AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene33429

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33429.t1 MTR_4g013770 97.396 192 5 0 1 192 1 192 3.66e-136 379
MS.gene33429.t1 MTR_4g013385 67.742 186 58 1 6 191 7 190 2.30e-88 258
MS.gene33429.t1 MTR_0433s0040 67.742 186 58 1 6 191 7 190 2.30e-88 258
MS.gene33429.t1 MTR_4g013355 65.591 186 53 2 6 191 5 179 2.17e-83 244
MS.gene33429.t1 MTR_4g013350 61.413 184 65 3 13 191 15 197 1.50e-71 215
MS.gene33429.t1 MTR_4g013345 60.109 183 68 3 13 191 15 196 1.71e-69 210
MS.gene33429.t1 MTR_4g013330 59.783 184 68 4 14 191 16 199 3.54e-69 209
MS.gene33429.t1 MTR_4g013335 59.563 183 66 3 14 191 17 196 3.64e-68 206
MS.gene33429.t1 MTR_7g070390 57.754 187 74 2 8 191 8 192 6.03e-67 203
MS.gene33429.t1 MTR_4g013320 56.216 185 73 3 14 191 16 199 2.69e-65 199
MS.gene33429.t1 MTR_4g013325 63.699 146 52 1 46 191 55 199 6.29e-64 196
MS.gene33429.t1 MTR_4g013310 54.945 182 72 5 14 188 16 194 1.28e-61 190
MS.gene33429.t1 MTR_1g054525 45.699 186 96 3 8 191 10 192 1.12e-50 162
MS.gene33429.t1 MTR_7g093790 43.114 167 92 3 27 191 26 191 5.97e-47 152
MS.gene33429.t1 MTR_7g093850 40.909 176 101 3 18 191 20 194 2.48e-44 146
MS.gene33429.t1 MTR_7g093820 39.773 176 103 3 18 191 20 194 1.26e-43 144
MS.gene33429.t1 MTR_7g093830 39.521 167 98 3 27 191 28 193 1.81e-42 141
MS.gene33429.t1 MTR_4g073950 42.105 152 88 0 40 191 41 192 4.92e-42 140
MS.gene33429.t1 MTR_1g056370 45.395 152 80 3 40 190 36 185 1.12e-41 139
MS.gene33429.t1 MTR_7g093870 42.857 168 91 3 29 191 26 193 9.83e-41 137
MS.gene33429.t1 MTR_3g105640 40.994 161 92 2 32 191 30 188 6.91e-36 124
MS.gene33429.t1 MTR_3g105630 37.433 187 108 4 10 191 7 189 3.61e-34 120
MS.gene33429.t1 MTR_5g096120 37.895 190 105 5 8 191 7 189 1.65e-33 118
MS.gene33429.t1 MTR_4g078885 33.889 180 115 2 13 191 9 185 2.78e-30 110
MS.gene33429.t1 MTR_3g034030 34.254 181 115 2 12 191 8 185 2.90e-30 109
MS.gene33429.t1 MTR_4g049550 34.483 145 88 2 45 186 33 173 5.23e-22 88.2
MS.gene33429.t1 MTR_4g122130 37.500 144 87 2 49 191 39 180 1.07e-21 87.4
MS.gene33429.t1 MTR_4g049570 33.793 145 89 2 45 186 33 173 6.54e-21 85.5
MS.gene33429.t1 MTR_4g122110 32.515 163 106 2 29 191 22 180 1.23e-19 82.0
MS.gene33429.t1 MTR_1g046490 38.298 94 57 1 78 171 121 213 1.53e-12 64.3
MS.gene33429.t1 MTR_8g099135 33.884 121 72 3 54 174 56 168 1.84e-12 63.2
MS.gene33429.t1 MTR_1g046800 39.362 94 56 1 78 171 135 227 5.21e-12 63.2
MS.gene33429.t1 MTR_1g046500 39.362 94 56 1 78 171 135 227 5.37e-12 63.2
