AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene73837

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene73837.t1 MTR_4g088035 47.191 89 47 0 14 102 6 94 1.64e-26 102
MS.gene73837.t1 MTR_3g073690 45.161 93 51 0 15 107 10 102 1.66e-23 92.8
MS.gene73837.t1 MTR_2g093310 41.935 93 54 0 15 107 34 126 2.96e-23 92.0
MS.gene73837.t1 MTR_2g100020 41.176 102 60 0 10 111 15 116 3.47e-23 94.0
MS.gene73837.t1 MTR_3g031660 42.105 95 55 0 15 109 8 102 7.38e-23 90.5
MS.gene73837.t1 MTR_4g107450 41.837 98 57 0 10 107 6 103 2.17e-22 92.0
MS.gene73837.t1 MTR_8g017090 41.667 108 52 2 13 111 11 116 4.58e-22 91.3
MS.gene73837.t1 MTR_1g095850 34.884 129 77 1 15 136 73 201 4.72e-22 89.7
MS.gene73837.t1 MTR_4g105170 43.011 93 53 0 15 107 12 104 7.57e-22 88.2
MS.gene73837.t1 MTR_5g083230 40.000 100 56 1 10 109 2 97 8.77e-22 87.4
MS.gene73837.t1 MTR_7g033800 41.935 93 54 0 15 107 12 104 1.53e-21 87.0
MS.gene73837.t1 MTR_3g077240 38.835 103 63 0 5 107 1 103 1.70e-21 87.4
MS.gene73837.t1 MTR_6g011250 45.679 81 43 1 12 91 7 87 1.95e-21 87.0
MS.gene73837.t1 MTR_4g083680 41.379 87 51 0 10 96 11 97 2.27e-21 86.7
MS.gene73837.t1 MTR_3g071590 41.053 95 52 1 15 109 9 99 2.65e-21 86.3
MS.gene73837.t1 MTR_6g011200 39.806 103 58 2 12 110 7 109 5.78e-21 87.4
MS.gene73837.t1 MTR_2g068760 37.838 111 59 2 10 120 9 109 7.35e-21 85.1
MS.gene73837.t1 MTR_5g083960 35.185 108 68 1 15 120 40 147 8.70e-21 85.9
MS.gene73837.t1 MTR_6g005070 39.785 93 56 0 15 107 10 102 9.45e-21 84.3
MS.gene73837.t1 MTR_7g074990 41.176 102 59 1 15 115 21 122 1.34e-20 86.3
MS.gene73837.t1 MTR_6g005080 39.785 93 56 0 15 107 11 103 2.39e-20 83.2
MS.gene73837.t1 MTR_5g083010 47.436 78 41 0 14 91 11 88 2.65e-20 84.0
MS.gene73837.t1 MTR_6g011230 38.053 113 67 1 7 116 4 116 2.75e-20 84.7
MS.gene73837.t1 MTR_4g060950 39.362 94 56 1 15 107 25 118 3.84e-20 84.0
MS.gene73837.t1 MTR_5g017950 40.860 93 55 0 15 107 9 101 6.23e-20 85.9
MS.gene73837.t1 MTR_5g075020 45.455 77 42 0 15 91 44 120 7.84e-20 84.0
MS.gene73837.t1 MTR_5g075020 45.455 77 42 0 15 91 48 124 7.92e-20 84.0
MS.gene73837.t1 MTR_3g094690 37.113 97 61 0 15 111 48 144 9.66e-20 84.0
MS.gene73837.t1 MTR_8g079580 39.623 106 60 2 15 119 9 111 1.01e-19 83.6
MS.gene73837.t1 MTR_3g071420 44.872 78 43 0 14 91 14 91 1.20e-19 82.4
MS.gene73837.t1 MTR_5g080470 31.579 133 89 2 10 140 3 135 3.44e-19 81.3
MS.gene73837.t1 MTR_4g099230 36.585 123 72 2 15 131 3 125 3.48e-19 80.5
