AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene21696


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene21696.t1 MTR_5g008705 83.200 125 21 0 12 136 2 126 1.93e-71 210
MS.gene21696.t1 MTR_1g046950 66.901 142 45 1 1 140 1 142 1.67e-58 178
MS.gene21696.t1 MTR_1g047100 67.391 138 44 1 1 137 1 138 3.08e-57 175
MS.gene21696.t1 MTR_5g008695 74.783 115 27 1 28 140 1 115 2.53e-54 166
MS.gene21696.t1 MTR_5g079340 65.468 139 43 2 1 137 1 136 4.28e-54 167
MS.gene21696.t1 MTR_3g067610 54.676 139 59 1 2 140 3 137 5.85e-48 151
MS.gene21696.t1 MTR_8g107110 46.667 135 71 1 3 137 23 156 1.42e-32 113
MS.gene21696.t1 MTR_6g079570 45.652 138 73 2 3 139 25 161 7.27e-31 109
MS.gene21696.t1 MTR_1g032070 37.692 130 81 0 8 137 50 179 1.64e-24 93.6
MS.gene21696.t1 MTR_8g036075 43.885 139 68 4 8 137 53 190 5.05e-22 87.0
MS.gene21696.t1 MTR_8g105230 33.594 128 85 0 8 135 40 167 5.31e-22 87.0
MS.gene21696.t1 MTR_7g075040 37.671 146 82 4 1 137 44 189 6.58e-19 79.0
MS.gene21696.t1 MTR_4g067270 34.091 132 85 1 8 137 9 140 8.64e-19 77.4
MS.gene21696.t1 MTR_7g089760 35.507 138 87 1 2 137 3 140 1.21e-18 77.0
MS.gene21696.t1 MTR_1g041285 33.094 139 90 1 2 137 7 145 5.29e-17 72.8
MS.gene21696.t1 MTR_6g023460 33.846 130 85 1 8 137 12 140 1.22e-16 71.6
MS.gene21696.t1 MTR_7g074240 33.562 146 85 3 4 137 24 169 3.46e-16 71.6
MS.gene21696.t1 MTR_7g087610 29.457 129 91 0 9 137 17 145 4.83e-16 70.5
MS.gene21696.t1 MTR_5g088320 30.233 129 90 0 9 137 17 145 6.38e-16 70.1
MS.gene21696.t1 MTR_6g025320 30.233 129 90 0 9 137 17 145 6.73e-16 70.1
MS.gene21696.t1 MTR_1g046960 58.333 60 24 1 28 86 1 60 1.28e-15 68.2
MS.gene21696.t1 MTR_5g017510 31.429 140 88 3 2 137 46 181 2.12e-15 69.7
MS.gene21696.t1 MTR_5g017560 31.429 140 88 3 2 137 46 181 2.12e-15 69.7
MS.gene21696.t1 MTR_0168s0120 30.275 109 76 0 29 137 1 109 5.39e-15 66.6
MS.gene21696.t1 MTR_6g025320 30.275 109 76 0 29 137 1 109 5.39e-15 66.6
MS.gene21696.t1 MTR_4g086260 31.884 138 92 1 3 140 56 191 9.92e-15 68.2
MS.gene21696.t1 MTR_1g076650 30.233 129 90 0 9 137 17 145 3.85e-14 65.5
MS.gene21696.t1 MTR_3g089070 30.952 126 86 1 12 137 14 138 8.13e-14 64.3
MS.gene21696.t1 MTR_3g089090 30.952 126 86 1 12 137 13 137 8.85e-14 64.3
MS.gene21696.t1 MTR_5g017550 28.676 136 96 1 2 137 46 180 1.52e-13 64.7
MS.gene21696.t1 MTR_3g083470 32.927 82 55 0 56 137 135 216 5.97e-13 63.9
MS.gene21696.t1 MTR_8g066630 25.926 135 97 1 8 139 21 155 1.17e-11 59.3
MS.gene21696.t1 MTR_5g009830 28.889 135 90 3 8 140 375 505 3.10e-11 60.1
MS.gene21696.t1 MTR_4g115170 33.784 148 80 3 8 137 68 215 4.11e-11 58.9
MS.gene21696.t1 MTR_8g099095 30.303 132 86 3 8 137 375 502 5.92e-11 59.3
MS.gene21696.t1 MTR_4g132070 28.788 132 88 3 8 137 400 527 6.14e-11 59.3
MS.gene21696.t1 MTR_8g078270 29.078 141 94 3 2 139 51 188 7.75e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene21696.t1 AT1G18210 46.212 132 67 1 8 139 27 154 1.25e-33 116
MS.gene21696.t1 AT1G18210 46.212 132 67 1 8 139 27 154 1.25e-33 116
MS.gene21696.t1 AT1G66400 42.958 142 72 3 1 137 13 150 7.65e-30 106
