AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580024306.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580024306.01.T01 MTR_5g008705 83.200 125 21 0 12 136 2 126 2.00e-71 210
MsG0580024306.01.T01 MTR_1g046950 66.901 142 45 1 1 140 1 142 1.74e-58 178
MsG0580024306.01.T01 MTR_1g047100 67.391 138 44 1 1 137 1 138 3.20e-57 175
MsG0580024306.01.T01 MTR_5g008695 74.783 115 27 1 28 140 1 115 2.63e-54 166
MsG0580024306.01.T01 MTR_5g079340 65.468 139 43 2 1 137 1 136 4.45e-54 167
MsG0580024306.01.T01 MTR_3g067610 54.676 139 59 1 2 140 3 137 6.07e-48 151
MsG0580024306.01.T01 MTR_8g107110 46.667 135 71 1 3 137 23 156 1.48e-32 113
MsG0580024306.01.T01 MTR_6g079570 45.652 138 73 2 3 139 25 161 7.53e-31 109
MsG0580024306.01.T01 MTR_1g032070 37.692 130 81 0 8 137 50 179 1.70e-24 93.6
MsG0580024306.01.T01 MTR_8g036075 43.885 139 68 4 8 137 53 190 5.22e-22 87.0
MsG0580024306.01.T01 MTR_8g105230 33.594 128 85 0 8 135 40 167 5.49e-22 87.0
MsG0580024306.01.T01 MTR_7g075040 37.671 146 82 4 1 137 44 189 6.80e-19 79.0
MsG0580024306.01.T01 MTR_4g067270 34.091 132 85 1 8 137 9 140 8.91e-19 77.4
MsG0580024306.01.T01 MTR_7g089760 35.507 138 87 1 2 137 3 140 1.25e-18 77.0
MsG0580024306.01.T01 MTR_1g041285 33.094 139 90 1 2 137 7 145 5.46e-17 72.8
MsG0580024306.01.T01 MTR_6g023460 33.846 130 85 1 8 137 12 140 1.26e-16 71.6
MsG0580024306.01.T01 MTR_7g074240 33.562 146 85 3 4 137 24 169 3.57e-16 71.6
MsG0580024306.01.T01 MTR_7g087610 29.457 129 91 0 9 137 17 145 4.98e-16 70.5
MsG0580024306.01.T01 MTR_5g088320 30.233 129 90 0 9 137 17 145 6.57e-16 70.1
MsG0580024306.01.T01 MTR_6g025320 30.233 129 90 0 9 137 17 145 6.93e-16 70.1
MsG0580024306.01.T01 MTR_1g046960 58.333 60 24 1 28 86 1 60 1.32e-15 68.2
MsG0580024306.01.T01 MTR_5g017510 31.429 140 88 3 2 137 46 181 2.19e-15 69.7
MsG0580024306.01.T01 MTR_5g017560 31.429 140 88 3 2 137 46 181 2.19e-15 69.7
MsG0580024306.01.T01 MTR_0168s0120 30.275 109 76 0 29 137 1 109 5.55e-15 66.6
MsG0580024306.01.T01 MTR_6g025320 30.275 109 76 0 29 137 1 109 5.55e-15 66.6
MsG0580024306.01.T01 MTR_4g086260 31.884 138 92 1 3 140 56 191 1.02e-14 68.2
MsG0580024306.01.T01 MTR_1g076650 30.233 129 90 0 9 137 17 145 3.96e-14 65.5
MsG0580024306.01.T01 MTR_3g089070 30.952 126 86 1 12 137 14 138 8.36e-14 64.3
MsG0580024306.01.T01 MTR_3g089090 30.952 126 86 1 12 137 13 137 9.10e-14 64.3
MsG0580024306.01.T01 MTR_5g017550 28.676 136 96 1 2 137 46 180 1.56e-13 64.7
MsG0580024306.01.T01 MTR_3g083470 32.927 82 55 0 56 137 135 216 6.15e-13 63.9
MsG0580024306.01.T01 MTR_8g066630 25.926 135 97 1 8 139 21 155 1.20e-11 59.3
MsG0580024306.01.T01 MTR_5g009830 28.889 135 90 3 8 140 375 505 3.20e-11 60.1
