Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene21409.t1 | XP_013469276.1 | 87.9 | 157 | 18 | 1 | 1 | 156 | 1 | 157 | 9.00E-69 | 269.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene21409.t1 | Q9FJK3 | 42.3 | 156 | 89 | 1 | 1 | 155 | 1 | 156 | 3.0e-28 | 126.3 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene21409.t1 | A0A072VMS9 | 87.9 | 157 | 18 | 1 | 1 | 156 | 1 | 157 | 6.5e-69 | 269.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene21409.t1 | TF | MADS-M-type |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene21409.t1 | MTR_1g090710 | 87.898 | 157 | 18 | 1 | 1 | 156 | 1 | 157 | 2.30e-98 | 280 |
| MS.gene21409.t1 | MTR_1g090697 | 71.795 | 156 | 44 | 0 | 1 | 156 | 1 | 156 | 3.83e-81 | 236 |
| MS.gene21409.t1 | MTR_5g047580 | 54.839 | 155 | 70 | 0 | 1 | 155 | 1 | 155 | 9.09e-58 | 177 |
| MS.gene21409.t1 | MTR_1g090783 | 57.143 | 154 | 66 | 0 | 3 | 156 | 2 | 155 | 2.33e-57 | 176 |
| MS.gene21409.t1 | MTR_1g077390 | 52.258 | 155 | 74 | 0 | 1 | 155 | 1 | 155 | 1.47e-54 | 169 |
| MS.gene21409.t1 | MTR_1g084950 | 55.484 | 155 | 69 | 0 | 1 | 155 | 1 | 155 | 3.34e-51 | 160 |
| MS.gene21409.t1 | MTR_1g077320 | 52.258 | 155 | 74 | 0 | 1 | 155 | 1 | 155 | 8.63e-49 | 155 |
| MS.gene21409.t1 | MTR_4g028720 | 51.613 | 155 | 75 | 0 | 1 | 155 | 1 | 155 | 2.18e-47 | 151 |
| MS.gene21409.t1 | MTR_7g011950 | 50.323 | 155 | 77 | 0 | 1 | 155 | 1 | 155 | 2.93e-46 | 148 |
| MS.gene21409.t1 | MTR_1g077300 | 50.323 | 155 | 75 | 1 | 1 | 155 | 1 | 153 | 5.22e-42 | 137 |
| MS.gene21409.t1 | MTR_5g047560 | 45.161 | 155 | 69 | 1 | 1 | 155 | 1 | 139 | 1.02e-39 | 131 |
| MS.gene21409.t1 | MTR_3g466890 | 43.226 | 155 | 87 | 1 | 3 | 156 | 2 | 156 | 3.61e-37 | 125 |
| MS.gene21409.t1 | MTR_3g466830 | 41.290 | 155 | 90 | 1 | 3 | 156 | 2 | 156 | 2.32e-36 | 123 |
| MS.gene21409.t1 | MTR_3g065100 | 41.667 | 156 | 90 | 1 | 1 | 155 | 1 | 156 | 5.83e-35 | 122 |
| MS.gene21409.t1 | MTR_4g032620 | 35.443 | 158 | 100 | 2 | 1 | 156 | 1 | 158 | 9.54e-35 | 121 |
| MS.gene21409.t1 | MTR_4g031910 | 42.405 | 158 | 89 | 2 | 1 | 156 | 1 | 158 | 3.97e-34 | 119 |
| MS.gene21409.t1 | MTR_3g466980 | 36.364 | 154 | 97 | 1 | 1 | 153 | 1 | 154 | 4.68e-34 | 119 |
| MS.gene21409.t1 | MTR_5g075380 | 38.854 | 157 | 95 | 1 | 1 | 156 | 1 | 157 | 2.59e-32 | 113 |
| MS.gene21409.t1 | MTR_8g036130 | 34.375 | 160 | 101 | 2 | 1 | 156 | 1 | 160 | 7.37e-31 | 111 |
| MS.gene21409.t1 | MTR_4g032260 | 40.385 | 156 | 91 | 2 | 1 | 154 | 1 | 156 | 1.64e-27 | 100 |
| MS.gene21409.t1 | MTR_4g063790 | 36.943 | 157 | 91 | 3 | 1 | 152 | 1 | 154 | 1.71e-27 | 101 |
