Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1332040 | sp|G3CHK5|ELF5_PONTR | 64.982 | 554 | 166 | 13 | 3 | 544 | 2 | 539 | 7.82e-135 | 405 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1332040 | A0A072URC9 | 95.421 | 546 | 21 | 3 | 1 | 545 | 1 | 543 | 0.0 | 723 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000550 | Msa1332040 | 0.808872 | 2.501234e-50 | -8.615850e-47 |
| Msa0003640 | Msa1332040 | -0.812770 | 3.586749e-51 | -8.615850e-47 |
| Msa0006040 | Msa1332040 | -0.816593 | 5.105610e-52 | -8.615850e-47 |
| Msa0006070 | Msa1332040 | -0.828107 | 1.080305e-54 | -8.615850e-47 |
| Msa0006380 | Msa1332040 | -0.806482 | 8.052553e-50 | -8.615850e-47 |
| Msa0007440 | Msa1332040 | -0.842754 | 2.131267e-58 | -8.615850e-47 |
| Msa0011170 | Msa1332040 | -0.829883 | 4.010956e-55 | -8.615850e-47 |
| Msa0011660 | Msa1332040 | 0.810683 | 1.020351e-50 | -8.615850e-47 |
| Msa0011960 | Msa1332040 | -0.819171 | 1.335785e-52 | -8.615850e-47 |
| Msa0013050 | Msa1332040 | 0.861146 | 1.259110e-63 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1332040 | MtrunA17_Chr4g0059861 | 95.421 | 546 | 21 | 3 | 1 | 545 | 1 | 543 | 0.0 | 723 |
| Msa1332040 | MtrunA17_Chr4g0059871 | 66.362 | 547 | 108 | 11 | 1 | 545 | 1 | 473 | 3.79e-114 | 347 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1332040 | AT5G62640.1 | 72.678 | 183 | 42 | 3 | 3 | 183 | 2 | 178 | 5.38e-73 | 242 |
| Msa1332040 | AT5G62640.2 | 75.000 | 152 | 30 | 3 | 3 | 152 | 2 | 147 | 3.57e-69 | 231 |
| Msa1332040 | AT5G62640.3 | 57.328 | 232 | 77 | 7 | 322 | 545 | 323 | 540 | 3.20e-31 | 127 |
Find 221 sgRNAs with CRISPR-Local
Find 560 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGAAAGAAAGAAGGTGA+GGG | 0.585531 | 8_4:-51875162 | Msa1332040:CDS |
| AAAAGAATTTGTCATTTGAG+TGG | 0.540541 | 8_4:+51868862 | None:intergenic |
| AAAATGACCCTAACCTGACC+AGG | 0.588301 | 8_4:+51871348 | None:intergenic |
| AAAGCCCTTGGTGCACTTGA+TGG | 0.423590 | 8_4:-51868944 | Msa1332040:CDS |
| AAAGGAGGCCTCATATCAGG+TGG | 0.677019 | 8_4:+51870405 | None:intergenic |
| AAGAAAGAAGGTGAGGGATG+TGG | 0.403157 | 8_4:-51875156 | Msa1332040:CDS |
| AAGAGGATCATATGGCAACT+AGG | 0.554783 | 8_4:-51870239 | Msa1332040:CDS |
| AAGCTCCTTTCGATAAGCAT+CGG | 0.633489 | 8_4:+51875415 | None:intergenic |
| AAGGAGAACAAGTGCAGAAG+AGG | 0.507831 | 8_4:-51872232 | Msa1332040:CDS |
| AAGGCAACAGCTTCCTGGTC+CGG | 0.368107 | 8_4:-51870502 | Msa1332040:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TCATTACATTACACTAACAG+TGG | - | chr8_4:51868769-51868788 | Msa1332040:three_prime_UTR | 30.0% | |
| TTCGCAAAAAGGAATTGAAA+AGG | - | chr8_4:51869035-51869054 | Msa1332040:CDS | 30.0% | |
