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.gene76714.t1 | XP_003605266.1 | 85 | 107 | 16 | 0 | 1 | 107 | 1 | 107 | 3.40E-42 | 181 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene76714.t1 | A0AT31 | 75.2 | 105 | 26 | 0 | 3 | 107 | 4 | 108 | 9.6e-38 | 157.5 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene76714.t1 | G7JI87 | 85.0 | 107 | 16 | 0 | 1 | 107 | 1 | 107 | 2.4e-42 | 181.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050762 | MS.gene76714 | 0.802617 | 5.15E-49 | -1.69E-46 |
| MS.gene050763 | MS.gene76714 | 0.80348 | 3.42E-49 | -1.69E-46 |
| MS.gene054379 | MS.gene76714 | 0.819052 | 1.42E-52 | -1.69E-46 |
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene77025 | MS.gene76714 | PPI |
| MS.gene76745 | MS.gene76714 | PPI |
| MS.gene82253 | MS.gene76714 | PPI |
| MS.gene53312 | MS.gene76714 | PPI |
| MS.gene77022 | MS.gene76714 | PPI |
| MS.gene48828 | MS.gene76714 | PPI |
| MS.gene82219 | MS.gene76714 | PPI |
| MS.gene76714 | MS.gene82219 | PPI |
| MS.gene76705 | MS.gene76714 | PPI |
| MS.gene76710 | MS.gene76714 | PPI |
| MS.gene48831 | MS.gene76714 | PPI |
| MS.gene48797 | MS.gene76714 | PPI |
| MS.gene53311 | MS.gene76714 | PPI |
| MS.gene53309 | MS.gene76714 | PPI |
| MS.gene48796 | MS.gene76714 | PPI |
| MS.gene76747 | MS.gene76714 | PPI |
| MS.gene53305 | MS.gene76714 | PPI |
| MS.gene76714 | MS.gene82222 | PPI |
| MS.gene82222 | MS.gene76714 | PPI |
| MS.gene82256 | MS.gene76714 | PPI |
| MS.gene48835 | MS.gene76714 | PPI |
| MS.gene48829 | MS.gene76714 | PPI |
| MS.gene76714 | MS.gene53309 | PPI |
| MS.gene76713 | MS.gene76714 | PPI |
| MS.gene82221 | MS.gene76714 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene76714.t1 | MTR_4g027800 | 85.047 | 107 | 16 | 0 | 1 | 107 | 1 | 107 | 6.65e-61 | 182 |
| MS.gene76714.t1 | MTR_4g027840 | 85.047 | 107 | 16 | 0 | 1 | 107 | 1 | 107 | 3.09e-60 | 182 |
| MS.gene76714.t1 | MTR_4g428370 | 76.724 | 116 | 27 | 0 | 1 | 116 | 58 | 173 | 1.01e-58 | 179 |
| MS.gene76714.t1 | MTR_4g029390 | 60.345 | 116 | 43 | 2 | 1 | 114 | 1 | 115 | 1.46e-41 | 134 |
| MS.gene76714.t1 | MTR_4g029350 | 60.345 | 116 | 43 | 2 | 1 | 114 | 1 | 115 | 1.75e-40 | 131 |
| MS.gene76714.t1 | MTR_4g029210 | 47.273 | 110 | 58 | 0 | 1 | 110 | 1 | 110 | 3.74e-30 | 105 |
