AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene017198

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene017198.t1 MTR_5g093010 97.931 145 3 0 1 145 1 145 2.41e-106 299
MS.gene017198.t1 MTR_7g028905 82.906 117 20 0 1 117 1 117 1.68e-71 210
MS.gene017198.t1 MTR_5g083230 51.376 109 53 0 6 114 7 115 1.43e-38 129
MS.gene017198.t1 MTR_3g031660 45.833 120 62 1 6 125 8 124 3.59e-37 125
MS.gene017198.t1 MTR_2g068760 48.571 105 54 0 6 110 14 118 4.86e-37 124
MS.gene017198.t1 MTR_3g071590 42.143 140 73 2 6 145 9 140 7.03e-37 124
MS.gene017198.t1 MTR_4g083680 52.525 99 47 0 6 104 16 114 1.82e-35 121
MS.gene017198.t1 MTR_5g083960 45.669 127 66 1 6 129 40 166 8.21e-34 117
MS.gene017198.t1 MTR_3g094690 50.000 106 53 0 6 111 48 153 8.80e-33 115
MS.gene017198.t1 MTR_3g452660 49.074 108 55 0 6 113 8 115 1.49e-32 116
MS.gene017198.t1 MTR_3g073690 45.631 103 56 0 6 108 10 112 4.71e-32 113
MS.gene017198.t1 MTR_4g060950 42.857 112 63 1 1 111 20 131 7.68e-32 112
MS.gene017198.t1 MTR_7g033800 45.690 116 59 1 6 117 12 127 8.17e-32 111
MS.gene017198.t1 MTR_4g105170 47.664 107 56 0 6 112 12 118 8.57e-32 112
MS.gene017198.t1 MTR_2g093310 38.298 141 77 2 1 141 29 159 1.11e-31 112
MS.gene017198.t1 MTR_6g005070 48.000 100 52 0 6 105 10 109 8.02e-31 108
MS.gene017198.t1 MTR_3g094690 50.000 106 52 1 6 111 48 152 9.92e-31 110
MS.gene017198.t1 MTR_6g005080 40.876 137 74 2 6 142 11 140 1.16e-30 107
MS.gene017198.t1 MTR_5g017950 45.631 103 56 0 6 108 9 111 1.18e-30 112
MS.gene017198.t1 MTR_3g077240 49.000 100 51 0 6 105 11 110 1.67e-30 108
MS.gene017198.t1 MTR_5g075020 48.077 104 54 0 6 109 44 147 9.70e-29 105
MS.gene017198.t1 MTR_1g095850 43.564 101 57 0 6 106 73 173 1.06e-28 105
MS.gene017198.t1 MTR_5g075020 48.077 104 54 0 6 109 48 151 1.51e-28 105
MS.gene017198.t1 MTR_6g011250 37.879 132 79 2 6 134 10 141 1.91e-28 103
MS.gene017198.t1 MTR_8g040900 56.250 80 35 0 6 85 8 87 2.68e-28 104
MS.gene017198.t1 MTR_3g071420 44.681 94 52 0 6 99 15 108 2.96e-28 103
MS.gene017198.t1 MTR_6g027710 44.340 106 58 1 6 110 41 146 1.21e-27 102
MS.gene017198.t1 MTR_5g083010 41.584 101 59 0 6 106 12 112 1.27e-27 101
MS.gene017198.t1 MTR_7g096530 45.098 102 55 1 6 106 15 116 3.66e-27 101
MS.gene017198.t1 MTR_6g011230 41.237 97 57 0 6 102 12 108 7.78e-27 99.8
MS.gene017198.t1 MTR_1g070220 43.478 115 60 2 6 119 16 126 1.08e-26 99.8
MS.gene017198.t1 MTR_8g036085 41.667 108 62 1 4 110 22 129 1.44e-25 97.4
MS.gene017198.t1 MTR_7g074990 44.554 101 55 1 6 105 21 121 2.56e-25 96.7
MS.gene017198.t1 MTR_7g096610 41.732 127 67 3 6 125 9 135 9.54e-25 95.1
MS.gene017198.t1 MTR_8g079660 39.604 101 61 0 6 106 9 109 1.02e-24 95.9
