AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene35626

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene35626.t1 MTR_3g073690 94.089 203 8 1 1 203 1 199 3.09e-127 357
MS.gene35626.t1 MTR_5g017950 76.423 123 29 0 2 124 1 123 1.17e-66 207
MS.gene35626.t1 MTR_3g452660 74.576 118 28 2 2 118 1 117 6.33e-57 182
MS.gene35626.t1 MTR_4g105170 66.957 115 38 0 8 122 10 124 2.00e-50 162
MS.gene35626.t1 MTR_7g033800 66.667 111 37 0 3 113 5 115 1.48e-49 159
MS.gene35626.t1 MTR_6g005070 66.972 109 36 0 1 109 1 109 1.00e-48 156
MS.gene35626.t1 MTR_3g077240 55.944 143 60 1 3 145 4 143 1.20e-48 157
MS.gene35626.t1 MTR_6g005080 62.832 113 42 0 1 113 2 114 6.27e-48 154
MS.gene35626.t1 MTR_5g083230 60.684 117 45 1 7 122 4 120 1.09e-46 151
MS.gene35626.t1 MTR_3g071590 61.111 108 42 0 2 109 1 108 1.27e-45 148
MS.gene35626.t1 MTR_3g031660 60.577 104 41 0 6 109 4 107 9.28e-45 147
MS.gene35626.t1 MTR_8g040900 58.394 137 54 2 2 138 1 134 1.36e-44 148
MS.gene35626.t1 MTR_5g083960 60.377 106 42 0 7 112 37 142 4.39e-43 143
MS.gene35626.t1 MTR_4g083680 60.784 102 40 0 7 108 13 114 9.96e-43 142
MS.gene35626.t1 MTR_2g093310 59.804 102 41 0 8 109 32 133 1.74e-42 142
MS.gene35626.t1 MTR_2g068760 60.784 102 40 0 8 109 12 113 5.01e-42 139
MS.gene35626.t1 MTR_3g094690 60.000 105 42 0 8 112 46 150 1.31e-41 140
MS.gene35626.t1 MTR_3g071420 62.745 102 38 0 6 107 11 112 5.14e-41 137
MS.gene35626.t1 MTR_8g079660 56.364 110 48 0 9 118 8 117 1.03e-40 139
MS.gene35626.t1 MTR_5g083010 60.952 105 41 0 6 110 8 112 3.41e-40 135
MS.gene35626.t1 MTR_3g094690 59.048 105 42 1 8 112 46 149 2.11e-39 135
MS.gene35626.t1 MTR_1g095850 56.863 102 44 0 10 111 73 174 4.01e-39 134
MS.gene35626.t1 MTR_8g079620 53.636 110 51 0 9 118 8 117 5.14e-39 134
MS.gene35626.t1 MTR_4g060950 56.311 103 44 1 8 109 23 125 6.16e-39 132
MS.gene35626.t1 MTR_5g075020 55.738 122 46 1 8 121 42 163 2.36e-38 132
MS.gene35626.t1 MTR_5g075020 55.738 122 46 1 8 121 46 167 3.73e-38 132
MS.gene35626.t1 MTR_8g079580 53.153 111 51 1 9 118 8 118 9.04e-36 125
MS.gene35626.t1 MTR_7g096530 53.571 112 51 1 3 113 8 119 1.22e-34 122
MS.gene35626.t1 MTR_7g028905 48.544 103 53 0 8 110 4 106 1.89e-34 119
MS.gene35626.t1 MTR_8g036085 54.717 106 47 1 8 112 22 127 7.16e-34 120
MS.gene35626.t1 MTR_7g074990 53.846 104 47 1 9 111 20 123 2.01e-33 119
MS.gene35626.t1 MTR_8g036105 41.436 181 99 2 6 185 15 189 1.06e-32 117
MS.gene35626.t1 MTR_5g093010 46.602 103 55 0 10 112 6 108 1.59e-32 114
MS.gene35626.t1 MTR_1g070205 41.139 158 75 3 9 152 12 165 1.75e-32 117
MS.gene35626.t1 MTR_1g070220 54.455 101 45 1 9 108 15 115 1.83e-32 116
