AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene46326

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene46326.t1 MTR_4g097880 97.101 69 1 1 55 122 862 930 2.14e-38 137
MS.gene46326.t1 MTR_5g014700 95.588 68 2 1 55 121 865 932 2.21e-36 131
MS.gene46326.t1 MTR_3g449390 66.667 72 22 2 55 124 882 953 4.88e-25 99.0
MS.gene46326.t1 MTR_2g005810 64.789 71 24 1 55 124 860 930 6.87e-25 98.6
MS.gene46326.t1 MTR_5g090100 69.863 73 19 3 55 124 856 928 7.47e-25 98.6
MS.gene46326.t1 MTR_4g070970 68.493 73 17 2 55 121 823 895 7.22e-24 95.5
MS.gene46326.t1 MTR_7g098610 58.730 63 25 1 55 116 886 948 1.80e-18 80.1
MS.gene46326.t1 MTR_3g110860 49.367 79 38 2 43 119 848 926 1.47e-17 77.8
MS.gene46326.t1 MTR_4g088320 65.152 66 20 3 55 119 870 933 2.09e-17 77.0
MS.gene46326.t1 MTR_4g105370 53.731 67 30 1 55 120 946 1012 1.92e-16 74.3
MS.gene46326.t1 MTR_2g010470 60.000 60 23 1 55 113 864 923 2.78e-16 73.9
MS.gene46326.t1 MTR_4g036575 56.667 60 25 1 55 113 894 953 2.87e-16 73.9
MS.gene46326.t1 MTR_2g014560 63.077 65 21 3 55 118 864 926 3.22e-16 73.9
MS.gene46326.t1 MTR_1g069470 53.968 63 27 2 55 116 877 938 3.32e-16 73.9
MS.gene46326.t1 MTR_1g097580 35.398 113 50 3 11 120 914 1006 7.31e-16 72.8
MS.gene46326.t1 MTR_2g070020 54.839 62 28 0 55 116 982 1043 8.73e-16 72.4
MS.gene46326.t1 MTR_1g080440 55.556 63 26 2 55 116 883 944 1.74e-15 71.6
MS.gene46326.t1 MTR_1g047670 51.562 64 29 1 55 116 984 1047 8.49e-14 67.0
MS.gene46326.t1 MTR_3g110840 49.231 65 30 2 55 116 834 898 1.79e-13 65.9
MS.gene46326.t1 MTR_5g017080 44.444 72 37 2 55 124 339 409 2.08e-13 65.9
MS.gene46326.t1 MTR_5g014720 59.184 49 19 1 55 102 880 928 4.55e-13 64.7
MS.gene46326.t1 MTR_5g045910 50.746 67 27 2 55 120 964 1025 5.34e-13 64.7
MS.gene46326.t1 MTR_7g091680 48.485 66 33 1 55 119 781 846 9.99e-13 63.9
MS.gene46326.t1 MTR_7g092430 50.794 63 29 1 55 115 767 829 1.81e-12 63.2
MS.gene46326.t1 MTR_1g079520 53.030 66 25 3 55 116 941 1004 2.16e-12 62.8
MS.gene46326.t1 MTR_2g090710 50.769 65 29 3 55 118 867 929 2.96e-12 62.4
MS.gene46326.t1 MTR_7g078730 44.118 68 35 2 55 120 333 399 5.14e-12 61.6
MS.gene46326.t1 MTR_7g059285 44.776 67 32 2 55 120 973 1035 9.92e-12 60.8
MS.gene46326.t1 MTR_3g086120 42.683 82 38 4 42 116 762 841 1.65e-11 60.5
MS.gene46326.t1 MTR_4g036695 46.667 60 31 1 55 113 665 724 2.24e-11 60.1
MS.gene46326.t1 MTR_1g102500 38.462 104 53 4 25 124 803 899 2.33e-11 60.1
MS.gene46326.t1 MTR_1g102190 43.529 85 39 4 39 116 199 281 4.16e-11 58.9
MS.gene46326.t1 MTR_6g088510 43.182 88 43 3 36 116 245 332 5.12e-11 58.9