MS.gene017198.t1 MTR_8g036105 43.269 104 58 1 4 106 17 120 1.95e-24 94.0
MS.gene017198.t1 MTR_1g070205 37.857 140 78 4 6 144 13 144 4.08e-24 93.6
MS.gene017198.t1 MTR_7g075230 37.063 143 84 4 4 140 11 153 1.05e-23 91.7
MS.gene017198.t1 MTR_8g079580 42.574 101 57 1 6 105 9 109 1.07e-23 92.4
MS.gene017198.t1 MTR_5g080470 41.176 102 59 1 6 106 8 109 2.13e-23 90.9
MS.gene017198.t1 MTR_6g027700 35.878 131 71 2 6 123 8 138 1.57e-22 89.0
MS.gene017198.t1 MTR_8g079620 36.634 101 64 0 6 106 9 109 2.41e-22 89.0
MS.gene017198.t1 MTR_6g011200 35.294 102 65 1 6 106 10 111 3.86e-22 88.6
MS.gene017198.t1 MTR_5g085390 33.333 144 87 4 6 144 10 149 1.18e-21 87.0
MS.gene017198.t1 MTR_4g107450 40.000 100 60 0 6 105 11 110 1.30e-20 85.5
MS.gene017198.t1 MTR_8g017090 36.538 104 66 0 6 109 13 116 3.56e-20 84.3
MS.gene017198.t1 MTR_4g099230 34.314 102 66 1 6 106 3 104 4.13e-20 81.3
MS.gene017198.t1 MTR_2g100020 33.663 101 67 0 6 106 20 120 5.69e-19 80.9
MS.gene017198.t1 MTR_4g088035 31.395 86 59 0 6 91 7 92 2.46e-13 65.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene017198.t1 AT3G26620 64.706 102 36 0 5 106 5 106 1.36e-45 145
MS.gene017198.t1 AT3G26660 64.706 102 36 0 5 106 5 106 1.39e-45 145
MS.gene017198.t1 AT2G30130 50.926 108 53 0 6 113 9 116 9.08e-38 127
MS.gene017198.t1 AT1G31320 60.465 86 34 0 6 91 14 99 5.23e-35 120
MS.gene017198.t1 AT5G63090 42.029 138 80 0 6 143 12 149 1.83e-32 114
MS.gene017198.t1 AT5G63090 42.029 138 80 0 6 143 12 149 1.83e-32 114
MS.gene017198.t1 AT5G63090 42.029 138 80 0 6 143 12 149 1.83e-32 114
MS.gene017198.t1 AT5G63090 42.029 138 80 0 6 143 12 149 1.83e-32 114
MS.gene017198.t1 AT3G27650 49.000 100 51 0 6 105 40 139 3.06e-32 112
MS.gene017198.t1 AT2G28500 42.342 111 64 0 1 111 51 161 1.19e-31 113
MS.gene017198.t1 AT1G07900 42.342 111 64 0 1 111 29 139 1.32e-31 111
MS.gene017198.t1 AT1G16530 49.505 101 50 1 6 105 15 115 1.58e-31 110
MS.gene017198.t1 AT2G30340 47.170 106 56 0 6 111 53 158 2.29e-31 113
MS.gene017198.t1 AT2G30340 47.170 106 56 0 6 111 54 159 2.39e-31 113
MS.gene017198.t1 AT2G23660 45.631 103 56 0 6 108 6 108 6.54e-31 113
MS.gene017198.t1 AT2G23660 45.631 103 56 0 6 108 6 108 6.54e-31 113
MS.gene017198.t1 AT2G23660 45.631 103 56 0 6 108 6 108 6.54e-31 113
MS.gene017198.t1 AT5G66870 44.660 103 57 0 6 108 8 110 9.83e-31 112
MS.gene017198.t1 AT2G40470 45.385 130 65 2 6 135 21 144 2.83e-30 108
MS.gene017198.t1 AT2G40470 45.736 129 64 2 6 134 46 168 4.43e-30 108
MS.gene017198.t1 AT3G11090 35.294 136 80 1 6 141 12 139 1.08e-28 103
MS.gene017198.t1 AT1G65620 45.545 101 55 0 6 106 10 110 5.32e-28 102
MS.gene017198.t1 AT1G65620 45.545 101 55 0 6 106 10 110 5.32e-28 102
