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.gene057659.t1 | PNY05923.1 | 90.6 | 181 | 17 | 0 | 1 | 181 | 1 | 181 | 1.50E-83 | 318.9 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene057659.t1 | Q54CI5 | 29.9 | 184 | 86 | 5 | 10 | 178 | 14 | 169 | 1.4e-10 | 67.8 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene057659.t1 | A0A2K3NSB6 | 90.6 | 181 | 17 | 0 | 1 | 181 | 1 | 181 | 1.1e-83 | 318.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene057659 | MS.gene52124 | 0.837465 | 5.12E-57 | -1.69E-46 |
| MS.gene057659 | MS.gene60827 | 0.805074 | 1.59E-49 | -1.69E-46 |
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene057659 | MS.gene83474 | PPI |
| MS.gene057659 | MS.gene72809 | PPI |
| MS.gene057659 | MS.gene82121 | PPI |
| MS.gene057659 | MS.gene028111 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene057659.t1 | MTR_3g006810 | 82.873 | 181 | 28 | 2 | 1 | 181 | 1 | 178 | 6.36e-103 | 293 |
| MS.gene057659.t1 | MTR_6g003930 | 81.768 | 181 | 30 | 2 | 1 | 181 | 1 | 178 | 1.69e-101 | 290 |
| MS.gene057659.t1 | MTR_6g003930 | 81.768 | 181 | 30 | 2 | 1 | 181 | 73 | 250 | 7.68e-100 | 288 |
| MS.gene057659.t1 | MTR_4g074580 | 95.489 | 133 | 6 | 0 | 1 | 133 | 1 | 133 | 4.84e-90 | 259 |
| MS.gene057659.t1 | MTR_7g112360 | 28.030 | 132 | 85 | 4 | 12 | 137 | 17 | 144 | 6.76e-11 | 58.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene057659.t1 | AT4G10130 | 52.874 | 174 | 72 | 3 | 1 | 174 | 1 | 164 | 2.37e-59 | 183 |
| MS.gene057659.t1 | AT4G10130 | 52.874 | 174 | 72 | 3 | 1 | 174 | 1 | 164 | 2.37e-59 | 183 |
| MS.gene057659.t1 | AT4G10130 | 52.874 | 174 | 72 | 3 | 1 | 174 | 1 | 164 | 2.37e-59 | 183 |
| MS.gene057659.t1 | AT4G10130 | 52.874 | 174 | 72 | 3 | 1 | 174 | 1 | 164 | 2.37e-59 | 183 |
| MS.gene057659.t1 | AT4G10130 | 52.874 | 174 | 72 | 3 | 1 | 174 | 1 | 164 | 2.37e-59 | 183 |
| MS.gene057659.t1 | AT1G56300 | 27.273 | 132 | 80 | 4 | 7 | 129 | 9 | 133 | 2.12e-11 | 59.7 |
| MS.gene057659.t1 | AT3G13310 | 37.662 | 77 | 38 | 1 | 13 | 89 | 66 | 132 | 4.84e-11 | 58.5 |
Find 31 sgRNAs with CRISPR-Local
Find 35 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTGAAGTTGCAGAAGATTTA+AGG | 0.106422 | 4.4:-34924451 | MS.gene057659:CDS |
| CTCATTGGAATTGCAGAAAA+TGG | 0.178941 | 4.4:-34924345 | MS.gene057659:CDS |
| TGCAGAAGATTTAAGGTTAC+AGG | 0.248624 | 4.4:-34924444 | MS.gene057659:CDS |
| TTCAAGGCGGGAGGATTTCT+TGG | 0.279453 | 4.4:-34924477 | MS.gene057659:CDS |
| GATGTCTTTAATAGTTTATC+AGG | 0.288420 | 4.4:+34924614 | None:intergenic |
| AGCTCGTCTTGTACTCAGTA+TGG | 0.299135 | 4.4:-34924219 | MS.gene057659:CDS |
| GAAATCTCTCTGAAGTTGTT+TGG | 0.379708 | 4.4:+34924573 | None:intergenic |
| CTTAATGTTGATACTTTACC+AGG | 0.381509 | 4.4:-34924278 | MS.gene057659:CDS |