MS.gene35626.t1 MTR_6g027710 36.000 200 109 4 8 199 39 227 1.92e-31 114
MS.gene35626.t1 MTR_7g096610 49.091 110 55 1 2 110 1 110 6.80e-31 113
MS.gene35626.t1 MTR_6g011200 36.757 185 97 6 10 189 10 179 5.91e-30 111
MS.gene35626.t1 MTR_5g080470 46.667 105 55 1 7 110 5 109 6.25e-30 109
MS.gene35626.t1 MTR_7g075230 41.667 168 82 5 6 166 9 167 4.39e-29 107
MS.gene35626.t1 MTR_6g011230 46.000 100 54 0 7 106 9 108 4.22e-28 105
MS.gene35626.t1 MTR_6g027700 46.602 103 54 1 7 108 5 107 1.88e-27 103
MS.gene35626.t1 MTR_6g011250 46.078 102 54 1 10 110 10 111 9.18e-27 101
MS.gene35626.t1 MTR_4g107450 45.000 100 55 0 10 109 11 110 4.32e-26 102
MS.gene35626.t1 MTR_4g099230 40.476 126 70 3 10 134 3 124 3.45e-25 96.3
MS.gene35626.t1 MTR_8g017090 38.835 103 63 0 10 112 13 115 6.32e-24 96.7
MS.gene35626.t1 MTR_5g085390 42.157 102 58 1 10 110 10 111 7.33e-22 89.7
MS.gene35626.t1 MTR_2g100020 36.634 101 64 0 10 110 20 120 3.08e-21 89.0
MS.gene35626.t1 MTR_4g088035 37.778 90 56 0 6 95 3 92 9.18e-20 84.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene35626.t1 AT5G66870 77.193 114 26 0 7 120 5 118 4.01e-61 193
MS.gene35626.t1 AT2G23660 66.379 116 39 0 7 122 3 118 4.50e-56 180
MS.gene35626.t1 AT2G23660 66.379 116 39 0 7 122 3 118 4.50e-56 180
MS.gene35626.t1 AT2G23660 66.379 116 39 0 7 122 3 118 4.50e-56 180
MS.gene35626.t1 AT5G63090 69.298 114 33 1 1 112 1 114 4.35e-51 163
MS.gene35626.t1 AT5G63090 69.298 114 33 1 1 112 1 114 4.35e-51 163
MS.gene35626.t1 AT5G63090 69.298 114 33 1 1 112 1 114 4.35e-51 163
MS.gene35626.t1 AT5G63090 69.298 114 33 1 1 112 1 114 4.35e-51 163
MS.gene35626.t1 AT3G27650 64.602 113 40 0 2 114 32 144 5.45e-49 157
MS.gene35626.t1 AT1G65620 66.942 121 40 0 1 121 1 121 6.54e-48 155
MS.gene35626.t1 AT1G65620 66.942 121 40 0 1 121 1 121 6.54e-48 155
MS.gene35626.t1 AT1G65620 66.942 121 40 0 1 121 1 121 6.54e-48 155
MS.gene35626.t1 AT1G65620 66.942 121 40 0 1 121 1 121 6.54e-48 155
MS.gene35626.t1 AT1G65620 66.942 121 40 0 1 121 1 121 6.54e-48 155
MS.gene35626.t1 AT2G30130 62.963 108 40 0 2 109 1 108 1.21e-47 155
MS.gene35626.t1 AT1G07900 60.194 103 41 0 8 110 32 134 1.87e-43 144
MS.gene35626.t1 AT2G28500 46.452 155 78 2 8 162 54 203 1.61e-42 143
MS.gene35626.t1 AT2G30340 59.804 102 41 0 8 109 51 152 5.87e-41 140
MS.gene35626.t1 AT2G30340 59.804 102 41 0 8 109 52 153 6.84e-41 140
MS.gene35626.t1 AT3G11090 57.798 109 46 0 6 114 8 116 2.28e-40 135
MS.gene35626.t1 AT1G16530 59.223 103 41 1 8 109 13 115 2.83e-40 135
MS.gene35626.t1 AT1G31320 62.921 89 33 0 7 95 11 99 8.49e-39 131
MS.gene35626.t1 AT2G40470 60.000 105 42 0 8 112 19 123 9.85e-38 130
MS.gene35626.t1 AT2G40470 60.000 105 42 0 8 112 44 148 1.89e-37 130