MS.gene73837.t1 MTR_8g040900 45.455 77 42 0 15 91 8 84 4.36e-19 82.0
MS.gene73837.t1 MTR_6g027700 35.644 101 64 1 15 114 8 108 9.38e-19 80.5
MS.gene73837.t1 MTR_8g079620 37.000 100 63 0 13 112 7 106 1.23e-18 80.9
MS.gene73837.t1 MTR_3g452660 38.144 97 60 0 15 111 8 104 1.57e-18 81.6
MS.gene73837.t1 MTR_3g094690 38.144 97 59 1 15 111 48 143 1.75e-18 80.5
MS.gene73837.t1 MTR_8g036085 39.000 100 60 1 15 113 24 123 6.03e-18 79.0
MS.gene73837.t1 MTR_5g093010 35.484 93 60 0 15 107 6 98 7.16e-18 76.6
MS.gene73837.t1 MTR_8g079660 35.714 98 63 0 15 112 9 106 8.01e-18 79.3
MS.gene73837.t1 MTR_7g028905 32.673 101 68 0 11 111 2 102 1.23e-17 75.5
MS.gene73837.t1 MTR_5g085390 36.937 111 66 2 13 119 8 118 1.99e-17 77.8
MS.gene73837.t1 MTR_8g036105 48.000 75 38 1 15 88 19 93 5.36e-17 76.3
MS.gene73837.t1 MTR_6g027710 36.190 105 63 2 15 118 41 142 8.10e-17 75.9
MS.gene73837.t1 MTR_7g096530 34.677 124 70 3 1 123 1 114 8.23e-17 75.9
MS.gene73837.t1 MTR_1g070220 29.936 157 92 5 15 169 16 156 1.64e-15 72.0
MS.gene73837.t1 MTR_7g096610 33.333 108 71 1 10 116 4 111 2.82e-15 71.6
MS.gene73837.t1 MTR_7g075230 48.052 77 37 2 15 88 13 89 6.24e-15 70.1
MS.gene73837.t1 MTR_1g070205 41.333 75 43 1 15 88 13 87 1.12e-14 70.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene73837.t1 AT1G06280 59.406 101 34 1 12 112 22 115 1.71e-40 137
MS.gene73837.t1 AT3G13850 43.363 113 53 2 13 116 35 145 3.53e-28 106
MS.gene73837.t1 AT3G50510 37.383 107 67 0 15 121 13 119 5.94e-25 96.7
MS.gene73837.t1 AT3G50510 37.383 107 67 0 15 121 13 119 5.94e-25 96.7
MS.gene73837.t1 AT1G72980 44.231 104 58 0 8 111 7 110 2.63e-24 95.5
MS.gene73837.t1 AT5G63090 41.176 102 60 0 6 107 3 104 1.79e-22 90.1
MS.gene73837.t1 AT5G63090 41.176 102 60 0 6 107 3 104 1.79e-22 90.1
MS.gene73837.t1 AT5G63090 41.176 102 60 0 6 107 3 104 1.79e-22 90.1
MS.gene73837.t1 AT5G63090 41.176 102 60 0 6 107 3 104 1.79e-22 90.1
MS.gene73837.t1 AT1G07900 48.052 77 40 0 15 91 34 110 2.73e-22 89.7
MS.gene73837.t1 AT5G66870 33.571 140 78 2 15 140 8 146 4.30e-22 91.7
MS.gene73837.t1 AT2G28500 39.423 104 60 1 15 118 56 156 4.82e-22 89.7
MS.gene73837.t1 AT2G23660 41.935 93 54 0 15 107 6 98 2.83e-21 89.4
MS.gene73837.t1 AT2G23660 41.935 93 54 0 15 107 6 98 2.83e-21 89.4
MS.gene73837.t1 AT2G23660 41.935 93 54 0 15 107 6 98 2.83e-21 89.4
MS.gene73837.t1 AT3G27650 35.849 106 68 0 3 108 28 133 9.13e-21 84.7
