Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1048200 | XP_027186234.1 | 82.075 | 106 | 18 | 1 | 1 | 105 | 113 | 218 | 1.17e-53 | 177 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1048200 | A0A3Q7WX08 | 82.075 | 106 | 18 | 1 | 1 | 105 | 113 | 218 | 5.58e-54 | 177 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1015730 | Msa1048200 | 0.832421 | 9.545833e-56 | -8.615850e-47 |
| Msa1015790 | Msa1048200 | 0.804907 | 1.724273e-49 | -8.615850e-47 |
| Msa1015810 | Msa1048200 | 0.837599 | 4.726996e-57 | -8.615850e-47 |
| Msa1048200 | Msa1059570 | 0.819809 | 9.554659e-53 | -8.615850e-47 |
| Msa1048200 | Msa1059750 | 0.815394 | 9.455096e-52 | -8.615850e-47 |
| Msa1048200 | Msa1071100 | 0.844023 | 9.768952e-59 | -8.615850e-47 |
| Msa1048200 | Msa1071110 | 0.803042 | 4.210766e-49 | -8.615850e-47 |
| Msa1048200 | Msa1104630 | 0.822193 | 2.700181e-53 | -8.615850e-47 |
| Msa1048200 | Msa1148050 | 0.813298 | 2.747920e-51 | -8.615850e-47 |
| Msa0266690 | Msa1048200 | 0.840974 | 6.294018e-58 | -8.615850e-47 |
| Msa0266720 | Msa1048200 | 0.811747 | 5.997395e-51 | -8.615850e-47 |
PPI
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1048200 | MtrunA17_Chr7g0236201 | 70.139 | 144 | 4 | 1 | 1 | 105 | 646 | 789 | 1.61e-56 | 186 |
| Msa1048200 | MtrunA17_Chr7g0236121 | 66.923 | 130 | 4 | 1 | 1 | 91 | 680 | 809 | 1.24e-46 | 159 |
| Msa1048200 | MtrunA17_Chr7g0236231 | 51.724 | 145 | 29 | 3 | 1 | 105 | 694 | 837 | 5.10e-37 | 132 |
| Msa1048200 | MtrunA17_Chr7g0236341 | 50.000 | 144 | 28 | 2 | 1 | 105 | 694 | 832 | 1.50e-36 | 130 |
| Msa1048200 | MtrunA17_Chr7g0236641 | 53.793 | 145 | 26 | 3 | 1 | 105 | 701 | 844 | 3.83e-36 | 129 |
| Msa1048200 | MtrunA17_Chr4g0055011 | 52.414 | 145 | 28 | 3 | 1 | 105 | 247 | 390 | 8.87e-36 | 125 |
| Msa1048200 | MtrunA17_Chr7g0236551 | 51.034 | 145 | 30 | 3 | 1 | 105 | 664 | 807 | 4.71e-33 | 120 |
| Msa1048200 | MtrunA17_Chr7g0236571 | 48.966 | 145 | 33 | 3 | 1 | 105 | 511 | 654 | 5.37e-33 | 120 |
| Msa1048200 | MtrunA17_Chr7g0236471 | 48.276 | 145 | 34 | 3 | 1 | 105 | 516 | 659 | 2.08e-32 | 118 |
| Msa1048200 | MtrunA17_Chr7g0236531 | 50.345 | 145 | 31 | 3 | 1 | 105 | 214 | 357 | 5.10e-32 | 114 |
| Msa1048200 | MtrunA17_Chr7g0236651 | 49.655 | 145 | 24 | 3 | 1 | 105 | 661 | 796 | 2.60e-31 | 115 |
| Msa1048200 | MtrunA17_Chr7g0236161 | 61.261 | 111 | 23 | 3 | 1 | 91 | 646 | 756 | 5.50e-31 | 114 |
| Msa1048200 | MtrunA17_Chr7g0236691 | 47.586 | 145 | 35 | 3 | 1 | 105 | 676 | 819 | 1.18e-30 | 114 |
| Msa1048200 | MtrunA17_Chr7g0236561 | 44.828 | 145 | 38 | 4 | 1 | 105 | 681 | 823 | 3.62e-28 | 106 |
| Msa1048200 | MtrunA17_Chr2g0280791 | 42.361 | 144 | 41 | 2 | 1 | 105 | 697 | 837 | 5.50e-28 | 106 |