| MS.gene21409.t1 | MTR_2g016210 | 35.256 | 156 | 99 | 2 | 1 | 154 | 1 | 156 | 1.91e-27 | 102 |
| MS.gene21409.t1 | MTR_3g031240 | 34.591 | 159 | 100 | 3 | 1 | 156 | 1 | 158 | 9.79e-26 | 97.1 |
| MS.gene21409.t1 | MTR_2g035610 | 40.496 | 121 | 71 | 1 | 1 | 120 | 1 | 121 | 1.10e-25 | 95.1 |
| MS.gene21409.t1 | MTR_4g032290 | 40.506 | 158 | 92 | 2 | 1 | 156 | 1 | 158 | 2.96e-25 | 97.1 |
| MS.gene21409.t1 | MTR_3g031100 | 33.544 | 158 | 101 | 3 | 1 | 155 | 1 | 157 | 6.85e-25 | 96.3 |
| MS.gene21409.t1 | MTR_3g467080 | 32.075 | 159 | 102 | 3 | 1 | 155 | 1 | 157 | 4.93e-24 | 92.0 |
| MS.gene21409.t1 | MTR_3g466900 | 38.889 | 126 | 76 | 1 | 32 | 156 | 2 | 127 | 5.68e-24 | 90.9 |
| MS.gene21409.t1 | MTR_3g466930 | 37.302 | 126 | 78 | 1 | 32 | 156 | 2 | 127 | 2.93e-23 | 89.0 |
| MS.gene21409.t1 | MTR_4g028800 | 49.315 | 73 | 35 | 1 | 1 | 73 | 1 | 71 | 2.54e-22 | 85.1 |
| MS.gene21409.t1 | MTR_2g035580 | 35.789 | 95 | 60 | 1 | 1 | 94 | 1 | 95 | 1.20e-19 | 80.5 |
| MS.gene21409.t1 | MTR_4g019670 | 35.185 | 108 | 69 | 1 | 3 | 109 | 6 | 113 | 1.98e-18 | 81.3 |
| MS.gene21409.t1 | MTR_7g106510 | 33.333 | 108 | 71 | 1 | 3 | 109 | 6 | 113 | 2.65e-17 | 78.2 |
| MS.gene21409.t1 | MTR_7g055800 | 28.814 | 118 | 57 | 2 | 1 | 118 | 1 | 91 | 5.23e-15 | 66.6 |
| MS.gene21409.t1 | MTR_3g093900 | 26.452 | 155 | 113 | 1 | 3 | 156 | 6 | 160 | 1.13e-14 | 70.5 |
| MS.gene21409.t1 | MTR_3g465410 | 31.250 | 128 | 82 | 3 | 29 | 152 | 1 | 126 | 1.15e-14 | 67.0 |
| MS.gene21409.t1 | MTR_1g033930 | 40.426 | 94 | 55 | 1 | 64 | 156 | 22 | 115 | 2.82e-14 | 65.5 |
| MS.gene21409.t1 | MTR_6g005450 | 29.518 | 166 | 98 | 6 | 1 | 157 | 1 | 156 | 1.95e-13 | 66.6 |
| MS.gene21409.t1 | MTR_6g018920 | 27.381 | 168 | 99 | 6 | 1 | 157 | 1 | 156 | 5.50e-13 | 65.5 |
| MS.gene21409.t1 | MTR_7g075850 | 29.605 | 152 | 96 | 4 | 1 | 151 | 1 | 142 | 7.35e-12 | 61.6 |
| MS.gene21409.t1 | MTR_1g114730 | 27.439 | 164 | 100 | 5 | 1 | 155 | 1 | 154 | 1.88e-11 | 61.2 |
| MS.gene21409.t1 | MTR_7g055790 | 30.631 | 111 | 58 | 2 | 1 | 110 | 59 | 151 | 3.34e-11 | 58.2 |
| MS.gene21409.t1 | MTR_1g033370 | 32.990 | 97 | 64 | 1 | 61 | 156 | 25 | 121 | 5.71e-11 | 57.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene21409.t1 | AT5G48670 | 42.308 | 156 | 89 | 1 | 1 | 155 | 1 | 156 | 1.98e-31 | 115 |
| MS.gene21409.t1 | AT5G26630 | 40.385 | 156 | 92 | 1 | 1 | 155 | 1 | 156 | 7.13e-31 | 111 |
| MS.gene21409.t1 | AT1G65300 | 37.013 | 154 | 96 | 1 | 3 | 155 | 2 | 155 | 1.97e-30 | 111 |
| MS.gene21409.t1 | AT3G05860 | 38.926 | 149 | 90 | 1 | 1 | 148 | 1 | 149 | 3.81e-30 | 108 |