MS.gene73837.t1 AT2G30130 38.947 95 58 0 15 109 9 103 1.05e-20 85.5
MS.gene73837.t1 AT1G16530 31.967 122 79 2 15 135 15 133 1.56e-20 84.3
MS.gene73837.t1 AT1G65620 48.052 77 40 0 15 91 10 86 2.14e-20 84.7
MS.gene73837.t1 AT1G65620 48.052 77 40 0 15 91 10 86 2.14e-20 84.7
MS.gene73837.t1 AT1G65620 48.052 77 40 0 15 91 10 86 2.14e-20 84.7
MS.gene73837.t1 AT1G65620 48.052 77 40 0 15 91 10 86 2.14e-20 84.7
MS.gene73837.t1 AT1G65620 48.052 77 40 0 15 91 10 86 2.14e-20 84.7
MS.gene73837.t1 AT2G30340 40.206 97 58 0 15 111 54 150 7.22e-20 84.7
MS.gene73837.t1 AT2G30340 40.206 97 58 0 15 111 53 149 9.20e-20 84.7
MS.gene73837.t1 AT3G47870 35.780 109 63 2 10 111 32 140 1.01e-19 85.5
MS.gene73837.t1 AT4G00210 35.897 117 74 1 7 122 4 120 1.05e-19 83.6
MS.gene73837.t1 AT1G31320 37.363 91 57 0 6 96 5 95 1.55e-19 82.0
MS.gene73837.t1 AT3G11090 38.776 98 60 0 14 111 11 108 1.79e-19 81.6
MS.gene73837.t1 AT3G26660 33.333 93 62 0 15 107 6 98 1.83e-18 77.8
MS.gene73837.t1 AT3G26620 33.333 93 62 0 15 107 6 98 1.97e-18 77.8
MS.gene73837.t1 AT2G40470 36.735 98 62 0 15 112 21 118 2.53e-18 79.3
MS.gene73837.t1 AT2G40470 36.735 98 62 0 15 112 46 143 8.61e-18 78.6
MS.gene73837.t1 AT2G42430 43.750 80 44 1 10 88 11 90 1.64e-17 78.2
MS.gene73837.t1 AT4G00220 39.216 102 61 1 17 117 20 121 3.47e-17 77.0
MS.gene73837.t1 AT5G35900 33.333 108 67 2 14 120 5 108 3.58e-17 76.6
MS.gene73837.t1 AT5G06080 34.694 98 63 1 14 110 7 104 7.91e-17 74.7
MS.gene73837.t1 AT2G31310 38.542 96 55 2 9 103 2 94 1.07e-16 74.7
MS.gene73837.t1 AT2G45410 32.773 119 79 1 17 134 19 137 1.73e-16 74.3
MS.gene73837.t1 AT3G58190 30.216 139 79 3 15 142 12 143 5.11e-16 73.6
MS.gene73837.t1 AT2G19820 35.106 94 60 1 4 96 2 95 5.58e-16 71.2
MS.gene73837.t1 AT2G42440 38.272 81 49 1 9 88 2 82 1.74e-15 72.8
MS.gene73837.t1 AT3G03760 35.238 105 64 2 15 118 52 153 1.21e-14 70.9
MS.gene73837.t1 AT2G45420 37.255 102 63 1 17 117 40 141 1.23e-14 70.5
MS.gene73837.t1 AT5G15060 29.661 118 71 4 7 122 10 117 4.57e-12 61.2

Find 34 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTGACTGCTGCTGAATATT+TGG 0.145265 4.2:-30827165 None:intergenic
TGAACAATATGTATTATAAA+TGG 0.237268 4.2:-30827097 None:intergenic
AGAAATATTAGTAATAATAA+TGG 0.289856 4.2:+30826640 MS.gene73837:CDS
TCTCCATAAGAACCATTTAT+AGG 0.292857 4.2:-30826886 None:intergenic
AATTCTCTACTTCTGCTTGA+TGG 0.303337 4.2:-30826739 None:intergenic
