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.gene93236.t1 | XP_003622535.1 | 88.3 | 145 | 17 | 0 | 1 | 145 | 1 | 145 | 3.40E-70 | 274.2 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene93236.t1 | P62927 | 42.7 | 131 | 69 | 4 | 1 | 128 | 1 | 128 | 6.7e-19 | 95.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene93236.t1 | G7KTY0 | 88.3 | 145 | 17 | 0 | 1 | 145 | 1 | 145 | 2.4e-70 | 274.2 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene055601 | MS.gene93236 | 0.818219 | 2.20E-52 | -1.69E-46 |
| MS.gene056690 | MS.gene93236 | 0.804854 | 1.77E-49 | -1.69E-46 |
| MS.gene056899 | MS.gene93236 | 0.829936 | 3.90E-55 | -1.69E-46 |
| MS.gene059043 | MS.gene93236 | 0.816064 | 6.70E-52 | -1.69E-46 |
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.gene93236.t1 | MTR_7g044980 | 88.276 | 145 | 17 | 0 | 1 | 145 | 1 | 145 | 6.64e-94 | 268 |
| MS.gene93236.t1 | MTR_7g044920 | 57.895 | 152 | 57 | 3 | 1 | 145 | 1 | 152 | 9.90e-55 | 169 |
| MS.gene93236.t1 | MTR_8g056800 | 69.792 | 96 | 28 | 1 | 50 | 145 | 7 | 101 | 1.01e-43 | 139 |
| MS.gene93236.t1 | MTR_3g436100 | 45.161 | 155 | 74 | 6 | 1 | 145 | 1 | 154 | 1.55e-36 | 123 |
| MS.gene93236.t1 | MTR_6g017170 | 54.032 | 124 | 49 | 6 | 1 | 117 | 1 | 123 | 4.29e-34 | 116 |
| MS.gene93236.t1 | MTR_8g022430 | 48.837 | 129 | 58 | 5 | 1 | 124 | 1 | 126 | 4.41e-34 | 116 |
| MS.gene93236.t1 | MTR_8g022400 | 50.382 | 131 | 59 | 4 | 1 | 125 | 1 | 131 | 1.22e-33 | 115 |
| MS.gene93236.t1 | MTR_8g022420 | 51.145 | 131 | 57 | 6 | 1 | 125 | 1 | 130 | 7.78e-33 | 113 |
| MS.gene93236.t1 | MTR_6g017150 | 51.515 | 132 | 57 | 6 | 1 | 125 | 1 | 132 | 3.12e-32 | 111 |
| MS.gene93236.t1 | MTR_3g067270 | 47.287 | 129 | 64 | 3 | 1 | 125 | 1 | 129 | 6.48e-32 | 110 |
| MS.gene93236.t1 | MTR_3g467750 | 47.287 | 129 | 64 | 3 | 1 | 125 | 1 | 129 | 6.48e-32 | 110 |
| MS.gene93236.t1 | MTR_3g463570 | 48.855 | 131 | 61 | 5 | 1 | 125 | 1 | 131 | 1.33e-31 | 110 |
| MS.gene93236.t1 | MTR_8g461020 | 46.617 | 133 | 63 | 4 | 3 | 128 | 4 | 135 | 2.21e-31 | 109 |
| MS.gene93236.t1 | MTR_3g067280 | 46.512 | 129 | 65 | 3 | 1 | 125 | 1 | 129 | 1.18e-30 | 107 |
| MS.gene93236.t1 | MTR_3g067437 | 47.287 | 129 | 63 | 3 | 1 | 124 | 1 | 129 | 1.42e-30 | 107 |
| MS.gene93236.t1 | MTR_6g036620 | 45.517 | 145 | 62 | 6 | 1 | 141 | 1 | 132 | 5.13e-29 | 103 |
| MS.gene93236.t1 | MTR_7g056817 | 47.015 | 134 | 62 | 5 | 1 | 125 | 1 | 134 | 9.19e-28 | 100 |
| MS.gene93236.t1 | MTR_4g026590 | 42.038 | 157 | 67 | 5 | 1 | 145 | 1 | 145 | 4.68e-27 | 99.0 |
