AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene011674

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene011674.t1 MTR_4g097880 97.101 69 1 1 55 122 862 930 3.25e-38 136
MS.gene011674.t1 MTR_5g014700 94.203 69 3 1 55 122 865 933 2.51e-36 131
MS.gene011674.t1 MTR_2g005810 64.789 71 24 1 55 124 860 930 8.26e-25 98.2
MS.gene011674.t1 MTR_4g070970 69.863 73 16 2 55 121 823 895 2.03e-24 97.1
MS.gene011674.t1 MTR_3g449390 68.116 69 20 2 55 121 882 950 2.05e-24 97.1
MS.gene011674.t1 MTR_5g090100 69.863 73 19 3 55 124 856 928 4.91e-24 96.3
MS.gene011674.t1 MTR_7g098610 58.730 63 25 1 55 116 886 948 1.70e-18 80.5
MS.gene011674.t1 MTR_3g110860 49.367 79 38 2 43 119 848 926 1.72e-17 77.4
MS.gene011674.t1 MTR_4g088320 65.152 66 20 3 55 119 870 933 2.09e-17 77.0
MS.gene011674.t1 MTR_4g105370 53.731 67 30 1 55 120 946 1012 1.92e-16 74.3
MS.gene011674.t1 MTR_4g036575 56.667 60 25 1 55 113 894 953 2.69e-16 73.9
MS.gene011674.t1 MTR_1g069470 53.968 63 27 2 55 116 877 938 3.07e-16 73.9
MS.gene011674.t1 MTR_2g014560 63.077 65 21 3 55 118 864 926 3.16e-16 73.9
MS.gene011674.t1 MTR_1g097580 35.398 113 50 3 11 120 914 1006 6.70e-16 72.8
MS.gene011674.t1 MTR_2g070020 54.839 62 28 0 55 116 982 1043 1.00e-15 72.4
MS.gene011674.t1 MTR_1g080440 55.556 63 26 2 55 116 883 944 1.73e-15 71.6
MS.gene011674.t1 MTR_2g010470 60.000 60 23 1 55 113 864 923 3.17e-15 70.9
MS.gene011674.t1 MTR_1g047670 51.562 64 29 1 55 116 984 1047 7.78e-14 67.0
MS.gene011674.t1 MTR_3g110840 49.231 65 30 2 55 116 834 898 2.51e-13 65.5
MS.gene011674.t1 MTR_5g017080 44.444 72 37 2 55 124 339 409 2.53e-13 65.5
MS.gene011674.t1 MTR_5g014720 59.184 49 19 1 55 102 880 928 4.83e-13 64.7
MS.gene011674.t1 MTR_5g045910 50.746 67 27 2 55 120 964 1025 5.19e-13 64.7
MS.gene011674.t1 MTR_7g091680 48.485 66 33 1 55 119 781 846 1.18e-12 63.5
MS.gene011674.t1 MTR_7g092430 50.794 63 29 1 55 115 767 829 1.69e-12 63.2
MS.gene011674.t1 MTR_1g079520 53.030 66 25 3 55 116 941 1004 1.90e-12 63.2
MS.gene011674.t1 MTR_2g090710 50.769 65 29 3 55 118 867 929 2.56e-12 62.8
MS.gene011674.t1 MTR_7g078730 44.118 68 35 2 55 120 333 399 6.12e-12 61.6
MS.gene011674.t1 MTR_7g059285 44.776 67 32 2 55 120 973 1035 8.09e-12 61.2
MS.gene011674.t1 MTR_3g086120 42.683 82 38 4 42 116 762 841 1.89e-11 60.1
MS.gene011674.t1 MTR_4g036695 46.667 60 31 1 55 113 665 724 1.94e-11 60.1
MS.gene011674.t1 MTR_1g102190 43.529 85 39 4 39 116 199 281 4.45e-11 58.9
MS.gene011674.t1 MTR_8g016330 45.070 71 36 2 55 122 637 707 6.19e-11 58.5
MS.gene011674.t1 MTR_6g088510 43.182 88 43 3 36 116 245 332 6.65e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene011674.t1 AT5G65700 91.176 68 5 1 55 121 867 934 1.08e-34 126