MS.gene46326.t1 MTR_8g016330 45.070 71 36 2 55 122 637 707 7.02e-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.gene46326.t1 AT5G65700 91.176 68 5 1 55 121 867 934 8.54e-35 127
MS.gene46326.t1 AT5G65700 91.176 68 5 1 55 121 867 934 8.54e-35 127
MS.gene46326.t1 AT3G49670 85.294 68 9 1 55 121 863 930 7.22e-32 118
MS.gene46326.t1 AT1G75820 67.123 73 18 2 55 121 864 936 2.35e-24 97.1
MS.gene46326.t1 AT4G20270 65.217 69 22 2 55 121 884 952 1.91e-23 94.4
MS.gene46326.t1 AT4G28650 56.061 66 28 1 55 119 876 941 2.40e-18 80.1
MS.gene46326.t1 AT1G08590 53.333 60 27 1 55 113 899 958 2.63e-16 73.9
MS.gene46326.t1 AT1G09970 52.381 63 29 1 55 116 853 915 6.70e-16 72.8
MS.gene46326.t1 AT1G09970 52.381 63 29 1 55 116 854 916 6.77e-16 72.8
MS.gene46326.t1 AT1G34110 50.746 67 32 1 55 120 948 1014 1.98e-15 71.6
MS.gene46326.t1 AT1G34110 50.746 67 32 1 55 120 948 1014 2.02e-15 71.6
MS.gene46326.t1 AT5G49660 52.381 63 29 1 55 116 835 897 2.79e-15 71.2
MS.gene46326.t1 AT5G61480 52.381 63 29 1 55 116 896 958 2.97e-15 71.2
MS.gene46326.t1 AT1G28440 54.545 66 27 3 55 119 863 926 1.57e-14 68.9
MS.gene46326.t1 AT3G19700 71.111 45 12 1 55 98 863 907 2.08e-14 68.6
MS.gene46326.t1 AT1G17230 51.613 62 30 0 55 116 972 1033 2.29e-14 68.6
MS.gene46326.t1 AT2G33170 47.826 69 36 0 55 123 998 1066 2.33e-14 68.6
MS.gene46326.t1 AT2G33170 47.826 69 36 0 55 123 998 1066 2.33e-14 68.6
MS.gene46326.t1 AT5G63930 54.839 62 28 0 55 116 978 1039 2.35e-14 68.6
MS.gene46326.t1 AT5G63930 54.839 62 28 0 55 116 914 975 2.56e-14 68.6
MS.gene46326.t1 AT1G17230 51.613 62 30 0 55 116 972 1033 2.64e-14 68.6
MS.gene46326.t1 AT4G28490 55.556 63 25 3 55 116 868 928 1.05e-13 66.6
MS.gene46326.t1 AT2G41820 46.970 66 34 1 55 119 782 847 2.88e-13 65.5
MS.gene46326.t1 AT5G48940 44.776 67 31 2 55 120 967 1028 1.44e-12 63.5
MS.gene46326.t1 AT3G24240 47.692 65 29 2 55 118 966 1026 1.82e-12 63.2
MS.gene46326.t1 AT1G55610 42.188 64 34 2 55 116 1034 1096 5.76e-12 61.6
MS.gene46326.t1 AT1G55610 42.188 64 34 2 55 116 1034 1096 5.76e-12 61.6
MS.gene46326.t1 AT4G20140 45.070 71 36 3 55 122 1133 1203 6.56e-12 61.6
MS.gene46326.t1 AT1G72180 50.746 67 31 2 55 119 858 924 1.91e-11 60.1
MS.gene46326.t1 AT5G65710 62.222 45 16 1 55 98 868 912 1.91e-11 60.1
MS.gene46326.t1 AT2G42960 45.588 68 34 2 55 120 355 421 2.18e-11 60.1
MS.gene46326.t1 AT2G42960 45.588 68 34 2 55 120 355 421 2.18e-11 60.1
MS.gene46326.t1 AT2G42960 45.588 68 34 2 55 120 355 421 2.18e-11 60.1
MS.gene46326.t1 AT2G42960 45.588 68 34 2 55 120 355 421 2.18e-11 60.1
MS.gene46326.t1 AT5G62230 38.710 93 49 3 36 124 796 884 7.07e-11 58.5
MS.gene46326.t1 AT4G01330 40.278 72 32 3 55 120 334 400 7.21e-11 58.5
