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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0268040 | XP_003609600.1 | 96.907 | 97 | 3 | 0 | 1 | 97 | 7 | 103 | 9.95e-63 | 195 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0268040 | sp|Q8L8Z8|GRXS2_ARATH | 86.598 | 97 | 12 | 1 | 1 | 97 | 7 | 102 | 5.85e-57 | 173 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0268040 | G7JJ49 | 96.907 | 97 | 3 | 0 | 1 | 97 | 7 | 103 | 4.75e-63 | 195 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0237040 | Msa0268040 | 0.802817 | 4.685115e-49 | -8.615850e-47 |
| Msa0268020 | Msa0268040 | 0.923244 | 3.427150e-89 | -8.615850e-47 |
| Msa0268030 | Msa0268040 | 0.923344 | 3.005657e-89 | -8.615850e-47 |
| Msa0268040 | Msa0274690 | 0.801789 | 7.627948e-49 | -8.615850e-47 |
| Msa0268040 | Msa0439940 | 0.814270 | 1.678479e-51 | -8.615850e-47 |
| Msa0268040 | Msa1217330 | 0.958234 | 3.900077e-116 | -8.615850e-47 |
| Msa0268040 | Msa1217340 | 0.959417 | 2.028398e-117 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0268040 | MtrunA17_Chr4g0066791 | 96.907 | 97 | 3 | 0 | 1 | 97 | 7 | 103 | 9.15e-67 | 195 |
| Msa0268040 | MtrunA17_Chr4g0066801 | 96.907 | 97 | 3 | 0 | 1 | 97 | 7 | 103 | 9.15e-67 | 195 |
| Msa0268040 | MtrunA17_Chr4g0066811 | 96.907 | 97 | 3 | 0 | 1 | 97 | 7 | 103 | 9.15e-67 | 195 |
| Msa0268040 | MtrunA17_Chr2g0286251 | 81.443 | 97 | 17 | 1 | 1 | 97 | 7 | 102 | 1.95e-54 | 164 |
| Msa0268040 | MtrunA17_Chr2g0286271 | 65.979 | 97 | 32 | 1 | 1 | 97 | 7 | 102 | 1.51e-41 | 132 |
| Msa0268040 | MtrunA17_Chr7g0224091 | 60.825 | 97 | 38 | 0 | 1 | 97 | 28 | 124 | 1.30e-39 | 127 |
| Msa0268040 | MtrunA17_Chr1g0195951 | 59.794 | 97 | 38 | 1 | 1 | 97 | 7 | 102 | 4.48e-39 | 125 |
| Msa0268040 | MtrunA17_Chr7g0268751 | 56.701 | 97 | 41 | 1 | 1 | 97 | 7 | 102 | 1.54e-38 | 124 |
| Msa0268040 | MtrunA17_Chr7g0222551 | 55.789 | 95 | 42 | 0 | 3 | 97 | 38 | 132 | 2.99e-36 | 119 |
| Msa0268040 | MtrunA17_Chr7g0222541 | 54.737 | 95 | 43 | 0 | 3 | 97 | 38 | 132 | 2.82e-35 | 117 |
| Msa0268040 | MtrunA17_Chr7g0222491 | 53.684 | 95 | 44 | 0 | 3 | 97 | 38 | 132 | 7.37e-35 | 115 |
| Msa0268040 | MtrunA17_Chr7g0268731 | 52.083 | 96 | 46 | 0 | 1 | 96 | 7 | 102 | 9.54e-32 | 107 |
| Msa0268040 | MtrunA17_Chr1g0195971 | 54.167 | 96 | 43 | 1 | 1 | 96 | 7 | 101 | 1.41e-31 | 106 |
| Msa0268040 | MtrunA17_Chr7g0268721 | 51.042 | 96 | 47 | 0 | 1 | 96 | 7 | 102 | 4.93e-31 | 105 |
| Msa0268040 | MtrunA17_Chr1g0195981 | 52.222 | 90 | 42 | 1 | 1 | 90 | 7 | 95 | 2.32e-30 | 103 |
