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.gene48828.t1 | XP_003605266.1 | 86.2 | 116 | 16 | 0 | 1 | 116 | 1 | 116 | 1.60E-46 | 195.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene48828.t1 | A0AT31 | 75.2 | 113 | 28 | 0 | 3 | 115 | 4 | 116 | 2.9e-41 | 169.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene48828.t1 | G7JI87 | 86.2 | 116 | 16 | 0 | 1 | 116 | 1 | 116 | 1.1e-46 | 195.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene48828 | MS.gene53309 | PPI |
| MS.gene48828 | MS.gene76714 | PPI |
| MS.gene48828 | MS.gene48797 | PPI |
| MS.gene53311 | MS.gene48828 | PPI |
| MS.gene48828 | MS.gene82219 | PPI |
| MS.gene48831 | MS.gene48828 | PPI |
| MS.gene53305 | MS.gene48828 | PPI |
| MS.gene48828 | MS.gene76747 | PPI |
| MS.gene48828 | MS.gene76705 | PPI |
| MS.gene48835 | MS.gene48828 | PPI |
| MS.gene48828 | MS.gene77022 | PPI |
| MS.gene48828 | MS.gene82221 | PPI |
| MS.gene76713 | MS.gene48828 | PPI |
| MS.gene48828 | MS.gene48796 | PPI |
| MS.gene77025 | MS.gene48828 | PPI |
| MS.gene48828 | MS.gene82253 | PPI |
| MS.gene53312 | MS.gene48828 | PPI |
| MS.gene48828 | MS.gene76710 | PPI |
| MS.gene48828 | MS.gene48829 | PPI |
| MS.gene48828 | MS.gene76745 | PPI |
| MS.gene48828 | MS.gene82256 | PPI |
| MS.gene48828 | MS.gene82222 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene48828.t1 | MTR_4g027800 | 86.207 | 116 | 16 | 0 | 1 | 116 | 1 | 116 | 7.98e-67 | 197 |
| MS.gene48828.t1 | MTR_4g027840 | 85.217 | 115 | 17 | 0 | 1 | 115 | 1 | 115 | 2.41e-65 | 194 |
| MS.gene48828.t1 | MTR_4g428370 | 82.759 | 116 | 20 | 0 | 1 | 116 | 58 | 173 | 1.82e-64 | 193 |
| MS.gene48828.t1 | MTR_4g029390 | 64.103 | 117 | 39 | 2 | 1 | 115 | 1 | 116 | 4.50e-45 | 142 |
| MS.gene48828.t1 | MTR_4g029350 | 64.103 | 117 | 39 | 2 | 1 | 115 | 1 | 116 | 3.93e-44 | 140 |
| MS.gene48828.t1 | MTR_4g029210 | 50.893 | 112 | 55 | 0 | 1 | 112 | 1 | 112 | 9.98e-33 | 111 |
| MS.gene48828.t1 | MTR_7g072930 | 48.214 | 112 | 55 | 2 | 4 | 113 | 7 | 117 | 1.16e-30 | 107 |
| MS.gene48828.t1 | MTR_4g028190 | 46.491 | 114 | 59 | 2 | 1 | 112 | 5 | 118 | 4.64e-29 | 102 |
| MS.gene48828.t1 | MTR_7g073150 | 47.619 | 105 | 51 | 3 | 12 | 113 | 14 | 117 | 4.45e-28 | 99.8 |
| MS.gene48828.t1 | MTR_7g072730 | 40.179 | 112 | 65 | 2 | 4 | 113 | 7 | 118 | 2.21e-26 | 96.7 |
| MS.gene48828.t1 | MTR_4g028310 | 42.017 | 119 | 66 | 1 | 1 | 116 | 1 | 119 | 2.97e-26 | 95.1 |
| MS.gene48828.t1 | MTR_7g073170 | 42.478 | 113 | 61 | 3 | 4 | 114 | 7 | 117 | 6.57e-26 | 94.0 |
| MS.gene48828.t1 | MTR_7g072830 | 38.596 | 114 | 68 | 1 | 4 | 115 | 7 | 120 | 1.82e-25 | 92.8 |