GCACTTGCACCAATTGGTTT+TGG 0.305386 4.2:-30826972 None:intergenic
AAGTTGTGGATTCATTGATA+TGG 0.307263 4.2:+30826839 MS.gene73837:CDS
AGGCAAAGGGATCCTATAAA+TGG 0.334383 4.2:+30826874 MS.gene73837:CDS
GATCCTATAAATGGTTCTTA+TGG 0.354301 4.2:+30826883 MS.gene73837:CDS
TACAAGATCTTGATAGTTTG+AGG 0.357044 4.2:+30827127 MS.gene73837:CDS
GCAACATAACAAAGTTTGTA+AGG 0.400470 4.2:+30826791 MS.gene73837:CDS
GTGACTGCTGCTGAATATTT+GGG 0.405388 4.2:-30827164 None:intergenic
AGTTGTGGATTCATTGATAT+GGG 0.416674 4.2:+30826840 MS.gene73837:CDS
GAAATATTAGTAATAATAAT+GGG 0.417105 4.2:+30826641 MS.gene73837:CDS
AAAGCAGTGCACAAAGTGTT+TGG 0.418599 4.2:+30826763 MS.gene73837:CDS
GAGGTGGCACTTGCACCAAT+TGG 0.438774 4.2:-30826978 None:intergenic
GATTATCATCATCTTCATCA+TGG 0.452314 4.2:+30827042 MS.gene73837:CDS
TCACAGTCATACTATATTGC+AGG 0.457053 4.2:+30827183 MS.gene73837:CDS
TAGAGATCACCAAAACCAAT+TGG 0.474361 4.2:+30826963 MS.gene73837:CDS
CTTCTGCTTGATGGAAAGTA+AGG 0.478129 4.2:-30826730 None:intergenic
TAATCAACTGCATTATGATC+AGG 0.493064 4.2:-30827024 None:intergenic
ATTATCATCATCTTCATCAT+GGG 0.522912 4.2:+30827043 MS.gene73837:CDS
GCTCTAACTTTCCCTTGAGG+TGG 0.530192 4.2:-30826994 None:intergenic
CATCATGGGAATCATAAGAA+TGG 0.531608 4.2:+30827057 MS.gene73837:CDS
GGGAGATAGAAGAAAAGTTG+TGG 0.539608 4.2:+30826825 MS.gene73837:CDS
TGATATGGGAAGCACTCTCT+AGG 0.540083 4.2:+30826854 MS.gene73837:CDS
GCGCAGCATGCAAGCATCAA+AGG 0.554577 4.2:+30826677 MS.gene73837:CDS
GGAAGCACTCTCTAGGCAAA+GGG 0.561200 4.2:+30826861 MS.gene73837:CDS
GGGAAGCACTCTCTAGGCAA+AGG 0.562224 4.2:+30826860 MS.gene73837:CDS
TTGGTGCAAGTGCCACCTCA+AGG 0.577515 4.2:+30826982 MS.gene73837:CDS
TGGTGCAAGTGCCACCTCAA+GGG 0.587697 4.2:+30826983 MS.gene73837:CDS
GTTTGTAAGGAATGCTCAAG+AGG 0.591028 4.2:+30826804 MS.gene73837:CDS
TCTGCTCTAACTTTCCCTTG+AGG 0.597530 4.2:-30826997 None:intergenic
TTTGTAAGGAATGCTCAAGA+GGG 0.633179 4.2:+30826805 MS.gene73837:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGAAATATTAGTAATAATAA+TGG + chr4.2:30826640-30826659 MS.gene73837:CDS 10.0%
!! GAAATATTAGTAATAATAAT+GGG + chr4.2:30826641-30826660 MS.gene73837:CDS 10.0%
!! CACTAAATTAGTAATTAATT+TGG + chr4.2:30827501-30827520 MS.gene73837:intron 15.0%
!! TGAACAATATGTATTATAAA+TGG - chr4.2:30827100-30827119 None:intergenic 15.0%
!! TTTAACAAAAAACATGAGAT+TGG - chr4.2:30827214-30827233 None:intergenic 20.0%
!!! TTTTCCTGTTTCAATATTTT+AGG + chr4.2:30827567-30827586 MS.gene73837:intron 20.0%