| Msa0268040 | MtrunA17_Chr7g0268711 | 51.111 | 90 | 43 | 1 | 1 | 90 | 7 | 95 | 2.50e-30 | 103 |
| Msa0268040 | MtrunA17_Chr1g0195991 | 50.000 | 90 | 44 | 1 | 1 | 90 | 7 | 95 | 3.52e-30 | 103 |
| Msa0268040 | MtrunA17_Chr1g0195931 | 49.485 | 97 | 48 | 1 | 1 | 97 | 7 | 102 | 2.01e-29 | 101 |
| Msa0268040 | MtrunA17_Chr7g0268761 | 45.833 | 96 | 51 | 1 | 1 | 96 | 7 | 101 | 2.27e-27 | 96.3 |
| Msa0268040 | MtrunA17_Chr2g0325001 | 43.299 | 97 | 55 | 0 | 1 | 97 | 44 | 140 | 2.87e-25 | 92.0 |
| Msa0268040 | MtrunA17_Chr4g0040601 | 44.118 | 102 | 47 | 3 | 1 | 97 | 59 | 155 | 2.26e-24 | 90.1 |
| Msa0268040 | MtrunA17_Chr2g0303741 | 47.000 | 100 | 50 | 1 | 1 | 97 | 45 | 144 | 1.24e-23 | 87.8 |
| Msa0268040 | MtrunA17_Chr2g0282951 | 42.574 | 101 | 49 | 2 | 1 | 97 | 32 | 127 | 1.87e-23 | 87.0 |
| Msa0268040 | MtrunA17_Chr1g0151231 | 42.157 | 102 | 50 | 2 | 1 | 97 | 52 | 149 | 1.83e-19 | 77.4 |
| Msa0268040 | MtrunA17_Chr7g0228311 | 42.105 | 95 | 54 | 1 | 1 | 95 | 9 | 102 | 5.87e-18 | 72.4 |
| Msa0268040 | MtrunA17_Chr3g0135811 | 38.144 | 97 | 53 | 2 | 1 | 96 | 27 | 117 | 3.46e-17 | 70.9 |
| Msa0268040 | MtrunA17_Chr1g0182971 | 40.426 | 94 | 54 | 2 | 2 | 94 | 90 | 182 | 1.24e-15 | 68.2 |
| Msa0268040 | MtrunA17_Chr3g0117411 | 36.842 | 95 | 59 | 1 | 1 | 95 | 24 | 117 | 3.33e-15 | 65.9 |
| Msa0268040 | MtrunA17_Chr5g0434201 | 39.535 | 86 | 51 | 1 | 13 | 97 | 38 | 123 | 1.18e-14 | 64.3 |
| Msa0268040 | MtrunA17_Chr3g0117391 | 35.789 | 95 | 60 | 1 | 1 | 95 | 27 | 120 | 4.38e-14 | 62.8 |
| Msa0268040 | MtrunA17_Chr8g0376641 | 37.209 | 86 | 53 | 1 | 13 | 97 | 38 | 123 | 2.51e-12 | 58.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0268040 | AT5G18600.1 | 86.598 | 97 | 12 | 1 | 1 | 97 | 7 | 102 | 5.94e-58 | 173 |
| Msa0268040 | AT4G15680.1 | 79.381 | 97 | 19 | 1 | 1 | 97 | 7 | 102 | 1.41e-55 | 167 |
| Msa0268040 | AT4G15690.1 | 80.412 | 97 | 18 | 1 | 1 | 97 | 7 | 102 | 1.69e-55 | 167 |
| Msa0268040 | AT4G15700.1 | 78.351 | 97 | 20 | 1 | 1 | 97 | 7 | 102 | 8.41e-55 | 166 |
| Msa0268040 | AT4G15670.1 | 78.351 | 97 | 20 | 1 | 1 | 97 | 7 | 102 | 3.24e-54 | 164 |
| Msa0268040 | AT4G15660.1 | 77.320 | 97 | 21 | 1 | 1 | 97 | 7 | 102 | 7.48e-53 | 160 |
| Msa0268040 | AT3G21460.1 | 62.887 | 97 | 35 | 1 | 1 | 97 | 7 | 102 | 1.09e-39 | 127 |
| Msa0268040 | AT3G62930.1 | 57.732 | 97 | 40 | 1 | 1 | 97 | 7 | 102 | 1.30e-39 | 127 |
| Msa0268040 | AT1G03020.1 | 57.732 | 97 | 40 | 1 | 1 | 97 | 7 | 102 | 4.96e-39 | 125 |
