AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene051164

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051164.t1 MTR_8g036130 86.056 251 29 2 1 249 1 247 9.43e-151 420
MS.gene051164.t1 MTR_4g032620 59.438 249 83 2 1 249 1 231 1.59e-104 302
MS.gene051164.t1 MTR_4g031910 58.233 249 84 4 1 249 1 229 5.06e-90 265
MS.gene051164.t1 MTR_4g032290 56.471 255 81 5 1 249 1 231 5.01e-81 243
MS.gene051164.t1 MTR_3g065100 57.490 247 95 5 1 246 1 238 1.27e-78 237
MS.gene051164.t1 MTR_3g466980 51.417 247 92 8 1 245 1 221 3.71e-76 230
MS.gene051164.t1 MTR_4g032260 70.513 156 46 0 1 156 1 156 7.47e-67 204
MS.gene051164.t1 MTR_2g035610 77.049 122 28 0 1 122 1 122 9.50e-61 187
MS.gene051164.t1 MTR_3g466830 50.314 159 78 1 3 161 2 159 1.51e-54 173
MS.gene051164.t1 MTR_4g063790 44.379 169 94 0 1 169 1 169 7.50e-49 159
MS.gene051164.t1 MTR_3g466890 46.203 158 84 1 3 160 2 158 4.55e-47 154
MS.gene051164.t1 MTR_2g016210 45.238 168 88 1 1 168 1 164 1.32e-45 153
MS.gene051164.t1 MTR_3g467080 43.312 157 89 0 1 157 1 157 2.91e-45 149
MS.gene051164.t1 MTR_5g047580 45.860 157 83 2 1 157 1 155 3.02e-44 146
MS.gene051164.t1 MTR_3g031100 42.675 157 90 0 1 157 1 157 1.28e-42 145
MS.gene051164.t1 MTR_5g075380 40.909 154 90 1 1 154 1 153 3.79e-41 139
MS.gene051164.t1 MTR_3g031240 39.506 162 98 0 1 162 1 162 1.59e-38 132
MS.gene051164.t1 MTR_1g090783 40.385 156 91 2 3 158 2 155 5.63e-37 128
MS.gene051164.t1 MTR_7g011950 44.586 157 85 2 1 157 1 155 2.03e-36 126
MS.gene051164.t1 MTR_1g090697 37.975 158 96 2 1 158 1 156 4.91e-36 125
MS.gene051164.t1 MTR_1g084950 43.949 157 86 2 1 157 1 155 8.05e-36 125
MS.gene051164.t1 MTR_1g077390 39.490 157 93 2 1 157 1 155 1.23e-35 124
MS.gene051164.t1 MTR_1g090710 36.709 158 99 1 1 158 1 157 2.80e-35 124
MS.gene051164.t1 MTR_7g055800 56.303 119 24 2 1 119 1 91 2.65e-34 119
MS.gene051164.t1 MTR_1g077320 42.675 157 88 2 1 157 1 155 5.39e-34 120
MS.gene051164.t1 MTR_3g466900 41.085 129 75 1 32 160 2 129 6.77e-34 119
MS.gene051164.t1 MTR_4g028720 42.675 157 88 2 1 157 1 155 1.37e-33 119
MS.gene051164.t1 MTR_3g466930 41.860 129 74 1 32 160 2 129 9.24e-33 116
MS.gene051164.t1 MTR_3g465410 42.857 126 72 0 29 154 1 126 1.13e-32 116
MS.gene051164.t1 MTR_1g077300 43.949 157 84 2 1 157 1 153 6.50e-32 115
MS.gene051164.t1 MTR_2g035580 41.667 156 90 1 1 156 1 155 2.64e-31 113
MS.gene051164.t1 MTR_7g055790 55.856 111 31 1 1 111 59 151 1.54e-30 111
MS.gene051164.t1 MTR_4g028800 73.611 72 17 1 1 72 1 70 2.23e-30 108
