AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene01684

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene01684.t1 MTR_2g010580 93.662 142 9 0 1 142 23 164 6.28e-101 286
MS.gene01684.t1 MTR_4g092540 58.865 141 57 1 3 142 19 159 3.32e-61 186
MS.gene01684.t1 MTR_2g010590 53.191 141 65 1 3 142 19 159 8.79e-56 172
MS.gene01684.t1 MTR_2g435490 56.338 142 60 2 3 142 23 164 1.00e-55 172
MS.gene01684.t1 MTR_2g010650 54.483 145 60 3 3 142 22 165 2.30e-53 166
MS.gene01684.t1 MTR_2g010600 50.685 146 68 3 1 142 17 162 4.25e-51 160
MS.gene01684.t1 MTR_4g050762 51.389 144 66 3 3 142 19 162 7.71e-51 160
MS.gene01684.t1 MTR_2g012370 51.389 144 66 3 3 142 19 162 7.71e-51 160
MS.gene01684.t1 MTR_2g010630 52.381 147 62 4 3 142 20 165 9.19e-51 159
MS.gene01684.t1 MTR_2g010690 46.575 146 71 3 3 142 20 164 6.82e-44 142
MS.gene01684.t1 MTR_2g010670 47.260 146 70 3 3 142 20 164 1.84e-43 140
MS.gene01684.t1 MTR_2g010640 46.897 145 71 3 3 142 20 163 1.64e-42 138
MS.gene01684.t1 MTR_2g010700 44.000 150 73 5 3 142 20 168 2.30e-40 133
MS.gene01684.t1 MTR_2g010610 46.479 142 52 4 3 142 19 138 5.59e-40 131
MS.gene01684.t1 MTR_4g128750 47.518 141 71 3 5 142 33 173 5.58e-37 124
MS.gene01684.t1 MTR_4g128770 44.526 137 70 3 12 142 70 206 1.08e-32 114
MS.gene01684.t1 MTR_1g067290 38.519 135 78 3 12 141 73 207 7.24e-27 100
MS.gene01684.t1 MTR_8g078770 40.000 145 71 7 9 142 33 172 3.24e-26 97.4
MS.gene01684.t1 MTR_5g018770 37.589 141 78 6 11 142 46 185 4.19e-24 92.0
MS.gene01684.t1 MTR_4g092515 60.938 64 25 0 3 66 23 86 2.30e-23 89.0
MS.gene01684.t1 MTR_5g018755 35.955 89 51 4 60 142 15 103 8.01e-11 55.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene01684.t1 AT2G19990 59.259 135 53 2 10 142 42 176 7.41e-58 177
MS.gene01684.t1 AT4G33720 56.115 139 60 1 5 142 25 163 5.48e-56 172
MS.gene01684.t1 AT2G14580 54.348 138 62 1 5 142 25 161 9.28e-56 172
MS.gene01684.t1 AT2G14610 56.115 139 60 1 4 142 24 161 4.89e-55 170
MS.gene01684.t1 AT3G19690 50.350 143 66 2 4 142 20 161 2.11e-50 158
MS.gene01684.t1 AT1G50060 53.901 141 63 2 4 142 21 161 1.15e-48 154
MS.gene01684.t1 AT5G26130 53.191 141 63 2 5 142 26 166 1.60e-47 151
MS.gene01684.t1 AT4G33730 51.799 139 66 1 5 142 34 172 1.81e-47 151
MS.gene01684.t1 AT4G33710 50.355 141 67 2 5 142 26 166 3.74e-46 147
MS.gene01684.t1 AT4G25790 48.148 135 67 3 11 142 76 210 7.66e-40 133
MS.gene01684.t1 AT4G07820 47.482 139 70 3 5 142 24 160 1.13e-39 131
MS.gene01684.t1 AT5G57625 48.120 133 66 3 13 142 75 207 4.13e-38 129
MS.gene01684.t1 AT4G30320 47.015 134 69 2 11 142 28 161 4.13e-38 127
MS.gene01684.t1 AT1G01310 48.120 133 67 2 12 142 87 219 4.73e-38 129
MS.gene01684.t1 AT1G50050 47.887 142 71 3 4 142 21 162 5.08e-37 124
MS.gene01684.t1 AT2G19970 43.750 144 69 5 10 142 35 177 8.32e-37 124
MS.gene01684.t1 AT4G31470 45.522 134 71 2 11 142 52 185 9.74e-37 124
MS.gene01684.t1 AT3G09590 40.411 146 83 3 1 142 41 186 2.65e-34 118
MS.gene01684.t1 AT5G02730 45.185 135 70 3 12 142 59 193 3.01e-34 119
MS.gene01684.t1 AT4G25780 44.853 136 69 3 13 142 55 190 5.36e-34 117
MS.gene01684.t1 AT1G50050 45.000 140 74 3 4 140 21 160 2.23e-33 117
MS.gene01684.t1 AT5G66590 41.844 141 75 5 9 142 45 185 6.21e-32 112
MS.gene01684.t1 AT2G19980 42.857 140 64 6 10 142 35 165 8.23e-31 108

