329 5.72e-92 271
MS.gene05718.t1 AT1G21780 57.310 171 73 0 1 171 154 324 8.73e-65 201
MS.gene05718.t1 AT1G21780 57.310 171 73 0 1 171 154 324 8.73e-65 201
MS.gene05718.t1 AT1G01640 31.098 164 108 4 2 162 18 179 5.35e-15 70.1
MS.gene05718.t1 AT1G01640 31.250 160 105 4 6 162 1 158 3.36e-14 67.4
MS.gene05718.t1 AT3G56230 30.323 155 104 3 2 152 105 259 1.26e-12 64.7
MS.gene05718.t1 AT3G03740 34.752 141 76 3 8 133 216 355 1.43e-12 65.1
MS.gene05718.t1 AT2G39760 27.397 146 95 1 1 135 187 332 4.09e-11 60.8
MS.gene05718.t1 AT2G39760 27.397 146 95 1 1 135 187 332 4.26e-11 60.5
MS.gene05718.t1 AT2G39760 27.397 146 95 1 1 135 187 332 4.26e-11 60.5
MS.gene05718.t1 AT4G04090 33.028 109 69 2 16 120 35 143 8.85e-11 58.5
MS.gene05718.t1 AT2G39760 27.397 146 95 1 1 135 187 332 9.18e-11 59.7

Find 30 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCCAGTATCTTGTTAAATT+TGG 0.170654 3.2:+52094149 MS.gene05718:CDS
TGGTAAAATATTTGAAATTC+AGG 0.193894 3.2:+52094169 MS.gene05718:CDS
CGACATGTCTGTGATGTTTA+TGG 0.202175 3.2:-52093901 None:intergenic
ATCTCATCGCTGAAGTCTTT+GGG 0.249673 3.2:+52094228 MS.gene05718:CDS
GATCTCATCGCTGAAGTCTT+TGG 0.302318 3.2:+52094227 MS.gene05718:CDS
GAAGTCTTTGGGGAAGTTCT+TGG 0.305595 3.2:+52094239 MS.gene05718:CDS
TGAGATCCCTGTCCGCGTTT+TGG 0.322271 3.2:-52094211 None:intergenic
TACCAAATTTAACAAGATAC+TGG 0.332501 3.2:-52094151 None:intergenic
TTGGGGAAGTTCTTGGTGCC+TGG 0.360323 3.2:+52094246 MS.gene05718:CDS
TTCAAAATGCATCACTATAT+CGG 0.365062 3.2:+52094102 MS.gene05718:CDS
CGATCTTCAATATCCTTTCC+AGG 0.370344 3.2:-52094264 None:intergenic
GATCGTGTGAAAACATGCTT+TGG 0.410502 3.2:-52093857 None:intergenic
TATTCCTCCAAAACGCGGAC+AGG 0.453494 3.2:+52094204 MS.gene05718:CDS
CATGTCGATTGAAGTATGTC+AGG 0.482314 3.2:+52093917 MS.gene05718:CDS
GCTTTGGAAGACAGGTGAAC+GGG 0.489275 3.2:-52093841 None:intergenic
AATGCTTCGGATGGAAGTAT+AGG 0.510954 3.2:+52093795 MS.gene05718:CDS
AGACATCACAATCAATGCTT+CGG 0.520138 3.2:+52093782 MS.gene05718:CDS
GAAGTTCTTGGTGCCTGGAA+AGG 0.537759 3.2:+52094251 MS.gene05718:CDS
GAAAACATGCTTTGGAAGAC+AGG 0.538730 3.2:-52093849 None:intergenic
ATGAAGAATTTCTGACACAT+AGG 0.551928 3.2:+52093973 MS.gene05718:CDS
ATCACAATCAATGCTTCGGA+TGG 0.568005 3.2:+52093786 MS.gene05718:CDS
TATCTTCTAGAAGACTCTCA+TGG 0.579860 3.2:-52094052 None:intergenic
ATTCCTCCAAAACGCGGACA+GGG 0.581021 3.2:+52094205 MS.gene05718:CDS
TTCTAGAAGACTCTCATGGA+TGG 0.591651 3.2:-52094048 None:intergenic
TCTCATCGCTGAAGTCTTTG+GGG 0.603546 3.2:+52094229 MS.gene05718:CDS
CTTGGTAGAATGCTAAGAGA+AGG 0.615271 3.2:+52093750 None:intergenic
TGCTTTGGAAGACAGGTGAA+CGG 0.624572 3.2:-52093842 None:intergenic
CAATTTATTCCTCCAAAACG+CGG 0.648608 3.2:+52094199 MS.gene05718:CDS
CGACATATCTGACTTGAGAG+AGG 0.668882 3.2:+52094025 MS.gene05718:CDS
GCTAGCGCTTCTGCATGCAG+CGG 0.709404 3.2:+52093995 MS.gene05718:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TGGTAAAATATTTGAAATTC+AGG + chr3.2:52094169-52094188 MS.gene05718:CDS 20.0%
! ATACAAAAAATGTACTTGAG+AGG + chr3.2:52094078-52094097 MS.gene05718:CDS 25.0%
! ATCCAGTATCTTGTTAAATT+TGG + chr3.2:52094149-52094168 MS.gene05718:CDS 25.0%
! TACCAAATTTAACAAGATAC+TGG - chr3.2:52094154-52094173 None:intergenic 25.0%
! TTCAAAATGCATCACTATAT+CGG + chr3.2:52094102-52094121 MS.gene05718:CDS 25.0%
!! CTTTTCTCAATTATCTTTAC+GGG + chr3.2:52093940-52093959 MS.gene05718:CDS 25.0%
!! GCTTTTCTCAATTATCTTTA+CGG + chr3.2:52093939-52093958 MS.gene05718:CDS 25.0%
ATGAAGAATTTCTGACACAT+AGG + chr3.2:52093973-52093992 MS.gene05718:CDS 30.0%
AGACATCACAATCAATGCTT+CGG + chr3.2:52093782-52093801 MS.gene05718:CDS 35.0%
CAATTTATTCCTCCAAAACG+CGG + chr3.2:52094199-52094218 MS.gene05718:CDS 35.0%
! TATCTTCTAGAAGACTCTCA+TGG - chr3.2:52094055-52094074 None:intergenic 35.0%
ATCACAATCAATGCTTCGGA+TGG + chr3.2:52093786-52093805 MS.gene05718:CDS 40.0%
ATCTCATCGCTGAAGTCTTT+GGG + chr3.2:52094228-52094247 MS.gene05718:CDS 40.0%
CGACATGTCTGTGATGTTTA+TGG - chr3.2:52093904-52093923 None:intergenic 40.0%
GATCGTGTGAAAACATGCTT+TGG - chr3.2:52093860-52093879 None:intergenic 40.0%
! AATGCTTCGGATGGAAGTAT+AGG + chr3.2:52093795-52093814 MS.gene05718:CDS 40.0%
! CATGTCGATTGAAGTATGTC+AGG + chr3.2:52093917-52093936 MS.gene05718:CDS 40.0%
! TTCTAGAAGACTCTCATGGA+TGG - chr3.2:52094051-52094070 None:intergenic 40.0%
!! GAAAACATGCTTTGGAAGAC+AGG - chr3.2:52093852-52093871 None:intergenic 40.0%
GATCTCATCGCTGAAGTCTT+TGG + chr3.2:52094227-52094246 MS.gene05718:CDS 45.0%
TCTCATCGCTGAAGTCTTTG+GGG + chr3.2:52094229-52094248 MS.gene05718:CDS 45.0%
! CGACATATCTGACTTGAGAG+AGG + chr3.2:52094025-52094044 MS.gene05718:CDS 45.0%
! GAAGTCTTTGGGGAAGTTCT+TGG + chr3.2:52094239-52094258 MS.gene05718:CDS 45.0%
!! TGCTTTGGAAGACAGGTGAA+CGG - chr3.2:52093845-52093864 None:intergenic 45.0%
ATTCCTCCAAAACGCGGACA+GGG + chr3.2:52094205-52094224 MS.gene05718:CDS 50.0%
TATTCCTCCAAAACGCGGAC+AGG + chr3.2:52094204-52094223 MS.gene05718:CDS 50.0%
!! GAAGTTCTTGGTGCCTGGAA+AGG + chr3.2:52094251-52094270 MS.gene05718:CDS 50.0%
!! GCTTTGGAAGACAGGTGAAC+GGG - chr3.2:52093844-52093863 None:intergenic 50.0%
! TGAGATCCCTGTCCGCGTTT+TGG - chr3.2:52094214-52094233 None:intergenic 55.0%
!! TTGGGGAAGTTCTTGGTGCC+TGG + chr3.2:52094246-52094265 MS.gene05718:CDS 55.0%
GCTAGCGCTTCTGCATGCAG+CGG + chr3.2:52093995-52094014 MS.gene05718:CDS 60.0%
! GATCCCTGTCCGCGTTTTGG+AGG - chr3.2:52094211-52094230 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 52093759 52094280 52093759 ID=MS.gene05718
chr3.2 mRNA 52093759 52094280 52093759 ID=MS.gene05718.t1;Parent=MS.gene05718
chr3.2 exon 52093759 52094280 52093759 ID=MS.gene05718.t1.exon1;Parent=MS.gene05718.t1
chr3.2 CDS 52093759 52094280 52093759 ID=cds.MS.gene05718.t1;Parent=MS.gene05718.t1
Gene Sequence