MS.gene051164.t1 MTR_7g055940 55.660 106 19 2 1 106 1 78 3.39e-28 102
MS.gene051164.t1 MTR_2g035590 59.406 101 38 1 74 174 1 98 1.69e-27 101
MS.gene051164.t1 MTR_5g047560 36.306 157 82 3 1 157 1 139 8.36e-26 98.6
MS.gene051164.t1 MTR_4g019670 39.716 141 76 2 1 138 1 135 1.34e-25 105
MS.gene051164.t1 MTR_7g106510 38.298 141 78 2 1 138 1 135 2.17e-25 104
MS.gene051164.t1 MTR_3g093900 33.566 143 95 0 3 145 6 148 7.17e-24 100
MS.gene051164.t1 MTR_4g032270 41.739 115 48 2 135 249 36 131 2.20e-22 89.7
MS.gene051164.t1 MTR_4g084780 69.231 52 16 0 74 125 1 52 7.58e-18 78.2
MS.gene051164.t1 MTR_6g018920 28.125 160 100 6 1 154 1 151 1.01e-13 70.1
MS.gene051164.t1 MTR_1g114730 28.319 113 74 3 1 107 1 112 3.82e-12 65.5
MS.gene051164.t1 MTR_6g005450 31.858 113 70 4 1 107 1 112 6.13e-12 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051164.t1 AT5G48670 53.977 176 79 2 1 175 1 175 3.09e-58 187
MS.gene051164.t1 AT1G65300 44.172 163 90 1 3 165 2 163 5.24e-44 150
MS.gene051164.t1 AT5G26650 43.396 159 89 1 4 162 2 159 6.16e-42 147
MS.gene051164.t1 AT3G05860 44.512 164 90 1 1 164 1 163 7.10e-42 142
MS.gene051164.t1 AT5G26630 46.629 178 94 1 1 178 1 177 9.27e-42 142
MS.gene051164.t1 AT3G05860 44.512 164 90 1 1 164 1 163 1.50e-41 142
MS.gene051164.t1 AT3G05860 44.512 164 90 1 1 164 1 163 2.32e-41 142
MS.gene051164.t1 AT5G27960 42.767 159 90 1 4 162 2 159 3.69e-41 144
MS.gene051164.t1 AT1G65330 41.379 174 99 2 3 174 2 174 4.83e-40 139
MS.gene051164.t1 AT5G27810 59.140 93 38 0 29 121 1 93 8.82e-37 126
MS.gene051164.t1 AT1G31630 36.810 163 101 2 3 165 2 162 2.86e-36 131
MS.gene051164.t1 AT1G31640 37.423 163 100 2 3 165 2 162 8.50e-34 127
MS.gene051164.t1 AT2G28700 37.037 162 97 2 1 160 1 159 1.13e-33 124
MS.gene051164.t1 AT1G22590 33.742 163 104 1 1 163 1 159 5.42e-29 107
MS.gene051164.t1 AT5G26580 36.646 161 87 2 1 161 1 146 8.67e-29 111
MS.gene051164.t1 AT2G40210 40.152 132 79 0 1 132 1 132 6.76e-22 93.6
MS.gene051164.t1 AT5G06500 29.870 154 106 1 1 154 1 152 1.02e-19 85.5
MS.gene051164.t1 AT5G58890 41.964 112 56 4 1 105 1 110 8.01e-16 75.5
MS.gene051164.t1 AT5G55690 35.484 124 71 3 1 115 1 124 4.38e-15 73.2
MS.gene051164.t1 AT5G55690 35.484 124 71 3 1 115 1 124 4.38e-15 73.2
MS.gene051164.t1 AT2G15660 25.000 164 105 4 38 201 31 176 1.69e-12 65.9

Find 57 sgRNAs with CRISPR-Local

Find 61 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTTGCTTTGTTCCATTTC+AGG 0.136228 8.2:+63081089 None:intergenic