MS.gene35626.t1 AT3G26660 50.476 105 52 0 6 110 2 106 3.70e-37 125
MS.gene35626.t1 AT3G26620 50.476 105 52 0 6 110 2 106 3.70e-37 125
MS.gene35626.t1 AT4G00210 55.556 117 47 2 7 122 9 121 4.26e-37 129
MS.gene35626.t1 AT3G50510 50.420 119 58 1 7 124 10 128 5.33e-37 128
MS.gene35626.t1 AT3G50510 50.420 119 58 1 7 124 10 128 5.33e-37 128
MS.gene35626.t1 AT5G35900 50.459 109 54 0 6 114 2 110 2.87e-36 126
MS.gene35626.t1 AT3G03760 54.369 103 46 1 8 109 50 152 2.35e-34 123
MS.gene35626.t1 AT3G58190 44.286 140 73 3 9 146 11 147 4.07e-34 121
MS.gene35626.t1 AT2G42430 52.336 107 50 1 7 112 13 119 5.20e-32 116
MS.gene35626.t1 AT4G00220 55.446 101 44 1 12 111 20 120 7.55e-32 115
MS.gene35626.t1 AT2G45420 54.455 101 45 1 12 111 40 140 1.10e-30 113
MS.gene35626.t1 AT2G42440 47.573 103 53 1 7 108 5 107 8.37e-30 110
MS.gene35626.t1 AT2G45410 44.361 133 68 2 12 138 19 151 4.44e-29 107
MS.gene35626.t1 AT2G31310 47.748 111 56 2 7 116 5 114 1.08e-28 106
MS.gene35626.t1 AT5G06080 44.444 108 59 1 6 112 4 111 2.95e-27 102
MS.gene35626.t1 AT1G72980 43.925 107 60 0 3 109 7 113 5.59e-27 102
MS.gene35626.t1 AT3G13850 39.806 103 62 0 10 112 37 139 1.83e-26 102
MS.gene35626.t1 AT3G47870 38.739 111 68 0 2 112 29 139 5.34e-26 102
MS.gene35626.t1 AT4G22700 37.500 144 79 5 7 140 3 145 3.47e-23 92.0
MS.gene35626.t1 AT1G06280 45.977 87 47 0 10 96 25 111 1.34e-20 85.9
MS.gene35626.t1 AT2G19820 34.021 97 63 1 8 103 11 107 4.06e-16 72.0
MS.gene35626.t1 AT3G27940 31.538 130 87 1 6 133 2 131 9.63e-15 68.9
MS.gene35626.t1 AT3G27940 31.538 130 87 1 6 133 2 131 9.63e-15 68.9
MS.gene35626.t1 AT3G27940 31.538 130 87 1 6 133 2 131 9.63e-15 68.9
MS.gene35626.t1 AT5G15060 41.096 73 41 1 10 80 18 90 1.26e-12 63.2

Find 24 sgRNAs with CRISPR-Local

Find 39 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGTTTGAGAGATCCTGTTTA+TGG 0.254736 3.3:-63690546 MS.gene35626:CDS
ACCATTAACTGATTCTGAAA+AGG 0.386367 3.3:+63690288 None:intergenic
AAAGAACTTGCTTCTTATGT+TGG 0.411259 3.3:-63690453 MS.gene35626:CDS
ACCTACGTTCACAAAGTGTT+TGG 0.430629 3.3:-63690657 MS.gene35626:CDS
CCATTAACTGATTCTGAAAA+GGG 0.443959 3.3:+63690289 None:intergenic
AGACCAACACAACCATAAAC+AGG 0.459225 3.3:+63690534 None:intergenic
TTTGTCAAAGAAGGTGTTCA+AGG 0.477381 3.3:-63690211 MS.gene35626:CDS
GATCCTGTTTATGGTTGTGT+TGG 0.503197 3.3:-63690537 MS.gene35626:CDS
GAAGGTGTTCAAGGCAGAAA+GGG 0.510547 3.3:-63690202 MS.gene35626:CDS
AGAAGGTGTTCAAGGCAGAA+AGG 0.524281 3.3:-63690203 MS.gene35626:CDS
TGAATCTTGCACGCTGCACA+CGG 0.560567 3.3:+63690747 None:intergenic
GAACTCGACGCCGCCGTCAT+CGG 0.569433 3.3:+63690408 None:intergenic