Find 36 sgRNAs with CRISPR-Local

Find 40 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGCATTATACTCAAATTATT+TGG 0.165449 2.4:-72734392 MS.gene01684:CDS
TGGTGTTGGTCCACTTTATT+GGG 0.256190 2.4:-72734616 MS.gene01684:CDS
TTGGTGTTGGTCCACTTTAT+TGG 0.259570 2.4:-72734617 MS.gene01684:CDS
AACCCAACCATTCTTACATT+TGG 0.275936 2.4:+72734338 None:intergenic
TTAGAGTGATAATCATAATT+AGG 0.290359 2.4:+72734438 None:intergenic
GTACGGATTCTGTGAAGTTT+TGG 0.310490 2.4:-72734473 MS.gene01684:CDS
GAGCACTCTATAGGTCCTTA+TGG 0.414300 2.4:-72734531 MS.gene01684:CDS
TGTGAACTTGAGCACTCTAT+AGG 0.422051 2.4:-72734540 MS.gene01684:CDS
TGGCGTGATTCTGTTCATCT+TGG 0.440436 2.4:-72734372 MS.gene01684:CDS
GAGAACCTTGCTGAGGGTTA+TGG 0.444830 2.4:-72734507 MS.gene01684:CDS
TATATAAAAGAAAATCAATA+TGG 0.450206 2.4:+72734267 None:intergenic
CGTTCTCCTTCAATATTGCC+TGG 0.451851 2.4:+72734291 None:intergenic
AGTCCAAATGTAAGAATGGT+TGG 0.453283 2.4:-72734341 MS.gene01684:CDS
GAGCATAGGTTTCAAGGGTA+TGG 0.459713 2.4:+72734592 None:intergenic
GTCCAAATGTAAGAATGGTT+GGG 0.466932 2.4:-72734340 MS.gene01684:CDS
GTACCTCAAGGTAATCTTGA+GGG 0.504079 2.4:+72734661 None:intergenic
TCAGCAAGGTTCTCACCATA+AGG 0.519070 2.4:+72734516 None:intergenic
TCACCACCAGGCAATATTGA+AGG 0.535974 2.4:-72734297 MS.gene01684:CDS
TTATGGTGAGAACCTTGCTG+AGG 0.564497 2.4:-72734514 MS.gene01684:CDS
AGGGTATGGTCCCAATAAAG+TGG 0.564583 2.4:+72734606 None:intergenic
GCTCGAGATGAGGTTGGTGT+TGG 0.566361 2.4:-72734630 MS.gene01684:CDS
GCTAAGTCCAAATGTAAGAA+TGG 0.566456 2.4:-72734345 MS.gene01684:CDS
GAGGGTTATGGTGAAGTGAA+TGG 0.598130 2.4:-72734495 MS.gene01684:CDS
TTATGGTGAAGTGAATGGTA+CGG 0.605852 2.4:-72734490 MS.gene01684:CDS
GAGCTTGATTATGTACCTCA+AGG 0.611826 2.4:+72734649 None:intergenic
ATTTGTAGCTATTCACCACC+AGG 0.611970 2.4:-72734309 MS.gene01684:CDS
TATGGTGAGAACCTTGCTGA+GGG 0.618070 2.4:-72734513 MS.gene01684:CDS
AATCAAGCTCGAGATGAGGT+TGG 0.619159 2.4:-72734636 MS.gene01684:CDS
TGTACCTCAAGGTAATCTTG+AGG 0.625790 2.4:+72734660 None:intergenic
TACCTCAAGGTAATCTTGAG+GGG 0.626699 2.4:+72734662 None:intergenic
TCTTGTGTTAATGATGAGTG+TGG 0.652987 2.4:-72734414 MS.gene01684:CDS
ACATAATCAAGCTCGAGATG+AGG 0.662626 2.4:-72734640 MS.gene01684:CDS
CTTCACCATAACCCTCAGCA+AGG 0.671746 2.4:+72734502 None:intergenic
TCTCCTTCAATATTGCCTGG+TGG 0.681941 2.4:+72734294 None:intergenic
CTTGTGTTAATGATGAGTGT+GGG 0.697366 2.4:-72734413 MS.gene01684:CDS
CTCCCCTCAAGATTACCTTG+AGG 0.725233 2.4:-72734664 MS.gene01684:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTAGAGTGATAATCATAATT+AGG + chr2.4:72734533-72734552 None:intergenic 20.0%
! GGCATTATACTCAAATTATT+TGG - chr2.4:72734576-72734595 MS.gene01684:CDS 25.0%
AACCCAACCATTCTTACATT+TGG + chr2.4:72734633-72734652 None:intergenic 35.0%
AGTCCAAATGTAAGAATGGT+TGG - chr2.4:72734627-72734646 MS.gene01684:CDS 35.0%
CTTGTGTTAATGATGAGTGT+GGG - chr2.4:72734555-72734574 MS.gene01684:CDS 35.0%
GCTAAGTCCAAATGTAAGAA+TGG - chr2.4:72734623-72734642 MS.gene01684:CDS 35.0%