TCCCAATGTCCTTCAAATTT+TGG 0.150964 8.2:+63080880 None:intergenic
GAAGCTTGTGCTATAATTTA+CGG 0.231910 8.2:-63081188 MS.gene051164:CDS
GACTAATCATGATTTGATTC+TGG 0.234615 8.2:+63080817 None:intergenic
CTAGTCTTCAAAGTGGATTT+TGG 0.257802 8.2:-63080602 MS.gene051164:CDS
TTGATGAGTCGTGACCATTT+TGG 0.304974 8.2:-63080729 MS.gene051164:CDS
TTTGGGATAGTTATGAATAA+TGG 0.329950 8.2:-63080711 MS.gene051164:CDS
TCAGACATTGAAACATTAGA+AGG 0.343484 8.2:+63080970 None:intergenic
ATGAACCACAACCTGAGATT+TGG 0.352882 8.2:-63081160 MS.gene051164:CDS
CTTTAGCCTTCATCACCCTT+TGG 0.360586 8.2:+63081039 None:intergenic
ACCAAAATTTGAAGGACATT+GGG 0.367874 8.2:-63080881 MS.gene051164:CDS
CTTTATGAATTTGATGATGA+AGG 0.377184 8.2:-63080667 MS.gene051164:CDS
ATTCAAGACAATGCCTGAAA+TGG 0.391921 8.2:-63081102 MS.gene051164:CDS
TGAGATTTGGCCATCCCCTT+GGG 0.393251 8.2:-63081147 MS.gene051164:CDS
ATCTCAGGTTGTGGTTCATA+AGG 0.415912 8.2:+63081164 None:intergenic
GCATCATGGGGATGACCAAA+TGG 0.423297 8.2:+63080624 None:intergenic
TATTCATAACTATCCCAAAA+TGG 0.424398 8.2:+63080715 None:intergenic
GACCAAAATTTGAAGGACAT+TGG 0.425243 8.2:-63080882 MS.gene051164:CDS
GGAAAGCAACATACAAGAAA+AGG 0.431751 8.2:-63081262 MS.gene051164:CDS
CTCATTCAAGGTAGTAGATT+AGG 0.433236 8.2:+63080579 None:intergenic
CATGTGATGGTGGTGCCATT+TGG 0.434827 8.2:+63080772 None:intergenic
GTTGATTGACCAAAATTTGA+AGG 0.435105 8.2:-63080889 MS.gene051164:CDS
GACGAACTAAGCACACTTTG+TGG 0.444181 8.2:-63081215 MS.gene051164:CDS
CAAGGGGATGGCCAAATCTC+AGG 0.453389 8.2:+63081149 None:intergenic
AATTGAACTTCTCTCTGAGT+TGG 0.458967 8.2:+63080795 None:intergenic
CTGAGATTTGGCCATCCCCT+TGG 0.462588 8.2:-63081148 MS.gene051164:CDS
AATTTGATGATGAAGGATAA+TGG 0.465313 8.2:-63080660 MS.gene051164:CDS
TTTCACCTTTCTTCTAGTCA+TGG 0.469195 8.2:+63081313 None:intergenic
CACTTTGAAGACTAGCATCA+TGG 0.470308 8.2:+63080610 None:intergenic
GAAGGACATTGGGAGAAGGT+TGG 0.475154 8.2:-63080871 MS.gene051164:CDS
TTGGAAGCAGTGGACAATAA+TGG 0.490759 8.2:-63080852 MS.gene051164:CDS
AACATACAAGAAAAGGAAGA+AGG 0.492306 8.2:-63081255 MS.gene051164:CDS
GGAGATGAGAAAGTCCCATT+TGG 0.495533 8.2:-63080639 MS.gene051164:CDS
ATGTTTCAATGTCTGAATGC+AGG 0.499753 8.2:-63080963 MS.gene051164:CDS
TCTTCATTCTTGACATGTGA+TGG 0.500207 8.2:+63080759 None:intergenic
TTGATGTGAATCATCTTACT+TGG 0.506323 8.2:-63080911 MS.gene051164:CDS
CATGAACCAAAGGGTGATGA+AGG 0.509359 8.2:-63081045 MS.gene051164:CDS
CATCATGGGGATGACCAAAT+GGG 0.512412 8.2:+63080625 None:intergenic