| Msa1048200 | MtrunA17_Chr2g0280801 | 42.361 | 144 | 41 | 2 | 1 | 105 | 703 | 843 | 6.19e-28 | 105 |
| Msa1048200 | MtrunA17_Chr2g0280831 | 41.958 | 143 | 41 | 2 | 1 | 104 | 271 | 410 | 1.30e-27 | 103 |
| Msa1048200 | MtrunA17_Chr2g0280761 | 40.000 | 145 | 44 | 3 | 1 | 105 | 7 | 148 | 3.65e-25 | 92.0 |
| Msa1048200 | MtrunA17_Chr2g0280781 | 40.690 | 145 | 38 | 3 | 1 | 105 | 686 | 822 | 6.73e-24 | 94.4 |
| Msa1048200 | MtrunA17_Chr8g0340051 | 37.931 | 145 | 50 | 2 | 1 | 105 | 205 | 349 | 9.66e-23 | 90.1 |
| Msa1048200 | MtrunA17_Chr8g0340081 | 39.310 | 145 | 47 | 3 | 1 | 105 | 683 | 826 | 4.03e-22 | 89.4 |
| Msa1048200 | MtrunA17_Chr7g0236511 | 43.939 | 132 | 33 | 3 | 14 | 105 | 669 | 799 | 7.64e-21 | 85.9 |
| Msa1048200 | MtrunA17_Chr8g0340071 | 38.621 | 145 | 48 | 3 | 1 | 105 | 679 | 822 | 1.31e-20 | 85.1 |
| Msa1048200 | MtrunA17_Chr8g0340091 | 36.552 | 145 | 52 | 2 | 1 | 105 | 708 | 852 | 1.60e-20 | 84.7 |
| Msa1048200 | MtrunA17_Chr8g0340111 | 38.621 | 145 | 48 | 3 | 1 | 105 | 681 | 824 | 4.41e-19 | 80.9 |
| Msa1048200 | MtrunA17_Chr8g0358161 | 38.793 | 116 | 60 | 4 | 1 | 105 | 222 | 337 | 5.39e-19 | 79.7 |
| Msa1048200 | MtrunA17_Chr4g0048631 | 32.414 | 145 | 58 | 2 | 1 | 105 | 708 | 852 | 8.32e-18 | 77.0 |
| Msa1048200 | MtrunA17_Chr2g0280691 | 33.333 | 144 | 52 | 2 | 1 | 105 | 702 | 840 | 4.26e-17 | 75.1 |
| Msa1048200 | MtrunA17_Chr8g0361161 | 38.739 | 111 | 29 | 1 | 1 | 72 | 220 | 330 | 7.95e-17 | 73.9 |
| Msa1048200 | MtrunA17_Chr8g0360201 | 35.333 | 150 | 45 | 4 | 1 | 105 | 582 | 724 | 8.16e-17 | 74.3 |
| Msa1048200 | MtrunA17_Chr8g0357781 | 31.973 | 147 | 58 | 4 | 1 | 105 | 7 | 153 | 9.47e-17 | 70.9 |
| Msa1048200 | MtrunA17_Chr8g0361141 | 38.739 | 111 | 29 | 1 | 1 | 72 | 692 | 802 | 1.30e-16 | 73.9 |
| Msa1048200 | MtrunA17_Chr3g0081031 | 36.552 | 145 | 51 | 3 | 1 | 105 | 528 | 671 | 4.58e-16 | 72.0 |
| Msa1048200 | MtrunA17_Chr8g0357881 | 32.653 | 147 | 57 | 4 | 1 | 105 | 652 | 798 | 5.63e-16 | 72.0 |
| Msa1048200 | MtrunA17_Chr2g0280731 | 45.455 | 99 | 45 | 3 | 1 | 94 | 726 | 820 | 4.41e-15 | 69.3 |
| Msa1048200 | MtrunA17_Chr8g0358061 | 31.783 | 129 | 48 | 2 | 1 | 89 | 232 | 360 | 9.19e-14 | 65.5 |
| Msa1048200 | MtrunA17_Chr8g0357691 | 39.823 | 113 | 26 | 3 | 1 | 72 | 654 | 765 | 2.00e-13 | 64.7 |
| Msa1048200 | MtrunA17_Chr7g0236631 | 79.412 | 34 | 7 | 0 | 1 | 34 | 30 | 63 | 3.65e-13 | 59.7 |
| Msa1048200 | MtrunA17_Chr2g0280751 | 45.679 | 81 | 38 | 2 | 1 | 79 | 702 | 778 | 6.04e-13 | 63.2 |
| Msa1048200 | MtrunA17_Chr4g0048581 | 34.862 | 109 | 32 | 1 | 1 | 70 | 707 | 815 | 4.98e-12 | 60.8 |
| Msa1048200 | MtrunA17_Chr3g0081101 | 32.215 | 149 | 54 | 4 | 1 | 105 | 14 | 159 | 9.24e-12 | 57.8 |