MsG0580024306.01.T01 MTR_4g115170 33.784 148 80 3 8 137 68 215 4.22e-11 58.9
MsG0580024306.01.T01 MTR_8g099095 30.303 132 86 3 8 137 375 502 6.10e-11 59.3
MsG0580024306.01.T01 MTR_4g132070 28.788 132 88 3 8 137 400 527 6.33e-11 59.3
MsG0580024306.01.T01 MTR_8g078270 29.078 141 94 3 2 139 51 188 7.96e-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
MsG0580024306.01.T01 AT1G18210 46.212 132 67 1 8 139 27 154 1.30e-33 116
MsG0580024306.01.T01 AT1G18210 46.212 132 67 1 8 139 27 154 1.30e-33 116
MsG0580024306.01.T01 AT1G66400 42.958 142 72 3 1 137 13 150 7.92e-30 106
MsG0580024306.01.T01 AT1G73630 41.667 132 73 1 8 139 24 151 1.58e-27 100
MsG0580024306.01.T01 AT5G37770 41.844 141 78 2 3 139 16 156 1.64e-27 100
MsG0580024306.01.T01 AT5G37770 41.844 141 78 2 3 139 16 156 1.64e-27 100
MsG0580024306.01.T01 AT5G17470 39.568 139 78 2 5 139 3 139 7.08e-24 90.5
MsG0580024306.01.T01 AT1G24620 35.606 132 85 0 8 139 41 172 2.58e-23 90.1
MsG0580024306.01.T01 AT2G36180 39.855 138 76 2 5 137 1 136 7.88e-22 85.1
MsG0580024306.01.T01 AT3G07490 37.500 136 83 1 4 137 5 140 1.32e-20 82.4
MsG0580024306.01.T01 AT2G15680 36.842 133 80 2 8 139 54 183 1.51e-20 83.2
MsG0580024306.01.T01 AT1G05990 35.338 133 83 2 8 137 9 141 9.45e-17 72.4
MsG0580024306.01.T01 AT3G03400 33.333 129 84 1 5 131 6 134 1.26e-16 71.6
MsG0580024306.01.T01 AT5G37780 30.233 129 90 0 9 137 17 145 2.08e-16 71.2
MsG0580024306.01.T01 AT1G66410 30.233 129 90 0 9 137 17 145 2.08e-16 71.2
MsG0580024306.01.T01 AT3G43810 30.233 129 90 0 9 137 17 145 7.26e-16 70.1
MsG0580024306.01.T01 AT3G56800 30.233 129 90 0 9 137 17 145 7.42e-16 70.1
MsG0580024306.01.T01 AT2G27030 30.233 129 90 0 9 137 17 145 7.42e-16 70.1
MsG0580024306.01.T01 AT2G41110 30.233 129 90 0 9 137 17 145 7.42e-16 70.1
MsG0580024306.01.T01 AT5G21274 30.233 129 90 0 9 137 17 145 7.82e-16 70.1
MsG0580024306.01.T01 AT1G66410 30.275 109 76 0 29 137 1 109 1.47e-15 68.2
MsG0580024306.01.T01 AT1G66410 30.275 109 76 0 29 137 1 109 1.47e-15 68.2
MsG0580024306.01.T01 AT4G12860 33.088 136 89 1 4 137 5 140 1.55e-15 69.3
MsG0580024306.01.T01 AT2G27030 30.233 129 90 0 9 137 17 145 1.72e-15 69.7
MsG0580024306.01.T01 AT3G43810 30.233 129 90 0 9 137 17 145 3.59e-15 69.7
MsG0580024306.01.T01 AT5G37780 30.088 113 79 0 25 137 20 132 3.76e-15 67.8
MsG0580024306.01.T01 AT3G43810 30.275 109 76 0 29 137 1 109 5.81e-15 66.6
MsG0580024306.01.T01 AT3G43810 30.275 109 76 0 29 137 1 109 5.81e-15 66.6
MsG0580024306.01.T01 AT1G66410 30.000 110 77 0 28 137 46 155 6.43e-15 67.8
MsG0580024306.01.T01 AT5G37780 30.088 113 79 0 25 137 48 160 7.58e-15 67.8
MsG0580024306.01.T01 AT5G37780 30.000 110 77 0 28 137 62 171 9.58e-15 67.8
MsG0580024306.01.T01 AT2G43290 32.117 137 86 2 8 137 69 205 1.33e-14 68.2