MS.gene21696.t1 AT1G73630 41.667 132 73 1 8 139 24 151 1.53e-27 100
MS.gene21696.t1 AT5G37770 41.844 141 78 2 3 139 16 156 1.58e-27 100
MS.gene21696.t1 AT5G37770 41.844 141 78 2 3 139 16 156 1.58e-27 100
MS.gene21696.t1 AT5G17470 39.568 139 78 2 5 139 3 139 6.84e-24 90.5
MS.gene21696.t1 AT1G24620 35.606 132 85 0 8 139 41 172 2.50e-23 90.1
MS.gene21696.t1 AT2G36180 39.855 138 76 2 5 137 1 136 7.62e-22 85.1
MS.gene21696.t1 AT3G07490 37.500 136 83 1 4 137 5 140 1.28e-20 82.4
MS.gene21696.t1 AT2G15680 36.842 133 80 2 8 139 54 183 1.46e-20 83.2
MS.gene21696.t1 AT1G05990 35.338 133 83 2 8 137 9 141 9.16e-17 72.4
MS.gene21696.t1 AT3G03400 33.333 129 84 1 5 131 6 134 1.23e-16 71.6
MS.gene21696.t1 AT5G37780 30.233 129 90 0 9 137 17 145 2.02e-16 71.2
MS.gene21696.t1 AT1G66410 30.233 129 90 0 9 137 17 145 2.02e-16 71.2
MS.gene21696.t1 AT3G43810 30.233 129 90 0 9 137 17 145 7.05e-16 70.1
MS.gene21696.t1 AT3G56800 30.233 129 90 0 9 137 17 145 7.20e-16 70.1
MS.gene21696.t1 AT2G27030 30.233 129 90 0 9 137 17 145 7.20e-16 70.1
MS.gene21696.t1 AT2G41110 30.233 129 90 0 9 137 17 145 7.20e-16 70.1
MS.gene21696.t1 AT5G21274 30.233 129 90 0 9 137 17 145 7.59e-16 70.1
MS.gene21696.t1 AT1G66410 30.275 109 76 0 29 137 1 109 1.43e-15 68.2
MS.gene21696.t1 AT1G66410 30.275 109 76 0 29 137 1 109 1.43e-15 68.2
MS.gene21696.t1 AT4G12860 33.088 136 89 1 4 137 5 140 1.50e-15 69.3
MS.gene21696.t1 AT2G27030 30.233 129 90 0 9 137 17 145 1.67e-15 69.7
MS.gene21696.t1 AT3G43810 30.233 129 90 0 9 137 17 145 3.48e-15 69.7
MS.gene21696.t1 AT5G37780 30.088 113 79 0 25 137 20 132 3.65e-15 67.8
MS.gene21696.t1 AT3G43810 30.275 109 76 0 29 137 1 109 5.65e-15 66.6
MS.gene21696.t1 AT3G43810 30.275 109 76 0 29 137 1 109 5.65e-15 66.6
MS.gene21696.t1 AT1G66410 30.000 110 77 0 28 137 46 155 6.25e-15 67.8
MS.gene21696.t1 AT5G37780 30.088 113 79 0 25 137 48 160 7.36e-15 67.8
MS.gene21696.t1 AT5G37780 30.000 110 77 0 28 137 62 171 9.31e-15 67.8
MS.gene21696.t1 AT2G43290 32.117 137 86 2 8 137 69 205 1.29e-14 68.2
MS.gene21696.t1 AT4G37010 29.927 137 96 0 4 140 27 163 1.62e-14 67.0
MS.gene21696.t1 AT2G41110 30.088 113 79 0 25 137 45 157 1.96e-14 66.6
MS.gene21696.t1 AT4G37010 29.927 137 96 0 4 140 31 167 2.01e-14 66.6
MS.gene21696.t1 AT3G59440 31.618 136 82 3 8 137 55 185 4.57e-14 66.2
MS.gene21696.t1 AT3G22930 30.233 129 90 0 9 137 40 168 7.10e-14 65.5
MS.gene21696.t1 AT3G10190 33.088 136 88 3 4 137 70 204 7.93e-14 65.9
MS.gene21696.t1 AT4G03290 31.159 138 90 2 8 140 9 146 1.19e-13 64.3
MS.gene21696.t1 AT4G20780 29.870 154 88 2 4 137 29 182 1.63e-12 62.0
MS.gene21696.t1 AT4G14640 29.457 129 91 0 9 137 18 146 2.03e-12 60.8
MS.gene21696.t1 AT2G41100 32.414 145 76 3 9 134 17 158 1.49e-11 60.8
MS.gene21696.t1 AT2G41100 32.414 145 76 3 9 134 17 158 1.49e-11 60.8
MS.gene21696.t1 AT4G23650 28.889 135 90 3 8 140 387 517 3.17e-11 60.1
MS.gene21696.t1 AT3G50360 27.737 137 99 0 4 140 27 163 3.27e-11 58.2
MS.gene21696.t1 AT4G14640 29.032 124 85 1 17 137 5 128 5.07e-11 57.0