| Msa0268040 | AT1G06830.1 | 58.889 | 90 | 36 | 1 | 1 | 90 | 7 | 95 | 1.63e-34 | 114 |
| Msa0268040 | AT2G47870.1 | 51.546 | 97 | 47 | 0 | 1 | 97 | 7 | 103 | 3.02e-34 | 114 |
| Msa0268040 | AT2G30540.1 | 58.889 | 90 | 36 | 1 | 1 | 90 | 7 | 95 | 3.42e-34 | 113 |
| Msa0268040 | AT5G14070.1 | 52.885 | 104 | 42 | 1 | 1 | 97 | 37 | 140 | 8.40e-33 | 111 |
| Msa0268040 | AT3G62950.1 | 48.454 | 97 | 50 | 0 | 1 | 97 | 7 | 103 | 3.35e-32 | 108 |
| Msa0268040 | AT2G47880.1 | 55.556 | 90 | 39 | 1 | 1 | 90 | 7 | 95 | 1.35e-31 | 107 |
| Msa0268040 | AT3G62960.1 | 53.333 | 90 | 41 | 1 | 1 | 90 | 7 | 95 | 6.03e-30 | 102 |
| Msa0268040 | AT3G02000.1 | 53.922 | 102 | 42 | 1 | 1 | 97 | 35 | 136 | 2.38e-28 | 100 |
| Msa0268040 | AT1G28480.1 | 37.000 | 100 | 60 | 1 | 1 | 97 | 38 | 137 | 1.44e-21 | 82.8 |
| Msa0268040 | AT4G33040.1 | 44.660 | 103 | 48 | 3 | 1 | 97 | 45 | 144 | 6.42e-21 | 81.3 |
| Msa0268040 | AT5G11930.1 | 43.299 | 97 | 44 | 3 | 1 | 96 | 61 | 147 | 9.30e-19 | 75.9 |
| Msa0268040 | AT1G03850.2 | 36.082 | 97 | 57 | 1 | 1 | 97 | 59 | 150 | 3.41e-18 | 74.3 |
| Msa0268040 | AT5G63030.1 | 40.000 | 95 | 56 | 1 | 1 | 95 | 25 | 118 | 3.33e-17 | 71.2 |
| Msa0268040 | AT2G20270.1 | 35.484 | 93 | 60 | 0 | 2 | 94 | 82 | 174 | 2.48e-14 | 65.1 |
| Msa0268040 | AT5G40370.1 | 35.789 | 95 | 60 | 1 | 1 | 95 | 9 | 102 | 1.83e-13 | 61.2 |
| Msa0268040 | AT4G28730.1 | 38.298 | 94 | 56 | 2 | 2 | 94 | 77 | 169 | 8.54e-13 | 60.8 |
| Msa0268040 | AT1G03850.1 | 32.927 | 82 | 50 | 1 | 1 | 82 | 59 | 135 | 7.40e-11 | 55.8 |
Find 13 sgRNAs with CRISPR-Local
Find 20 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGTTCAATGTCTCTCCCTCT+TGG | 0.408003 | 2_2:-69910633 | None:intergenic |
| CAAGCACTTATTTCAAGACT+TGG | 0.435000 | 2_2:+69910654 | Msa0268040:CDS |
| TTCATTGGTGGTGAGCTTGT+TGG | 0.448261 | 2_2:+69910702 | Msa0268040:CDS |
| ATGAAGACTCATGACTTGAT+TGG | 0.471874 | 2_2:-69910730 | None:intergenic |
| TCATCAAGTTCATAAACTGC+TGG | 0.480601 | 2_2:-69910606 | None:intergenic |
| ATTGGTGGTGAGCTTGTTGG+TGG | 0.517957 | 2_2:+69910705 | Msa0268040:CDS |
| ATGAAAACAGTTGGAACAGA+TGG | 0.519711 | 2_2:-69910684 | None:intergenic |
| CTCTTGCTGAATATCACCAC+TGG | 0.581366 | 2_2:-69910528 | None:intergenic |
| TAAGCATTGGAATTAAGGAA+CGG | 0.606032 | 2_2:-69910758 | None:intergenic |
| TCACCACCAATGAAAACAGT+TGG | 0.607302 | 2_2:-69910693 | None:intergenic |
| AACTTGATGAGATACCAAGA+GGG | 0.630472 | 2_2:+69910619 | Msa0268040:CDS |
