AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene002293

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene002293.t1 MTR_2g010580 89.873 158 15 1 6 163 8 164 4.31e-106 300
MS.gene002293.t1 MTR_4g092540 56.962 158 61 4 7 163 8 159 6.05e-62 188
MS.gene002293.t1 MTR_2g010590 50.641 156 72 1 8 163 9 159 4.83e-59 181
MS.gene002293.t1 MTR_2g435490 53.012 166 73 3 1 163 1 164 2.79e-58 180
MS.gene002293.t1 MTR_2g010600 47.799 159 78 3 8 163 6 162 2.79e-53 166
MS.gene002293.t1 MTR_4g050762 51.389 144 67 2 23 163 19 162 8.96e-53 166
MS.gene002293.t1 MTR_2g012370 51.389 144 67 2 23 163 19 162 8.96e-53 166
MS.gene002293.t1 MTR_2g010650 47.531 162 78 4 7 163 6 165 3.28e-50 159
MS.gene002293.t1 MTR_2g010630 48.052 154 73 3 16 163 13 165 5.72e-50 158
MS.gene002293.t1 MTR_2g010690 44.172 163 79 5 7 163 8 164 1.41e-42 139
MS.gene002293.t1 MTR_2g010610 47.183 142 52 3 23 163 19 138 2.52e-42 138
MS.gene002293.t1 MTR_2g010670 43.558 163 82 5 9 163 4 164 3.19e-42 138
MS.gene002293.t1 MTR_2g010700 42.675 157 80 4 16 163 13 168 2.05e-41 136
MS.gene002293.t1 MTR_2g010640 46.575 146 71 4 23 163 20 163 1.61e-40 134
MS.gene002293.t1 MTR_4g128750 44.681 141 76 2 25 163 33 173 6.92e-36 122
MS.gene002293.t1 MTR_4g128770 42.336 137 74 2 32 163 70 206 7.58e-32 113
MS.gene002293.t1 MTR_8g078770 34.545 165 95 5 8 163 12 172 9.22e-27 99.4
MS.gene002293.t1 MTR_1g067290 37.037 135 81 3 32 162 73 207 2.34e-26 99.8
MS.gene002293.t1 MTR_5g018770 35.461 141 82 5 31 163 46 185 2.01e-23 91.3
MS.gene002293.t1 MTR_4g092515 53.333 75 34 1 13 86 12 86 1.00e-22 88.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene002293.t1 AT4G33720 52.174 161 74 1 3 163 6 163 1.35e-60 185
MS.gene002293.t1 AT2G19990 58.519 135 55 1 30 163 42 176 9.80e-59 181
MS.gene002293.t1 AT2G14580 48.052 154 77 2 11 163 10 161 1.86e-55 172
MS.gene002293.t1 AT2G14610 50.327 153 74 1 11 163 11 161 1.10e-54 170
MS.gene002293.t1 AT5G26130 49.091 165 80 2 1 163 4 166 1.68e-53 167
MS.gene002293.t1 AT1G50060 49.390 164 76 2 1 163 4 161 2.93e-51 161
MS.gene002293.t1 AT3G19690 46.452 155 80 2 11 163 8 161 8.01e-50 157
MS.gene002293.t1 AT4G33710 50.355 141 68 1 25 163 26 166 1.27e-47 152
MS.gene002293.t1 AT4G33730 47.742 155 71 3 18 163 19 172 3.52e-44 144
MS.gene002293.t1 AT4G07820 48.201 139 70 2 25 163 24 160 1.16e-41 137
MS.gene002293.t1 AT1G50050 45.455 165 82 4 1 163 4 162 5.99e-40 132
MS.gene002293.t1 AT1G01310 47.368 133 69 1 32 163 87 219 8.54e-40 135
MS.gene002293.t1 AT4G25790 45.926 135 71 2 31 163 76 210 8.33e-39 131
MS.gene002293.t1 AT5G57625 46.617 133 69 2 33 163 75 207 8.14e-38 129
MS.gene002293.t1 AT2G19970 44.828 145 67 6 30 163 35 177 2.03e-37 127
MS.gene002293.t1 AT4G30320 41.212 165 91 4 1 163 1 161 2.57e-37 126
MS.gene002293.t1 AT4G31470 45.522 134 72 1 31 163 52 185 2.89e-37 126
MS.gene002293.t1 AT1G50050 42.331 163 86 4 1 161 4 160 1.41e-35 123
MS.gene002293.t1 AT3G09590 39.041 146 86 2 21 163 41 186 9.19e-35 120
MS.gene002293.t1 AT4G25780 45.588 136 69 3 33 163 55 190 3.80e-34 119
MS.gene002293.t1 AT5G66590 43.262 141 74 4 29 163 45 185 2.13e-33 117
MS.gene002293.t1 AT5G02730 40.411 146 84 2 21 163 48 193 2.68e-33 117
MS.gene002293.t1 AT2G19980 42.553 141 64 6 30 163 35 165 1.38e-30 108