TGGGAGAAGGTTGGAAGCAG+TGG 0.521549 8.2:-63080862 MS.gene051164:CDS
GAGAGAAGTTCAATTCCAAA+TGG 0.524320 8.2:-63080787 MS.gene051164:CDS
CAAAACCATGACTAGAAGAA+AGG 0.529842 8.2:-63081318 None:intergenic
TGTTTCAATGTCTGAATGCA+GGG 0.544428 8.2:-63080962 MS.gene051164:CDS
ACTTTGAAGACTAGCATCAT+GGG 0.548657 8.2:+63080611 None:intergenic
ATTTGAAGGACATTGGGAGA+AGG 0.551499 8.2:-63080875 MS.gene051164:CDS
TGCAGCGTCATTGACAATGA+AGG 0.552900 8.2:+63081286 None:intergenic
AAGAGACTTTCATGAACCAA+AGG 0.569196 8.2:-63081055 MS.gene051164:CDS
GATGGCCAAATCTCAGGTTG+TGG 0.572435 8.2:+63081155 None:intergenic
GGTGATGAAGGCTAAAGAGC+AGG 0.574380 8.2:-63081033 MS.gene051164:CDS
TCATTCTTGACATGTGATGG+TGG 0.582023 8.2:+63080762 None:intergenic
GAGATTTGGCCATCCCCTTG+GGG 0.591825 8.2:-63081146 MS.gene051164:CDS
AGAGACTTTCATGAACCAAA+GGG 0.592104 8.2:-63081054 MS.gene051164:CDS
ACATACAAGAAAAGGAAGAA+GGG 0.593121 8.2:-63081254 MS.gene051164:CDS
TCATTGTCAATGACGCTGCA+AGG 0.601167 8.2:-63081283 MS.gene051164:CDS
CAGACATTGAAACATTAGAA+GGG 0.603894 8.2:+63080971 None:intergenic
CATGATGCTAGTCTTCAAAG+TGG 0.611355 8.2:-63080609 MS.gene051164:CDS
CTTTGAAGACTAGCATCATG+GGG 0.694150 8.2:+63080612 None:intergenic
TGTGCAGAACAATATGTCAG+TGG 0.716818 8.2:-63080934 MS.gene051164:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAAACAACAAAAAGACAACA+AGG - chr8.2:63080889-63080908 MS.gene051164:CDS 25.0%
! TATTCATAACTATCCCAAAA+TGG + chr8.2:63081183-63081202 None:intergenic 25.0%
!! TTTGGGATAGTTATGAATAA+TGG - chr8.2:63081184-63081203 MS.gene051164:CDS 25.0%
!!! AATTTGATGATGAAGGATAA+TGG - chr8.2:63081235-63081254 MS.gene051164:CDS 25.0%
!!! CTTTATGAATTTGATGATGA+AGG - chr8.2:63081228-63081247 MS.gene051164:CDS 25.0%
AACATACAAGAAAAGGAAGA+AGG - chr8.2:63080640-63080659 MS.gene051164:CDS 30.0%
ACATACAAGAAAAGGAAGAA+GGG - chr8.2:63080641-63080660 MS.gene051164:CDS 30.0%
ACCAAAATTTGAAGGACATT+GGG - chr8.2:63081014-63081033 MS.gene051164:CDS 30.0%
CAGACATTGAAACATTAGAA+GGG + chr8.2:63080927-63080946 None:intergenic 30.0%
GAAGCTTGTGCTATAATTTA+CGG - chr8.2:63080707-63080726 MS.gene051164:CDS 30.0%
GACTAATCATGATTTGATTC+TGG + chr8.2:63081081-63081100 None:intergenic 30.0%
GTTGATTGACCAAAATTTGA+AGG - chr8.2:63081006-63081025 MS.gene051164:CDS 30.0%
TCAGACATTGAAACATTAGA+AGG + chr8.2:63080928-63080947 None:intergenic 30.0%
TTGATGTGAATCATCTTACT+TGG - chr8.2:63080984-63081003 MS.gene051164:CDS 30.0%
!! TGAATTTTGAGAGCACATTT+TGG + chr8.2:63080778-63080797 None:intergenic 30.0%