MS.gene46326.t1 AT1G67720 42.857 84 39 4 42 118 760 841 7.26e-11 58.5
MS.gene46326.t1 AT4G01330 40.278 72 32 3 55 120 334 400 7.49e-11 58.5
MS.gene46326.t1 AT5G02290 47.059 68 26 2 55 116 250 313 7.51e-11 58.5
MS.gene46326.t1 AT5G02290 47.059 68 26 2 55 116 250 313 7.51e-11 58.5
MS.gene46326.t1 AT5G62230 38.710 93 49 3 36 124 748 836 7.91e-11 58.5
MS.gene46326.t1 AT5G44700 44.928 69 34 2 55 119 1128 1196 9.52e-11 58.2

Find 38 sgRNAs with CRISPR-Local

Find 46 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAAAACCAGTTGGAGAATT+TGG 0.201190 8.4:+24677693 MS.gene46326:CDS
TCCTTCAGTTCCACTTGATT+TGG 0.289005 8.4:+24677797 MS.gene46326:CDS
TTTCTTCGCCATTTGCATCT+TGG 0.302672 8.4:+24677409 MS.gene46326:CDS
CTTCAAATCCTCTCCTGTTT+CGG 0.326008 8.4:+24677372 MS.gene46326:CDS
GGAAGAGGATGAGTTGTAGA+AGG 0.328957 8.4:-24677282 None:intergenic
GGTTGAATGAGAGGAGGAAG+AGG 0.371326 8.4:-24677297 None:intergenic
GAGAGATGGGTGACCGAAAC+AGG 0.379925 8.4:-24677385 None:intergenic
TGTGGGGTGTGGAAAGTACT+TGG 0.421647 8.4:-24677324 None:intergenic
CCATCACCAAATTCTCCAAC+TGG 0.439622 8.4:-24677699 None:intergenic
AAAAGCGACGTCTACAGCTT+TGG 0.457382 8.4:+24677642 MS.gene46326:CDS
AAGAGGATGAGTTGTAGAAG+GGG 0.479924 8.4:-24677280 None:intergenic
CTTCGCCATTTGCATCTTGG+TGG 0.481603 8.4:+24677412 MS.gene46326:CDS
GAAGAGGATGAGTTGTAGAA+GGG 0.483107 8.4:-24677281 None:intergenic
CGAAACAGGAGAGGATTTGA+AGG 0.488102 8.4:-24677371 None:intergenic
TGAGTGGTATTCAGAGATGT+GGG 0.503238 8.4:-24677341 None:intergenic
ATTTGAAGGAGAGGAGTGAG+TGG 0.514237 8.4:-24677357 None:intergenic
GTGAGTGGTATTCAGAGATG+TGG 0.523967 8.4:-24677342 None:intergenic
CAGGAGAGGATTTGAAGGAG+AGG 0.528888 8.4:-24677366 None:intergenic
GTACTTCTAGAGCTTGTAGC+AGG 0.534823 8.4:+24677669 MS.gene46326:CDS
CTTGGGTAAGGTTGAATGAG+AGG 0.535384 8.4:-24677306 None:intergenic
TGGAGTAGACATTGTGCAAT+GGG 0.549400 8.4:+24677719 MS.gene46326:CDS
AGTTACCACCAAGATGCAAA+TGG 0.549678 8.4:-24677417 None:intergenic
AGTGGAACTGAAGGAAGTCT+AGG 0.552601 8.4:-24677789 None:intergenic
GCCAAATCAAGTGGAACTGA+AGG 0.557383 8.4:-24677798 None:intergenic
CCAGTTGGAGAATTTGGTGA+TGG 0.564487 8.4:+24677699 MS.gene46326:CDS
GTATTCAGAGATGTGGGGTG+TGG 0.567728 8.4:-24677335 None:intergenic
GTGTGGAAAGTACTTGGGTA+AGG 0.576259 8.4:-24677318 None:intergenic
ACGTATTAGGCCAAATCAAG+TGG 0.578291 8.4:-24677807 None:intergenic
ATGGCGAAGAAAAGAGAGAT+GGG 0.595466 8.4:-24677398 None:intergenic
GTGGGGTGTGGAAAGTACTT+GGG 0.597175 8.4:-24677323 None:intergenic
AATGGCGAAGAAAAGAGAGA+TGG 0.599455 8.4:-24677399 None:intergenic
AAAATGACAGACTCAAACAA+AGG 0.599944 8.4:+24677747 MS.gene46326:CDS