! AATTTGGTCAAACTATACTA+AGG + chr4.2:30827517-30827536 MS.gene73837:intron 25.0%
! AGTTGTGACATTATCAAATA+TGG + chr4.2:30827361-30827380 MS.gene73837:intron 25.0%
! ATTATCATCATCTTCATCAT+GGG + chr4.2:30827043-30827062 MS.gene73837:CDS 25.0%
AACAAAAAACATGAGATTGG+TGG - chr4.2:30827211-30827230 None:intergenic 30.0%
AAGTTGTGGATTCATTGATA+TGG + chr4.2:30826839-30826858 MS.gene73837:CDS 30.0%
AGTTGTGGATTCATTGATAT+GGG + chr4.2:30826840-30826859 MS.gene73837:CDS 30.0%
GATCCTATAAATGGTTCTTA+TGG + chr4.2:30826883-30826902 MS.gene73837:CDS 30.0%
GATTATCATCATCTTCATCA+TGG + chr4.2:30827042-30827061 MS.gene73837:CDS 30.0%
GCAACATAACAAAGTTTGTA+AGG + chr4.2:30826791-30826810 MS.gene73837:CDS 30.0%
GTCACCTAAAATATTGAAAC+AGG - chr4.2:30827574-30827593 None:intergenic 30.0%
TAATCAACTGCATTATGATC+AGG - chr4.2:30827027-30827046 None:intergenic 30.0%
TCTCCATAAGAACCATTTAT+AGG - chr4.2:30826889-30826908 None:intergenic 30.0%
! TACAAGATCTTGATAGTTTG+AGG + chr4.2:30827127-30827146 MS.gene73837:CDS 30.0%
!! ACTACAAAAGAGCACTATAT+GGG - chr4.2:30827429-30827448 None:intergenic 30.0%
AATTCTCTACTTCTGCTTGA+TGG - chr4.2:30826742-30826761 None:intergenic 35.0%
CATCATGGGAATCATAAGAA+TGG + chr4.2:30827057-30827076 MS.gene73837:CDS 35.0%
TAGAGATCACCAAAACCAAT+TGG + chr4.2:30826963-30826982 MS.gene73837:CDS 35.0%
TCACAGTCATACTATATTGC+AGG + chr4.2:30827183-30827202 MS.gene73837:CDS 35.0%
TTTGTAAGGAATGCTCAAGA+GGG + chr4.2:30826805-30826824 MS.gene73837:CDS 35.0%
! CATATAGTGCTCTTTTGTAG+TGG + chr4.2:30827428-30827447 MS.gene73837:intron 35.0%
!! CACTACAAAAGAGCACTATA+TGG - chr4.2:30827430-30827449 None:intergenic 35.0%
AGGCAAAGGGATCCTATAAA+TGG + chr4.2:30826874-30826893 MS.gene73837:CDS 40.0%
CTTCTGCTTGATGGAAAGTA+AGG - chr4.2:30826733-30826752 None:intergenic 40.0%
GAGCATACTTGTGACTAGTA+AGG - chr4.2:30827407-30827426 None:intergenic 40.0%
GGGAGATAGAAGAAAAGTTG+TGG + chr4.2:30826825-30826844 MS.gene73837:CDS 40.0%
GTGACTGCTGCTGAATATTT+GGG - chr4.2:30827167-30827186 None:intergenic 40.0%
GTTTGTAAGGAATGCTCAAG+AGG + chr4.2:30826804-30826823 MS.gene73837:CDS 40.0%
TGTGACTGCTGCTGAATATT+TGG - chr4.2:30827168-30827187 None:intergenic 40.0%
! AAAGCAGTGCACAAAGTGTT+TGG + chr4.2:30826763-30826782 MS.gene73837:CDS 40.0%
TCTGCTCTAACTTTCCCTTG+AGG - chr4.2:30827000-30827019 None:intergenic 45.0%
!! GCACTTGCACCAATTGGTTT+TGG - chr4.2:30826975-30826994 None:intergenic 45.0%