Find 39 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGCATTATACTCAAATTATT+TGG 0.165449 2.3:-72845667 MS.gene002293:CDS
TTGGTGTTGGTCCACTTTCT+TGG 0.232057 2.3:-72845895 MS.gene002293:CDS
AACCCAACCATTCTTACATT+TGG 0.275936 2.3:+72845613 None:intergenic
GTACGGATTCTGTGAAGTTT+TGG 0.310490 2.3:-72845751 MS.gene002293:CDS
TTGTGAGCTTGAGCACTCTA+TGG 0.317138 2.3:-72845819 MS.gene002293:CDS
GATTGAGCAAATGAAGAAAA+TGG 0.351533 2.3:+72845997 None:intergenic
GAGAACCTTGCTTCGGGTTA+TGG 0.356745 2.3:-72845785 MS.gene002293:CDS
CCTAGATAAAATAATCAATA+AGG 0.366994 2.3:+72845542 None:intergenic
TTATGGTGAGAACCTTGCTT+CGG 0.376500 2.3:-72845792 MS.gene002293:CDS
GGGAAATATTCATGCAACTA+AGG 0.387256 2.3:+72845975 None:intergenic
GAGCACTCTATGGGTCCTTA+TGG 0.400158 2.3:-72845809 MS.gene002293:CDS
TATGGTGAGAACCTTGCTTC+GGG 0.414466 2.3:-72845791 MS.gene002293:CDS
TTAGAGTGATAATCATAATC+AGG 0.435059 2.3:+72845716 None:intergenic
TGGCGTGATTCAGTTCATCT+TGG 0.443876 2.3:-72845647 MS.gene002293:CDS
AGTCCAAATGTAAGAATGGT+TGG 0.453283 2.3:-72845616 MS.gene002293:CDS
GTCCAAATGTAAGAATGGTT+GGG 0.466932 2.3:-72845615 MS.gene002293:CDS
GAGCATAGGCTTCAAGGGTA+TGG 0.476752 2.3:+72845870 None:intergenic
CGTTGTCCTTCAATATTGCC+TGG 0.494327 2.3:+72845566 None:intergenic
GTACCTCAAGGTAATCTTGA+GGG 0.504079 2.3:+72845939 None:intergenic
GAAGCAAGGTTCTCACCATA+AGG 0.520757 2.3:+72845794 None:intergenic
AGGGTATGGTTCCAAGAAAG+TGG 0.536909 2.3:+72845884 None:intergenic
TCACCACCAGGCAATATTGA+AGG 0.549092 2.3:-72845572 MS.gene002293:CDS
GAGCTTGATTATGTACCTCA+AGG 0.560143 2.3:+72845927 None:intergenic
TGTGAGCTTGAGCACTCTAT+GGG 0.560190 2.3:-72845818 MS.gene002293:CDS
ATGGCTAAGATCATATTATG+TGG 0.564871 2.3:+72846016 None:intergenic
GCTAAGTCCAAATGTAAGAA+TGG 0.566456 2.3:-72845620 MS.gene002293:CDS
TCGGGTTATGGTGAAGTGAA+TGG 0.581294 2.3:-72845773 MS.gene002293:CDS
GCTCGAAAAGAGGTTGGTGT+TGG 0.599022 2.3:-72845908 MS.gene002293:CDS
ACATAATCAAGCTCGAAAAG+AGG 0.599086 2.3:-72845918 MS.gene002293:CDS
AATCAAGCTCGAAAAGAGGT+TGG 0.601925 2.3:-72845914 MS.gene002293:CDS
CTTCACCATAACCCGAAGCA+AGG 0.602068 2.3:+72845780 None:intergenic
TGTGCTAAAATTGATGAGTG+TGG 0.603527 2.3:-72845689 MS.gene002293:CDS
GTGCTAAAATTGATGAGTGT+GGG 0.607487 2.3:-72845688 MS.gene002293:CDS
ATTTGTAGCTATTCACCACC+AGG 0.611970 2.3:-72845584 MS.gene002293:CDS
TTATGGTGAAGTGAATGGTA+CGG 0.612072 2.3:-72845768 MS.gene002293:CDS
TGTACCTCAAGGTAATCTTG+AGG 0.625790 2.3:+72845938 None:intergenic
TACCTCAAGGTAATCTTGAG+GGG 0.626699 2.3:+72845940 None:intergenic
CTCCCCTCAAGATTACCTTG+AGG 0.725233 2.3:-72845942 MS.gene002293:CDS
TGTCCTTCAATATTGCCTGG+TGG 0.737824 2.3:+72845569 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GGCATTATACTCAAATTATT+TGG - chr2.3:72845914-72845933 MS.gene002293:CDS 25.0%
! TTAGAGTGATAATCATAATC+AGG + chr2.3:72845868-72845887 None:intergenic 25.0%
ATGGCTAAGATCATATTATG+TGG + chr2.3:72845568-72845587 None:intergenic 30.0%
GATTGAGCAAATGAAGAAAA+TGG + chr2.3:72845587-72845606 None:intergenic 30.0%