MS.gene33429.t1 MTR_8g099115 33.333 135 78 4 49 174 41 172 3.96e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene33429.t1 AT1G58170 52.941 187 75 4 10 191 7 185 3.46e-65 199
MS.gene33429.t1 AT1G55210 51.323 189 85 5 6 191 3 187 3.31e-57 178
MS.gene33429.t1 AT1G55210 51.323 189 85 5 6 191 3 187 3.31e-57 178
MS.gene33429.t1 AT5G49040 50.847 177 84 2 17 191 16 191 7.20e-56 175
MS.gene33429.t1 AT3G13650 51.445 173 79 4 20 191 18 186 2.83e-52 166
MS.gene33429.t1 AT3G13662 51.923 156 67 4 25 178 23 172 2.19e-46 150
MS.gene33429.t1 AT1G65870 47.260 146 76 1 45 190 45 189 8.92e-45 147
MS.gene33429.t1 AT5G49030 50.602 166 79 2 17 180 16 180 5.20e-44 156
MS.gene33429.t1 AT3G13660 57.143 119 51 0 73 191 7 125 1.17e-42 139
MS.gene33429.t1 AT5G42500 44.521 146 78 2 45 190 43 185 3.89e-39 132
MS.gene33429.t1 AT1G22900 43.353 173 93 3 18 190 26 193 4.49e-38 130
MS.gene33429.t1 AT2G21100 41.447 152 88 1 39 190 37 187 5.19e-38 129
MS.gene33429.t1 AT2G21100 41.447 152 88 1 39 190 37 187 5.19e-38 129
MS.gene33429.t1 AT5G42510 43.836 146 79 2 45 190 40 182 1.34e-37 128
MS.gene33429.t1 AT3G58090 46.364 110 59 0 81 190 162 271 6.17e-32 116
MS.gene33429.t1 AT4G38700 34.921 189 112 5 8 191 8 190 1.63e-28 105
MS.gene33429.t1 AT2G21110 32.432 185 116 4 11 191 7 186 6.05e-28 103
MS.gene33429.t1 AT4G23690 35.294 136 78 5 36 166 32 162 3.57e-14 67.8
MS.gene33429.t1 AT4G11210 30.539 167 105 5 12 174 7 166 3.47e-13 65.1
MS.gene33429.t1 AT4G11190 31.298 131 82 3 44 170 36 162 1.36e-12 63.5

Find 42 sgRNAs with CRISPR-Local

Find 58 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTGAAAGAGTTGTTAAATT+TGG 0.130350 4.2:-87013965 None:intergenic
AAGTTTGGTGTCAAGGTTAA+AGG 0.229203 4.2:-87014018 None:intergenic
AACAACTCTTTCAGTGCTTT+TGG 0.272296 4.2:+87013973 MS.gene33429:CDS
CTGAAAGAGTTGTTAAATTT+GGG 0.295692 4.2:-87013964 None:intergenic
AAGTAGCTGCTAGCCACTTT+AGG 0.302688 4.2:+87013878 MS.gene33429:CDS
TTGGGAAGTGGTTGAATGAT+TGG 0.327500 4.2:-87013946 None:intergenic
TTGTTTGAAGGAAAATATAA+TGG 0.330738 4.2:+87014129 MS.gene33429:CDS
ATCGTTCGCAACGTTTCTTC+CGG 0.346554 4.2:-87014169 None:intergenic
CAGAACTTTGCCTTGTTTGA+AGG 0.383937 4.2:+87014117 MS.gene33429:CDS
ATTGGAATGGACGTCGCGTT+TGG 0.391719 4.2:-87013928 None:intergenic
AGTTTGGTGTCAAGGTTAAA+GGG 0.445162 4.2:-87014017 None:intergenic
TGTTTGAAGGAAAATATAAT+GGG 0.449333 4.2:+87014130 MS.gene33429:CDS
AACTTGACCTCAAAATTGTT+AGG 0.452723 4.2:+87014036 MS.gene33429:CDS
TACTTTCTTTGTAAGCAACT+TGG 0.452780 4.2:-87013860 None:intergenic