Find 23 sgRNAs with CRISPR-Local

Find 21 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAACGATGTGCAGCTCTTT+TGG 0.236543 5.2:-2580865 None:intergenic
TGCTTCACCAGATGTCGTTT+TGG 0.357613 5.2:-2580683 None:intergenic
TGACAGAAATGTTAACTTTG+AGG 0.402956 5.2:+2580957 MS.gene21696:CDS
TGGAACAGATTGATCAGAAC+GGG 0.406577 5.2:+2580716 MS.gene21696:CDS
CACATCGTTCTTAATAAACT+TGG 0.408468 5.2:+2580877 MS.gene21696:CDS
CCTCAATGACTTTCAGAGAA+TGG 0.437617 5.2:+2580912 MS.gene21696:CDS
AGCATAAGTGCAGTGGAAAT+CGG 0.442473 5.2:-2580767 None:intergenic
CATGGATCCAAAACGACATC+TGG 0.459556 5.2:+2580676 MS.gene21696:CDS
AAAGATCTTTGTCTTAGTGC+TGG 0.471542 5.2:+2580636 MS.gene21696:CDS
CGTCCTTGTCGAGGTTGTAA+AGG 0.474104 5.2:-2580831 None:intergenic
CAACTACGCCATGGAAGATA+AGG 0.490365 5.2:+2580573 None:intergenic
TGCACTTATGCTGCTGCTGT+CGG 0.543017 5.2:+2580778 MS.gene21696:CDS
TGGTGAAGCAAAACGCATGA+TGG 0.544746 5.2:+2580696 MS.gene21696:CDS
GAAGAAATGCTTTCAACGCA+TGG 0.563370 5.2:+2580658 MS.gene21696:CDS
GTTACACACCTTATCTTCCA+TGG 0.568028 5.2:-2580581 None:intergenic
CCATTCTCTGAAAGTCATTG+AGG 0.569417 5.2:-2580912 None:intergenic
ATGGAACAGATTGATCAGAA+CGG 0.603193 5.2:+2580715 MS.gene21696:CDS
CGACCTTTACAACCTCGACA+AGG 0.609704 5.2:+2580828 MS.gene21696:CDS
CAGCAGCAGCATAAGTGCAG+TGG 0.611841 5.2:-2580774 None:intergenic
CTTTACAACCTCGACAAGGA+CGG 0.615705 5.2:+2580832 MS.gene21696:CDS
AGATGAGACCGTCCTTGTCG+AGG 0.627789 5.2:-2580840 None:intergenic
AAAGGTCGAAAGCATCGTGA+AGG 0.659870 5.2:-2580813 None:intergenic
GGAACAGATTGATCAGAACG+GGG 0.750470 5.2:+2580717 MS.gene21696:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CACATCGTTCTTAATAAACT+TGG + chr5.2:2580877-2580896 MS.gene21696:CDS 30.0%
TGACAGAAATGTTAACTTTG+AGG + chr5.2:2580957-2580976 MS.gene21696:CDS 30.0%
AAAGATCTTTGTCTTAGTGC+TGG + chr5.2:2580636-2580655 MS.gene21696:CDS 35.0%
ATGGAACAGATTGATCAGAA+CGG + chr5.2:2580715-2580734 MS.gene21696:CDS 35.0%
AGCATAAGTGCAGTGGAAAT+CGG - chr5.2:2580770-2580789 None:intergenic 40.0%
CCTCAATGACTTTCAGAGAA+TGG + chr5.2:2580912-2580931 MS.gene21696:CDS 40.0%