MsG0580024306.01.T01 AT4G37010 29.927 137 96 0 4 140 27 163 1.67e-14 67.0
MsG0580024306.01.T01 AT2G41110 30.088 113 79 0 25 137 45 157 2.02e-14 66.6
MsG0580024306.01.T01 AT4G37010 29.927 137 96 0 4 140 31 167 2.07e-14 66.6
MsG0580024306.01.T01 AT3G59440 31.618 136 82 3 8 137 55 185 4.71e-14 66.2
MsG0580024306.01.T01 AT3G22930 30.233 129 90 0 9 137 40 168 7.30e-14 65.5
MsG0580024306.01.T01 AT3G10190 33.088 136 88 3 4 137 70 204 8.16e-14 65.9
MsG0580024306.01.T01 AT4G03290 31.159 138 90 2 8 140 9 146 1.22e-13 64.3
MsG0580024306.01.T01 AT4G20780 29.870 154 88 2 4 137 29 182 1.67e-12 62.0
MsG0580024306.01.T01 AT4G14640 29.457 129 91 0 9 137 18 146 2.09e-12 60.8
MsG0580024306.01.T01 AT2G41100 32.414 145 76 3 9 134 17 158 1.53e-11 60.8
MsG0580024306.01.T01 AT2G41100 32.414 145 76 3 9 134 17 158 1.53e-11 60.8
MsG0580024306.01.T01 AT4G23650 28.889 135 90 3 8 140 387 517 3.26e-11 60.1
MsG0580024306.01.T01 AT3G50360 27.737 137 99 0 4 140 27 163 3.36e-11 58.2
MsG0580024306.01.T01 AT4G14640 29.032 124 85 1 17 137 5 128 5.21e-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:-3224001 None:intergenic
TGCTTCACCAGATGTCGTTT+TGG 0.357613 5:-3223819 None:intergenic
TGACAGAAATGTTAACTTTG+AGG 0.402956 5:+3224093 MsG0580024306.01.T01:CDS
TGGAACAGATTGATCAGAAC+GGG 0.406577 5:+3223852 MsG0580024306.01.T01:CDS
CACATCGTTCTTAATAAACT+TGG 0.408468 5:+3224013 MsG0580024306.01.T01:CDS
CCTCAATGACTTTCAGAGAA+TGG 0.437617 5:+3224048 MsG0580024306.01.T01:CDS
AGCATAAGTGCAGTGGAAAT+CGG 0.442473 5:-3223903 None:intergenic
CATGGATCCAAAACGACATC+TGG 0.459556 5:+3223812 MsG0580024306.01.T01:CDS
AAAGATCTTTGTCTTAGTGC+TGG 0.471542 5:+3223772 MsG0580024306.01.T01:CDS
CGTCCTTGTCGAGGTTGTAA+AGG 0.474104 5:-3223967 None:intergenic
CAACTACGCCATGGAAGATA+AGG 0.490365 5:+3223709 None:intergenic
TGCACTTATGCTGCTGCTGT+CGG 0.543017 5:+3223914 MsG0580024306.01.T01:CDS
TGGTGAAGCAAAACGCATGA+TGG 0.544746 5:+3223832 MsG0580024306.01.T01:CDS
GAAGAAATGCTTTCAACGCA+TGG 0.563370 5:+3223794 MsG0580024306.01.T01:CDS
GTTACACACCTTATCTTCCA+TGG 0.568028 5:-3223717 None:intergenic
CCATTCTCTGAAAGTCATTG+AGG 0.569417 5:-3224048 None:intergenic
ATGGAACAGATTGATCAGAA+CGG 0.603193 5:+3223851 MsG0580024306.01.T01:CDS
CGACCTTTACAACCTCGACA+AGG 0.609704 5:+3223964 MsG0580024306.01.T01:CDS
CAGCAGCAGCATAAGTGCAG+TGG 0.611841 5:-3223910 None:intergenic
CTTTACAACCTCGACAAGGA+CGG 0.615705 5:+3223968 MsG0580024306.01.T01:CDS
AGATGAGACCGTCCTTGTCG+AGG 0.627789 5:-3223976 None:intergenic
AAAGGTCGAAAGCATCGTGA+AGG 0.659870 5:-3223949 None:intergenic
GGAACAGATTGATCAGAACG+GGG 0.750470 5:+3223853 MsG0580024306.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CACATCGTTCTTAATAAACT+TGG + Chr5:3224013-3224032 MsG0580024306.01.T01:CDS 30.0%