| MS.gene48828.t1 | MTR_2g062600 | 41.739 | 115 | 65 | 2 | 1 | 114 | 1 | 114 | 4.32e-25 | 91.7 |
| MS.gene48828.t1 | MTR_4g028180 | 40.678 | 118 | 63 | 3 | 5 | 115 | 9 | 126 | 1.62e-24 | 90.5 |
| MS.gene48828.t1 | MTR_4g028250 | 40.678 | 118 | 67 | 2 | 1 | 115 | 1 | 118 | 4.31e-22 | 84.3 |
| MS.gene48828.t1 | MTR_7g073120 | 37.168 | 113 | 69 | 1 | 1 | 111 | 5 | 117 | 6.91e-21 | 82.0 |
| MS.gene48828.t1 | MTR_7g072900 | 43.750 | 112 | 58 | 4 | 4 | 112 | 7 | 116 | 2.66e-20 | 79.7 |
| MS.gene48828.t1 | MTR_7g072960 | 40.187 | 107 | 48 | 3 | 9 | 113 | 11 | 103 | 2.78e-19 | 77.4 |
| MS.gene48828.t1 | MTR_3g467100 | 35.714 | 112 | 71 | 1 | 5 | 115 | 3 | 114 | 8.85e-19 | 75.5 |
| MS.gene48828.t1 | MTR_7g072993 | 41.964 | 112 | 60 | 3 | 4 | 111 | 7 | 117 | 9.85e-19 | 76.3 |
| MS.gene48828.t1 | MTR_7g451500 | 39.130 | 92 | 55 | 1 | 24 | 114 | 7 | 98 | 1.48e-18 | 74.7 |
| MS.gene48828.t1 | MTR_4g028360 | 36.283 | 113 | 69 | 3 | 4 | 114 | 1 | 112 | 4.56e-17 | 71.6 |
| MS.gene48828.t1 | MTR_7g073130 | 38.739 | 111 | 64 | 4 | 4 | 112 | 7 | 115 | 4.80e-17 | 71.6 |
| MS.gene48828.t1 | MTR_7g073100 | 38.053 | 113 | 63 | 2 | 4 | 112 | 7 | 116 | 1.29e-16 | 70.9 |
| MS.gene48828.t1 | MTR_7g072980 | 37.500 | 112 | 66 | 3 | 4 | 112 | 7 | 117 | 1.66e-16 | 70.5 |
| MS.gene48828.t1 | MTR_1g040335 | 40.708 | 113 | 64 | 2 | 5 | 115 | 8 | 119 | 1.81e-16 | 69.7 |
| MS.gene48828.t1 | MTR_7g073060 | 37.719 | 114 | 68 | 3 | 4 | 115 | 7 | 119 | 2.70e-16 | 69.3 |
| MS.gene48828.t1 | MTR_7g072810 | 38.182 | 110 | 60 | 3 | 4 | 111 | 7 | 110 | 8.09e-14 | 63.2 |
| MS.gene48828.t1 | MTR_7g073030 | 35.455 | 110 | 68 | 3 | 4 | 111 | 7 | 115 | 1.72e-13 | 63.2 |
| MS.gene48828.t1 | MTR_3g056640 | 33.929 | 112 | 68 | 3 | 9 | 115 | 12 | 122 | 4.41e-13 | 61.2 |
| MS.gene48828.t1 | MTR_3g046530 | 29.915 | 117 | 76 | 3 | 4 | 115 | 7 | 122 | 5.14e-12 | 58.5 |
| MS.gene48828.t1 | MTR_3g046515 | 31.579 | 114 | 70 | 4 | 4 | 110 | 7 | 119 | 9.98e-12 | 57.8 |
| MS.gene48828.t1 | MTR_1g040330 | 38.596 | 114 | 65 | 4 | 5 | 115 | 8 | 119 | 1.88e-11 | 57.0 |
| MS.gene48828.t1 | MTR_3g464130 | 34.579 | 107 | 62 | 4 | 11 | 110 | 1 | 106 | 2.99e-11 | 56.2 |
| MS.gene48828.t1 | MTR_7g072987 | 47.059 | 68 | 33 | 2 | 25 | 90 | 57 | 123 | 4.37e-11 | 57.0 |
| MS.gene48828.t1 | MTR_3g046540 | 31.579 | 114 | 70 | 4 | 4 | 110 | 7 | 119 | 4.41e-11 | 56.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene48828.t1 | AT2G38540 | 62.931 | 116 | 37 | 6 | 4 | 115 | 5 | 118 | 3.48e-38 | 125 |
| MS.gene48828.t1 | AT5G59320 | 56.364 | 110 | 46 | 1 | 6 | 115 | 8 | 115 | 7.68e-37 | 121 |
| MS.gene48828.t1 | AT5G59310 | 57.273 | 110 | 42 | 2 | 6 | 115 | 8 | 112 | 6.69e-36 | 119 |