GGGTAAGGTTGAATGAGAGG+AGG 0.606338 8.4:-24677303 None:intergenic
ATGGAGTAGACATTGTGCAA+TGG 0.636956 8.4:+24677718 MS.gene46326:CDS
ATGGGTGACCGAAACAGGAG+AGG 0.645390 8.4:-24677380 None:intergenic
GTAGCAGGAAGAAAACCAGT+TGG 0.667156 8.4:+24677684 MS.gene46326:CDS
CGACGTCTACAGCTTTGGTG+TGG 0.688691 8.4:+24677647 MS.gene46326:CDS
GAGTGGTATTCAGAGATGTG+GGG 0.694116 8.4:-24677340 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGATTCAAAAAAAATAAAAT+TGG - chr8.4:24677510-24677529 None:intergenic 10.0%
!! ATCAAGATTCAAACTATTAA+GGG - chr8.4:24677467-24677486 None:intergenic 20.0%
!! TTAATAGTTTGAATCTTGAT+CGG + chr8.4:24677467-24677486 MS.gene46326:intron 20.0%
! CTAAAATACCTAGTTTGAAA+TGG + chr8.4:24677528-24677547 MS.gene46326:intron 25.0%
! GATCAAGATTCAAACTATTA+AGG - chr8.4:24677468-24677487 None:intergenic 25.0%
AAAATGACAGACTCAAACAA+AGG + chr8.4:24677747-24677766 MS.gene46326:CDS 30.0%
AGAAAACCAGTTGGAGAATT+TGG + chr8.4:24677693-24677712 MS.gene46326:CDS 35.0%
TAGTTTGAATCTTGATCGGA+TGG + chr8.4:24677471-24677490 MS.gene46326:intron 35.0%
AAGAGGATGAGTTGTAGAAG+GGG - chr8.4:24677283-24677302 None:intergenic 40.0%
AATGGCGAAGAAAAGAGAGA+TGG - chr8.4:24677402-24677421 None:intergenic 40.0%
AGTTACCACCAAGATGCAAA+TGG - chr8.4:24677420-24677439 None:intergenic 40.0%
ATGGAGTAGACATTGTGCAA+TGG + chr8.4:24677718-24677737 MS.gene46326:CDS 40.0%
ATGGCGAAGAAAAGAGAGAT+GGG - chr8.4:24677401-24677420 None:intergenic 40.0%
CATCTGGACCATTTCAAACT+AGG - chr8.4:24677539-24677558 None:intergenic 40.0%
CTTCAAATCCTCTCCTGTTT+CGG + chr8.4:24677372-24677391 MS.gene46326:CDS 40.0%
GAAGAGGATGAGTTGTAGAA+GGG - chr8.4:24677284-24677303 None:intergenic 40.0%
TCCTTCAGTTCCACTTGATT+TGG + chr8.4:24677797-24677816 MS.gene46326:CDS 40.0%
TGAGTGGTATTCAGAGATGT+GGG - chr8.4:24677344-24677363 None:intergenic 40.0%
TGGAGTAGACATTGTGCAAT+GGG + chr8.4:24677719-24677738 MS.gene46326:CDS 40.0%
TTTCTTCGCCATTTGCATCT+TGG + chr8.4:24677409-24677428 MS.gene46326:CDS 40.0%
! AGTTTGAAATGGTCCAGATG+TGG + chr8.4:24677539-24677558 MS.gene46326:intron 40.0%
AAAAGCGACGTCTACAGCTT+TGG + chr8.4:24677642-24677661 MS.gene46326:CDS 45.0%
AGTGGAACTGAAGGAAGTCT+AGG - chr8.4:24677792-24677811 None:intergenic 45.0%
ATTTGAAGGAGAGGAGTGAG+TGG - chr8.4:24677360-24677379 None:intergenic 45.0%
CAAAGAGAATCAGCCACATC+TGG - chr8.4:24677555-24677574 None:intergenic 45.0%
CCATCACCAAATTCTCCAAC+TGG - chr8.4:24677702-24677721 None:intergenic 45.0%
CGAAACAGGAGAGGATTTGA+AGG - chr8.4:24677374-24677393 None:intergenic 45.0%
CTTGGGTAAGGTTGAATGAG+AGG - chr8.4:24677309-24677328 None:intergenic 45.0%