GAAGAAATGCTTTCAACGCA+TGG + chr5.2:2580658-2580677 MS.gene21696:CDS 40.0%
TGGAACAGATTGATCAGAAC+GGG + chr5.2:2580716-2580735 MS.gene21696:CDS 40.0%
! CCATTCTCTGAAAGTCATTG+AGG - chr5.2:2580915-2580934 None:intergenic 40.0%
CATGGATCCAAAACGACATC+TGG + chr5.2:2580676-2580695 MS.gene21696:CDS 45.0%
CTTTACAACCTCGACAAGGA+CGG + chr5.2:2580832-2580851 MS.gene21696:CDS 45.0%
GGAACAGATTGATCAGAACG+GGG + chr5.2:2580717-2580736 MS.gene21696:CDS 45.0%
TGGTGAAGCAAAACGCATGA+TGG + chr5.2:2580696-2580715 MS.gene21696:CDS 45.0%
! AGAACGATGTGCAGCTCTTT+TGG - chr5.2:2580868-2580887 None:intergenic 45.0%
!! AAAGGTCGAAAGCATCGTGA+AGG - chr5.2:2580816-2580835 None:intergenic 45.0%
!! TGCTTCACCAGATGTCGTTT+TGG - chr5.2:2580686-2580705 None:intergenic 45.0%
CGACCTTTACAACCTCGACA+AGG + chr5.2:2580828-2580847 MS.gene21696:CDS 50.0%
CGTCCTTGTCGAGGTTGTAA+AGG - chr5.2:2580834-2580853 None:intergenic 50.0%
TGCACTTATGCTGCTGCTGT+CGG + chr5.2:2580778-2580797 MS.gene21696:CDS 50.0%
AGATGAGACCGTCCTTGTCG+AGG - chr5.2:2580843-2580862 None:intergenic 55.0%
CAGCAGCAGCATAAGTGCAG+TGG - chr5.2:2580777-2580796 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 2580583 2581005 2580583 ID=MS.gene21696
chr5.2 mRNA 2580583 2581005 2580583 ID=MS.gene21696.t1;Parent=MS.gene21696
chr5.2 exon 2580583 2581005 2580583 ID=MS.gene21696.t1.exon1;Parent=MS.gene21696.t1
chr5.2 CDS 2580583 2581005 2580583 ID=cds.MS.gene21696.t1;Parent=MS.gene21696.t1
Gene Sequence

>MS.gene21696

ATGGAAGATAAGGTGTGTAACATCTTCATCAAGTTCGACAAGAACAACAACAGAAAGATCTTTGTCTTAGTGCTGGAAGAAATGCTTTCAACGCATGGATCCAAAACGACATCTGGTGAAGCAAAACGCATGATGGAACAGATTGATCAGAACGGGGACTGTTACATTGATCTCAAAGAATTCACCGATTTCCACTGCACTTATGCTGCTGCTGTCGGAAAAGACGACGACCTTCACGATGCTTTCGACCTTTACAACCTCGACAAGGACGGTCTCATCTCTCCAAAAGAGCTGCACATCGTTCTTAATAAACTTGGTGAGAAGTGCTGCCTCAATGACTTTCAGAGAATGGTTAGCAGCGTCGATGCTGACTGTGACAGAAATGTTAACTTTGAGGAATTCAAGAAGATGACGACTCGTTGA

Protein sequence

>MS.gene21696.t1

MEDKVCNIFIKFDKNNNRKIFVLVLEEMLSTHGSKTTSGEAKRMMEQIDQNGDCYIDLKEFTDFHCTYAAAVGKDDDLHDAFDLYNLDKDGLISPKELHIVLNKLGEKCCLNDFQRMVSSVDADCDRNVNFEEFKKMTTR