| MS.gene93236.t1 | MTR_3g463570 | 43.307 | 127 | 68 | 3 | 3 | 125 | 25 | 151 | 2.27e-26 | 97.4 |
| MS.gene93236.t1 | MTR_6g047880 | 43.182 | 132 | 66 | 6 | 1 | 124 | 1 | 131 | 6.66e-26 | 95.5 |
| MS.gene93236.t1 | MTR_6g047900 | 45.865 | 133 | 60 | 7 | 1 | 125 | 1 | 129 | 3.02e-25 | 94.0 |
| MS.gene93236.t1 | MTR_3g067510 | 46.218 | 119 | 50 | 4 | 1 | 109 | 1 | 115 | 2.25e-24 | 91.7 |
| MS.gene93236.t1 | MTR_3g067570 | 48.913 | 92 | 42 | 2 | 21 | 109 | 1 | 90 | 3.62e-24 | 89.7 |
| MS.gene93236.t1 | MTR_7g056803 | 46.617 | 133 | 63 | 6 | 1 | 125 | 1 | 133 | 5.49e-24 | 90.9 |
| MS.gene93236.t1 | MTR_3g067430 | 40.000 | 135 | 71 | 4 | 1 | 125 | 1 | 135 | 8.19e-24 | 90.5 |
| MS.gene93236.t1 | MTR_3g467760 | 41.732 | 127 | 50 | 4 | 1 | 125 | 1 | 105 | 1.15e-23 | 89.0 |
| MS.gene93236.t1 | MTR_3g067510 | 44.355 | 124 | 50 | 4 | 1 | 109 | 1 | 120 | 1.74e-23 | 89.4 |
| MS.gene93236.t1 | MTR_3g067500 | 39.823 | 113 | 65 | 2 | 21 | 130 | 1 | 113 | 1.20e-22 | 86.7 |
| MS.gene93236.t1 | MTR_3g067445 | 42.735 | 117 | 58 | 3 | 1 | 108 | 1 | 117 | 4.43e-22 | 85.1 |
| MS.gene93236.t1 | MTR_3g067580 | 40.458 | 131 | 72 | 4 | 1 | 125 | 9 | 139 | 5.10e-22 | 85.9 |
| MS.gene93236.t1 | MTR_3g067540 | 42.647 | 136 | 66 | 7 | 1 | 125 | 1 | 135 | 1.89e-21 | 84.3 |
| MS.gene93236.t1 | MTR_3g067555 | 42.647 | 136 | 66 | 7 | 1 | 125 | 1 | 135 | 1.89e-21 | 84.3 |
| MS.gene93236.t1 | MTR_1g019650 | 43.966 | 116 | 54 | 6 | 1 | 114 | 1 | 107 | 3.59e-20 | 80.1 |
| MS.gene93236.t1 | MTR_7g029540 | 39.535 | 129 | 54 | 6 | 1 | 114 | 1 | 120 | 2.12e-19 | 78.6 |
| MS.gene93236.t1 | MTR_3g067535 | 43.382 | 136 | 61 | 9 | 1 | 125 | 1 | 131 | 3.58e-19 | 78.2 |
| MS.gene93236.t1 | MTR_3g067555 | 39.024 | 123 | 64 | 6 | 13 | 125 | 1 | 122 | 2.06e-16 | 70.9 |
| MS.gene93236.t1 | MTR_3g067550 | 39.130 | 115 | 59 | 6 | 21 | 125 | 1 | 114 | 1.88e-14 | 65.5 |
| MS.gene93236.t1 | MTR_3g067555 | 39.130 | 115 | 59 | 6 | 21 | 125 | 1 | 114 | 1.88e-14 | 65.5 |
| MS.gene93236.t1 | MTR_3g067830 | 40.000 | 105 | 51 | 5 | 1 | 95 | 1 | 103 | 3.46e-12 | 59.7 |
| MS.gene93236.t1 | MTR_6g082060 | 35.484 | 155 | 77 | 6 | 1 | 141 | 1 | 146 | 5.90e-12 | 59.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 41 sgRNAs with CRISPR-Local
Find 47 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAAGAATCCATTTCCATTAA+TGG | 0.138065 | 7.4:-57653341 | None:intergenic |
| CCATGTTCGATTTCAGAATT+AGG | 0.219721 | 7.4:-57653226 | None:intergenic |
| AAGAATCCATTTCCATTAAT+GGG | 0.254802 | 7.4:-57653340 | None:intergenic |
| ACTGTATCTTACCCCATTAA+TGG | 0.304225 | 7.4:+57653328 | MS.gene93236:CDS |