MS.gene011674.t1 AT5G65700 91.176 68 5 1 55 121 867 934 1.08e-34 126
MS.gene011674.t1 AT3G49670 85.294 68 9 1 55 121 863 930 7.88e-32 118
MS.gene011674.t1 AT1G75820 67.123 73 18 2 55 121 864 936 6.52e-25 98.6
MS.gene011674.t1 AT4G20270 65.217 69 22 2 55 121 884 952 1.62e-23 94.7
MS.gene011674.t1 AT4G28650 56.061 66 28 1 55 119 876 941 2.97e-18 79.7
MS.gene011674.t1 AT1G08590 50.794 63 30 1 55 116 899 961 2.45e-16 74.3
MS.gene011674.t1 AT1G09970 51.562 64 30 1 54 116 853 916 6.64e-16 72.8
MS.gene011674.t1 AT1G09970 52.381 63 29 1 55 116 853 915 6.97e-16 72.8
MS.gene011674.t1 AT5G61480 52.381 63 29 1 55 116 896 958 2.54e-15 71.2
MS.gene011674.t1 AT5G49660 52.381 63 29 1 55 116 835 897 2.63e-15 71.2
MS.gene011674.t1 AT1G34110 50.746 67 32 1 55 120 948 1014 8.40e-15 69.7
MS.gene011674.t1 AT1G34110 50.746 67 32 1 55 120 948 1014 9.26e-15 69.7
MS.gene011674.t1 AT1G28440 54.545 66 27 3 55 119 863 926 1.71e-14 68.9
MS.gene011674.t1 AT1G17230 51.613 62 30 0 55 116 972 1033 1.94e-14 68.9
MS.gene011674.t1 AT1G17230 51.613 62 30 0 55 116 972 1033 2.01e-14 68.6
MS.gene011674.t1 AT5G63930 54.839 62 28 0 55 116 978 1039 2.03e-14 68.6
MS.gene011674.t1 AT3G19700 71.111 45 12 1 55 98 863 907 2.20e-14 68.6
MS.gene011674.t1 AT2G33170 47.826 69 36 0 55 123 998 1066 2.31e-14 68.6
MS.gene011674.t1 AT2G33170 47.826 69 36 0 55 123 998 1066 2.31e-14 68.6
MS.gene011674.t1 AT5G63930 54.839 62 28 0 55 116 914 975 2.32e-14 68.6
MS.gene011674.t1 AT4G28490 55.556 63 25 3 55 116 868 928 1.16e-13 66.6
MS.gene011674.t1 AT2G41820 46.970 66 34 1 55 119 782 847 3.21e-13 65.1
MS.gene011674.t1 AT3G24240 47.692 65 29 2 55 118 966 1026 1.78e-12 63.2
MS.gene011674.t1 AT1G55610 42.188 64 34 2 55 116 1034 1096 5.99e-12 61.6
MS.gene011674.t1 AT1G55610 42.188 64 34 2 55 116 1034 1096 5.99e-12 61.6
MS.gene011674.t1 AT5G48940 44.776 67 31 2 55 120 967 1028 6.92e-12 61.6
MS.gene011674.t1 AT4G20140 45.070 71 36 3 55 122 1133 1203 7.74e-12 61.2
MS.gene011674.t1 AT1G72180 50.746 67 31 2 55 119 858 924 1.62e-11 60.5
MS.gene011674.t1 AT5G65710 62.222 45 16 1 55 98 868 912 2.19e-11 60.1
MS.gene011674.t1 AT2G42960 45.588 68 34 2 55 120 355 421 3.00e-11 59.7
MS.gene011674.t1 AT2G42960 45.588 68 34 2 55 120 355 421 3.00e-11 59.7
MS.gene011674.t1 AT2G42960 45.588 68 34 2 55 120 355 421 3.00e-11 59.7
MS.gene011674.t1 AT2G42960 45.588 68 34 2 55 120 355 421 3.00e-11 59.7
MS.gene011674.t1 AT1G67720 40.000 90 45 4 36 118 754 841 4.92e-11 58.9
MS.gene011674.t1 AT5G44700 44.928 69 34 2 55 119 1128 1196 6.92e-11 58.5
MS.gene011674.t1 AT5G62230 38.710 93 49 3 36 124 796 884 7.42e-11 58.5
