AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene03022

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene03022.t1 MTR_1g088920 98.990 99 1 0 1 99 1 99 6.71e-69 201
MS.gene03022.t1 MTR_1g088925 95.960 99 4 0 1 99 1 99 5.12e-68 199
MS.gene03022.t1 MTR_7g108200 79.592 98 20 0 1 98 1 98 4.02e-58 174
MS.gene03022.t1 MTR_2g019900 58.947 95 39 0 1 95 1 95 2.67e-39 126
MS.gene03022.t1 MTR_1g088910 55.102 98 44 0 1 98 1 98 6.05e-37 120
MS.gene03022.t1 MTR_2g019950 55.789 95 42 0 1 95 1 95 2.51e-36 119
MS.gene03022.t1 MTR_7g022690 54.167 96 43 1 1 95 30 125 7.68e-35 116
MS.gene03022.t1 MTR_7g022710 53.125 96 44 1 1 95 30 125 2.42e-34 115
MS.gene03022.t1 MTR_7g022550 53.125 96 44 1 1 95 30 125 2.25e-33 112
MS.gene03022.t1 MTR_4g119050 52.083 96 45 1 1 95 1 96 2.08e-32 109
MS.gene03022.t1 MTR_4g119030 52.083 96 45 1 1 95 1 96 2.08e-32 109
MS.gene03022.t1 MTR_4g119040 52.083 96 45 1 1 95 1 96 2.08e-32 109
MS.gene03022.t1 MTR_7g026770 54.167 96 43 1 1 95 22 117 5.64e-32 113
MS.gene03022.t1 MTR_7g108220 52.632 95 44 1 1 94 1 95 1.63e-31 107
MS.gene03022.t1 MTR_7g108210 51.579 95 45 1 1 94 1 95 1.12e-30 104
MS.gene03022.t1 MTR_7g108250 43.158 95 54 0 1 95 1 95 1.16e-25 92.0
MS.gene03022.t1 MTR_1g088905 40.426 94 56 0 1 94 1 94 3.99e-25 90.9
MS.gene03022.t1 MTR_1g088895 44.898 98 54 0 1 98 1 98 2.10e-21 81.6
MS.gene03022.t1 MTR_2g048970 41.837 98 53 1 2 95 29 126 6.13e-21 80.9
MS.gene03022.t1 MTR_2g014760 40.426 94 56 0 2 95 27 120 5.44e-20 78.6
MS.gene03022.t1 MTR_7g108260 41.489 94 55 0 1 94 1 94 6.07e-20 77.8
MS.gene03022.t1 MTR_2g090755 36.458 96 54 2 4 95 41 133 1.93e-18 74.7
MS.gene03022.t1 MTR_3g077570 35.789 95 61 0 1 95 18 112 3.28e-16 68.6
MS.gene03022.t1 MTR_4g079110 38.710 93 52 3 6 95 58 148 9.40e-16 68.2
MS.gene03022.t1 MTR_3g077560 34.043 94 62 0 1 94 21 114 1.35e-15 67.0
MS.gene03022.t1 MTR_7g035245 35.106 94 61 0 1 94 3 96 8.27e-15 64.7
MS.gene03022.t1 MTR_1g015890 38.298 94 56 1 3 94 48 141 2.21e-14 64.7
MS.gene03022.t1 MTR_1g069255 32.979 94 62 1 2 94 84 177 6.47e-14 64.3
MS.gene03022.t1 MTR_3g104510 37.634 93 52 3 3 94 23 110 3.88e-13 60.5
MS.gene03022.t1 MTR_2g038560 30.108 93 65 0 2 94 29 121 9.22e-11 54.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene03022.t1 AT1G06830 75.258 97 24 0 1 97 1 97 1.50e-52 160