| MS.gene48828.t1 | AT2G38530 | 60.000 | 115 | 42 | 4 | 4 | 115 | 5 | 118 | 2.50e-34 | 115 |
| MS.gene48828.t1 | AT3G51600 | 53.043 | 115 | 50 | 4 | 4 | 115 | 5 | 118 | 2.52e-30 | 105 |
| MS.gene48828.t1 | AT3G51590 | 46.364 | 110 | 56 | 3 | 6 | 114 | 8 | 115 | 2.04e-28 | 100 |
| MS.gene48828.t1 | AT2G15050 | 44.068 | 118 | 60 | 4 | 4 | 115 | 5 | 122 | 8.77e-28 | 99.0 |
| MS.gene48828.t1 | AT4G33355 | 45.946 | 111 | 59 | 1 | 5 | 115 | 10 | 119 | 1.14e-26 | 95.9 |
| MS.gene48828.t1 | AT2G15050 | 43.966 | 116 | 59 | 4 | 4 | 113 | 5 | 120 | 2.37e-26 | 95.1 |
| MS.gene48828.t1 | AT4G33355 | 46.729 | 107 | 56 | 1 | 5 | 111 | 10 | 115 | 5.07e-26 | 94.4 |
| MS.gene48828.t1 | AT2G15050 | 44.037 | 109 | 57 | 3 | 4 | 108 | 5 | 113 | 1.37e-25 | 93.2 |
| MS.gene48828.t1 | AT5G01870 | 43.860 | 114 | 56 | 4 | 9 | 115 | 4 | 116 | 1.33e-23 | 88.2 |
| MS.gene48828.t1 | AT3G08770 | 46.392 | 97 | 48 | 3 | 22 | 115 | 18 | 113 | 2.38e-20 | 79.7 |
| MS.gene48828.t1 | AT3G08770 | 46.316 | 95 | 47 | 3 | 22 | 113 | 18 | 111 | 2.94e-19 | 77.0 |
| MS.gene48828.t1 | AT2G18370 | 37.273 | 110 | 67 | 2 | 6 | 114 | 7 | 115 | 9.24e-19 | 75.9 |
| MS.gene48828.t1 | AT2G15325 | 32.967 | 91 | 58 | 2 | 27 | 115 | 31 | 120 | 1.35e-11 | 57.4 |
Find 32 sgRNAs with CRISPR-Local
Find 38 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGTGCTGCTCGTGCTATTTC+TGG | 0.185000 | 4.4:-74113532 | MS.gene48828:CDS |
| GGCGCAGCTTCTTCTCTTCC+TGG | 0.339122 | 4.4:-74113499 | MS.gene48828:CDS |
| CCATGCATTGGATATCTTAG+AGG | 0.354250 | 4.4:-74113655 | MS.gene48828:CDS |
| GCTATTTCTGGTTTGAATAC+AGG | 0.359485 | 4.4:-74113520 | MS.gene48828:CDS |
| CCATCTCCAGCATGCTGTGC+TGG | 0.375274 | 4.4:-74113622 | MS.gene48828:CDS |
| TTGCAAGCAGCCTGACGGTC+AGG | 0.421711 | 4.4:+74113565 | None:intergenic |
| CACCACCACGCCTGACCGTC+AGG | 0.443141 | 4.4:-74113575 | MS.gene48828:CDS |
| ACGGTCAGGCGTGGTGGTGG+CGG | 0.445777 | 4.4:+74113579 | None:intergenic |
| GTCAGGCGTGGTGGTGGCGG+CGG | 0.446691 | 4.4:+74113582 | None:intergenic |
| GGTGCTCTTTCTCCATGCAT+TGG | 0.474474 | 4.4:-74113667 | MS.gene48828:CDS |
| TTCACTCCAGCACAGCATGC+TGG | 0.485039 | 4.4:+74113616 | None:intergenic |
| GTGGAGGTACTGATCTTGTA+TGG | 0.494316 | 4.4:+74113457 | None:intergenic |
| GGATATCTTAGAGGTGGTGC+TGG | 0.504129 | 4.4:-74113646 | MS.gene48828:CDS |
| CTGACGGTCAGGCGTGGTGG+TGG | 0.517462 | 4.4:+74113576 | None:intergenic |
| ATGTTAACACCACATTTGCC+AGG | 0.525937 | 4.4:+74113481 | None:intergenic |
| TGCTGGAGTGAAGAGACTTA+AGG | 0.538170 | 4.4:-74113605 | MS.gene48828:CDS |
| TCTTCTCTTCCTGGCAAATG+TGG | 0.544086 | 4.4:-74113490 | MS.gene48828:CDS |