MS.gene011674.t1 AT5G62230 38.710 93 49 3 36 124 748 836 7.54e-11 58.5
MS.gene011674.t1 AT5G02290 47.059 68 26 2 55 116 250 313 7.88e-11 58.2
MS.gene011674.t1 AT5G02290 47.059 68 26 2 55 116 250 313 7.88e-11 58.2
MS.gene011674.t1 AT4G01330 39.474 76 35 3 55 124 334 404 9.45e-11 58.2
MS.gene011674.t1 AT4G01330 39.474 76 35 3 55 124 334 404 9.92e-11 58.2

Find 39 sgRNAs with CRISPR-Local

Find 48 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAAAACCAGTTGGAGAATT+TGG 0.201190 8.3:-22765717 MS.gene011674:CDS
GGAAGAGGATGAGTGGTAGA+AGG 0.272087 8.3:+22766130 None:intergenic
TCCTTCAGTTCCACTTGATT+TGG 0.289005 8.3:-22765613 MS.gene011674:CDS
TTTCTTCGCCATTTGCATCT+TGG 0.302672 8.3:-22766003 MS.gene011674:CDS
CTTCAAATCCTCTCCTGTTT+CGG 0.326008 8.3:-22766040 MS.gene011674:CDS
GAAGAGGATGAGTGGTAGAA+GGG 0.378013 8.3:+22766131 None:intergenic
GAGAGATGGGTGACCGAAAC+AGG 0.379925 8.3:+22766027 None:intergenic
GGTTGAATGAGCGGAGGAAG+AGG 0.417496 8.3:+22766115 None:intergenic
TGTGGGGTGTGGAAAGTACT+TGG 0.421647 8.3:+22766088 None:intergenic
CCATCACCAAATTCTCCAAC+TGG 0.439622 8.3:+22765711 None:intergenic
AAAAGCGACGTCTACAGCTT+TGG 0.457382 8.3:-22765768 MS.gene011674:CDS
CTTCGCCATTTGCATCTTGG+TGG 0.481603 8.3:-22766000 MS.gene011674:intron
CGAAACAGGAGAGGATTTGA+AGG 0.488102 8.3:+22766041 None:intergenic
TGAGTGGTATTCAGAGATGT+GGG 0.503238 8.3:+22766071 None:intergenic
AAGAGGATGAGTGGTAGAAG+GGG 0.513080 8.3:+22766132 None:intergenic
ATTTGAAGGAGAGGAGTGAG+TGG 0.514237 8.3:+22766055 None:intergenic
GTGAGTGGTATTCAGAGATG+TGG 0.523967 8.3:+22766070 None:intergenic
CAGGAGAGGATTTGAAGGAG+AGG 0.528888 8.3:+22766046 None:intergenic
GTACTTCTAGAGCTTGTAGC+AGG 0.534823 8.3:-22765741 MS.gene011674:CDS
AGTTACCACCAAGATGCAAA+TGG 0.549678 8.3:+22765995 None:intergenic
GAGCGGAGGAAGAGGATGAG+TGG 0.550129 8.3:+22766123 None:intergenic
AGTGGAACTGAAGGAAGTCT+AGG 0.552601 8.3:+22765621 None:intergenic
GCCAAATCAAGTGGAACTGA+AGG 0.557383 8.3:+22765612 None:intergenic
CCAGTTGGAGAATTTGGTGA+TGG 0.564487 8.3:-22765711 MS.gene011674:CDS
GTATTCAGAGATGTGGGGTG+TGG 0.567728 8.3:+22766077 None:intergenic
GTGTGGAAAGTACTTGGGTA+AGG 0.576259 8.3:+22766094 None:intergenic
ACGTATTAGGCCAAATCAAG+TGG 0.578291 8.3:+22765603 None:intergenic
ATGGCGAAGAAAAGAGAGAT+GGG 0.595466 8.3:+22766014 None:intergenic
GTGGGGTGTGGAAAGTACTT+GGG 0.597175 8.3:+22766089 None:intergenic
AATGGCGAAGAAAAGAGAGA+TGG 0.599455 8.3:+22766013 None:intergenic
AAAATGACAGATTCAAACAA+AGG 0.613994 8.3:-22765663 MS.gene011674:CDS
CTTGGGTAAGGTTGAATGAG+CGG 0.627085 8.3:+22766106 None:intergenic
TGGAGTAGACATTGTGCAGT+GGG 0.627920 8.3:-22765691 MS.gene011674:CDS
ATGGGTGACCGAAACAGGAG+AGG 0.645390 8.3:+22766032 None:intergenic