| GGCTTATGTTAAGCTTGCTT+TGG | 0.344621 | 7.4:+57652609 | MS.gene93236:CDS |
| TCTTACCCCATTAATGGAAA+TGG | 0.347113 | 7.4:+57653334 | MS.gene93236:CDS |
| TGCCTCGCGTGGGGAATAAT+TGG | 0.352167 | 7.4:+57653088 | MS.gene93236:CDS |
| GATTGCATCAAGAAGGGAAA+TGG | 0.393047 | 7.4:+57653184 | MS.gene93236:CDS |
| CATGTGGGATTGACATAAGT+TGG | 0.416016 | 7.4:-57653161 | None:intergenic |
| GCGTTCGGCTTCAACGTTAG+AGG | 0.426857 | 7.4:-57653260 | None:intergenic |
| CCACGCGAGGCAACCACATC+CGG | 0.431307 | 7.4:-57653077 | None:intergenic |
| CATGCTTCTACCTTCTTCAT+CGG | 0.451053 | 7.4:-57653010 | None:intergenic |
| ATGCTTCTACCTTCTTCATC+GGG | 0.462775 | 7.4:-57653009 | None:intergenic |
| GATTAAGTGGCAATCTCTAC+AGG | 0.474451 | 7.4:-57653370 | None:intergenic |
| CCGGATGTGGTTGCCTCGCG+TGG | 0.488380 | 7.4:+57653077 | MS.gene93236:CDS |
| CTTCTTGATGCAATCCATGT+GGG | 0.511631 | 7.4:-57653176 | None:intergenic |
| ATAGACATATCAAGATTAAG+TGG | 0.519324 | 7.4:-57653383 | None:intergenic |
| ACAGTATGTGGCTCCGGATG+TGG | 0.521366 | 7.4:+57653064 | MS.gene93236:CDS |
| CGGATGTGGTTGCCTCGCGT+GGG | 0.521966 | 7.4:+57653078 | MS.gene93236:CDS |
| TCAGTTCATACAACAGTATG+TGG | 0.525112 | 7.4:+57653052 | MS.gene93236:CDS |
| CCACATGGATTGCATCAAGA+AGG | 0.531789 | 7.4:+57653177 | MS.gene93236:CDS |
| ATTGCATCAAGAAGGGAAAT+GGG | 0.533052 | 7.4:+57653185 | MS.gene93236:CDS |
| CATACAACAGTATGTGGCTC+CGG | 0.542165 | 7.4:+57653058 | MS.gene93236:CDS |
| ACGACCATCTCTTACGAAGA+TGG | 0.542973 | 7.4:+57653126 | MS.gene93236:CDS |
| GAGAATCTCGAAGTAGCGTT+CGG | 0.552820 | 7.4:-57653275 | None:intergenic |
| CCTTCTTGATGCAATCCATG+TGG | 0.553411 | 7.4:-57653177 | None:intergenic |
| TCGACCATCTTCGTAAGAGA+TGG | 0.555256 | 7.4:-57653130 | None:intergenic |
| AGTCATAAGCCCGATGAAGA+AGG | 0.556957 | 7.4:+57653000 | MS.gene93236:intron |
| CTCGCGTGGGGAATAATTGG+TGG | 0.561996 | 7.4:+57653091 | MS.gene93236:CDS |
| CCTAATTCTGAAATCGAACA+TGG | 0.569253 | 7.4:+57653226 | MS.gene93236:CDS |
| ATTCTGAAATCGAACATGGC+TGG | 0.571433 | 7.4:+57653230 | MS.gene93236:CDS |
| ATGTGGGATTGACATAAGTT+GGG | 0.572370 | 7.4:-57653160 | None:intergenic |
| AGAATCCATTTCCATTAATG+GGG | 0.584366 | 7.4:-57653339 | None:intergenic |
| GGATGTGGTTGCCTCGCGTG+GGG | 0.586874 | 7.4:+57653079 | MS.gene93236:CDS |
| CACATGGATTGCATCAAGAA+GGG | 0.593478 | 7.4:+57653178 | MS.gene93236:CDS |
| TAGAAGCATGTGACACAACA+TGG | 0.603510 | 7.4:+57653023 | MS.gene93236:CDS |
| CAACTTATGTCAATCCCACA+TGG | 0.603760 | 7.4:+57653162 | MS.gene93236:CDS |
| ACAAATTGTTGCAAGAAAGA+CGG | 0.629650 | 7.4:-57652635 | None:intergenic |