GAGTGGTATTCAGAGATGTG+GGG - chr8.4:24677343-24677362 None:intergenic 45.0%
GCCAAATCAAGTGGAACTGA+AGG - chr8.4:24677801-24677820 None:intergenic 45.0%
GGAAGAGGATGAGTTGTAGA+AGG - chr8.4:24677285-24677304 None:intergenic 45.0%
GTAGCAGGAAGAAAACCAGT+TGG + chr8.4:24677684-24677703 MS.gene46326:CDS 45.0%
GTGAGTGGTATTCAGAGATG+TGG - chr8.4:24677345-24677364 None:intergenic 45.0%
! CCAGTTGGAGAATTTGGTGA+TGG + chr8.4:24677699-24677718 MS.gene46326:CDS 45.0%
!! GTACTTCTAGAGCTTGTAGC+AGG + chr8.4:24677669-24677688 MS.gene46326:CDS 45.0%
!! GTGTGGAAAGTACTTGGGTA+AGG - chr8.4:24677321-24677340 None:intergenic 45.0%
CAGGAGAGGATTTGAAGGAG+AGG - chr8.4:24677369-24677388 None:intergenic 50.0%
CTTCGCCATTTGCATCTTGG+TGG + chr8.4:24677412-24677431 MS.gene46326:CDS 50.0%
GGGTAAGGTTGAATGAGAGG+AGG - chr8.4:24677306-24677325 None:intergenic 50.0%
GGTTGAATGAGAGGAGGAAG+AGG - chr8.4:24677300-24677319 None:intergenic 50.0%
GTATTCAGAGATGTGGGGTG+TGG - chr8.4:24677338-24677357 None:intergenic 50.0%
!! GTGGGGTGTGGAAAGTACTT+GGG - chr8.4:24677326-24677345 None:intergenic 50.0%
!! TGTGGGGTGTGGAAAGTACT+TGG - chr8.4:24677327-24677346 None:intergenic 50.0%
ATGGGTGACCGAAACAGGAG+AGG - chr8.4:24677383-24677402 None:intergenic 55.0%
GAGAGATGGGTGACCGAAAC+AGG - chr8.4:24677388-24677407 None:intergenic 55.0%
! CGACGTCTACAGCTTTGGTG+TGG + chr8.4:24677647-24677666 MS.gene46326:CDS 55.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 24677271 24677824 24677271 ID=MS.gene46326
chr8.4 mRNA 24677271 24677824 24677271 ID=MS.gene46326.t1;Parent=MS.gene46326
chr8.4 exon 24677271 24677433 24677271 ID=MS.gene46326.t1.exon1;Parent=MS.gene46326.t1
chr8.4 CDS 24677271 24677433 24677271 ID=cds.MS.gene46326.t1;Parent=MS.gene46326.t1
chr8.4 exon 24677613 24677824 24677613 ID=MS.gene46326.t1.exon2;Parent=MS.gene46326.t1
chr8.4 CDS 24677613 24677824 24677613 ID=cds.MS.gene46326.t1;Parent=MS.gene46326.t1
Gene Sequence

>MS.gene46326

ATGAGGCTTCCCCTTCTACAACTCATCCTCTTCCTCCTCTCATTCAACCTTACCCAAGTACTTTCCACACCCCACATCTCTGAATACCACTCACTCCTCTCCTTCAAATCCTCTCCTGTTTCGGTCACCCATCTCTCTTTTCTTCGCCATTTGCATCTTGGTGGTAACTTTTTCACTCACTCTCACTTTGTTTCCCTTAATAGTTTGAATCTTGATCGGATGGTCGAGATTTGATGCCAATTTTATTTTTTTTGAATCTAAAATACCTAGTTTGAAATGGTCCAGATGTGGCTGATTCTCTTTGTTTATGATGATCGACTAATGTTAAGAGTTTGATTGCAGAGTATGCATACACATTGAAAGTCGATGAAAAAAGCGACGTCTACAGCTTTGGTGTGGTACTTCTAGAGCTTGTAGCAGGAAGAAAACCAGTTGGAGAATTTGGTGATGGAGTAGACATTGTGCAATGGGTGAGAAAAATGACAGACTCAAACAAAGGTGTTCTAAAAGTACTTGATCCTAGACTTCCTTCAGTTCCACTTGATTTGGCCTAA
Protein sequence

>MS.gene46326.t1

MRLPLLQLILFLLSFNLTQVLSTPHISEYHSLLSFKSSPVSVTHLSFLRHLHLGEYAYTLKVDEKSDVYSFGVVLLELVAGRKPVGEFGDGVDIVQWVRKMTDSNKGVLKVLDPRLPSVPLDLA