MS.gene03022.t1 AT2G30540 70.408 98 29 0 1 98 1 98 4.04e-52 159
MS.gene03022.t1 AT2G47880 72.449 98 27 0 1 98 1 98 5.19e-52 158
MS.gene03022.t1 AT3G62960 70.408 98 29 0 1 98 1 98 2.03e-50 154
MS.gene03022.t1 AT3G62950 51.042 96 46 1 1 95 1 96 2.13e-36 119
MS.gene03022.t1 AT2G47870 53.125 96 44 1 1 95 1 96 9.34e-36 117
MS.gene03022.t1 AT4G15670 50.526 95 47 0 1 95 1 95 3.26e-34 114
MS.gene03022.t1 AT3G21460 54.737 95 43 0 1 95 1 95 4.10e-34 113
MS.gene03022.t1 AT4G15680 51.579 95 46 0 1 95 1 95 1.11e-33 112
MS.gene03022.t1 AT4G15660 49.485 97 49 0 1 97 1 97 1.12e-33 112
MS.gene03022.t1 AT4G15700 51.579 95 46 0 1 95 1 95 1.25e-33 112
MS.gene03022.t1 AT4G15690 50.526 95 47 0 1 95 1 95 1.10e-32 110
MS.gene03022.t1 AT5G18600 48.421 95 49 0 1 95 1 95 1.57e-31 107
MS.gene03022.t1 AT5G14070 45.631 103 48 2 1 95 31 133 1.26e-26 95.9
MS.gene03022.t1 AT3G02000 45.455 99 48 1 3 95 31 129 2.50e-25 92.4
MS.gene03022.t1 AT3G62930 43.158 95 54 0 1 95 1 95 2.82e-25 91.3
MS.gene03022.t1 AT1G03020 45.263 95 52 0 1 95 1 95 6.76e-25 90.1
MS.gene03022.t1 AT4G33040 42.268 97 50 2 3 94 41 136 1.55e-17 72.8
MS.gene03022.t1 AT1G28480 36.735 98 58 2 2 95 33 130 2.53e-17 72.0
MS.gene03022.t1 AT5G40370 32.979 94 63 0 1 94 3 96 9.74e-15 64.7
MS.gene03022.t1 AT5G11930 41.935 93 44 3 3 94 57 140 1.49e-14 65.1
MS.gene03022.t1 AT4G28730 35.106 94 60 1 2 94 71 164 1.60e-14 65.5
MS.gene03022.t1 AT5G63030 36.585 82 52 0 13 94 31 112 2.59e-12 58.9
MS.gene03022.t1 AT2G20270 34.043 94 61 1 2 94 76 169 6.60e-12 58.9
MS.gene03022.t1 AT5G20500 31.868 91 62 0 4 94 35 125 1.44e-11 57.0
MS.gene03022.t1 AT4G28730 37.143 70 43 1 2 70 71 140 8.26e-11 55.1
MS.gene03022.t1 AT1G03850 34.884 86 52 2 10 95 62 143 9.42e-11 55.1

Find 32 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACATTCTGTTTCAAGAAAT+TGG 0.120000 1.3:+62372899 MS.gene03022:CDS
AGATCCTGAAGGAAAAGAAA+TGG 0.394593 1.3:+62372952 MS.gene03022:CDS
GTGGAGGGACATTACTTCAT+TGG 0.411453 1.3:-62373050 None:intergenic
GGAGAAAGCTATAACAAAGT+TGG 0.418322 1.3:+62372973 MS.gene03022:CDS
CCTGTCCCTGCAGTATTCAT+TGG 0.431206 1.3:+62373007 MS.gene03022:CDS
GAGAAAGCTATAACAAAGTT+GGG 0.448427 1.3:+62372974 MS.gene03022:CDS
GATGAGGTTGGCTACAGAAA+AGG 0.457049 1.3:+62372829 MS.gene03022:CDS
TTCATTGGAGGAAAGCTTGT+GGG 0.469806 1.3:+62373022 MS.gene03022:CDS