| Msa1048200 | MtrunA17_Chr4g0048571 | 70.732 | 41 | 11 | 1 | 1 | 40 | 112 | 152 | 1.96e-11 | 57.8 |
| Msa1048200 | MtrunA17_Chr8g0357901 | 59.524 | 42 | 16 | 1 | 1 | 41 | 24 | 65 | 6.02e-11 | 54.3 |
| Msa1048200 | MtrunA17_Chr8g0357911 | 75.000 | 32 | 8 | 0 | 1 | 32 | 81 | 112 | 9.21e-11 | 54.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1048200 | AT1G11350.1 | 37.931 | 145 | 49 | 3 | 1 | 105 | 687 | 830 | 1.27e-18 | 79.7 |
| Msa1048200 | AT1G65790.1 | 34.667 | 150 | 53 | 3 | 1 | 105 | 694 | 843 | 1.49e-16 | 73.9 |
| Msa1048200 | AT1G61610.1 | 34.247 | 146 | 52 | 3 | 1 | 105 | 700 | 842 | 5.04e-16 | 72.4 |
| Msa1048200 | AT1G65800.1 | 34.667 | 150 | 53 | 3 | 1 | 105 | 698 | 847 | 1.62e-15 | 70.9 |
Find 17 sgRNAs with CRISPR-Local
Find 30 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGAGACTTACAAATCCTAAA+AGG | 0.259740 | 7_2:+9829039 | None:intergenic |
| AGGATGAATGCAGGTTTCTT+TGG | 0.278631 | 7_2:+9828750 | None:intergenic |
| AAATCTGATGTCTTTAGCTT+TGG | 0.345102 | 7_2:-9829128 | Msa1048200:CDS |
| AGCTCAGCATATTCTGCTTC+AGG | 0.350787 | 7_2:+9828730 | None:intergenic |
| TTACTTCTTGAGATTATTAG+TGG | 0.401314 | 7_2:-9829101 | Msa1048200:CDS |
| AGCCATGGCAGGTCTGTCTA+TGG | 0.438416 | 7_2:+9828818 | None:intergenic |
| TTCTTAGTTGCTATCTGCCA+TGG | 0.478576 | 7_2:+9828643 | None:intergenic |
| ATGAATGCAGGTTTCTTTGG+AGG | 0.482900 | 7_2:+9828753 | None:intergenic |
| TTCTGCTTCAGGATGAATGC+AGG | 0.505374 | 7_2:+9828741 | None:intergenic |
| GAGACTTACAAATCCTAAAA+GGG | 0.509312 | 7_2:+9829040 | None:intergenic |
| GAAATTACAGCAGCCATGGC+AGG | 0.512109 | 7_2:+9828807 | None:intergenic |
| TTCCATAGACAGACCTGCCA+TGG | 0.532711 | 7_2:-9828820 | Msa1048200:CDS |
| CATAGAAATTACAGCAGCCA+TGG | 0.562517 | 7_2:+9828803 | None:intergenic |
| GTCAGTATTTCAGACATCCA+TGG | 0.566164 | 7_2:-9828660 | Msa1048200:CDS |
| TGACTTGTACTCTGTCAACT+TGG | 0.569181 | 7_2:-9828682 | Msa1048200:CDS |
| TCTCCATAATATGCAATGCA+AGG | 0.601837 | 7_2:-9829164 | None:intergenic |
| GAAGCAGAATATGCTGAGCT+CGG | 0.612256 | 7_2:-9828727 | Msa1048200:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAAATATATTTATGATGGAT+AGG | + | chr7_2:9828923-9828942 | None:intergenic | 15.0% |
| !!! | TCCATCATAAATATATTTTG+AGG | - | chr7_2:9828924-9828943 | Msa1048200:intron | 20.0% |
| !! | ACCTCAAAATATATTTATGA+TGG | + | chr7_2:9828928-9828947 | None:intergenic | 20.0% |
| ! | TTACTTCTTGAGATTATTAG+TGG | - | chr7_2:9828701-9828720 | Msa1048200:CDS | 25.0% |
| !!! | GACATTTGTTTTGTCAATTT+AGG | - | chr7_2:9828838-9828857 | Msa1048200:intron | 25.0% |
| !!! | TTGTTTTGTCAATTTAGGTA+TGG | - | chr7_2:9828843-9828862 | Msa1048200:intron | 25.0% |
| ! | AAATCTGATGTCTTTAGCTT+TGG | - | chr7_2:9828674-9828693 | Msa1048200:CDS | 30.0% |