AGAAAGGGACAACCTTGGAG+AGG 0.582482 3.3:-63690187 MS.gene35626:CDS
AAGGCAGAAAGGGACAACCT+TGG 0.600174 3.3:-63690192 MS.gene35626:CDS
GAAAGGGACAACCTTGGAGA+GGG 0.609665 3.3:-63690186 MS.gene35626:intron
GACGCCGCCGTCATCGGTGT+AGG 0.623332 3.3:+63690414 None:intergenic
CATGCTTCCTACACCGATGA+CGG 0.624741 3.3:-63690421 MS.gene35626:CDS
CAGTGATCATACCCTCTCCA+AGG 0.636121 3.3:+63690175 None:intergenic
GGTGTAGGAAGCATGATCTG+AGG 0.695632 3.3:+63690429 None:intergenic
GCTTCCTACACCGATGACGG+CGG 0.697155 3.3:-63690418 MS.gene35626:CDS
CGTGGCAAAGTTACTCAACG+AGG 0.719799 3.3:-63690625 MS.gene35626:CDS
TCAGCGTCGAAAATGCACAA+AGG 0.734134 3.3:-63690727 MS.gene35626:CDS
AGTGTTTGGTGCTAGCAACG+TGG 0.743523 3.3:-63690643 MS.gene35626:CDS
ACCAAACACTTTGTGAACGT+AGG 0.770701 3.3:+63690656 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CTTTTGTTAATTATTCTATT+AGG - chr3.3:63690764-63690783 MS.gene35626:CDS 15.0%
!! ACAAAAGTAACAAACAAAAA+AGG + chr3.3:63690751-63690770 None:intergenic 20.0%
CAAACAAAAAAGGACAAAAG+TGG + chr3.3:63690741-63690760 None:intergenic 30.0%
! AAAGAACTTGCTTCTTATGT+TGG - chr3.3:63690415-63690434 MS.gene35626:CDS 30.0%
! ACCATTAACTGATTCTGAAA+AGG + chr3.3:63690583-63690602 None:intergenic 30.0%
! CCATTAACTGATTCTGAAAA+GGG + chr3.3:63690582-63690601 None:intergenic 30.0%
!! GTAAACTTTTGAGGATTTTC+CGG + chr3.3:63690193-63690212 None:intergenic 30.0%
ATCATCATCATCATCATCAC+AGG - chr3.3:63690606-63690625 MS.gene35626:CDS 35.0%
! CCCTTTTCAGAATCAGTTAA+TGG - chr3.3:63690579-63690598 MS.gene35626:CDS 35.0%
! TGAACGTAGGTAAACTTTTG+AGG + chr3.3:63690202-63690221 None:intergenic 35.0%
! TTTGACAAAAATGCGTCGAT+GGG + chr3.3:63690646-63690665 None:intergenic 35.0%
!! AAACGAGTTTTCAGCATTGA+AGG + chr3.3:63690539-63690558 None:intergenic 35.0%
!! TTTGTCAAAGAAGGTGTTCA+AGG - chr3.3:63690657-63690676 MS.gene35626:CDS 35.0%
ACCAAACACTTTGTGAACGT+AGG + chr3.3:63690215-63690234 None:intergenic 40.0%
AGACCAACACAACCATAAAC+AGG + chr3.3:63690337-63690356 None:intergenic 40.0%
CGTTTGAGAGATCCTGTTTA+TGG - chr3.3:63690322-63690341 MS.gene35626:CDS 40.0%
CTTTGACAAAAATGCGTCGA+TGG + chr3.3:63690647-63690666 None:intergenic 40.0%
GATCCTGTTTATGGTTGTGT+TGG - chr3.3:63690331-63690350 MS.gene35626:CDS 40.0%
! ACCTACGTTCACAAAGTGTT+TGG - chr3.3:63690211-63690230 MS.gene35626:CDS 40.0%
! CGACGCATTTTTGTCAAAGA+AGG - chr3.3:63690648-63690667 MS.gene35626:CDS 40.0%
!! AACTTTTGAGGATTTTCCGG+CGG + chr3.3:63690190-63690209 None:intergenic 40.0%
! AGGATTTTCCGGCGGAAAAT+AGG + chr3.3:63690182-63690201 None:intergenic 45.0%
! GGATTTTCCGGCGGAAAATA+GGG + chr3.3:63690181-63690200 None:intergenic 45.0%
! TCAGCGTCGAAAATGCACAA+AGG - chr3.3:63690141-63690160 MS.gene35626:intron 45.0%