| MS.gene76714.t1 | MTR_7g072930 | 46.789 | 109 | 55 | 2 | 4 | 110 | 7 | 114 | 5.80e-30 | 105 |
| MS.gene76714.t1 | MTR_4g028190 | 47.664 | 107 | 54 | 2 | 1 | 105 | 5 | 111 | 4.91e-28 | 100 |
| MS.gene76714.t1 | MTR_7g073150 | 41.525 | 118 | 62 | 4 | 12 | 123 | 14 | 130 | 1.32e-26 | 96.7 |
| MS.gene76714.t1 | MTR_7g073170 | 43.363 | 113 | 60 | 3 | 4 | 114 | 7 | 117 | 3.65e-26 | 95.1 |
| MS.gene76714.t1 | MTR_7g072730 | 37.398 | 123 | 75 | 2 | 4 | 124 | 7 | 129 | 7.15e-25 | 93.2 |
| MS.gene76714.t1 | MTR_4g028310 | 41.593 | 113 | 63 | 1 | 1 | 110 | 1 | 113 | 7.81e-24 | 89.4 |
| MS.gene76714.t1 | MTR_7g072830 | 37.615 | 109 | 66 | 1 | 4 | 110 | 7 | 115 | 1.38e-23 | 88.6 |
| MS.gene76714.t1 | MTR_4g028180 | 39.316 | 117 | 64 | 3 | 5 | 114 | 9 | 125 | 6.41e-23 | 87.0 |
| MS.gene76714.t1 | MTR_2g062600 | 42.991 | 107 | 59 | 2 | 1 | 106 | 1 | 106 | 6.84e-23 | 86.7 |
| MS.gene76714.t1 | MTR_7g073120 | 39.806 | 103 | 60 | 1 | 1 | 101 | 5 | 107 | 1.02e-21 | 84.7 |
| MS.gene76714.t1 | MTR_4g028250 | 40.708 | 113 | 64 | 2 | 1 | 110 | 1 | 113 | 8.20e-20 | 79.0 |
| MS.gene76714.t1 | MTR_7g072960 | 38.889 | 108 | 51 | 2 | 4 | 110 | 7 | 100 | 5.94e-19 | 77.0 |
| MS.gene76714.t1 | MTR_7g072900 | 41.284 | 109 | 61 | 2 | 4 | 110 | 7 | 114 | 6.97e-19 | 76.3 |
| MS.gene76714.t1 | MTR_7g072993 | 40.000 | 110 | 63 | 1 | 4 | 110 | 7 | 116 | 9.65e-19 | 76.6 |
| MS.gene76714.t1 | MTR_3g467100 | 37.255 | 102 | 63 | 1 | 5 | 105 | 3 | 104 | 1.05e-16 | 70.9 |
| MS.gene76714.t1 | MTR_7g451500 | 36.957 | 92 | 57 | 1 | 24 | 114 | 7 | 98 | 1.93e-16 | 69.7 |
| MS.gene76714.t1 | MTR_7g073130 | 37.615 | 109 | 64 | 4 | 4 | 110 | 7 | 113 | 4.02e-16 | 69.7 |
| MS.gene76714.t1 | MTR_1g040335 | 41.667 | 108 | 60 | 2 | 5 | 110 | 8 | 114 | 5.33e-16 | 68.9 |
| MS.gene76714.t1 | MTR_7g072980 | 34.862 | 109 | 69 | 1 | 4 | 110 | 7 | 115 | 1.08e-15 | 68.9 |
| MS.gene76714.t1 | MTR_7g073060 | 37.615 | 109 | 65 | 3 | 4 | 110 | 7 | 114 | 1.15e-15 | 68.2 |
| MS.gene76714.t1 | MTR_7g073100 | 36.036 | 111 | 64 | 2 | 4 | 110 | 7 | 114 | 6.90e-15 | 67.0 |
| MS.gene76714.t1 | MTR_7g072810 | 36.000 | 125 | 72 | 3 | 4 | 126 | 7 | 125 | 8.23e-15 | 66.2 |
| MS.gene76714.t1 | MTR_4g028360 | 34.259 | 108 | 68 | 3 | 4 | 109 | 1 | 107 | 4.39e-14 | 64.3 |
| MS.gene76714.t1 | MTR_7g073030 | 33.333 | 108 | 71 | 1 | 4 | 110 | 7 | 114 | 1.28e-12 | 61.2 |