| GAGACTTACAAATCCTAAAA+GGG | + | chr7_2:9828765-9828784 | None:intergenic | 30.0% | |
| AGAGACTTACAAATCCTAAA+AGG | + | chr7_2:9828766-9828785 | None:intergenic | 30.0% | |
| CAATTTAGGTATGGATACAA+TGG | - | chr7_2:9828852-9828871 | Msa1048200:intron | 30.0% | |
| !!! | ATTTTGAGGTCTATACACAT+AGG | - | chr7_2:9828938-9828957 | Msa1048200:intron | 30.0% |
| !!! | TTTTGAGGTCTATACACATA+GGG | - | chr7_2:9828939-9828958 | Msa1048200:intron | 30.0% |
| GTATGGATACAATGGCAAAA+AGG | - | chr7_2:9828860-9828879 | Msa1048200:intron | 35.0% | |
| TATATTCCTGGATCTATCAG+TGG | + | chr7_2:9828896-9828915 | None:intergenic | 35.0% | |
| TGGATAGGTTCATATATTCC+TGG | + | chr7_2:9828908-9828927 | None:intergenic | 35.0% | |
| !! | AAGTCATCGTTGTTTTCTTC+AGG | + | chr7_2:9829106-9829125 | None:intergenic | 35.0% |
| ATTCTACCACTGATAGATCC+AGG | - | chr7_2:9828887-9828906 | Msa1048200:intron | 40.0% | |
| CATAGAAATTACAGCAGCCA+TGG | + | chr7_2:9829002-9829021 | None:intergenic | 40.0% | |
| ATGAATGCAGGTTTCTTTGG+AGG | + | chr7_2:9829052-9829071 | None:intergenic | 40.0% | |
| AGGATGAATGCAGGTTTCTT+TGG | + | chr7_2:9829055-9829074 | None:intergenic | 40.0% | |
| ! | TGACTTGTACTCTGTCAACT+TGG | - | chr7_2:9829120-9829139 | Msa1048200:CDS | 40.0% |
| GTCAGTATTTCAGACATCCA+TGG | - | chr7_2:9829142-9829161 | Msa1048200:CDS | 40.0% | |
| CATAGGGCTTCTATGTGTAC+AGG | - | chr7_2:9828955-9828974 | Msa1048200:intron | 45.0% | |
| TTCTGCTTCAGGATGAATGC+AGG | + | chr7_2:9829064-9829083 | None:intergenic | 45.0% | |
| AGCTCAGCATATTCTGCTTC+AGG | + | chr7_2:9829075-9829094 | None:intergenic | 45.0% | |
| GAAGCAGAATATGCTGAGCT+CGG | - | chr7_2:9829075-9829094 | Msa1048200:CDS | 45.0% | |
| ! | TGCGAGTCTCTGACCCTTTT+AGG | - | chr7_2:9828749-9828768 | Msa1048200:CDS | 50.0% |
| TTCCATAGACAGACCTGCCA+TGG | - | chr7_2:9828982-9829001 | Msa1048200:intron | 50.0% | |
| GAAATTACAGCAGCCATGGC+AGG | + | chr7_2:9828998-9829017 | None:intergenic | 50.0% | |
| AGCCATGGCAGGTCTGTCTA+TGG | + | chr7_2:9828987-9829006 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_2 | gene | 9828653 | 9829171 | 9828653 | ID=Msa1048200;Name=Msa1048200 |
| chr7_2 | mRNA | 9828653 | 9829171 | 9828653 | ID=Msa1048200-mRNA-1;Parent=Msa1048200;Name=Msa1048200-mRNA-1;_AED=0.48;_eAED=0.48;_QI=0|0|0|1|1|1|2|0|105 |
| chr7_2 | exon | 9829049 | 9829171 | 9829049 | ID=Msa1048200-mRNA-1:exon:2576;Parent=Msa1048200-mRNA-1 |
| chr7_2 | exon | 9828653 | 9828847 | 9828653 | ID=Msa1048200-mRNA-1:exon:2575;Parent=Msa1048200-mRNA-1 |
| chr7_2 | CDS | 9829049 | 9829171 | 9829049 | ID=Msa1048200-mRNA-1:cds;Parent=Msa1048200-mRNA-1 |
| chr7_2 | CDS | 9828653 | 9828847 | 9828653 | ID=Msa1048200-mRNA-1:cds;Parent=Msa1048200-mRNA-1 |
| Gene Sequence |
| Protein sequence |