!! TGATATGGGAAGCACTCTCT+AGG + chr4.2:30826854-30826873 MS.gene73837:CDS 45.0%
GCTCTAACTTTCCCTTGAGG+TGG - chr4.2:30826997-30827016 None:intergenic 50.0%
!! GGAAGCACTCTCTAGGCAAA+GGG + chr4.2:30826861-30826880 MS.gene73837:CDS 50.0%
GAGGTGGCACTTGCACCAAT+TGG - chr4.2:30826981-30827000 None:intergenic 55.0%
GCGCAGCATGCAAGCATCAA+AGG + chr4.2:30826677-30826696 MS.gene73837:CDS 55.0%
TGGTGCAAGTGCCACCTCAA+GGG + chr4.2:30826983-30827002 MS.gene73837:CDS 55.0%
TTGGTGCAAGTGCCACCTCA+AGG + chr4.2:30826982-30827001 MS.gene73837:CDS 55.0%
!! GGGAAGCACTCTCTAGGCAA+AGG + chr4.2:30826860-30826879 MS.gene73837:CDS 55.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 30826634 30827608 30826634 ID=MS.gene73837
chr4.2 mRNA 30826634 30827608 30826634 ID=MS.gene73837.t1;Parent=MS.gene73837
chr4.2 exon 30826634 30827204 30826634 ID=MS.gene73837.t1.exon1;Parent=MS.gene73837.t1
chr4.2 CDS 30826634 30827204 30826634 ID=cds.MS.gene73837.t1;Parent=MS.gene73837.t1
chr4.2 exon 30827589 30827608 30827589 ID=MS.gene73837.t1.exon2;Parent=MS.gene73837.t1
chr4.2 CDS 30827589 30827608 30827589 ID=cds.MS.gene73837.t1;Parent=MS.gene73837.t1
Gene Sequence

>MS.gene73837

ATGCAGAGAAATATTAGTAATAATAATGGGATGCATCAAGCATGCGCAGCATGCAAGCATCAAAGGAAAAAATGCAGTGAAAATTGCATATTAGCACCTTACTTTCCATCAAGCAGAAGTAGAGAATTCAAAGCAGTGCACAAAGTGTTTGGTGTTAGCAACATAACAAAGTTTGTAAGGAATGCTCAAGAGGGAGATAGAAGAAAAGTTGTGGATTCATTGATATGGGAAGCACTCTCTAGGCAAAGGGATCCTATAAATGGTTCTTATGGAGAGTATACAAAAGTTTACAATGAGTATAAAAGAGTATTTGATGAACTTAAGATGTTTAGAGATCACCAAAACCAATTGGTGCAAGTGCCACCTCAAGGGAAAGTTAGAGCAGAAACACCTGATCATAATGCAGTTGATTATCATCATCTTCATCATGGGAATCATAAGAATGGTATTGTTGATTCTAATACCATTTATAATACATATTGTTCAAATTATTTACAAGATCTTGATAGTTTGAGGACTGAAGTTGTCATCCCAAATATTCAGCAGCAGTCACAGTCATACTATATTGCAGGTACCACCAATCTCATGTTTTTTGTTAAAATTAATTGATTATGCATGAGTTAAATTATGTTGCTTGTTATTTAATTAATGAGTTAAATTATGTTGTTTGTTATTTAGCATTTTTCTAGTTGATACTATAGTTACACTATTGTGTAAAACTTCAAACAGTTGTGACATTATCAAATATGGTAAAGAGTGCACAAAAAAGTCCTTACTAGTCACAAGTATGCTCCCATATAGTGCTCTTTTGTAGTGGTTGATCTGTACTCTTGATCAAATATATATTTTACTAAATATTTTTTACTACACTAAATTAGTAATTAATTTGGTCAAACTATACTAAGGTAATAACTCAAATCTAACTATGTATCATTTTCCTGTTTCAATATTTTAGGTGACGAATTCAACCAGTGA
Protein sequence

>MS.gene73837.t1

MQRNISNNNGMHQACAACKHQRKKCSENCILAPYFPSSRSREFKAVHKVFGVSNITKFVRNAQEGDRRKVVDSLIWEALSRQRDPINGSYGEYTKVYNEYKRVFDELKMFRDHQNQLVQVPPQGKVRAETPDHNAVDYHHLHHGNHKNGIVDSNTIYNTYCSNYLQDLDSLRTEVVIPNIQQQSQSYYIAGDEFNQ