| MS.gene76714.t1 | MTR_3g046350 | 31.683 | 101 | 63 | 3 | 10 | 105 | 13 | 112 | 2.88e-12 | 59.3 |
| MS.gene76714.t1 | MTR_7g072987 | 48.529 | 68 | 32 | 2 | 25 | 90 | 57 | 123 | 4.76e-12 | 59.7 |
| MS.gene76714.t1 | MTR_3g046515 | 31.776 | 107 | 65 | 4 | 4 | 103 | 7 | 112 | 2.12e-11 | 57.0 |
| MS.gene76714.t1 | MTR_3g056640 | 35.714 | 98 | 57 | 3 | 9 | 101 | 12 | 108 | 5.37e-11 | 56.2 |
| MS.gene76714.t1 | MTR_3g046530 | 31.776 | 107 | 65 | 4 | 4 | 103 | 7 | 112 | 6.86e-11 | 55.8 |
| MS.gene76714.t1 | MTR_3g464130 | 34.653 | 101 | 58 | 4 | 11 | 104 | 1 | 100 | 9.03e-11 | 55.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene76714.t1 | AT5G59320 | 53.271 | 107 | 48 | 1 | 8 | 114 | 10 | 114 | 3.02e-33 | 112 |
| MS.gene76714.t1 | AT2G38540 | 61.111 | 108 | 36 | 6 | 4 | 107 | 5 | 110 | 1.22e-32 | 111 |
| MS.gene76714.t1 | AT5G59310 | 54.000 | 100 | 41 | 2 | 8 | 107 | 10 | 104 | 1.65e-29 | 103 |
| MS.gene76714.t1 | AT2G38530 | 53.509 | 114 | 49 | 4 | 4 | 114 | 5 | 117 | 1.19e-28 | 101 |
| MS.gene76714.t1 | AT3G51600 | 52.336 | 107 | 47 | 4 | 4 | 107 | 5 | 110 | 1.62e-26 | 95.9 |
| MS.gene76714.t1 | AT2G15050 | 46.154 | 104 | 52 | 3 | 4 | 103 | 5 | 108 | 4.43e-26 | 94.7 |
| MS.gene76714.t1 | AT2G15050 | 46.154 | 104 | 52 | 3 | 4 | 103 | 5 | 108 | 4.90e-26 | 94.7 |
| MS.gene76714.t1 | AT2G15050 | 46.154 | 104 | 52 | 3 | 4 | 103 | 5 | 108 | 6.31e-26 | 94.7 |
| MS.gene76714.t1 | AT3G51590 | 41.964 | 112 | 62 | 3 | 6 | 116 | 8 | 117 | 1.54e-24 | 90.9 |
| MS.gene76714.t1 | AT4G33355 | 48.454 | 97 | 49 | 1 | 5 | 101 | 10 | 105 | 1.18e-23 | 88.6 |
| MS.gene76714.t1 | AT4G33355 | 48.454 | 97 | 49 | 1 | 5 | 101 | 10 | 105 | 1.33e-23 | 88.6 |
| MS.gene76714.t1 | AT5G01870 | 43.269 | 104 | 51 | 4 | 9 | 105 | 4 | 106 | 7.98e-20 | 79.0 |
| MS.gene76714.t1 | AT3G08770 | 42.708 | 96 | 51 | 3 | 22 | 114 | 18 | 112 | 1.06e-16 | 70.9 |
| MS.gene76714.t1 | AT2G18370 | 41.573 | 89 | 50 | 2 | 15 | 102 | 16 | 103 | 3.34e-16 | 69.3 |
| MS.gene76714.t1 | AT3G08770 | 41.000 | 100 | 55 | 3 | 22 | 118 | 18 | 116 | 3.94e-16 | 69.3 |
Find 33 sgRNAs with CRISPR-Local
Find 43 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGTGCTGCTCGTGCTATTTC+TGG | 0.185000 | 4.1:-71153941 | MS.gene76714:CDS |
| GGCGCAGCTTCTTCTCTTCC+TGG | 0.339122 | 4.1:-71153908 | MS.gene76714:CDS |