GTAGCAGGAAGAAAACCAGT+TGG 0.667156 8.3:-22765726 MS.gene011674:CDS
ATGGAGTAGACATTGTGCAG+TGG 0.676957 8.3:-22765692 MS.gene011674:CDS
GGGTAAGGTTGAATGAGCGG+AGG 0.678529 8.3:+22766109 None:intergenic
CGACGTCTACAGCTTTGGTG+TGG 0.688691 8.3:-22765763 MS.gene011674:CDS
GAGTGGTATTCAGAGATGTG+GGG 0.694116 8.3:+22766072 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATCAAGATTCAAACTATTAA+GGG + chr8.3:22765804-22765823 None:intergenic 20.0%
!! TTAATAGTTTGAATCTTGAT+CGG - chr8.3:22765804-22765823 MS.gene011674:intron 20.0%
! AAAATGACAGATTCAAACAA+AGG - chr8.3:22766086-22766105 MS.gene011674:CDS 25.0%
! CTAAAATACCTAGTTTGAAA+TGG - chr8.3:22765867-22765886 MS.gene011674:intron 25.0%
! GATCAAGATTCAAACTATTA+AGG + chr8.3:22765805-22765824 None:intergenic 25.0%
AGAAAACCAGTTGGAGAATT+TGG - chr8.3:22766032-22766051 MS.gene011674:CDS 35.0%
TAGTTTGAATCTTGATCGGA+TGG - chr8.3:22765808-22765827 MS.gene011674:intron 35.0%
AATGGCGAAGAAAAGAGAGA+TGG + chr8.3:22765739-22765758 None:intergenic 40.0%
AGTTACCACCAAGATGCAAA+TGG + chr8.3:22765757-22765776 None:intergenic 40.0%
ATGGCGAAGAAAAGAGAGAT+GGG + chr8.3:22765738-22765757 None:intergenic 40.0%
CAAAAAGAATCAGCCACATC+TGG + chr8.3:22765894-22765913 None:intergenic 40.0%
CATCTGGACCATTTCAAACT+AGG + chr8.3:22765878-22765897 None:intergenic 40.0%
CTTCAAATCCTCTCCTGTTT+CGG - chr8.3:22765709-22765728 MS.gene011674:CDS 40.0%
TCCTTCAGTTCCACTTGATT+TGG - chr8.3:22766136-22766155 MS.gene011674:CDS 40.0%
TGAGTGGTATTCAGAGATGT+GGG + chr8.3:22765681-22765700 None:intergenic 40.0%
TTTCTTCGCCATTTGCATCT+TGG - chr8.3:22765746-22765765 MS.gene011674:CDS 40.0%
TTTGAATCTTGATCGGATGG+TGG - chr8.3:22765811-22765830 MS.gene011674:intron 40.0%
! AGTTTGAAATGGTCCAGATG+TGG - chr8.3:22765878-22765897 MS.gene011674:intron 40.0%
AAAAGCGACGTCTACAGCTT+TGG - chr8.3:22765981-22766000 MS.gene011674:intron 45.0%
AAGAGGATGAGTGGTAGAAG+GGG + chr8.3:22765620-22765639 None:intergenic 45.0%
AGTGGAACTGAAGGAAGTCT+AGG + chr8.3:22766131-22766150 None:intergenic 45.0%
ATGGAGTAGACATTGTGCAG+TGG - chr8.3:22766057-22766076 MS.gene011674:CDS 45.0%
ATTTGAAGGAGAGGAGTGAG+TGG + chr8.3:22765697-22765716 None:intergenic 45.0%
CCATCACCAAATTCTCCAAC+TGG + chr8.3:22766041-22766060 None:intergenic 45.0%
CGAAACAGGAGAGGATTTGA+AGG + chr8.3:22765711-22765730 None:intergenic 45.0%
CTTGGGTAAGGTTGAATGAG+CGG + chr8.3:22765646-22765665 None:intergenic 45.0%
GAAGAGGATGAGTGGTAGAA+GGG + chr8.3:22765621-22765640 None:intergenic 45.0%
GAGTGGTATTCAGAGATGTG+GGG + chr8.3:22765680-22765699 None:intergenic 45.0%
GCCAAATCAAGTGGAACTGA+AGG + chr8.3:22766140-22766159 None:intergenic 45.0%
GTAGCAGGAAGAAAACCAGT+TGG - chr8.3:22766023-22766042 MS.gene011674:CDS 45.0%