| CACCAATTATTCCCCACGCG+AGG | 0.633688 | 7.4:-57653090 | None:intergenic |
| TGGGGTAAGATACAGTCTTG+AGG | 0.662338 | 7.4:-57653321 | None:intergenic |
| ATCTTCGTAAGAGATGGTCG+TGG | 0.691138 | 7.4:-57653124 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ACTAAGTATATAACTTATTT+AGG | + | chr7.4:57652852-57652871 | MS.gene93236:intron | 15.0% |
| !!! | TTTTATGTTAGAAAACTCAT+GGG | + | chr7.4:57652703-57652722 | MS.gene93236:intron | 20.0% |
| !!! | TTTTTATGTTAGAAAACTCA+TGG | + | chr7.4:57652702-57652721 | MS.gene93236:intron | 20.0% |
| ! | AAGAATCCATTTCCATTAAT+GGG | - | chr7.4:57653343-57653362 | None:intergenic | 25.0% |
| ! | CTAACATAAAAAGAAATGCA+TGG | - | chr7.4:57652694-57652713 | None:intergenic | 25.0% |
| ACAAATTGTTGCAAGAAAGA+CGG | - | chr7.4:57652638-57652657 | None:intergenic | 30.0% | |
| AGAATCCATTTCCATTAATG+GGG | - | chr7.4:57653342-57653361 | None:intergenic | 30.0% | |
| CAAGAATCCATTTCCATTAA+TGG | - | chr7.4:57653344-57653363 | None:intergenic | 30.0% | |
| ACTGTATCTTACCCCATTAA+TGG | + | chr7.4:57653328-57653347 | MS.gene93236:CDS | 35.0% | |
| ATGGGAAAGTCAGTTAAAGT+TGG | - | chr7.4:57652976-57652995 | None:intergenic | 35.0% | |
| ATGTGGGATTGACATAAGTT+GGG | - | chr7.4:57653163-57653182 | None:intergenic | 35.0% | |
| ATTGCATCAAGAAGGGAAAT+GGG | + | chr7.4:57653185-57653204 | MS.gene93236:CDS | 35.0% | |
| CCATGTTCGATTTCAGAATT+AGG | - | chr7.4:57653229-57653248 | None:intergenic | 35.0% | |
| GAAAGTCAGTTAAAGTTGGA+AGG | - | chr7.4:57652972-57652991 | None:intergenic | 35.0% | |
| TCAGTTCATACAACAGTATG+TGG | + | chr7.4:57653052-57653071 | MS.gene93236:CDS | 35.0% | |
| TCTTACCCCATTAATGGAAA+TGG | + | chr7.4:57653334-57653353 | MS.gene93236:CDS | 35.0% | |
| !! | CCTAATTCTGAAATCGAACA+TGG | + | chr7.4:57653226-57653245 | MS.gene93236:CDS | 35.0% |
| ATCGGGCTTATGACTGTAAA+TGG | - | chr7.4:57652995-57653014 | None:intergenic | 40.0% | |
| ATGCTTCTACCTTCTTCATC+GGG | - | chr7.4:57653012-57653031 | None:intergenic | 40.0% | |
| CAACTTATGTCAATCCCACA+TGG | + | chr7.4:57653162-57653181 | MS.gene93236:CDS | 40.0% | |
| CATGCTTCTACCTTCTTCAT+CGG | - | chr7.4:57653013-57653032 | None:intergenic | 40.0% | |
| CATGTGGGATTGACATAAGT+TGG | - | chr7.4:57653164-57653183 | None:intergenic | 40.0% | |
| CTTCTTGATGCAATCCATGT+GGG | - | chr7.4:57653179-57653198 | None:intergenic | 40.0% | |
| GATTGCATCAAGAAGGGAAA+TGG | + | chr7.4:57653184-57653203 | MS.gene93236:CDS | 40.0% | |
| TCGGGCTTATGACTGTAAAT+GGG | - | chr7.4:57652994-57653013 | None:intergenic | 40.0% | |
| ! | CACATGGATTGCATCAAGAA+GGG | + | chr7.4:57653178-57653197 | MS.gene93236:CDS | 40.0% |