| GAACTTGATGAGATACCAAG+AGG | 0.671905 | 2_2:+69910618 | Msa0268040:CDS |
| GATGGTTTCAGAGAGACCAG+TGG | 0.745891 | 2_2:+69910512 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTTTAAGCATTGGAATTA+AGG | - | chr2_2:69910766-69910785 | None:intergenic | 20.0% |
| ! | AAGACACTATTTTGTGACTT+TGG | + | chr2_2:69910576-69910595 | Msa0268040:CDS | 30.0% |
| !! | TAAGCATTGGAATTAAGGAA+CGG | - | chr2_2:69910761-69910780 | None:intergenic | 30.0% |
| ATTCCAATGCTTAAAAAAGC+TGG | + | chr2_2:69910768-69910787 | Msa0268040:CDS | 30.0% | |
| TCATCAAGTTCATAAACTGC+TGG | - | chr2_2:69910609-69910628 | None:intergenic | 35.0% | |
| AACTTGATGAGATACCAAGA+GGG | + | chr2_2:69910619-69910638 | Msa0268040:CDS | 35.0% | |
| CAAGCACTTATTTCAAGACT+TGG | + | chr2_2:69910654-69910673 | Msa0268040:CDS | 35.0% | |
| ATGAAAACAGTTGGAACAGA+TGG | - | chr2_2:69910687-69910706 | None:intergenic | 35.0% | |
| ! | TCTGTTCCAACTGTTTTCAT+TGG | + | chr2_2:69910687-69910706 | Msa0268040:CDS | 35.0% |
| ATGAAGACTCATGACTTGAT+TGG | - | chr2_2:69910733-69910752 | None:intergenic | 35.0% | |
| TTAAAAAAGCTGGAGCTCTT+TGG | + | chr2_2:69910778-69910797 | Msa0268040:CDS | 35.0% | |
| TAAAAAAGCTGGAGCTCTTT+GGG | + | chr2_2:69910779-69910798 | Msa0268040:CDS | 35.0% | |
| GAACTTGATGAGATACCAAG+AGG | + | chr2_2:69910618-69910637 | Msa0268040:CDS | 40.0% | |
| ! | GTTCCAACTGTTTTCATTGG+TGG | + | chr2_2:69910690-69910709 | Msa0268040:CDS | 40.0% |
| TCACCACCAATGAAAACAGT+TGG | - | chr2_2:69910696-69910715 | None:intergenic | 40.0% | |
| !!! | GCTCCAGCTTTTTTAAGCAT+TGG | - | chr2_2:69910774-69910793 | None:intergenic | 40.0% |
| CTCTTGCTGAATATCACCAC+TGG | - | chr2_2:69910531-69910550 | None:intergenic | 45.0% | |
| TGTTCAATGTCTCTCCCTCT+TGG | - | chr2_2:69910636-69910655 | None:intergenic | 45.0% | |
| !! | TTCATTGGTGGTGAGCTTGT+TGG | + | chr2_2:69910702-69910721 | Msa0268040:CDS | 45.0% |
| !! | ATTGGTGGTGAGCTTGTTGG+TGG | + | chr2_2:69910705-69910724 | Msa0268040:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_2 | gene | 69910513 | 69910806 | 69910513 | ID=Msa0268040;Name=Msa0268040 |
| chr2_2 | mRNA | 69910513 | 69910806 | 69910513 | ID=Msa0268040-mRNA-1;Parent=Msa0268040;Name=Msa0268040-mRNA-1;_AED=0.37;_eAED=0.37;_QI=0|-1|0|1|-1|1|1|0|97 |
| chr2_2 | exon | 69910513 | 69910806 | 69910513 | ID=Msa0268040-mRNA-1:exon:22359;Parent=Msa0268040-mRNA-1 |
| chr2_2 | CDS | 69910513 | 69910806 | 69910513 | ID=Msa0268040-mRNA-1:cds;Parent=Msa0268040-mRNA-1 |
| Gene Sequence |
| Protein sequence |