AACCCAACCATTCTTACATT+TGG + chr2.3:72845971-72845990 None:intergenic 35.0%
ACATAATCAAGCTCGAAAAG+AGG - chr2.3:72845663-72845682 MS.gene002293:CDS 35.0%
AGTCCAAATGTAAGAATGGT+TGG - chr2.3:72845965-72845984 MS.gene002293:CDS 35.0%
GCTAAGTCCAAATGTAAGAA+TGG - chr2.3:72845961-72845980 MS.gene002293:CDS 35.0%
GGGAAATATTCATGCAACTA+AGG + chr2.3:72845609-72845628 None:intergenic 35.0%
GTCCAAATGTAAGAATGGTT+GGG - chr2.3:72845966-72845985 MS.gene002293:CDS 35.0%
GTGCTAAAATTGATGAGTGT+GGG - chr2.3:72845893-72845912 MS.gene002293:CDS 35.0%
TGTGCTAAAATTGATGAGTG+TGG - chr2.3:72845892-72845911 MS.gene002293:CDS 35.0%
TTATGGTGAAGTGAATGGTA+CGG - chr2.3:72845813-72845832 MS.gene002293:CDS 35.0%
!!! GTTTGCATAGTTTTGAGCAT+AGG + chr2.3:72845728-72845747 None:intergenic 35.0%
AATCAAGCTCGAAAAGAGGT+TGG - chr2.3:72845667-72845686 MS.gene002293:CDS 40.0%
ATTTGTAGCTATTCACCACC+AGG - chr2.3:72845997-72846016 MS.gene002293:CDS 40.0%
GAGCTTGATTATGTACCTCA+AGG + chr2.3:72845657-72845676 None:intergenic 40.0%
GTACCTCAAGGTAATCTTGA+GGG + chr2.3:72845645-72845664 None:intergenic 40.0%
TACCTCAAGGTAATCTTGAG+GGG + chr2.3:72845644-72845663 None:intergenic 40.0%
TGTACCTCAAGGTAATCTTG+AGG + chr2.3:72845646-72845665 None:intergenic 40.0%
TTATGGTGAGAACCTTGCTT+CGG - chr2.3:72845789-72845808 MS.gene002293:CDS 40.0%
! GTACGGATTCTGTGAAGTTT+TGG - chr2.3:72845830-72845849 MS.gene002293:CDS 40.0%
!! GTTTTGAGCATAGGCTTCAA+GGG + chr2.3:72845719-72845738 None:intergenic 40.0%
!!! AGTTTTGAGCATAGGCTTCA+AGG + chr2.3:72845720-72845739 None:intergenic 40.0%
AGGGTATGGTTCCAAGAAAG+TGG + chr2.3:72845700-72845719 None:intergenic 45.0%
CGTTGTCCTTCAATATTGCC+TGG + chr2.3:72846018-72846037 None:intergenic 45.0%
GAAGCAAGGTTCTCACCATA+AGG + chr2.3:72845790-72845809 None:intergenic 45.0%
TATGGTGAGAACCTTGCTTC+GGG - chr2.3:72845790-72845809 MS.gene002293:CDS 45.0%
TCACCACCAGGCAATATTGA+AGG - chr2.3:72846009-72846028 MS.gene002293:CDS 45.0%
TCGGGTTATGGTGAAGTGAA+TGG - chr2.3:72845808-72845827 MS.gene002293:CDS 45.0%
TGGCGTGATTCAGTTCATCT+TGG - chr2.3:72845934-72845953 MS.gene002293:CDS 45.0%
TGTCCTTCAATATTGCCTGG+TGG + chr2.3:72846015-72846034 None:intergenic 45.0%
TGTGAGCTTGAGCACTCTAT+GGG - chr2.3:72845763-72845782 MS.gene002293:CDS 45.0%
TTGTGAGCTTGAGCACTCTA+TGG - chr2.3:72845762-72845781 MS.gene002293:CDS 45.0%
!! TTGAGGGGAGTTTTGTGCTT+GGG + chr2.3:72845629-72845648 None:intergenic 45.0%
!! TTGGTGTTGGTCCACTTTCT+TGG - chr2.3:72845686-72845705 MS.gene002293:CDS 45.0%
CTCCCCTCAAGATTACCTTG+AGG - chr2.3:72845639-72845658 MS.gene002293:CDS 50.0%
CTTCACCATAACCCGAAGCA+AGG + chr2.3:72845804-72845823 None:intergenic 50.0%
GAGCACTCTATGGGTCCTTA+TGG - chr2.3:72845772-72845791 MS.gene002293:CDS 50.0%
GAGCATAGGCTTCAAGGGTA+TGG + chr2.3:72845714-72845733 None:intergenic 50.0%
! GAGAACCTTGCTTCGGGTTA+TGG - chr2.3:72845796-72845815 MS.gene002293:CDS 50.0%
!! CTTGAGGGGAGTTTTGTGCT+TGG + chr2.3:72845630-72845649 None:intergenic 50.0%
!! GCTCGAAAAGAGGTTGGTGT+TGG - chr2.3:72845673-72845692 MS.gene002293:CDS 50.0%