GTCCAAATGTAAGAATGGTT+GGG - chr2.4:72734628-72734647 MS.gene01684:CDS 35.0%
TCTTGTGTTAATGATGAGTG+TGG - chr2.4:72734554-72734573 MS.gene01684:CDS 35.0%
TTATGGTGAAGTGAATGGTA+CGG - chr2.4:72734478-72734497 MS.gene01684:CDS 35.0%
!! GTTTTGAGCATAGGTTTCAA+GGG + chr2.4:72734384-72734403 None:intergenic 35.0%
!!! AGTTTTGAGCATAGGTTTCA+AGG + chr2.4:72734385-72734404 None:intergenic 35.0%
!!! GTTTGCATAGTTTTGAGCAT+AGG + chr2.4:72734393-72734412 None:intergenic 35.0%
ACATAATCAAGCTCGAGATG+AGG - chr2.4:72734328-72734347 MS.gene01684:CDS 40.0%
ATTTGTAGCTATTCACCACC+AGG - chr2.4:72734659-72734678 MS.gene01684:CDS 40.0%
GAGCTTGATTATGTACCTCA+AGG + chr2.4:72734322-72734341 None:intergenic 40.0%
GTACCTCAAGGTAATCTTGA+GGG + chr2.4:72734310-72734329 None:intergenic 40.0%
TACCTCAAGGTAATCTTGAG+GGG + chr2.4:72734309-72734328 None:intergenic 40.0%
TGTACCTCAAGGTAATCTTG+AGG + chr2.4:72734311-72734330 None:intergenic 40.0%
TGTGAACTTGAGCACTCTAT+AGG - chr2.4:72734428-72734447 MS.gene01684:CDS 40.0%
! GTACGGATTCTGTGAAGTTT+TGG - chr2.4:72734495-72734514 MS.gene01684:CDS 40.0%
!! TGGTGTTGGTCCACTTTATT+GGG - chr2.4:72734352-72734371 MS.gene01684:CDS 40.0%
!! TTGGTGTTGGTCCACTTTAT+TGG - chr2.4:72734351-72734370 MS.gene01684:CDS 40.0%
AATCAAGCTCGAGATGAGGT+TGG - chr2.4:72734332-72734351 MS.gene01684:CDS 45.0%
AGGGTATGGTCCCAATAAAG+TGG + chr2.4:72734365-72734384 None:intergenic 45.0%
CGTTCTCCTTCAATATTGCC+TGG + chr2.4:72734680-72734699 None:intergenic 45.0%
GAGCACTCTATAGGTCCTTA+TGG - chr2.4:72734437-72734456 MS.gene01684:CDS 45.0%
GAGCATAGGTTTCAAGGGTA+TGG + chr2.4:72734379-72734398 None:intergenic 45.0%
GAGGGTTATGGTGAAGTGAA+TGG - chr2.4:72734473-72734492 MS.gene01684:CDS 45.0%
TATGGTGAGAACCTTGCTGA+GGG - chr2.4:72734455-72734474 MS.gene01684:CDS 45.0%
TCACCACCAGGCAATATTGA+AGG - chr2.4:72734671-72734690 MS.gene01684:CDS 45.0%
TCAGCAAGGTTCTCACCATA+AGG + chr2.4:72734455-72734474 None:intergenic 45.0%
TCTCCTTCAATATTGCCTGG+TGG + chr2.4:72734677-72734696 None:intergenic 45.0%
TGGCGTGATTCTGTTCATCT+TGG - chr2.4:72734596-72734615 MS.gene01684:CDS 45.0%
TTATGGTGAGAACCTTGCTG+AGG - chr2.4:72734454-72734473 MS.gene01684:CDS 45.0%
!! TTGAGGGGAGTTTTGTGCTT+GGG + chr2.4:72734294-72734313 None:intergenic 45.0%
CTCCCCTCAAGATTACCTTG+AGG - chr2.4:72734304-72734323 MS.gene01684:CDS 50.0%
CTTCACCATAACCCTCAGCA+AGG + chr2.4:72734469-72734488 None:intergenic 50.0%
GAGAACCTTGCTGAGGGTTA+TGG - chr2.4:72734461-72734480 MS.gene01684:CDS 50.0%
!! CTTGAGGGGAGTTTTGTGCT+TGG + chr2.4:72734295-72734314 None:intergenic 50.0%
!! GCTCGAGATGAGGTTGGTGT+TGG - chr2.4:72734338-72734357 MS.gene01684:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 72734281 72734709 72734281 ID=MS.gene01684
chr2.4 mRNA 72734281 72734709 72734281 ID=MS.gene01684.t1;Parent=MS.gene01684
chr2.4 exon 72734281 72734709 72734281 ID=MS.gene01684.t1.exon1;Parent=MS.gene01684.t1
chr2.4 CDS 72734281 72734709 72734281 ID=cds.MS.gene01684.t1;Parent=MS.gene01684.t1
Gene Sequence