| CCAGCACAGCATGCTGGAGA+TGG | 0.550113 | 4.4:+74113622 | None:intergenic |
| GTGCATGATTGTTGCACCAA+TGG | 0.554877 | 4.4:-74113722 | MS.gene48828:CDS |
| GAGATTGCAGCCTCTGCCAT+TGG | 0.562691 | 4.4:+74113706 | None:intergenic |
| AGCAGCCTGACGGTCAGGCG+TGG | 0.565783 | 4.4:+74113570 | None:intergenic |
| AACATACGTAGCACAGTTGG+TGG | 0.566288 | 4.4:+74113438 | None:intergenic |
| AGCCTGACGGTCAGGCGTGG+TGG | 0.576862 | 4.4:+74113573 | None:intergenic |
| TGGTCATATTTACAGCATCA+GGG | 0.592414 | 4.4:-74113018 | MS.gene48828:intron |
| CCTCTAAGATATCCAATGCA+TGG | 0.598915 | 4.4:+74113655 | None:intergenic |
| ATGAACATACGTAGCACAGT+TGG | 0.601791 | 4.4:+74113435 | None:intergenic |
| GATTGTTGCACCAATGGCAG+AGG | 0.608779 | 4.4:-74113716 | MS.gene48828:CDS |
| TGCATTGGATATCTTAGAGG+TGG | 0.623803 | 4.4:-74113652 | MS.gene48828:CDS |
| AGCAGTTGCAAGCAGCCTGA+CGG | 0.624471 | 4.4:+74113560 | None:intergenic |
| GCAGAGGCTGCAATCTCATG+TGG | 0.630304 | 4.4:-74113700 | MS.gene48828:CDS |
| ATACGTAGCACAGTTGGTGG+AGG | 0.639269 | 4.4:+74113441 | None:intergenic |
| ATCTCATGTGGACAAGTGAG+TGG | 0.724614 | 4.4:-74113688 | MS.gene48828:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTTTTTATTTATATTTTT+TGG | + | chr4.4:74113454-74113473 | None:intergenic | 0.0% |
| !! | TTAAATTAGTCCACTTAAAA+TGG | - | chr4.4:74113426-74113445 | MS.gene48828:intron | 20.0% |
| !!! | GTTGCTGATTTTTTTTTTGT+TGG | - | chr4.4:74113735-74113754 | MS.gene48828:CDS | 25.0% |
| !!! | TTTTTTGGTGCCATTTTAAG+TGG | + | chr4.4:74113439-74113458 | None:intergenic | 30.0% |
| TGGTCATATTTACAGCATCA+GGG | - | chr4.4:74113755-74113774 | MS.gene48828:CDS | 35.0% | |
| TTGGTCATATTTACAGCATC+AGG | - | chr4.4:74113754-74113773 | MS.gene48828:CDS | 35.0% | |
| !! | GCTATTTCTGGTTTGAATAC+AGG | - | chr4.4:74113253-74113272 | MS.gene48828:intron | 35.0% |
| ATGAACATACGTAGCACAGT+TGG | + | chr4.4:74113341-74113360 | None:intergenic | 40.0% | |
| ATGTTAACACCACATTTGCC+AGG | + | chr4.4:74113295-74113314 | None:intergenic | 40.0% | |
| CCATGCATTGGATATCTTAG+AGG | - | chr4.4:74113118-74113137 | MS.gene48828:intron | 40.0% | |
| TGCATTGGATATCTTAGAGG+TGG | - | chr4.4:74113121-74113140 | MS.gene48828:intron | 40.0% | |
| !! | CCTCTAAGATATCCAATGCA+TGG | + | chr4.4:74113121-74113140 | None:intergenic | 40.0% |
| AACATACGTAGCACAGTTGG+TGG | + | chr4.4:74113338-74113357 | None:intergenic | 45.0% | |
| ATCTCATGTGGACAAGTGAG+TGG | - | chr4.4:74113085-74113104 | MS.gene48828:intron | 45.0% | |
| GTGCATGATTGTTGCACCAA+TGG | - | chr4.4:74113051-74113070 | MS.gene48828:intron | 45.0% | |
| TCTTCTCTTCCTGGCAAATG+TGG | - | chr4.4:74113283-74113302 | MS.gene48828:intron | 45.0% | |