| ! | GGCTTATGTTAAGCTTGCTT+TGG | + | chr7.4:57652609-57652628 | MS.gene93236:CDS | 40.0% |
| ! | TAGAAGCATGTGACACAACA+TGG | + | chr7.4:57653023-57653042 | MS.gene93236:CDS | 40.0% |
| !! | ATTCTGAAATCGAACATGGC+TGG | + | chr7.4:57653230-57653249 | MS.gene93236:CDS | 40.0% |
| ACGACCATCTCTTACGAAGA+TGG | + | chr7.4:57653126-57653145 | MS.gene93236:CDS | 45.0% | |
| AGTCATAAGCCCGATGAAGA+AGG | + | chr7.4:57653000-57653019 | MS.gene93236:intron | 45.0% | |
| ATCTTCGTAAGAGATGGTCG+TGG | - | chr7.4:57653127-57653146 | None:intergenic | 45.0% | |
| CATACAACAGTATGTGGCTC+CGG | + | chr7.4:57653058-57653077 | MS.gene93236:CDS | 45.0% | |
| CCTTCTTGATGCAATCCATG+TGG | - | chr7.4:57653180-57653199 | None:intergenic | 45.0% | |
| GAGAATCTCGAAGTAGCGTT+CGG | - | chr7.4:57653278-57653297 | None:intergenic | 45.0% | |
| TCGACCATCTTCGTAAGAGA+TGG | - | chr7.4:57653133-57653152 | None:intergenic | 45.0% | |
| TGGGGTAAGATACAGTCTTG+AGG | - | chr7.4:57653324-57653343 | None:intergenic | 45.0% | |
| ! | CCACATGGATTGCATCAAGA+AGG | + | chr7.4:57653177-57653196 | MS.gene93236:CDS | 45.0% |
| ACAGTATGTGGCTCCGGATG+TGG | + | chr7.4:57653064-57653083 | MS.gene93236:CDS | 55.0% | |
| CACCAATTATTCCCCACGCG+AGG | - | chr7.4:57653093-57653112 | None:intergenic | 55.0% | |
| CTCGCGTGGGGAATAATTGG+TGG | + | chr7.4:57653091-57653110 | MS.gene93236:CDS | 55.0% | |
| GCGTTCGGCTTCAACGTTAG+AGG | - | chr7.4:57653263-57653282 | None:intergenic | 55.0% | |
| TGCCTCGCGTGGGGAATAAT+TGG | + | chr7.4:57653088-57653107 | MS.gene93236:CDS | 55.0% | |
| CCACGCGAGGCAACCACATC+CGG | - | chr7.4:57653080-57653099 | None:intergenic | 65.0% | |
| CGGATGTGGTTGCCTCGCGT+GGG | + | chr7.4:57653078-57653097 | MS.gene93236:CDS | 65.0% | |
| GGATGTGGTTGCCTCGCGTG+GGG | + | chr7.4:57653079-57653098 | MS.gene93236:CDS | 65.0% | |
| CCGGATGTGGTTGCCTCGCG+TGG | + | chr7.4:57653077-57653096 | MS.gene93236:CDS | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7.4 | gene | 57652607 | 57653390 | 57652607 | ID=MS.gene93236 |
| chr7.4 | mRNA | 57652607 | 57653390 | 57652607 | ID=MS.gene93236.t1;Parent=MS.gene93236 |
| chr7.4 | exon | 57652607 | 57652655 | 57652607 | ID=MS.gene93236.t1.exon1;Parent=MS.gene93236.t1 |
| chr7.4 | CDS | 57652607 | 57652655 | 57652607 | ID=cds.MS.gene93236.t1;Parent=MS.gene93236.t1 |
| chr7.4 | exon | 57653002 | 57653390 | 57653002 | ID=MS.gene93236.t1.exon2;Parent=MS.gene93236.t1 |
| chr7.4 | CDS | 57653002 | 57653390 | 57653002 | ID=cds.MS.gene93236.t1;Parent=MS.gene93236.t1 |
| Gene Sequence |
| Protein sequence |