AAGAGACTTTCATGAACCAA+AGG - chr8.2:63080840-63080859 MS.gene051164:CDS 35.0%
AATTGAACTTCTCTCTGAGT+TGG + chr8.2:63081103-63081122 None:intergenic 35.0%
AGAGACTTTCATGAACCAAA+GGG - chr8.2:63080841-63080860 MS.gene051164:CDS 35.0%
ATGTTTCAATGTCTGAATGC+AGG - chr8.2:63080932-63080951 MS.gene051164:CDS 35.0%
ATTCAAGACAATGCCTGAAA+TGG - chr8.2:63080793-63080812 MS.gene051164:CDS 35.0%
GACCAAAATTTGAAGGACAT+TGG - chr8.2:63081013-63081032 MS.gene051164:CDS 35.0%
GAGAGAAGTTCAATTCCAAA+TGG - chr8.2:63081108-63081127 MS.gene051164:CDS 35.0%
GGAAAGCAACATACAAGAAA+AGG - chr8.2:63080633-63080652 MS.gene051164:CDS 35.0%
TCTTCATTCTTGACATGTGA+TGG + chr8.2:63081139-63081158 None:intergenic 35.0%
TGTTTCAATGTCTGAATGCA+GGG - chr8.2:63080933-63080952 MS.gene051164:CDS 35.0%
! ACTTTGAAGACTAGCATCAT+GGG + chr8.2:63081287-63081306 None:intergenic 35.0%
! TCCCAATGTCCTTCAAATTT+TGG + chr8.2:63081018-63081037 None:intergenic 35.0%
! TTCTTGCTTTGTTCCATTTC+AGG + chr8.2:63080809-63080828 None:intergenic 35.0%
!! CTAGTCTTCAAAGTGGATTT+TGG - chr8.2:63081293-63081312 MS.gene051164:CDS 35.0%
ATGAACCACAACCTGAGATT+TGG - chr8.2:63080735-63080754 MS.gene051164:CDS 40.0%
ATTTGAAGGACATTGGGAGA+AGG - chr8.2:63081020-63081039 MS.gene051164:CDS 40.0%
TCATTCTTGACATGTGATGG+TGG + chr8.2:63081136-63081155 None:intergenic 40.0%
TGTGCAGAACAATATGTCAG+TGG - chr8.2:63080961-63080980 MS.gene051164:CDS 40.0%
TTGGAAGCAGTGGACAATAA+TGG - chr8.2:63081043-63081062 MS.gene051164:CDS 40.0%
! ATCTCAGGTTGTGGTTCATA+AGG + chr8.2:63080734-63080753 None:intergenic 40.0%
! CACTTTGAAGACTAGCATCA+TGG + chr8.2:63081288-63081307 None:intergenic 40.0%
! CTTTGAAGACTAGCATCATG+GGG + chr8.2:63081286-63081305 None:intergenic 40.0%
! TGATGAGTCGTGACCATTTT+GGG - chr8.2:63081167-63081186 MS.gene051164:CDS 40.0%
! TTGATGAGTCGTGACCATTT+TGG - chr8.2:63081166-63081185 MS.gene051164:CDS 40.0%
!! CATGATGCTAGTCTTCAAAG+TGG - chr8.2:63081286-63081305 MS.gene051164:CDS 40.0%
CATCATGGGGATGACCAAAT+GGG + chr8.2:63081273-63081292 None:intergenic 45.0%
CATGAACCAAAGGGTGATGA+AGG - chr8.2:63080850-63080869 MS.gene051164:CDS 45.0%
GACGAACTAAGCACACTTTG+TGG - chr8.2:63080680-63080699 MS.gene051164:CDS 45.0%
GGAGATGAGAAAGTCCCATT+TGG - chr8.2:63081256-63081275 MS.gene051164:CDS 45.0%
TCATTGTCAATGACGCTGCA+AGG - chr8.2:63080612-63080631 MS.gene051164:CDS 45.0%
TGCAGCGTCATTGACAATGA+AGG + chr8.2:63080612-63080631 None:intergenic 45.0%
! CTTTAGCCTTCATCACCCTT+TGG + chr8.2:63080859-63080878 None:intergenic 45.0%