| CCATGCATTGGATATCTTAG+AGG | 0.354250 | 4.1:-71154064 | MS.gene76714:CDS |
| GCTATTTCTGGTTTGAATAC+AGG | 0.359485 | 4.1:-71153929 | MS.gene76714:CDS |
| GTGAAAAGTTTCCATAACTT+TGG | 0.365877 | 4.1:+71153379 | None:intergenic |
| CTTCTCTTCCTGGCAAATGT+GGG | 0.388682 | 4.1:-71153898 | MS.gene76714:CDS |
| TTGCAAGCAGCCTGACGGTC+AGG | 0.421711 | 4.1:+71153974 | None:intergenic |
| CACCACCACGCCTGACCGTC+AGG | 0.443141 | 4.1:-71153984 | MS.gene76714:CDS |
| ACGGTCAGGCGTGGTGGTGG+CGG | 0.445777 | 4.1:+71153988 | None:intergenic |
| GTCAGGCGTGGTGGTGGCGG+CGG | 0.446691 | 4.1:+71153991 | None:intergenic |
| GGTGCTCTTTCTCCATGCAT+TGG | 0.474474 | 4.1:-71154076 | MS.gene76714:CDS |
| ATATTGCAGCTCCAAAGTTA+TGG | 0.477723 | 4.1:-71153390 | MS.gene76714:CDS |
| ATGTTAACCCCACATTTGCC+AGG | 0.484504 | 4.1:+71153890 | None:intergenic |
| TCTTCTCTTCCTGGCAAATG+TGG | 0.490145 | 4.1:-71153899 | MS.gene76714:CDS |
| GTGGAGGTACTGATCTTGTA+TGG | 0.494316 | 4.1:+71153866 | None:intergenic |
| TTCACTCCACCACAGCATGC+TGG | 0.495886 | 4.1:+71154025 | None:intergenic |
| GGATATCTTAGAGGTGGTGC+TGG | 0.504129 | 4.1:-71154055 | MS.gene76714:CDS |
| CTGACGGTCAGGCGTGGTGG+TGG | 0.517462 | 4.1:+71153985 | None:intergenic |
| TTCTCTTCCTGGCAAATGTG+GGG | 0.531018 | 4.1:-71153897 | MS.gene76714:CDS |
| TGGTCATATTTGCAGCATCA+GGG | 0.540581 | 4.1:-71153426 | MS.gene76714:intron |
| CCACCACAGCATGCTGGAGA+TGG | 0.543598 | 4.1:+71154031 | None:intergenic |
| CCATCTCCAGCATGCTGTGG+TGG | 0.550747 | 4.1:-71154031 | MS.gene76714:CDS |
| GTGCATGATTGTTGCACCAA+TGG | 0.554877 | 4.1:-71154131 | MS.gene76714:CDS |
| GGTCCATCTCCAGCATGCTG+TGG | 0.560551 | 4.1:-71154034 | MS.gene76714:CDS |
| GAGATTGCAGCCTCTGCCAT+TGG | 0.562691 | 4.1:+71154115 | None:intergenic |
| AGCAGCCTGACGGTCAGGCG+TGG | 0.565783 | 4.1:+71153979 | None:intergenic |
| AGCCTGACGGTCAGGCGTGG+TGG | 0.576862 | 4.1:+71153982 | None:intergenic |
| CCTCTAAGATATCCAATGCA+TGG | 0.598915 | 4.1:+71154064 | None:intergenic |
| GATTGTTGCACCAATGGCAG+AGG | 0.608779 | 4.1:-71154125 | MS.gene76714:CDS |
| TGCATTGGATATCTTAGAGG+TGG | 0.623803 | 4.1:-71154061 | MS.gene76714:CDS |
| AGCAGTTGCAAGCAGCCTGA+CGG | 0.624471 | 4.1:+71153969 | None:intergenic |
| GCAGAGGCTGCAATCTCATG+TGG | 0.630304 | 4.1:-71154109 | MS.gene76714:CDS |