| TCATTGGAATTGCAGAAAAT+GGG | 0.406489 | 4.4:-34924344 | MS.gene057659:CDS |
| TTCTCAAAGTTCACAAGGCA+TGG | 0.443232 | 4.4:-34924553 | MS.gene057659:CDS |
| CTCTCGTTTAATTTATGACA+AGG | 0.490736 | 4.4:-34924510 | MS.gene057659:CDS |
| ACAAGGAACTGAAAATTTCA+AGG | 0.503255 | 4.4:-34924493 | MS.gene057659:CDS |
| CAAGGAAGAATCACTGATCC+TGG | 0.528820 | 4.4:+34924260 | None:intergenic |
| TCTCAAAGTTCACAAGGCAT+GGG | 0.543905 | 4.4:-34924552 | MS.gene057659:CDS |
| GGAACTGAAAATTTCAAGGC+GGG | 0.548219 | 4.4:-34924489 | MS.gene057659:CDS |
| TGAAGATGCTGGTGAAACAT+TGG | 0.562066 | 4.4:-34924411 | MS.gene057659:CDS |
| CTTGTCATAAATTAAACGAG+AGG | 0.568113 | 4.4:+34924511 | None:intergenic |
| GCTCGTCTTGTACTCAGTAT+GGG | 0.569545 | 4.4:-34924218 | MS.gene057659:CDS |
| GGATCAGTGATTCTTCCTTG+TGG | 0.587887 | 4.4:-34924257 | MS.gene057659:CDS |
| CAGCACTTCGGTAACTAGCA+CGG | 0.609445 | 4.4:+34924651 | None:intergenic |
| ACTGAAAATTTCAAGGCGGG+AGG | 0.610139 | 4.4:-34924486 | MS.gene057659:CDS |
| CATTGGAATTGCAGAAAATG+GGG | 0.618046 | 4.4:-34924343 | MS.gene057659:CDS |
| TTACGAGGTTCTCAATGTCA+AGG | 0.619850 | 4.4:-34924696 | MS.gene057659:CDS |
| CATTGAGGAGACTCATTACG+AGG | 0.636562 | 4.4:-34924711 | MS.gene057659:CDS |
| GAGATTTCTCAAAGTTCACA+AGG | 0.644008 | 4.4:-34924558 | MS.gene057659:CDS |
| GTAAACTGAGTGCAGCACTT+CGG | 0.645782 | 4.4:+34924639 | None:intergenic |
| GCTGTCTTCATCTCTCAACA+AGG | 0.680466 | 4.4:+34924316 | None:intergenic |
| GATATGACAGTTGAAGATGC+TGG | 0.682484 | 4.4:-34924422 | MS.gene057659:CDS |
| CGAGGTTCTCAATGTCAAGG+AGG | 0.689102 | 4.4:-34924693 | MS.gene057659:CDS |
| AGGAACTGAAAATTTCAAGG+CGG | 0.730120 | 4.4:-34924490 | MS.gene057659:CDS |
| TTCAACGAACAAGATCCACA+AGG | 0.762477 | 4.4:+34924242 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | GATGTCTTTAATAGTTTATC+AGG | + | chr4.4:34924328-34924347 | None:intergenic | 25.0% |
| ACAAGGAACTGAAAATTTCA+AGG | - | chr4.4:34924446-34924465 | MS.gene057659:CDS | 30.0% | |
| CTTAATGTTGATACTTTACC+AGG | - | chr4.4:34924661-34924680 | MS.gene057659:CDS | 30.0% | |
| CTTGTCATAAATTAAACGAG+AGG | + | chr4.4:34924431-34924450 | None:intergenic | 30.0% | |
| TCATTGGAATTGCAGAAAAT+GGG | - | chr4.4:34924595-34924614 | MS.gene057659:CDS | 30.0% | |
| TTTGGACAAGAAAAACATTG+AGG | - | chr4.4:34924213-34924232 | MS.gene057659:CDS | 30.0% | |
| ! | CTCTCGTTTAATTTATGACA+AGG | - | chr4.4:34924429-34924448 | MS.gene057659:CDS | 30.0% |
| !! | TTGTTTTATCAATGTCGATG+TGG | - | chr4.4:34924553-34924572 | MS.gene057659:CDS | 30.0% |
| AGGAACTGAAAATTTCAAGG+CGG | - | chr4.4:34924449-34924468 | MS.gene057659:CDS | 35.0% | |
| CATTGGAATTGCAGAAAATG+GGG | - | chr4.4:34924596-34924615 | MS.gene057659:CDS | 35.0% | |