GTGAGTGGTATTCAGAGATG+TGG + chr8.3:22765682-22765701 None:intergenic 45.0%
TGGAGTAGACATTGTGCAGT+GGG - chr8.3:22766058-22766077 MS.gene011674:CDS 45.0%
! CCAGTTGGAGAATTTGGTGA+TGG - chr8.3:22766038-22766057 MS.gene011674:CDS 45.0%
!! GTACTTCTAGAGCTTGTAGC+AGG - chr8.3:22766008-22766027 MS.gene011674:CDS 45.0%
!! GTGTGGAAAGTACTTGGGTA+AGG + chr8.3:22765658-22765677 None:intergenic 45.0%
!! TTAGATTAAAAAAATAAAAT+TGG + chr8.3:22765851-22765870 None:intergenic 5.0%
CAGGAGAGGATTTGAAGGAG+AGG + chr8.3:22765706-22765725 None:intergenic 50.0%
CTTCGCCATTTGCATCTTGG+TGG - chr8.3:22765749-22765768 MS.gene011674:CDS 50.0%
GGAAGAGGATGAGTGGTAGA+AGG + chr8.3:22765622-22765641 None:intergenic 50.0%
GTATTCAGAGATGTGGGGTG+TGG + chr8.3:22765675-22765694 None:intergenic 50.0%
!! GTGGGGTGTGGAAAGTACTT+GGG + chr8.3:22765663-22765682 None:intergenic 50.0%
!! TGTGGGGTGTGGAAAGTACT+TGG + chr8.3:22765664-22765683 None:intergenic 50.0%
ATGGGTGACCGAAACAGGAG+AGG + chr8.3:22765720-22765739 None:intergenic 55.0%
GAGAGATGGGTGACCGAAAC+AGG + chr8.3:22765725-22765744 None:intergenic 55.0%
GGGTAAGGTTGAATGAGCGG+AGG + chr8.3:22765643-22765662 None:intergenic 55.0%
GGTTGAATGAGCGGAGGAAG+AGG + chr8.3:22765637-22765656 None:intergenic 55.0%
! CGACGTCTACAGCTTTGGTG+TGG - chr8.3:22765986-22766005 MS.gene011674:intron 55.0%
GAGCGGAGGAAGAGGATGAG+TGG + chr8.3:22765629-22765648 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 22765608 22766163 22765608 ID=MS.gene011674
chr8.3 mRNA 22765608 22766163 22765608 ID=MS.gene011674.t1;Parent=MS.gene011674
chr8.3 exon 22766001 22766163 22766001 ID=MS.gene011674.t1.exon1;Parent=MS.gene011674.t1
chr8.3 CDS 22766001 22766163 22766001 ID=cds.MS.gene011674.t1;Parent=MS.gene011674.t1
chr8.3 exon 22765608 22765819 22765608 ID=MS.gene011674.t1.exon2;Parent=MS.gene011674.t1
chr8.3 CDS 22765608 22765819 22765608 ID=cds.MS.gene011674.t1;Parent=MS.gene011674.t1
Gene Sequence

>MS.gene011674

ATGAGGCTTCCCCTTCTACCACTCATCCTCTTCCTCCGCTCATTCAACCTTACCCAAGTACTTTCCACACCCCACATCTCTGAATACCACTCACTCCTCTCCTTCAAATCCTCTCCTGTTTCGGTCACCCATCTCTCTTTTCTTCGCCATTTGCATCTTGGTGGTAACTTTTTCACTCACTCTCACTTTGTTTCCCTTAATAGTTTGAATCTTGATCGGATGGTGGTCGAGATTTTAATGCCAATTTTATTTTTTTAATCTAAAATACCTAGTTTGAAATGGTCCAGATGTGGCTGATTCTTTTTGTTTATGATGATCGACTAATGTTAAGAGTTTGATTGCAGAGTATGCATACACATTGAAAGTCGATGAAAAAAGCGACGTCTACAGCTTTGGTGTGGTACTTCTAGAGCTTGTAGCAGGAAGAAAACCAGTTGGAGAATTTGGTGATGGAGTAGACATTGTGCAGTGGGTGAGAAAAATGACAGATTCAAACAAAGGTGTTCTAAAAGTTCTTGATCCTAGACTTCCTTCAGTTCCACTTGATTTGGCCTAA
Protein sequence

>MS.gene011674.t1

MRLPLLPLILFLRSFNLTQVLSTPHISEYHSLLSFKSSPVSVTHLSFLRHLHLGEYAYTLKVDEKSDVYSFGVVLLELVAGRKPVGEFGDGVDIVQWVRKMTDSNKGVLKVLDPRLPSVPLDLA