| ATCTCATGTGGACAAGTGAG+TGG | 0.724614 | 4.1:-71154097 | MS.gene76714:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTTTTTATTTATTTTTTT+TGG | + | chr4.1:71153810-71153829 | None:intergenic | 0.0% |
| !!! | TTGCTGATTTTTTTTTTTGT+TGG | - | chr4.1:71154092-71154111 | MS.gene76714:CDS | 20.0% |
| ! | TTAAATTAGTCCACCTAAAA+TGG | - | chr4.1:71153782-71153801 | MS.gene76714:intron | 25.0% |
| !!! | ATTTTTTTTGGTGCCATTTT+AGG | + | chr4.1:71153798-71153817 | None:intergenic | 25.0% |
| GTGAAAAGTTTCCATAACTT+TGG | + | chr4.1:71154162-71154181 | None:intergenic | 30.0% | |
| ATATTGCAGCTCCAAAGTTA+TGG | - | chr4.1:71154148-71154167 | MS.gene76714:CDS | 35.0% | |
| !! | GCTATTTCTGGTTTGAATAC+AGG | - | chr4.1:71153609-71153628 | MS.gene76714:intron | 35.0% |
| !!! | TTTTTTGGTGCCATTTTAGG+TGG | + | chr4.1:71153795-71153814 | None:intergenic | 35.0% |
| ATGAACATACGTAGCACAGT+TGG | + | chr4.1:71153697-71153716 | None:intergenic | 40.0% | |
| CCATGCATTGGATATCTTAG+AGG | - | chr4.1:71153474-71153493 | MS.gene76714:intron | 40.0% | |
| TGCATTGGATATCTTAGAGG+TGG | - | chr4.1:71153477-71153496 | MS.gene76714:intron | 40.0% | |
| TGGTCATATTTGCAGCATCA+GGG | - | chr4.1:71154112-71154131 | MS.gene76714:CDS | 40.0% | |
| TTGGTCATATTTGCAGCATC+AGG | - | chr4.1:71154111-71154130 | MS.gene76714:CDS | 40.0% | |
| !! | CCTCTAAGATATCCAATGCA+TGG | + | chr4.1:71153477-71153496 | None:intergenic | 40.0% |
| AACATACGTAGCACAGTTGG+TGG | + | chr4.1:71153694-71153713 | None:intergenic | 45.0% | |
| ATCTCATGTGGACAAGTGAG+TGG | - | chr4.1:71153441-71153460 | MS.gene76714:intron | 45.0% | |
| ATGTTAACCCCACATTTGCC+AGG | + | chr4.1:71153651-71153670 | None:intergenic | 45.0% | |
| CTTCTCTTCCTGGCAAATGT+GGG | - | chr4.1:71153640-71153659 | MS.gene76714:intron | 45.0% | |
| GTGCATGATTGTTGCACCAA+TGG | - | chr4.1:71153407-71153426 | MS.gene76714:CDS | 45.0% | |
| TCTTCTCTTCCTGGCAAATG+TGG | - | chr4.1:71153639-71153658 | MS.gene76714:intron | 45.0% | |
| TTCTCTTCCTGGCAAATGTG+GGG | - | chr4.1:71153641-71153660 | MS.gene76714:intron | 45.0% | |
| !! | GTGGAGGTACTGATCTTGTA+TGG | + | chr4.1:71153675-71153694 | None:intergenic | 45.0% |
| !!! | AATTTCATTATTTTAATTTT+TGG | - | chr4.1:71153892-71153911 | MS.gene76714:CDS | 5.0% |
| GATTGTTGCACCAATGGCAG+AGG | - | chr4.1:71153413-71153432 | MS.gene76714:CDS | 50.0% | |
| GGATATCTTAGAGGTGGTGC+TGG | - | chr4.1:71153483-71153502 | MS.gene76714:intron | 50.0% | |