| TCGCAAAAAGGAATTGAAAA+GGG | - | chr8_4:51869036-51869055 | Msa1332040:CDS | 30.0% | |
| TCAGTGATTAAGTCAGTATT+TGG | + | chr8_4:51869194-51869213 | None:intergenic | 30.0% | |
| AAAAAGAAAGAAAGAAGGTG+AGG | - | chr8_4:51869266-51869285 | Msa1332040:intron | 30.0% | |
| AAAAGAAAGAAAGAAGGTGA+GGG | - | chr8_4:51869267-51869286 | Msa1332040:intron | 30.0% | |
| GACTATACCAACAAAAATGA+GGG | + | chr8_4:51869421-51869440 | None:intergenic | 30.0% | |
| TGACTATACCAACAAAAATG+AGG | + | chr8_4:51869422-51869441 | None:intergenic | 30.0% | |
| TGGAATAAAAGTGGAATACT+GGG | + | chr8_4:51870019-51870038 | None:intergenic | 30.0% | |
| TTGGAATAAAAGTGGAATAC+TGG | + | chr8_4:51870020-51870039 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_4 | gene | 51868706 | 51875745 | 51868706 | ID=Msa1332040;Name=Msa1332040 |
| chr8_4 | mRNA | 51868706 | 51875745 | 51868706 | ID=Msa1332040-mRNA-1;Parent=Msa1332040;Name=Msa1332040-mRNA-1;_AED=0.05;_eAED=0.05;_QI=268|1|1|1|1|1|9|234|545 |
| chr8_4 | exon | 51868706 | 51869173 | 51868706 | ID=Msa1332040-mRNA-1:exon:15422;Parent=Msa1332040-mRNA-1 |
| chr8_4 | exon | 51870143 | 51870673 | 51870143 | ID=Msa1332040-mRNA-1:exon:15421;Parent=Msa1332040-mRNA-1 |
| chr8_4 | exon | 51871362 | 51871768 | 51871362 | ID=Msa1332040-mRNA-1:exon:15420;Parent=Msa1332040-mRNA-1 |
| chr8_4 | exon | 51871874 | 51871955 | 51871874 | ID=Msa1332040-mRNA-1:exon:15419;Parent=Msa1332040-mRNA-1 |
| chr8_4 | exon | 51872203 | 51872272 | 51872203 | ID=Msa1332040-mRNA-1:exon:15418;Parent=Msa1332040-mRNA-1 |
| chr8_4 | exon | 51872361 | 51872410 | 51872361 | ID=Msa1332040-mRNA-1:exon:15417;Parent=Msa1332040-mRNA-1 |
| chr8_4 | exon | 51874180 | 51874265 | 51874180 | ID=Msa1332040-mRNA-1:exon:15416;Parent=Msa1332040-mRNA-1 |
| chr8_4 | exon | 51875096 | 51875189 | 51875096 | ID=Msa1332040-mRNA-1:exon:15415;Parent=Msa1332040-mRNA-1 |
| chr8_4 | exon | 51875394 | 51875745 | 51875394 | ID=Msa1332040-mRNA-1:exon:15414;Parent=Msa1332040-mRNA-1 |
| chr8_4 | five_prime_UTR | 51875478 | 51875745 | 51875478 | ID=Msa1332040-mRNA-1:five_prime_utr;Parent=Msa1332040-mRNA-1 |
| chr8_4 | CDS | 51875394 | 51875477 | 51875394 | ID=Msa1332040-mRNA-1:cds;Parent=Msa1332040-mRNA-1 |
| chr8_4 | CDS | 51875096 | 51875189 | 51875096 | ID=Msa1332040-mRNA-1:cds;Parent=Msa1332040-mRNA-1 |
| chr8_4 | CDS | 51874180 | 51874265 | 51874180 | ID=Msa1332040-mRNA-1:cds;Parent=Msa1332040-mRNA-1 |
| chr8_4 | CDS | 51872361 | 51872410 | 51872361 | ID=Msa1332040-mRNA-1:cds;Parent=Msa1332040-mRNA-1 |
| chr8_4 | CDS | 51872203 | 51872272 | 51872203 | ID=Msa1332040-mRNA-1:cds;Parent=Msa1332040-mRNA-1 |
| chr8_4 | CDS | 51871874 | 51871955 | 51871874 | ID=Msa1332040-mRNA-1:cds;Parent=Msa1332040-mRNA-1 |