MS.gene017198.t1 AT1G65620 45.545 101 55 0 6 106 10 110 5.32e-28 102
MS.gene017198.t1 AT1G65620 45.545 101 55 0 6 106 10 110 5.32e-28 102
MS.gene017198.t1 AT1G65620 45.545 101 55 0 6 106 10 110 5.32e-28 102
MS.gene017198.t1 AT4G00210 39.416 137 73 3 4 132 10 144 1.11e-27 102
MS.gene017198.t1 AT3G03760 45.545 101 54 1 6 105 52 152 4.48e-27 102
MS.gene017198.t1 AT2G42430 43.810 105 58 1 6 109 16 120 1.17e-26 100
MS.gene017198.t1 AT3G50510 41.905 105 61 0 2 106 9 113 3.76e-26 98.2
MS.gene017198.t1 AT3G50510 41.905 105 61 0 2 106 9 113 3.76e-26 98.2
MS.gene017198.t1 AT5G06080 41.322 121 67 2 6 125 8 125 1.99e-25 95.5
MS.gene017198.t1 AT2G45410 45.000 100 54 1 8 106 19 118 7.82e-25 94.4
MS.gene017198.t1 AT3G58190 43.137 102 57 1 6 106 12 113 5.46e-24 92.8
MS.gene017198.t1 AT4G00220 40.385 104 61 1 8 110 20 123 5.73e-24 93.2
MS.gene017198.t1 AT2G42440 43.000 100 56 1 6 104 8 107 7.23e-24 93.2
MS.gene017198.t1 AT3G47870 37.736 106 66 0 4 109 35 140 2.56e-23 93.2
MS.gene017198.t1 AT2G45420 42.308 104 59 1 8 110 40 143 3.50e-23 91.7
MS.gene017198.t1 AT3G13850 33.766 154 82 2 6 139 37 190 1.08e-22 90.5
MS.gene017198.t1 AT5G35900 40.777 103 54 1 6 101 6 108 1.25e-20 84.0
MS.gene017198.t1 AT2G31310 31.206 141 89 3 6 145 8 141 2.96e-20 82.4
MS.gene017198.t1 AT1G72980 33.077 130 83 2 6 134 14 140 8.60e-18 76.6
MS.gene017198.t1 AT1G06280 37.209 86 54 0 6 91 25 110 1.05e-17 76.3
MS.gene017198.t1 AT2G19820 34.021 97 58 2 6 101 13 104 5.70e-15 67.0
MS.gene017198.t1 AT4G22700 31.579 114 76 2 1 113 1 113 2.57e-13 64.3
MS.gene017198.t1 AT5G15060 43.243 74 38 2 6 76 18 90 8.09e-13 62.0
MS.gene017198.t1 AT1G36000 27.957 93 67 0 6 98 10 102 7.92e-12 58.9

Find 33 sgRNAs with CRISPR-Local

Find 36 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGCTTCATATTGTTGATTT+TGG 0.095309 5.3:+74560766 None:intergenic
AGGATTCAAAATCCTGTTTA+TGG 0.168254 5.3:-74560882 MS.gene017198:CDS
AGCAAATCTTTGAGGATTAT+TGG 0.230583 5.3:+74561144 None:intergenic
AGCAATCTGAGTTTGGATTT+TGG 0.249357 5.3:+74560800 None:intergenic
GGATTATTGGCAGGGAAATA+TGG 0.290635 5.3:+74561157 None:intergenic
GGCCCAATCAAACACCTAAT+TGG 0.314557 5.3:-74560689 MS.gene017198:CDS
GCTTCTGTCCACCGAATCTA+TGG 0.338967 5.3:-74561124 MS.gene017198:CDS
TATGACAAGCAATCTGAGTT+TGG 0.340516 5.3:+74560793 None:intergenic
AAGTCTTAATTGAACCAATT+AGG 0.341976 5.3:+74560675 None:intergenic
GAACCAATTAGGTGTTTGAT+TGG 0.385252 5.3:+74560686 None:intergenic
CCAGCTCAGCTTCTGTATCA+TGG 0.391779 5.3:+74560823 None:intergenic
ATCCCAACACATCCATAAAC+AGG 0.441067 5.3:+74560870 None:intergenic
AATCTTTGAGGATTATTGGC+AGG 0.455276 5.3:+74561148 None:intergenic
TGCTCCATGCTGCTACTTTG+TGG 0.458851 5.3:+74560720 None:intergenic