| CTCATTGGAATTGCAGAAAA+TGG | - | chr4.4:34924594-34924613 | MS.gene057659:CDS | 35.0% | |
| CTGAAGTTGCAGAAGATTTA+AGG | - | chr4.4:34924488-34924507 | MS.gene057659:CDS | 35.0% | |
| GAGATTTCTCAAAGTTCACA+AGG | - | chr4.4:34924381-34924400 | MS.gene057659:CDS | 35.0% | |
| ! | TGCAGAAGATTTAAGGTTAC+AGG | - | chr4.4:34924495-34924514 | MS.gene057659:CDS | 35.0% |
| !! | ATGTGGTGATTACTTTTCTG+TGG | - | chr4.4:34924570-34924589 | MS.gene057659:CDS | 35.0% |
| !! | GAAATCTCTCTGAAGTTGTT+TGG | + | chr4.4:34924369-34924388 | None:intergenic | 35.0% |
| !! | TTACTTTTCTGTGGACTCAT+TGG | - | chr4.4:34924579-34924598 | MS.gene057659:CDS | 35.0% |
| GATATGACAGTTGAAGATGC+TGG | - | chr4.4:34924517-34924536 | MS.gene057659:CDS | 40.0% | |
| GGAACTGAAAATTTCAAGGC+GGG | - | chr4.4:34924450-34924469 | MS.gene057659:CDS | 40.0% | |
| TCTCAAAGTTCACAAGGCAT+GGG | - | chr4.4:34924387-34924406 | MS.gene057659:CDS | 40.0% | |
| TGAAGATGCTGGTGAAACAT+TGG | - | chr4.4:34924528-34924547 | MS.gene057659:CDS | 40.0% | |
| TTACGAGGTTCTCAATGTCA+AGG | - | chr4.4:34924243-34924262 | MS.gene057659:CDS | 40.0% | |
| TTCAACGAACAAGATCCACA+AGG | + | chr4.4:34924700-34924719 | None:intergenic | 40.0% | |
| TTCTCAAAGTTCACAAGGCA+TGG | - | chr4.4:34924386-34924405 | MS.gene057659:CDS | 40.0% | |
| ACTGAAAATTTCAAGGCGGG+AGG | - | chr4.4:34924453-34924472 | MS.gene057659:CDS | 45.0% | |
| AGCTCGTCTTGTACTCAGTA+TGG | - | chr4.4:34924720-34924739 | MS.gene057659:CDS | 45.0% | |
| CAAGGAAGAATCACTGATCC+TGG | + | chr4.4:34924682-34924701 | None:intergenic | 45.0% | |
| CATTGAGGAGACTCATTACG+AGG | - | chr4.4:34924228-34924247 | MS.gene057659:CDS | 45.0% | |
| GCTCGTCTTGTACTCAGTAT+GGG | - | chr4.4:34924721-34924740 | MS.gene057659:CDS | 45.0% | |
| GCTGTCTTCATCTCTCAACA+AGG | + | chr4.4:34924626-34924645 | None:intergenic | 45.0% | |
| GGATCAGTGATTCTTCCTTG+TGG | - | chr4.4:34924682-34924701 | MS.gene057659:CDS | 45.0% | |
| GTAAACTGAGTGCAGCACTT+CGG | + | chr4.4:34924303-34924322 | None:intergenic | 45.0% | |
| CAGCACTTCGGTAACTAGCA+CGG | + | chr4.4:34924291-34924310 | None:intergenic | 50.0% | |
| CGAGGTTCTCAATGTCAAGG+AGG | - | chr4.4:34924246-34924265 | MS.gene057659:CDS | 50.0% | |
| TTCAAGGCGGGAGGATTTCT+TGG | - | chr4.4:34924462-34924481 | MS.gene057659:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 34924208 | 34924753 | 34924208 | ID=MS.gene057659 |
| chr4.4 | mRNA | 34924208 | 34924753 | 34924208 | ID=MS.gene057659.t1;Parent=MS.gene057659 |
| chr4.4 | exon | 34924208 | 34924753 | 34924208 | ID=MS.gene057659.t1.exon1;Parent=MS.gene057659.t1 |
| chr4.4 | CDS | 34924208 | 34924753 | 34924208 | ID=cds.MS.gene057659.t1;Parent=MS.gene057659.t1 |
| Gene Sequence |
| Protein sequence |