| TGCTGGAGTGAAGAGACTTA+AGG | - | chr4.4:74113168-74113187 | MS.gene48828:intron | 45.0% | |
| !! | GTGGAGGTACTGATCTTGTA+TGG | + | chr4.4:74113319-74113338 | None:intergenic | 45.0% |
| !!! | AATTTCATTATTTTAATTTT+TGG | - | chr4.4:74113536-74113555 | MS.gene48828:CDS | 5.0% |
| GATTGTTGCACCAATGGCAG+AGG | - | chr4.4:74113057-74113076 | MS.gene48828:intron | 50.0% | |
| GGATATCTTAGAGGTGGTGC+TGG | - | chr4.4:74113127-74113146 | MS.gene48828:intron | 50.0% | |
| GGTGCTCTTTCTCCATGCAT+TGG | - | chr4.4:74113106-74113125 | MS.gene48828:intron | 50.0% | |
| !! | AGTGCTGCTCGTGCTATTTC+TGG | - | chr4.4:74113241-74113260 | MS.gene48828:intron | 50.0% |
| !! | ATACGTAGCACAGTTGGTGG+AGG | + | chr4.4:74113335-74113354 | None:intergenic | 50.0% |
| AGCAGTTGCAAGCAGCCTGA+CGG | + | chr4.4:74113216-74113235 | None:intergenic | 55.0% | |
| GAGATTGCAGCCTCTGCCAT+TGG | + | chr4.4:74113070-74113089 | None:intergenic | 55.0% | |
| GCAGAGGCTGCAATCTCATG+TGG | - | chr4.4:74113073-74113092 | MS.gene48828:intron | 55.0% | |
| TTCACTCCAGCACAGCATGC+TGG | + | chr4.4:74113160-74113179 | None:intergenic | 55.0% | |
| CCAGCACAGCATGCTGGAGA+TGG | + | chr4.4:74113154-74113173 | None:intergenic | 60.0% | |
| CCATCTCCAGCATGCTGTGC+TGG | - | chr4.4:74113151-74113170 | MS.gene48828:intron | 60.0% | |
| GGCGCAGCTTCTTCTCTTCC+TGG | - | chr4.4:74113274-74113293 | MS.gene48828:intron | 60.0% | |
| TTGCAAGCAGCCTGACGGTC+AGG | + | chr4.4:74113211-74113230 | None:intergenic | 60.0% | |
| AGCAGCCTGACGGTCAGGCG+TGG | + | chr4.4:74113206-74113225 | None:intergenic | 70.0% | |
| AGCCTGACGGTCAGGCGTGG+TGG | + | chr4.4:74113203-74113222 | None:intergenic | 70.0% | |
| CACCACCACGCCTGACCGTC+AGG | - | chr4.4:74113198-74113217 | MS.gene48828:intron | 70.0% | |
| CTGACGGTCAGGCGTGGTGG+TGG | + | chr4.4:74113200-74113219 | None:intergenic | 70.0% | |
| !! | ACGGTCAGGCGTGGTGGTGG+CGG | + | chr4.4:74113197-74113216 | None:intergenic | 70.0% |
| !! | GTCAGGCGTGGTGGTGGCGG+CGG | + | chr4.4:74113194-74113213 | None:intergenic | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 74113013 | 74113782 | 74113013 | ID=MS.gene48828 |
| chr4.4 | mRNA | 74113013 | 74113782 | 74113013 | ID=MS.gene48828.t1;Parent=MS.gene48828 |
| chr4.4 | exon | 74113445 | 74113782 | 74113445 | ID=MS.gene48828.t1.exon1;Parent=MS.gene48828.t1 |
| chr4.4 | CDS | 74113445 | 74113782 | 74113445 | ID=cds.MS.gene48828.t1;Parent=MS.gene48828.t1 |
| chr4.4 | exon | 74113013 | 74113025 | 74113013 | ID=MS.gene48828.t1.exon2;Parent=MS.gene48828.t1 |
| chr4.4 | CDS | 74113013 | 74113025 | 74113013 | ID=cds.MS.gene48828.t1;Parent=MS.gene48828.t1 |
| Gene Sequence |
| Protein sequence |