Chromosome Type Strat End Strand Name
chr2.3 gene 72845556 72846047 72845556 ID=MS.gene002293
chr2.3 mRNA 72845556 72846047 72845556 ID=MS.gene002293.t1;Parent=MS.gene002293
chr2.3 exon 72845556 72846047 72845556 ID=MS.gene002293.t1.exon1;Parent=MS.gene002293.t1
chr2.3 CDS 72845556 72846047 72845556 ID=cds.MS.gene002293.t1;Parent=MS.gene002293.t1
Gene Sequence

>MS.gene002293

ATGAGGTCTCCACATAATATGATCTTAGCCATTTTCTTCATTTGCTCAATCCTTAGTTGCATGAATATTTCCCAAGCACAAAACTCCCCTCAAGATTACCTTGAGGTACATAATCAAGCTCGAAAAGAGGTTGGTGTTGGTCCACTTTCTTGGAACCATACCCTTGAAGCCTATGCTCAAAACTATGCAAACAAGAGAATTAAAGATTGTGAGCTTGAGCACTCTATGGGTCCTTATGGTGAGAACCTTGCTTCGGGTTATGGTGAAGTGAATGGTACGGATTCTGTGAAGTTTTGGCTAAGTGAAAAGCCTGATTATGATTATCACTCTAACTCTTGTGCTAAAATTGATGAGTGTGGGCATTATACTCAAATTATTTGGCGTGATTCAGTTCATCTTGGTTGTGCTAAGTCCAAATGTAAGAATGGTTGGGTTTTTGTCATTTGTAGCTATTCACCACCAGGCAATATTGAAGGACAACGACCTTATTGA
Protein sequence

>MS.gene002293.t1

MRSPHNMILAIFFICSILSCMNISQAQNSPQDYLEVHNQARKEVGVGPLSWNHTLEAYAQNYANKRIKDCELEHSMGPYGENLASGYGEVNGTDSVKFWLSEKPDYDYHSNSCAKIDECGHYTQIIWRDSVHLGCAKSKCKNGWVFVICSYSPPGNIEGQRPY