>MS.gene05718

ATGCTAAGAGAAGGCATTCACACAGACATCACAATCAATGCTTCGGATGGAAGTATAGGAGTTCATAGAGCTCTTCTAGCTGCCCGTTCACCTGTCTTCCAAAGCATGTTTTCACACGATCTTAAAGAGAAAGAGTTGTCAACCATAAACATCACAGACATGTCGATTGAAGTATGTCAGGCTTTTCTCAATTATCTTTACGGGATCATCAAAAATGAAGAATTTCTGACACATAGGCTAGCGCTTCTGCATGCAGCGGACAAGTACGACATATCTGACTTGAGAGAGGCCATCCATGAGAGTCTTCTAGAAGATATTGATACAAAAAATGTACTTGAGAGGCTTCAAAATGCATCACTATATCGGTTGACAAAACTGAAGATGCATTGTATCCAGTATCTTGTTAAATTTGGTAAAATATTTGAAATTCAGGATGATTTCAATTTATTCCTCCAAAACGCGGACAGGGATCTCATCGCTGAAGTCTTTGGGGAAGTTCTTGGTGCCTGGAAAGGATATTGA
Protein sequence

>MS.gene05718.t1

MLREGIHTDITINASDGSIGVHRALLAARSPVFQSMFSHDLKEKELSTINITDMSIEVCQAFLNYLYGIIKNEEFLTHRLALLHAADKYDISDLREAIHESLLEDIDTKNVLERLQNASLYRLTKLKMHCIQYLVKFGKIFEIQDDFNLFLQNADRDLIAEVFGEVLGAWKGY