| MS.gene21409.t1 | AT3G05860 | 38.926 | 149 | 90 | 1 | 1 | 148 | 1 | 149 | 1.54e-29 | 108 |
| MS.gene21409.t1 | AT3G05860 | 38.926 | 149 | 90 | 1 | 1 | 148 | 1 | 149 | 2.18e-29 | 108 |
| MS.gene21409.t1 | AT1G65330 | 37.662 | 154 | 95 | 1 | 3 | 155 | 2 | 155 | 6.19e-28 | 105 |
| MS.gene21409.t1 | AT1G31640 | 35.333 | 150 | 95 | 2 | 3 | 151 | 2 | 150 | 9.61e-26 | 101 |
| MS.gene21409.t1 | AT1G22590 | 34.177 | 158 | 100 | 2 | 1 | 157 | 1 | 155 | 3.88e-25 | 94.7 |
| MS.gene21409.t1 | AT5G26650 | 34.641 | 153 | 99 | 1 | 4 | 155 | 2 | 154 | 7.80e-25 | 98.2 |
| MS.gene21409.t1 | AT5G27960 | 34.641 | 153 | 99 | 1 | 4 | 155 | 2 | 154 | 3.24e-24 | 95.9 |
| MS.gene21409.t1 | AT2G28700 | 40.000 | 110 | 65 | 1 | 1 | 109 | 1 | 110 | 9.40e-24 | 94.7 |
| MS.gene21409.t1 | AT5G06500 | 36.076 | 158 | 93 | 2 | 1 | 154 | 1 | 154 | 2.61e-22 | 89.4 |
| MS.gene21409.t1 | AT1G31630 | 29.801 | 151 | 104 | 2 | 3 | 152 | 2 | 151 | 5.15e-21 | 87.8 |
| MS.gene21409.t1 | AT5G27810 | 37.500 | 96 | 59 | 1 | 29 | 123 | 1 | 96 | 4.60e-19 | 78.2 |
| MS.gene21409.t1 | AT5G26580 | 30.128 | 156 | 94 | 3 | 1 | 155 | 1 | 142 | 8.11e-16 | 73.6 |
| MS.gene21409.t1 | AT2G40210 | 46.667 | 75 | 40 | 0 | 1 | 75 | 1 | 75 | 1.54e-14 | 70.1 |
| MS.gene21409.t1 | AT2G22630 | 50.000 | 52 | 26 | 0 | 1 | 52 | 1 | 52 | 2.77e-11 | 59.7 |
| MS.gene21409.t1 | AT2G22630 | 50.000 | 52 | 26 | 0 | 1 | 52 | 1 | 52 | 2.77e-11 | 59.7 |
Find 35 sgRNAs with CRISPR-Local
Find 34 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACCTCTCAATTATCTTAT+TGG | 0.120149 | 1.4:-71894809 | None:intergenic |
| ATTATCTTATTGGCTCCTTC+TGG | 0.257805 | 1.4:-71894799 | None:intergenic |
| TGCCTTCCTTGCTGCGTCAT+CGG | 0.331092 | 1.4:-71894653 | None:intergenic |
| TGCTGCGTCATCGGGAATAA+AGG | 0.359895 | 1.4:-71894644 | None:intergenic |
| GCCTTCCTTGCTGCGTCATC+GGG | 0.360745 | 1.4:-71894652 | None:intergenic |
| TCTGCATGATAAACCTTTCA+TGG | 0.377114 | 1.4:-71894870 | None:intergenic |
| TTCACCTTTCTTCTCGCCAT+TGG | 0.379933 | 1.4:-71894616 | None:intergenic |
| GATGTGGCCAGACCTCTGTC+TGG | 0.391576 | 1.4:-71894777 | None:intergenic |
| GAGAAGATTGATACACTTGA+TGG | 0.449535 | 1.4:+71895066 | MS.gene21409:CDS |
| TTATTGGCTCCTTCTGGATG+TGG | 0.451748 | 1.4:-71894793 | None:intergenic |
| ACTGAAGAAGTGAAGGATCT+TGG | 0.461931 | 1.4:+71895009 | MS.gene21409:CDS |
| ACCTCTGTCTGGGAATCAAA+TGG | 0.470921 | 1.4:-71894766 | None:intergenic |
| TCAAAGCAAGGGACAAACTA+AGG | 0.480536 | 1.4:+71894899 | MS.gene21409:CDS |
| AAGCTACAATAAAAGAAAGA+AGG | 0.492405 | 1.4:+71894675 | MS.gene21409:CDS |