TGACAGAAATGTTAACTTTG+AGG + Chr5:3224093-3224112 MsG0580024306.01.T01:CDS 30.0%
AAAGATCTTTGTCTTAGTGC+TGG + Chr5:3223772-3223791 MsG0580024306.01.T01:CDS 35.0%
ATGGAACAGATTGATCAGAA+CGG + Chr5:3223851-3223870 MsG0580024306.01.T01:CDS 35.0%
AGCATAAGTGCAGTGGAAAT+CGG - Chr5:3223906-3223925 None:intergenic 40.0%
CCTCAATGACTTTCAGAGAA+TGG + Chr5:3224048-3224067 MsG0580024306.01.T01:CDS 40.0%
GAAGAAATGCTTTCAACGCA+TGG + Chr5:3223794-3223813 MsG0580024306.01.T01:CDS 40.0%
TGGAACAGATTGATCAGAAC+GGG + Chr5:3223852-3223871 MsG0580024306.01.T01:CDS 40.0%
! CCATTCTCTGAAAGTCATTG+AGG - Chr5:3224051-3224070 None:intergenic 40.0%
CATGGATCCAAAACGACATC+TGG + Chr5:3223812-3223831 MsG0580024306.01.T01:CDS 45.0%
CTTTACAACCTCGACAAGGA+CGG + Chr5:3223968-3223987 MsG0580024306.01.T01:CDS 45.0%
GGAACAGATTGATCAGAACG+GGG + Chr5:3223853-3223872 MsG0580024306.01.T01:CDS 45.0%
TGGTGAAGCAAAACGCATGA+TGG + Chr5:3223832-3223851 MsG0580024306.01.T01:CDS 45.0%
! AGAACGATGTGCAGCTCTTT+TGG - Chr5:3224004-3224023 None:intergenic 45.0%
!! AAAGGTCGAAAGCATCGTGA+AGG - Chr5:3223952-3223971 None:intergenic 45.0%
!! TGCTTCACCAGATGTCGTTT+TGG - Chr5:3223822-3223841 None:intergenic 45.0%
CGACCTTTACAACCTCGACA+AGG + Chr5:3223964-3223983 MsG0580024306.01.T01:CDS 50.0%
CGTCCTTGTCGAGGTTGTAA+AGG - Chr5:3223970-3223989 None:intergenic 50.0%
TGCACTTATGCTGCTGCTGT+CGG + Chr5:3223914-3223933 MsG0580024306.01.T01:CDS 50.0%
AGATGAGACCGTCCTTGTCG+AGG - Chr5:3223979-3223998 None:intergenic 55.0%
CAGCAGCAGCATAAGTGCAG+TGG - Chr5:3223913-3223932 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr5 gene 3223719 3224141 3223719 ID=MsG0580024306.01;Name=MsG0580024306.01
Chr5 mRNA 3223719 3224141 3223719 ID=MsG0580024306.01.T01;Parent=MsG0580024306.01;Name=MsG0580024306.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|140
Chr5 exon 3223719 3224141 3223719 ID=MsG0580024306.01.T01:exon:1979;Parent=MsG0580024306.01.T01
Chr5 CDS 3223719 3224141 3223719 ID=MsG0580024306.01.T01:cds;Parent=MsG0580024306.01.T01
Gene Sequence

>MsG0580024306.01.T01

ATGGAAGATAAGGTGTGTAACATCTTCATCAAGTTCGACAAGAACAACAACAGAAAGATCTTTGTCTTAGTGCTGGAAGAAATGCTTTCAACGCATGGATCCAAAACGACATCTGGTGAAGCAAAACGCATGATGGAACAGATTGATCAGAACGGGGACTGTTACATTGATCTCAAAGAATTCACCGATTTCCACTGCACTTATGCTGCTGCTGTCGGAAAAGACGACGACCTTCACGATGCTTTCGACCTTTACAACCTCGACAAGGACGGTCTCATCTCTCCAAAAGAGCTGCACATCGTTCTTAATAAACTTGGTGAGAAGTGCTGCCTCAATGACTTTCAGAGAATGGTTAGCAGCGTCGATGCTGACTGTGACAGAAATGTTAACTTTGAGGAATTCAAGAAGATGACGACTCGTTGA

Protein sequence

>MsG0580024306.01.T01

MEDKVCNIFIKFDKNNNRKIFVLVLEEMLSTHGSKTTSGEAKRMMEQIDQNGDCYIDLKEFTDFHCTYAAAVGKDDDLHDAFDLYNLDKDGLISPKELHIVLNKLGEKCCLNDFQRMVSSVDADCDRNVNFEEFKKMTTR*