GAAGGACATTGGGAGAAGGT+TGG - chr8.2:63081024-63081043 MS.gene051164:CDS 50.0%
GCATCATGGGGATGACCAAA+TGG + chr8.2:63081274-63081293 None:intergenic 50.0%
GGTGATGAAGGCTAAAGAGC+AGG - chr8.2:63080862-63080881 MS.gene051164:CDS 50.0%
TGAGATTTGGCCATCCCCTT+GGG - chr8.2:63080748-63080767 MS.gene051164:CDS 50.0%
! AGCACATTTTGGACTCCCCA+AGG + chr8.2:63080767-63080786 None:intergenic 50.0%
! CACATTTTGGACTCCCCAAG+GGG + chr8.2:63080765-63080784 None:intergenic 50.0%
! GATGGCCAAATCTCAGGTTG+TGG + chr8.2:63080743-63080762 None:intergenic 50.0%
! GCACATTTTGGACTCCCCAA+GGG + chr8.2:63080766-63080785 None:intergenic 50.0%
!! CATGTGATGGTGGTGCCATT+TGG + chr8.2:63081126-63081145 None:intergenic 50.0%
CAAGGGGATGGCCAAATCTC+AGG + chr8.2:63080749-63080768 None:intergenic 55.0%
CTGAGATTTGGCCATCCCCT+TGG - chr8.2:63080747-63080766 MS.gene051164:CDS 55.0%
GAGATTTGGCCATCCCCTTG+GGG - chr8.2:63080749-63080768 MS.gene051164:CDS 55.0%
TGGGAGAAGGTTGGAAGCAG+TGG - chr8.2:63081033-63081052 MS.gene051164:CDS 55.0%
! TTTTGGACTCCCCAAGGGGA+TGG + chr8.2:63080761-63080780 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 63080584 63081333 63080584 ID=MS.gene051164
chr8.2 mRNA 63080584 63081333 63080584 ID=MS.gene051164.t1;Parent=MS.gene051164
chr8.2 exon 63080584 63081333 63080584 ID=MS.gene051164.t1.exon1;Parent=MS.gene051164.t1
chr8.2 CDS 63080584 63081333 63080584 ID=cds.MS.gene051164.t1;Parent=MS.gene051164.t1
Gene Sequence

>MS.gene051164

ATGACTAGAAGAAAGGTGAAACTTGCCTTCATTGTCAATGACGCTGCAAGGAAAGCAACATACAAGAAAAGGAAGAAGGGTTTATTGAAGAAGATCGACGAACTAAGCACACTTTGTGGAATTGAAGCTTGTGCTATAATTTACGGTCCTTATGAACCACAACCTGAGATTTGGCCATCCCCTTGGGGAGTCCAAAATGTGCTCTCAAAATTCAAGACAATGCCTGAAATGGAACAAAGCAAGAAAATGATGAATCAAGAGACTTTCATGAACCAAAGGGTGATGAAGGCTAAAGAGCAGGTGAAAAAACAACAAAAAGACAACAAGGAGAAAGAGATGACCCTTCTAATGTTTCAATGTCTGAATGCAGGGAAAATTGTGCAGAACAATATGTCAGTGGTTGATGTGAATCATCTTACTTGGTTGATTGACCAAAATTTGAAGGACATTGGGAGAAGGTTGGAAGCAGTGGACAATAATGGTCAAATTCAAAGCCAGAATCAAATCATGATTAGTCCAACTCAGAGAGAAGTTCAATTCCAAATGGCACCACCATCACATGTCAAGAATGAAGAAATGTCGTTGATGAGTCGTGACCATTTTGGGATAGTTATGAATAATGGTGACATCATGCAAAGACAATTCTTTATGAATTTGATGATGAAGGATAATGGAGATGAGAAAGTCCCATTTGGTCATCCCCATGATGCTAGTCTTCAAAGTGGATTTTGGCCTAATCTACTACCTTGA
Protein sequence

>MS.gene051164.t1

MTRRKVKLAFIVNDAARKATYKKRKKGLLKKIDELSTLCGIEACAIIYGPYEPQPEIWPSPWGVQNVLSKFKTMPEMEQSKKMMNQETFMNQRVMKAKEQVKKQQKDNKEKEMTLLMFQCLNAGKIVQNNMSVVDVNHLTWLIDQNLKDIGRRLEAVDNNGQIQSQNQIMISPTQREVQFQMAPPSHVKNEEMSLMSRDHFGIVMNNGDIMQRQFFMNLMMKDNGDEKVPFGHPHDASLQSGFWPNLLP