| AGCTGGAACATCACAAAGAA+TGG | 0.506592 | 1.4:-71894725 | None:intergenic |
| GCAACCAATGGCGAGAAGAA+AGG | 0.507401 | 1.4:+71894612 | None:intergenic |
| TTGATTCCCAGACAGAGGTC+TGG | 0.518159 | 1.4:+71894770 | MS.gene21409:CDS |
| ATGAGAATCGTGAGCAAGAG+TGG | 0.520504 | 1.4:+71894932 | MS.gene21409:CDS |
| CTGAAAATTATAGCACAAGC+TGG | 0.522219 | 1.4:-71894742 | None:intergenic |
| TCCCGATGACGCAGCAAGGA+AGG | 0.534188 | 1.4:+71894651 | MS.gene21409:CDS |
| GCGTGCTGAGAAGAAGTTGA+AGG | 0.552409 | 1.4:+71895035 | MS.gene21409:CDS |
| AAAGAAGGGTCTCATAAAGA+AGG | 0.555375 | 1.4:+71894690 | MS.gene21409:CDS |
| ATGTGGCCAGACCTCTGTCT+GGG | 0.556918 | 1.4:-71894776 | None:intergenic |
| TGCAGACGATTGTCAAAGCA+AGG | 0.562423 | 1.4:+71894887 | MS.gene21409:CDS |
| AGCTACAATAAAAGAAAGAA+GGG | 0.567899 | 1.4:+71894676 | MS.gene21409:CDS |
| GAGGTTTAAAAGTTTAGCTG+TGG | 0.574590 | 1.4:+71894825 | MS.gene21409:CDS |
| CTAGAAATGTGAGCCATGAA+AGG | 0.587767 | 1.4:+71894857 | MS.gene21409:CDS |
| ACTGACTACTGAAGAAGTGA+AGG | 0.595360 | 1.4:+71895002 | MS.gene21409:CDS |
| TCCATTTGATTCCCAGACAG+AGG | 0.627731 | 1.4:+71894765 | MS.gene21409:CDS |
| TGAGAATCGTGAGCAAGAGT+GGG | 0.628956 | 1.4:+71894933 | MS.gene21409:CDS |
| GAGGTCTGGCCACATCCAGA+AGG | 0.636479 | 1.4:+71894784 | MS.gene21409:CDS |
| TTATTCCCGATGACGCAGCA+AGG | 0.647670 | 1.4:+71894647 | MS.gene21409:CDS |
| GAGCCAATAAGATAATTGAG+AGG | 0.656204 | 1.4:+71894806 | MS.gene21409:CDS |
| GCAGACGATTGTCAAAGCAA+GGG | 0.675137 | 1.4:+71894888 | MS.gene21409:CDS |
| TGCTGAGAAGAAGTTGAAGG+AGG | 0.675328 | 1.4:+71895038 | MS.gene21409:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AAACCTCTCAATTATCTTAT+TGG | - | chr1.4:71894812-71894831 | None:intergenic | 25.0% |
| ! | AAGCTACAATAAAAGAAAGA+AGG | + | chr1.4:71894675-71894694 | MS.gene21409:CDS | 25.0% |
| ! | AGCTACAATAAAAGAAAGAA+GGG | + | chr1.4:71894676-71894695 | MS.gene21409:CDS | 25.0% |
| AAAGAAGGGTCTCATAAAGA+AGG | + | chr1.4:71894690-71894709 | MS.gene21409:CDS | 35.0% | |
| CTGAAAATTATAGCACAAGC+TGG | - | chr1.4:71894745-71894764 | None:intergenic | 35.0% | |
| GAGAAGATTGATACACTTGA+TGG | + | chr1.4:71895066-71895085 | MS.gene21409:CDS | 35.0% | |
| GAGCCAATAAGATAATTGAG+AGG | + | chr1.4:71894806-71894825 | MS.gene21409:CDS | 35.0% | |
| GAGGTTTAAAAGTTTAGCTG+TGG | + | chr1.4:71894825-71894844 | MS.gene21409:CDS | 35.0% | |
| TCTGCATGATAAACCTTTCA+TGG | - | chr1.4:71894873-71894892 | None:intergenic | 35.0% | |
| !! | ATTATCTTATTGGCTCCTTC+TGG | - | chr1.4:71894802-71894821 | None:intergenic | 35.0% |