GGGAGTACCATTACTATATC+CGG 0.454368 4.2:+87014150 MS.gene33429:CDS
ATTTATTGAGCTCACAAAAC+CGG 0.466958 4.2:-87013836 None:intergenic
GGGTGTAGCAAGAAAGTAGA+AGG 0.477734 4.2:-87013786 None:intergenic
ACTTTCTTTGTAAGCAACTT+GGG 0.483229 4.2:-87013859 None:intergenic
CTTGCCAGTAAAACCTAAAG+TGG 0.499172 4.2:-87013891 None:intergenic
AAGAAACGTTGCGAACGATA+AGG 0.502251 4.2:+87014173 MS.gene33429:CDS
TGAGGTCAAGTTTGGTGTCA+AGG 0.506209 4.2:-87014025 None:intergenic
ACTCCGCTACCACCGATCAC+TGG 0.521592 4.2:-87014207 None:intergenic
GAGTTGTTAAATTTGGGAAG+TGG 0.527544 4.2:-87013958 None:intergenic
TACACCCTCACAATTGTCAT+AGG 0.529098 4.2:+87013802 MS.gene33429:CDS
GTATTCAACCACGGTATCCC+CGG 0.533003 4.2:-87014286 None:intergenic
AAATTGTTAGGTAGAGCTCA+AGG 0.533879 4.2:+87014048 MS.gene33429:CDS
TTGCCAGTGATCGGTGGTAG+CGG 0.542319 4.2:+87014204 MS.gene33429:CDS
GTTTCTTCCGGATATAGTAA+TGG 0.549159 4.2:-87014157 None:intergenic
CTAAGGGATATGCTGAAGCT+AGG 0.554424 4.2:+87014241 MS.gene33429:CDS
GTTAGAGAGTTGCCAGTGAT+CGG 0.565041 4.2:+87014195 MS.gene33429:CDS
AAGCTCGGTTTGCGAGGTAG+CGG 0.572303 4.2:-87014079 None:intergenic
GTCATAGGACAAGATGAGAC+CGG 0.574912 4.2:+87013817 MS.gene33429:CDS
AACCATAAGAAAATCAAGCT+CGG 0.590259 4.2:-87014094 None:intergenic
AAAATCAAGCTCGGTTTGCG+AGG 0.591747 4.2:-87014085 None:intergenic
AATTGTTAGGTAGAGCTCAA+GGG 0.601231 4.2:+87014049 MS.gene33429:CDS
AAGTGGTTGAATGATTGGAA+TGG 0.621138 4.2:-87013941 None:intergenic
TTTCAAAACCGGGGATACCG+TGG 0.643536 4.2:+87014278 MS.gene33429:CDS
TACTGGCAAGACATAGTGGG+AGG 0.653909 4.2:+87013904 MS.gene33429:CDS
CTTGTCCTATGACAATTGTG+AGG 0.658674 4.2:-87013807 None:intergenic
AGAGAGTTGCCAGTGATCGG+TGG 0.665461 4.2:+87014198 MS.gene33429:CDS
TTGTCCTATGACAATTGTGA+GGG 0.674182 4.2:-87013806 None:intergenic
ATAGACATTGTATTCAACCA+CGG 0.708126 4.2:-87014295 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGTTTGAAGGAAAATATAAT+GGG + chr4.2:87014130-87014149 MS.gene33429:CDS 20.0%
!! TTGTTTGAAGGAAAATATAA+TGG + chr4.2:87014129-87014148 MS.gene33429:CDS 20.0%
!!! AAGGAAGAAAAAATGTTTTT+GGG - chr4.2:87013770-87013789 None:intergenic 20.0%
!!! ATTATATTTTCCTTCAAACA+AGG - chr4.2:87014130-87014149 None:intergenic 20.0%
! ACTGAAAGAGTTGTTAAATT+TGG - chr4.2:87013968-87013987 None:intergenic 25.0%
! CTGAAAGAGTTGTTAAATTT+GGG - chr4.2:87013967-87013986 None:intergenic 25.0%
!! GAAGGAAGAAAAAATGTTTT+TGG - chr4.2:87013771-87013790 None:intergenic 25.0%
!!! ATCTCTTTTGATTTCAAAAC+CGG + chr4.2:87014267-87014286 MS.gene33429:CDS 25.0%