AACCAATTAGGTGTTTGATT+GGG 0.459934 5.3:+74560687 None:intergenic
CCATGATACAGAAGCTGAGC+TGG 0.490473 5.3:-74560823 MS.gene017198:CDS
TGTATTTAGAAGCACAATGT+AGG 0.494601 5.3:-74560902 MS.gene017198:CDS
TGGACAGAAGCAAATCTTTG+AGG 0.503992 5.3:+74561136 None:intergenic
CAAAATCAACAATATGAAGC+TGG 0.506425 5.3:-74560765 MS.gene017198:CDS
ATCTATGGTGGTGCCAATGT+TGG 0.519520 5.3:-74561109 MS.gene017198:CDS
CATTGGCACCACCATAGATT+CGG 0.530883 5.3:+74561113 None:intergenic
TTGACATCATGATTTATGGT+AGG 0.535888 5.3:-74561234 None:intergenic
AATCCTGTTTATGGATGTGT+TGG 0.538555 5.3:-74560873 MS.gene017198:CDS
GGAGAGAAAATGCAATCAGA+AGG 0.551169 5.3:+74561178 None:intergenic
CTTGCAAGAGTCAAAGAAGA+AGG 0.555730 5.3:-74561204 MS.gene017198:CDS
ATCTTTGAGGATTATTGGCA+GGG 0.557843 5.3:+74561149 None:intergenic
GCCTCCACAAAGTAGCAGCA+TGG 0.580606 5.3:-74560724 MS.gene017198:CDS
ATCCTGTTTATGGATGTGTT+GGG 0.594258 5.3:-74560872 MS.gene017198:CDS
GCTTGTTCTCTTACATAGTG+AGG 0.601870 5.3:+74560936 None:intergenic
GAGAGAAAATGCAATCAGAA+GGG 0.619697 5.3:+74561179 None:intergenic
TGGCACCACCATAGATTCGG+TGG 0.632816 5.3:+74561116 None:intergenic
TCTGTCCACCGAATCTATGG+TGG 0.637607 5.3:-74561121 MS.gene017198:CDS
TCCATGCTGCTACTTTGTGG+AGG 0.665689 5.3:+74560723 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGTAATATAATTATAACATA+TGG - chr5.3:74560879-74560898 MS.gene017198:CDS 10.0%
!!! TTCTTATCTAGTATTTTTAT+TGG - chr5.3:74560936-74560955 MS.gene017198:CDS 15.0%
AACCAATTAGGTGTTTGATT+GGG + chr5.3:74561222-74561241 None:intergenic 30.0%
AGGATTCAAAATCCTGTTTA+TGG - chr5.3:74561024-74561043 MS.gene017198:intron 30.0%
CAAAATCAACAATATGAAGC+TGG - chr5.3:74561141-74561160 MS.gene017198:CDS 30.0%
! AGCAAATCTTTGAGGATTAT+TGG + chr5.3:74560765-74560784 None:intergenic 30.0%
! TGTATTTAGAAGCACAATGT+AGG - chr5.3:74561004-74561023 MS.gene017198:intron 30.0%
!!! CAGCTTCATATTGTTGATTT+TGG + chr5.3:74561143-74561162 None:intergenic 30.0%
AATCCTGTTTATGGATGTGT+TGG - chr5.3:74561033-74561052 MS.gene017198:intron 35.0%
ATCCTGTTTATGGATGTGTT+GGG - chr5.3:74561034-74561053 MS.gene017198:intron 35.0%
CAATGTTGGAAAAATGCTTC+AGG - chr5.3:74560811-74560830 MS.gene017198:CDS 35.0%
GAACCAATTAGGTGTTTGAT+TGG + chr5.3:74561223-74561242 None:intergenic 35.0%
GAGAGAAAATGCAATCAGAA+GGG + chr5.3:74560730-74560749 None:intergenic 35.0%
TATGACAAGCAATCTGAGTT+TGG + chr5.3:74561116-74561135 None:intergenic 35.0%
! AATCTTTGAGGATTATTGGC+AGG + chr5.3:74560761-74560780 None:intergenic 35.0%
! AGCAATCTGAGTTTGGATTT+TGG + chr5.3:74561109-74561128 None:intergenic 35.0%
! ATCTTTGAGGATTATTGGCA+GGG + chr5.3:74560760-74560779 None:intergenic 35.0%
!! CTGAAGCATTTTTCCAACAT+TGG + chr5.3:74560813-74560832 None:intergenic 35.0%