| chr8_4 | CDS | 51871362 | 51871768 | 51871362 | ID=Msa1332040-mRNA-1:cds;Parent=Msa1332040-mRNA-1 |
| chr8_4 | CDS | 51870143 | 51870673 | 51870143 | ID=Msa1332040-mRNA-1:cds;Parent=Msa1332040-mRNA-1 |
| chr8_4 | CDS | 51868940 | 51869173 | 51868940 | ID=Msa1332040-mRNA-1:cds;Parent=Msa1332040-mRNA-1 |
| chr8_4 | three_prime_UTR | 51868706 | 51868939 | 51868706 | ID=Msa1332040-mRNA-1:three_prime_utr;Parent=Msa1332040-mRNA-1 |
| Gene Sequence |
>Msa1332040 ATGACGAAGACCACGAAAGGCGGTAAGGTGATGAACCCTACCGATGCTTATCGAAAGGAGCTTCGCAAAAAGGAATTGAAAAGGAATAAAAAAGAAAGAAAGAAGGTGAGGGATGTGGGGATTTTGAAGAAAGATCCTGATCAACTCAAGAAGCAGATTGAGAATTTGGAAATGATGAAGGCTGATGGCGCCTTGGATAAAGCAAGAAAGCACAAAAAGAGGCAACTAGAAGATACACTTAATCGTGTCATTAAGAAGCAGAAGGAATATGATGAGAAAAAGCGGGAGAAGGGTGAGGCCCCTGTTATGTTCAGTCATTTGGGGCTTCCACAAAGGAGAACAAGTGCAGAAGAGGAAGATAGAGTTAATCACCCACAGCCAGAGGACTCTGTTTATTACCATCCTCAATTAAATCCCACCGGGGCTCCACCGCCAGGGAAACCTCCCATGTATCATTCGCCTATAGGACCTAGAATTCCCTTGTTTGGTGCTTCGTCAAGTACTGCTGCATCATCCTCGGCAACAGAGTCCGATGATGGTGTATTAGCTGTACCTCCACCTCCCCCACCACCACCACTACCTGAAGCTAGTTCAGCTGATGGTGCTGTTTTACCTGCATCTTTGCCACTGCCTCCCCCACCTCCCATGCCTCCAAATCCCACTACTGCGGTGCCTGCATCATTACCACCACCTCCTTTGCCGCCACCACCTCCTGGTCCTCCACCTAAAGAGCAAGCTGTAAATCAGCCTTTACCCCCTCCTCCTCCTCCACCTCTAAAACAGTCTCAGCCACCTCCACCTGGCACCAGTGAAGGTGAAGAGAGAAATCAGTATGCATTGCCAGATAATCTATCTTCCAAGGAGCCTGGTCAGGTGCAGCTTCCTCCGCCCCCTCCACCACCAAGTCGTATGCCACAAAATTCTGGTGCTATTCAGTTTGATGGTGCTGTAGTTTCTACTGACAATAAGCATTCTTTGTCAAACCAGGAGATCCAAAAATTGGTTCCTGGGCCTCCTCCTCCAAGGCAACAGCTTCCTGGTCCGGGACCCACATTAATCCCGAGTGTACCTGATGTATTGCCTCCTGGAATATCTCGGTTCCCACCACCCCCACCCCCACCACCTGATATGAGGCCTCCTTTACCTGTGATTGGACTTCCTGGTCAGGCACCACCTCCTGGAATGATGGTCCCCCTAATCCCAAGGCCCCCATATGGTCCTCCACCTGGGCCTCCTCCAATGATGAGACCACCACTTCCACCTGGTCCTCCTCCGAACTTTCAGGAAGAGGATCATATGGCAACTAGGCCACTTCCTGCTCCGAAACCATCATATGTTAAATCTGCTGCTTCTACTGTTGTTAGAAGGCCATTAGCTCAGCACACTCCAGAACTCACATCTATGGTTCCTGCATCTGTGCGGGTGAGAAGGGAGACTGCAATGACCAAAACAAAACCAAAACCATCTGTATCAACAGTGTCAGTGTCAACATCTAGGACAGTCTCTGTGACACCTGGGCCAACTATTTTAAAAGCAGAGTCAGTGAGCTCGTCGTCTGCTCCAAAAGCACCAAGCATTGATGACTCATACACAGCTTTCTTAGAGGACATGAAAGCCCTTGGTGCACTTGATGGTTGA |
| Protein sequence |
>Msa1332040 MTKTTKGGKVMNPTDAYRKELRKKELKRNKKERKKVRDVGILKKDPDQLKKQIENLEMMKADGALDKARKHKKRQLEDTLNRVIKKQKEYDEKKREKGEAPVMFSHLGLPQRRTSAEEEDRVNHPQPEDSVYYHPQLNPTGAPPPGKPPMYHSPIGPRIPLFGASSSTAASSSATESDDGVLAVPPPPPPPPLPEASSADGAVLPASLPLPPPPPMPPNPTTAVPASLPPPPLPPPPPGPPPKEQAVNQPLPPPPPPPLKQSQPPPPGTSEGEERNQYALPDNLSSKEPGQVQLPPPPPPPSRMPQNSGAIQFDGAVVSTDNKHSLSNQEIQKLVPGPPPPRQQLPGPGPTLIPSVPDVLPPGISRFPPPPPPPPDMRPPLPVIGLPGQAPPPGMMVPLIPRPPYGPPPGPPPMMRPPLPPGPPPNFQEEDHMATRPLPAPKPSYVKSAASTVVRRPLAQHTPELTSMVPASVRVRRETAMTKTKPKPSVSTVSVSTSRTVSVTPGPTILKAESVSSSSAPKAPSIDDSYTAFLEDMKALGALDG* |