AACCATAAGAAAATCAAGCT+CGG - chr4.2:87014097-87014116 None:intergenic 30.0%
AACTTGACCTCAAAATTGTT+AGG + chr4.2:87014036-87014055 MS.gene33429:CDS 30.0%
ACTTTCTTTGTAAGCAACTT+GGG - chr4.2:87013862-87013881 None:intergenic 30.0%
ATAGACATTGTATTCAACCA+CGG - chr4.2:87014298-87014317 None:intergenic 30.0%
ATTTATTGAGCTCACAAAAC+CGG - chr4.2:87013839-87013858 None:intergenic 30.0%
TACTTTCTTTGTAAGCAACT+TGG - chr4.2:87013863-87013882 None:intergenic 30.0%
!!! AACAATTTTGAGGTCAAGTT+TGG - chr4.2:87014036-87014055 None:intergenic 30.0%
!!! TCTCTTTTGATTTCAAAACC+GGG + chr4.2:87014268-87014287 MS.gene33429:CDS 30.0%
AAATTGTTAGGTAGAGCTCA+AGG + chr4.2:87014048-87014067 MS.gene33429:CDS 35.0%
AAGTGGTTGAATGATTGGAA+TGG - chr4.2:87013944-87013963 None:intergenic 35.0%
AATTGTTAGGTAGAGCTCAA+GGG + chr4.2:87014049-87014068 MS.gene33429:CDS 35.0%
GAGTTGTTAAATTTGGGAAG+TGG - chr4.2:87013961-87013980 None:intergenic 35.0%
GTTTCTTCCGGATATAGTAA+TGG - chr4.2:87014160-87014179 None:intergenic 35.0%
TTGTCCTATGACAATTGTGA+GGG - chr4.2:87013809-87013828 None:intergenic 35.0%
! AACAACTCTTTCAGTGCTTT+TGG + chr4.2:87013973-87013992 MS.gene33429:CDS 35.0%
! AACCGAGCTTGATTTTCTTA+TGG + chr4.2:87014092-87014111 MS.gene33429:CDS 35.0%
! AGCTCTACCTAACAATTTTG+AGG - chr4.2:87014046-87014065 None:intergenic 35.0%
! TTTTACTGGCAAGACATAGT+GGG + chr4.2:87013901-87013920 MS.gene33429:CDS 35.0%
!! AAGTTTGGTGTCAAGGTTAA+AGG - chr4.2:87014021-87014040 None:intergenic 35.0%
!! AGTTTGGTGTCAAGGTTAAA+GGG - chr4.2:87014020-87014039 None:intergenic 35.0%
!!! CTCTTTTGATTTCAAAACCG+GGG + chr4.2:87014269-87014288 MS.gene33429:CDS 35.0%
!!! GGAGTTTTTCGATTTGCTAA+GGG + chr4.2:87014225-87014244 MS.gene33429:CDS 35.0%
AAGAAACGTTGCGAACGATA+AGG + chr4.2:87014173-87014192 MS.gene33429:CDS 40.0%
CTTGCCAGTAAAACCTAAAG+TGG - chr4.2:87013894-87013913 None:intergenic 40.0%
CTTGTCCTATGACAATTGTG+AGG - chr4.2:87013810-87013829 None:intergenic 40.0%
TACACCCTCACAATTGTCAT+AGG + chr4.2:87013802-87013821 MS.gene33429:CDS 40.0%
TTGGGAAGTGGTTGAATGAT+TGG - chr4.2:87013949-87013968 None:intergenic 40.0%
! GTTTTACTGGCAAGACATAG+TGG + chr4.2:87013900-87013919 MS.gene33429:CDS 40.0%
!! CAGAACTTTGCCTTGTTTGA+AGG + chr4.2:87014117-87014136 MS.gene33429:CDS 40.0%
!! CTAGCCACTTTAGGTTTTAC+TGG + chr4.2:87013887-87013906 MS.gene33429:CDS 40.0%
!! CTCTTTCAGTGCTTTTGGTT+TGG + chr4.2:87013978-87013997 MS.gene33429:CDS 40.0%
!! GGGAGTACCATTACTATATC+CGG + chr4.2:87014150-87014169 MS.gene33429:CDS 40.0%
!!! CGGAGTTTTTCGATTTGCTA+AGG + chr4.2:87014224-87014243 MS.gene33429:CDS 40.0%