! TTTTGCACCCTATTTTCCGC+CGG - chr3.3:63690171-63690190 MS.gene35626:intron 45.0%
!! AGAAGGTGTTCAAGGCAGAA+AGG - chr3.3:63690665-63690684 MS.gene35626:CDS 45.0%
!! GAAGGTGTTCAAGGCAGAAA+GGG - chr3.3:63690666-63690685 MS.gene35626:CDS 45.0%
AAGGCAGAAAGGGACAACCT+TGG - chr3.3:63690676-63690695 MS.gene35626:CDS 50.0%
AGAAAGGGACAACCTTGGAG+AGG - chr3.3:63690681-63690700 MS.gene35626:CDS 50.0%
CAGTGATCATACCCTCTCCA+AGG + chr3.3:63690696-63690715 None:intergenic 50.0%
CATGCTTCCTACACCGATGA+CGG - chr3.3:63690447-63690466 MS.gene35626:CDS 50.0%
CGTGGCAAAGTTACTCAACG+AGG - chr3.3:63690243-63690262 MS.gene35626:CDS 50.0%
GAAAGGGACAACCTTGGAGA+GGG - chr3.3:63690682-63690701 MS.gene35626:CDS 50.0%
TGAATCTTGCACGCTGCACA+CGG + chr3.3:63690124-63690143 None:intergenic 50.0%
! GGTGTAGGAAGCATGATCTG+AGG + chr3.3:63690442-63690461 None:intergenic 50.0%
!! AGTGTTTGGTGCTAGCAACG+TGG - chr3.3:63690225-63690244 MS.gene35626:CDS 50.0%
! GCTTCCTACACCGATGACGG+CGG - chr3.3:63690450-63690469 MS.gene35626:CDS 60.0%
GAACTCGACGCCGCCGTCAT+CGG + chr3.3:63690463-63690482 None:intergenic 65.0%
GACGCCGCCGTCATCGGTGT+AGG + chr3.3:63690457-63690476 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr3.3 gene 63690097 63690793 63690097 ID=MS.gene35626
chr3.3 mRNA 63690097 63690793 63690097 ID=MS.gene35626.t1;Parent=MS.gene35626
chr3.3 exon 63690187 63690793 63690187 ID=MS.gene35626.t1.exon1;Parent=MS.gene35626.t1
chr3.3 CDS 63690187 63690793 63690187 ID=cds.MS.gene35626.t1;Parent=MS.gene35626.t1
chr3.3 exon 63690097 63690104 63690097 ID=MS.gene35626.t1.exon2;Parent=MS.gene35626.t1
chr3.3 CDS 63690097 63690104 63690097 ID=cds.MS.gene35626.t1;Parent=MS.gene35626.t1
Gene Sequence

>MS.gene35626

ATGATGTCGTCGTGTAATTCTTCTCCGTGTGCAGCGTGCAAGATTCAGCGTCGAAAATGCACAAAGGAATGCATTTTTGCACCCTATTTTCCGCCGGAAAATCCTCAAAAGTTTACCTACGTTCACAAAGTGTTTGGTGCTAGCAACGTGGCAAAGTTACTCAACGAGGTTGATGCTTCTCAGCGTGAAGATGCTGTTAAGTCTTTAGCTTATGAAGCAGAAGCGCGTTTGAGAGATCCTGTTTATGGTTGTGTTGGTCTTATTTCACATCTTCAGAATAAGCTTAAGAATTTGCAGAATGAACTTAATGTTGCTAAGAAAGAACTTGCTTCTTATGTTGGTCCTCAGATCATGCTTCCTACACCGATGACGGCGGCGTCGAGTTCTTATTTTTCTGTGACTACTTCTTCTGTTCATCAACAGCGTCAAGAGTTTTTCACCTTCAATGCTGAAAACTCGTTTTCTAATAACTTTCAGATGAACCCTTTTCAGAATCAGTTAATGGTTTCATCATCATCATCATCATCACAGGCACAATCTTCACAACCCATCGACGCATTTTTGTCAAAGAAGGTGTTCAAGGCAGAAAGGGACAACCTTGGAGAGGGTATGATCACTGTTTCATCTATTTTATTGATTTTCCACTTTTGTCCTTTTTTGTTTGTTACTTTTGTTAATTATTCTATTAGGTTTTTAG
Protein sequence

>MS.gene35626.t1

MMSSCNSSPCAACKIQRRKCTKECIFAPYFPPENPQKFTYVHKVFGASNVAKLLNEVDASQREDAVKSLAYEAEARLRDPVYGCVGLISHLQNKLKNLQNELNVAKKELASYVGPQIMLPTPMTAASSSYFSVTTSSVHQQRQEFFTFNAENSFSNNFQMNPFQNQLMVSSSSSSSQAQSSQPIDAFLSKKVFKAERDNLGEGF