| GGTGCTCTTTCTCCATGCAT+TGG | - | chr4.1:71153462-71153481 | MS.gene76714:intron | 50.0% | |
| !! | AGTGCTGCTCGTGCTATTTC+TGG | - | chr4.1:71153597-71153616 | MS.gene76714:intron | 50.0% |
| !! | ATACGTAGCACAGTTGGTGG+AGG | + | chr4.1:71153691-71153710 | None:intergenic | 50.0% |
| AGCAGTTGCAAGCAGCCTGA+CGG | + | chr4.1:71153572-71153591 | None:intergenic | 55.0% | |
| GAGATTGCAGCCTCTGCCAT+TGG | + | chr4.1:71153426-71153445 | None:intergenic | 55.0% | |
| GCAGAGGCTGCAATCTCATG+TGG | - | chr4.1:71153429-71153448 | MS.gene76714:intron | 55.0% | |
| TTCACTCCACCACAGCATGC+TGG | + | chr4.1:71153516-71153535 | None:intergenic | 55.0% | |
| CCACCACAGCATGCTGGAGA+TGG | + | chr4.1:71153510-71153529 | None:intergenic | 60.0% | |
| CCATCTCCAGCATGCTGTGG+TGG | - | chr4.1:71153507-71153526 | MS.gene76714:intron | 60.0% | |
| GGCGCAGCTTCTTCTCTTCC+TGG | - | chr4.1:71153630-71153649 | MS.gene76714:intron | 60.0% | |
| GGTCCATCTCCAGCATGCTG+TGG | - | chr4.1:71153504-71153523 | MS.gene76714:intron | 60.0% | |
| TTGCAAGCAGCCTGACGGTC+AGG | + | chr4.1:71153567-71153586 | None:intergenic | 60.0% | |
| AGCAGCCTGACGGTCAGGCG+TGG | + | chr4.1:71153562-71153581 | None:intergenic | 70.0% | |
| AGCCTGACGGTCAGGCGTGG+TGG | + | chr4.1:71153559-71153578 | None:intergenic | 70.0% | |
| CACCACCACGCCTGACCGTC+AGG | - | chr4.1:71153554-71153573 | MS.gene76714:intron | 70.0% | |
| CTGACGGTCAGGCGTGGTGG+TGG | + | chr4.1:71153556-71153575 | None:intergenic | 70.0% | |
| !! | ACGGTCAGGCGTGGTGGTGG+CGG | + | chr4.1:71153553-71153572 | None:intergenic | 70.0% |
| !! | GTCAGGCGTGGTGGTGGCGG+CGG | + | chr4.1:71153550-71153569 | None:intergenic | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.1 | gene | 71153369 | 71154191 | 71153369 | ID=MS.gene76714 |
| chr4.1 | mRNA | 71153369 | 71154191 | 71153369 | ID=MS.gene76714.t1;Parent=MS.gene76714 |
| chr4.1 | exon | 71153876 | 71154191 | 71153876 | ID=MS.gene76714.t1.exon1;Parent=MS.gene76714.t1 |
| chr4.1 | CDS | 71153876 | 71154191 | 71153876 | ID=cds.MS.gene76714.t1;Parent=MS.gene76714.t1 |
| chr4.1 | exon | 71153369 | 71153433 | 71153369 | ID=MS.gene76714.t1.exon2;Parent=MS.gene76714.t1 |
| chr4.1 | CDS | 71153369 | 71153433 | 71153369 | ID=cds.MS.gene76714.t1;Parent=MS.gene76714.t1 |
| Gene Sequence |
| Protein sequence |