ATCCCAACACATCCATAAAC+AGG + chr5.3:74561039-74561058 None:intergenic 40.0%
CTTGCAAGAGTCAAAGAAGA+AGG - chr5.3:74560702-74560721 MS.gene017198:CDS 40.0%
GCTTGTTCTCTTACATAGTG+AGG + chr5.3:74560973-74560992 None:intergenic 40.0%
GGAGAGAAAATGCAATCAGA+AGG + chr5.3:74560731-74560750 None:intergenic 40.0%
GGATTATTGGCAGGGAAATA+TGG + chr5.3:74560752-74560771 None:intergenic 40.0%
TGGACAGAAGCAAATCTTTG+AGG + chr5.3:74560773-74560792 None:intergenic 40.0%
CATTGGCACCACCATAGATT+CGG + chr5.3:74560796-74560815 None:intergenic 45.0%
GGCCCAATCAAACACCTAAT+TGG - chr5.3:74561217-74561236 MS.gene017198:CDS 45.0%
! ATCTATGGTGGTGCCAATGT+TGG - chr5.3:74560797-74560816 MS.gene017198:CDS 45.0%
!! GCAGCATGGAGCATTTTCAA+TGG - chr5.3:74561196-74561215 MS.gene017198:CDS 45.0%
CCAGCTCAGCTTCTGTATCA+TGG + chr5.3:74561086-74561105 None:intergenic 50.0%
CCATGATACAGAAGCTGAGC+TGG - chr5.3:74561083-74561102 MS.gene017198:intron 50.0%
GCTTCTGTCCACCGAATCTA+TGG - chr5.3:74560782-74560801 MS.gene017198:CDS 50.0%
TCTGTCCACCGAATCTATGG+TGG - chr5.3:74560785-74560804 MS.gene017198:CDS 50.0%
!! TCCATGCTGCTACTTTGTGG+AGG + chr5.3:74561186-74561205 None:intergenic 50.0%
!! TGCTCCATGCTGCTACTTTG+TGG + chr5.3:74561189-74561208 None:intergenic 50.0%
GCCTCCACAAAGTAGCAGCA+TGG - chr5.3:74561182-74561201 MS.gene017198:CDS 55.0%
TGGCACCACCATAGATTCGG+TGG + chr5.3:74560793-74560812 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr5.3 gene 74560680 74561248 74560680 ID=MS.gene017198
chr5.3 mRNA 74560680 74561248 74560680 ID=MS.gene017198.t1;Parent=MS.gene017198
chr5.3 exon 74561096 74561248 74561096 ID=MS.gene017198.t1.exon1;Parent=MS.gene017198.t1
chr5.3 CDS 74561096 74561248 74561096 ID=cds.MS.gene017198.t1;Parent=MS.gene017198.t1
chr5.3 exon 74560680 74560964 74560680 ID=MS.gene017198.t1.exon2;Parent=MS.gene017198.t1
chr5.3 CDS 74560680 74560964 74560680 ID=cds.MS.gene017198.t1;Parent=MS.gene017198.t1
Gene Sequence

>MS.gene017198

ATGATTTATGGTAGGTGTGCTGCTTGCAAGAGTCAAAGAAGAAGGTGCCCTTCTGATTGCATTTTCTCTCCATATTTCCCTGCCAATAATCCTCAAAGATTTGCTTCTGTCCACCGAATCTATGGTGGTGCCAATGTTGGAAAAATGCTTCAGGTACTTTTAATAATGTATTGATATTTAGTATCTAGTATTTATATTATGTAATATAATTATAACATATGGAAAGAATATCAAAGTTATAAAAAATATATGTTTTTTCTTATCTAGTATTTTTATTGGTGCAGCAATTGCCTCACTATGTAAGAGAACAAGCTGCAAATACTTTGTATTTAGAAGCACAATGTAGGATTCAAAATCCTGTTTATGGATGTGTTGGGATCATCTCTAAATTGTATCAACAAATCCATGATACAGAAGCTGAGCTGGCCAAAATCCAAACTCAGATTGCTTGTCATAAGCTCCAAAATCAACAATATGAAGCTGGATCAAACTTCAATCTTTTGCCTCCACAAAGTAGCAGCATGGAGCATTTTCAATGGCCCAATCAAACACCTAATTGGTTCAATTAA
Protein sequence

>MS.gene017198.t1

MIYGRCAACKSQRRRCPSDCIFSPYFPANNPQRFASVHRIYGGANVGKMLQQLPHYVREQAANTLYLEAQCRIQNPVYGCVGIISKLYQQIHDTEAELAKIQTQIACHKLQNQQYEAGSNFNLLPPQSSSMEHFQWPNQTPNWFN