TTTCCTCCAATGAATACTGC+AGG 0.495376 1.3:-62373013 None:intergenic
TTGTCAATTTCATGAACCAC+AGG 0.499275 1.3:-62372929 None:intergenic
TGATCAAATTAAGCTAAATA+CGG 0.503808 1.3:-62373108 None:intergenic
ATGAGGTTGGCTACAGAAAA+GGG 0.514459 1.3:+62372830 MS.gene03022:CDS
GATGGAGAAGGTGATGAGGT+TGG 0.515048 1.3:+62372817 None:intergenic
GCACAAACAACAAGAGCTCT+TGG 0.517591 1.3:-62372867 None:intergenic
CCAATGAATACTGCAGGGAC+AGG 0.522380 1.3:-62373007 None:intergenic
GAGGGACATTACTTCATTGG+TGG 0.543110 1.3:-62373047 None:intergenic
GTCCCTGCAGTATTCATTGG+AGG 0.543693 1.3:+62373010 MS.gene03022:CDS
AAATTAAGCTAAATACGGTA+TGG 0.562707 1.3:-62373103 None:intergenic
CGAGTGAACCACTTAGGTGG+AGG 0.574745 1.3:-62373066 None:intergenic
ATACGGTATGGCCTAAGTAG+TGG 0.575235 1.3:-62373091 None:intergenic
GTAATGTCCCTCCACCTAAG+TGG 0.591093 1.3:+62373058 MS.gene03022:CDS
GTTCACTCGTTCCACTACTT+AGG 0.591318 1.3:+62373080 MS.gene03022:CDS
GTGGAACGAGTGAACCACTT+AGG 0.595515 1.3:-62373072 None:intergenic
TCATTGGAGGAAAGCTTGTG+GGG 0.613505 1.3:+62373023 MS.gene03022:CDS
GAAATTGACAAAGATCCTGA+AGG 0.616874 1.3:+62372941 MS.gene03022:CDS
ATTCATTGGAGGAAAGCTTG+TGG 0.621609 1.3:+62373021 MS.gene03022:CDS
GAACGAGTGAACCACTTAGG+TGG 0.634239 1.3:-62373069 None:intergenic
TTCCTCCAATGAATACTGCA+GGG 0.637919 1.3:-62373012 None:intergenic
GAGTGAACCACTTAGGTGGA+GGG 0.652910 1.3:-62373065 None:intergenic
TGTCAATTTCATGAACCACA+GGG 0.678104 1.3:-62372928 None:intergenic
TTAAGATGGAGAAGGTGATG+AGG 0.678187 1.3:+62372813 None:intergenic
AGAAATTGGAGTGTTCCCTG+TGG 0.708961 1.3:+62372913 MS.gene03022:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AACATTCTGTTTCAAGAAAT+TGG + chr1.3:62372899-62372918 MS.gene03022:CDS 25.0%
GAGAAAGCTATAACAAAGTT+GGG + chr1.3:62372974-62372993 MS.gene03022:CDS 30.0%
AGATCCTGAAGGAAAAGAAA+TGG + chr1.3:62372952-62372971 MS.gene03022:CDS 35.0%
GAAATTGACAAAGATCCTGA+AGG + chr1.3:62372941-62372960 MS.gene03022:CDS 35.0%
GGAGAAAGCTATAACAAAGT+TGG + chr1.3:62372973-62372992 MS.gene03022:CDS 35.0%
TGTCAATTTCATGAACCACA+GGG - chr1.3:62372931-62372950 None:intergenic 35.0%
TTGTCAATTTCATGAACCAC+AGG - chr1.3:62372932-62372951 None:intergenic 35.0%
! TTCTCCATTTCTTTTCCTTC+AGG - chr1.3:62372959-62372978 None:intergenic 35.0%
ATTCATTGGAGGAAAGCTTG+TGG + chr1.3:62373021-62373040 MS.gene03022:CDS 40.0%