>MS.gene01684

ATGAATATTTCCCAAGCACAAAACTCCCCTCAAGATTACCTTGAGGTACATAATCAAGCTCGAGATGAGGTTGGTGTTGGTCCACTTTATTGGGACCATACCCTTGAAACCTATGCTCAAAACTATGCAAACAAGAGAATCAAAGATTGTGAACTTGAGCACTCTATAGGTCCTTATGGTGAGAACCTTGCTGAGGGTTATGGTGAAGTGAATGGTACGGATTCTGTGAAGTTTTGGCTAAGTGAAAAGCCTAATTATGATTATCACTCTAACTCTTGTGTTAATGATGAGTGTGGGCATTATACTCAAATTATTTGGCGTGATTCTGTTCATCTTGGTTGTGCTAAGTCCAAATGTAAGAATGGTTGGGTTTTTGTCATTTGTAGCTATTCACCACCAGGCAATATTGAAGGAGAACGACCATATTGA
Protein sequence

>MS.gene01684.t1

MNISQAQNSPQDYLEVHNQARDEVGVGPLYWDHTLETYAQNYANKRIKDCELEHSIGPYGENLAEGYGEVNGTDSVKFWLSEKPNYDYHSNSCVNDECGHYTQIIWRDSVHLGCAKSKCKNGWVFVICSYSPPGNIEGERPY