| ACTGAAGAAGTGAAGGATCT+TGG | + | chr1.4:71895009-71895028 | MS.gene21409:CDS | 40.0% | |
| ACTGACTACTGAAGAAGTGA+AGG | + | chr1.4:71895002-71895021 | MS.gene21409:CDS | 40.0% | |
| AGCTGGAACATCACAAAGAA+TGG | - | chr1.4:71894728-71894747 | None:intergenic | 40.0% | |
| CTAGAAATGTGAGCCATGAA+AGG | + | chr1.4:71894857-71894876 | MS.gene21409:CDS | 40.0% | |
| TCAAAGCAAGGGACAAACTA+AGG | + | chr1.4:71894899-71894918 | MS.gene21409:CDS | 40.0% | |
| !!! | AGTGGGATCTTTTTTTGCTC+AGG | + | chr1.4:71894950-71894969 | MS.gene21409:CDS | 40.0% |
| ACCTCTGTCTGGGAATCAAA+TGG | - | chr1.4:71894769-71894788 | None:intergenic | 45.0% | |
| ATGAGAATCGTGAGCAAGAG+TGG | + | chr1.4:71894932-71894951 | MS.gene21409:CDS | 45.0% | |
| GCAGACGATTGTCAAAGCAA+GGG | + | chr1.4:71894888-71894907 | MS.gene21409:CDS | 45.0% | |
| TCCATTTGATTCCCAGACAG+AGG | + | chr1.4:71894765-71894784 | MS.gene21409:CDS | 45.0% | |
| TGAGAATCGTGAGCAAGAGT+GGG | + | chr1.4:71894933-71894952 | MS.gene21409:CDS | 45.0% | |
| TGCAGACGATTGTCAAAGCA+AGG | + | chr1.4:71894887-71894906 | MS.gene21409:CDS | 45.0% | |
| TGCTGAGAAGAAGTTGAAGG+AGG | + | chr1.4:71895038-71895057 | MS.gene21409:CDS | 45.0% | |
| !! | TTATTGGCTCCTTCTGGATG+TGG | - | chr1.4:71894796-71894815 | None:intergenic | 45.0% |
| GCGTGCTGAGAAGAAGTTGA+AGG | + | chr1.4:71895035-71895054 | MS.gene21409:CDS | 50.0% | |
| TGCTGCGTCATCGGGAATAA+AGG | - | chr1.4:71894647-71894666 | None:intergenic | 50.0% | |
| TTATTCCCGATGACGCAGCA+AGG | + | chr1.4:71894647-71894666 | MS.gene21409:CDS | 50.0% | |
| TTGATTCCCAGACAGAGGTC+TGG | + | chr1.4:71894770-71894789 | MS.gene21409:CDS | 50.0% | |
| ATGTGGCCAGACCTCTGTCT+GGG | - | chr1.4:71894779-71894798 | None:intergenic | 55.0% | |
| TGCCTTCCTTGCTGCGTCAT+CGG | - | chr1.4:71894656-71894675 | None:intergenic | 55.0% | |
| GAGGTCTGGCCACATCCAGA+AGG | + | chr1.4:71894784-71894803 | MS.gene21409:CDS | 60.0% | |
| GATGTGGCCAGACCTCTGTC+TGG | - | chr1.4:71894780-71894799 | None:intergenic | 60.0% | |
| GCCTTCCTTGCTGCGTCATC+GGG | - | chr1.4:71894655-71894674 | None:intergenic | 60.0% | |
| TCCCGATGACGCAGCAAGGA+AGG | + | chr1.4:71894651-71894670 | MS.gene21409:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 71894619 | 71895092 | 71894619 | ID=MS.gene21409 |
| chr1.4 | mRNA | 71894619 | 71895092 | 71894619 | ID=MS.gene21409.t1;Parent=MS.gene21409 |
| chr1.4 | exon | 71894619 | 71895092 | 71894619 | ID=MS.gene21409.t1.exon1;Parent=MS.gene21409.t1 |
| chr1.4 | CDS | 71894619 | 71895092 | 71894619 | ID=cds.MS.gene21409.t1;Parent=MS.gene21409.t1 |
| Gene Sequence |
| Protein sequence |