TTCATTGGAGGAAAGCTTGT+GGG + chr1.3:62373022-62373041 MS.gene03022:CDS 40.0%
TTCCTCCAATGAATACTGCA+GGG - chr1.3:62373015-62373034 None:intergenic 40.0%
TTTCCTCCAATGAATACTGC+AGG - chr1.3:62373016-62373035 None:intergenic 40.0%
! ATGAGGTTGGCTACAGAAAA+GGG + chr1.3:62372830-62372849 MS.gene03022:CDS 40.0%
ATACGGTATGGCCTAAGTAG+TGG - chr1.3:62373094-62373113 None:intergenic 45.0%
GAGGGACATTACTTCATTGG+TGG - chr1.3:62373050-62373069 None:intergenic 45.0%
GCACAAACAACAAGAGCTCT+TGG - chr1.3:62372870-62372889 None:intergenic 45.0%
GTGGAGGGACATTACTTCAT+TGG - chr1.3:62373053-62373072 None:intergenic 45.0%
GTTCACTCGTTCCACTACTT+AGG + chr1.3:62373080-62373099 MS.gene03022:CDS 45.0%
TCATTGGAGGAAAGCTTGTG+GGG + chr1.3:62373023-62373042 MS.gene03022:CDS 45.0%
! AGAAATTGGAGTGTTCCCTG+TGG + chr1.3:62372913-62372932 MS.gene03022:CDS 45.0%
! GATGAGGTTGGCTACAGAAA+AGG + chr1.3:62372829-62372848 MS.gene03022:CDS 45.0%
CCAATGAATACTGCAGGGAC+AGG - chr1.3:62373010-62373029 None:intergenic 50.0%
CCTGTCCCTGCAGTATTCAT+TGG + chr1.3:62373007-62373026 MS.gene03022:CDS 50.0%
GAACGAGTGAACCACTTAGG+TGG - chr1.3:62373072-62373091 None:intergenic 50.0%
GAGTGAACCACTTAGGTGGA+GGG - chr1.3:62373068-62373087 None:intergenic 50.0%
GTAATGTCCCTCCACCTAAG+TGG + chr1.3:62373058-62373077 MS.gene03022:CDS 50.0%
GTCCCTGCAGTATTCATTGG+AGG + chr1.3:62373010-62373029 MS.gene03022:CDS 50.0%
GTGGAACGAGTGAACCACTT+AGG - chr1.3:62373075-62373094 None:intergenic 50.0%
CGAGTGAACCACTTAGGTGG+AGG - chr1.3:62373069-62373088 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 62372818 62373117 62372818 ID=MS.gene03022
chr1.3 mRNA 62372818 62373117 62372818 ID=MS.gene03022.t1;Parent=MS.gene03022
chr1.3 exon 62372818 62373117 62372818 ID=MS.gene03022.t1.exon1;Parent=MS.gene03022.t1
chr1.3 CDS 62372818 62373117 62372818 ID=cds.MS.gene03022.t1;Parent=MS.gene03022.t1
Gene Sequence

>MS.gene03022

ATGGAGAAGGTGATGAGGTTGGCTACAGAAAAGGGTGTTGTGATATTCACCAAGAGCTCTTGTTGTTTGTGCTATGCAGTGAACATTCTGTTTCAAGAAATTGGAGTGTTCCCTGTGGTTCATGAAATTGACAAAGATCCTGAAGGAAAAGAAATGGAGAAAGCTATAACAAAGTTGGGTTGTAATGCACCTGTCCCTGCAGTATTCATTGGAGGAAAGCTTGTGGGGTCCACCAATGAAGTAATGTCCCTCCACCTAAGTGGTTCACTCGTTCCACTACTTAGGCCATACCGTATTTAG
Protein sequence

>MS.gene03022.t1

MEKVMRLATEKGVVIFTKSSCCLCYAVNILFQEIGVFPVVHEIDKDPEGKEMEKAITKLGCNAPVPAVFIGGKLVGSTNEVMSLHLSGSLVPLLRPYRI