ATCGTTCGCAACGTTTCTTC+CGG - chr4.2:87014172-87014191 None:intergenic 45.0%
CTAAGGGATATGCTGAAGCT+AGG + chr4.2:87014241-87014260 MS.gene33429:CDS 45.0%
GGGTGTAGCAAGAAAGTAGA+AGG - chr4.2:87013789-87013808 None:intergenic 45.0%
GTCATAGGACAAGATGAGAC+CGG + chr4.2:87013817-87013836 MS.gene33429:CDS 45.0%
GTTAGAGAGTTGCCAGTGAT+CGG + chr4.2:87014195-87014214 MS.gene33429:CDS 45.0%
! AAAATCAAGCTCGGTTTGCG+AGG - chr4.2:87014088-87014107 None:intergenic 45.0%
! AAGTAGCTGCTAGCCACTTT+AGG + chr4.2:87013878-87013897 MS.gene33429:CDS 45.0%
!! TGAGGTCAAGTTTGGTGTCA+AGG - chr4.2:87014028-87014047 None:intergenic 45.0%
!!! TCAGTGCTTTTGGTTTGGTG+AGG + chr4.2:87013983-87014002 MS.gene33429:CDS 45.0%
ATTGGAATGGACGTCGCGTT+TGG - chr4.2:87013931-87013950 None:intergenic 50.0%
GTATTCAACCACGGTATCCC+CGG - chr4.2:87014289-87014308 None:intergenic 50.0%
TTTCAAAACCGGGGATACCG+TGG + chr4.2:87014278-87014297 MS.gene33429:CDS 50.0%
! TACTGGCAAGACATAGTGGG+AGG + chr4.2:87013904-87013923 MS.gene33429:CDS 50.0%
AGAGAGTTGCCAGTGATCGG+TGG + chr4.2:87014198-87014217 MS.gene33429:CDS 55.0%
TTGCCAGTGATCGGTGGTAG+CGG + chr4.2:87014204-87014223 MS.gene33429:CDS 55.0%
! AAGCTCGGTTTGCGAGGTAG+CGG - chr4.2:87014082-87014101 None:intergenic 55.0%
ACTCCGCTACCACCGATCAC+TGG - chr4.2:87014210-87014229 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 87013757 87014335 87013757 ID=MS.gene33429
chr4.2 mRNA 87013757 87014335 87013757 ID=MS.gene33429.t1;Parent=MS.gene33429
chr4.2 exon 87013757 87014335 87013757 ID=MS.gene33429.t1.exon1;Parent=MS.gene33429.t1
chr4.2 CDS 87013757 87014335 87013757 ID=cds.MS.gene33429.t1;Parent=MS.gene33429.t1
Gene Sequence

>MS.gene33429

ATGAATACTTCCCAAAAACATTTTTTCTTCCTTCTACTTTCTTGCTACACCCTCACAATTGTCATAGGACAAGATGAGACCGGTTTTGTGAGCTCAATAAATCCCAAGTTGCTTACAAAGAAAGTAGCTGCTAGCCACTTTAGGTTTTACTGGCAAGACATAGTGGGAGGACCAAACGCGACGTCCATTCCAATCATTCAACCACTTCCCAAATTTAACAACTCTTTCAGTGCTTTTGGTTTGGTGAGGATAATCGACAACCCTTTAACCTTGACACCAAACTTGACCTCAAAATTGTTAGGTAGAGCTCAAGGGTTTTATGCCGCTACCTCGCAAACCGAGCTTGATTTTCTTATGGTTCAGAACTTTGCCTTGTTTGAAGGAAAATATAATGGGAGTACCATTACTATATCCGGAAGAAACGTTGCGAACGATAAGGTTAGAGAGTTGCCAGTGATCGGTGGTAGCGGAGTTTTTCGATTTGCTAAGGGATATGCTGAAGCTAGGACAATCTCTTTTGATTTCAAAACCGGGGATACCGTGGTTGAATACAATGTCTATGTTACTCATCATAAATGA
Protein sequence

>MS.gene33429.t1

MNTSQKHFFFLLLSCYTLTIVIGQDETGFVSSINPKLLTKKVAASHFRFYWQDIVGGPNATSIPIIQPLPKFNNSFSAFGLVRIIDNPLTLTPNLTSKLLGRAQGFYAATSQTELDFLMVQNFALFEGKYNGSTITISGRNVANDKVRELPVIGGSGVFRFAKGYAEARTISFDFKTGDTVVEYNVYVTHHK