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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0946570 | XP_013447005.1 | 89.933 | 298 | 21 | 2 | 1 | 290 | 1 | 297 | 0.0 | 525 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0946570 | A0A072TUC9 | 89.933 | 298 | 21 | 2 | 1 | 290 | 1 | 297 | 0.0 | 525 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000180 | Msa0946570 | 0.801092 | 1.059932e-48 | -8.615850e-47 |
| Msa0000220 | Msa0946570 | 0.852367 | 4.836348e-61 | -8.615850e-47 |
| Msa0000610 | Msa0946570 | 0.845547 | 3.793995e-59 | -8.615850e-47 |
| Msa0001040 | Msa0946570 | 0.855474 | 6.156323e-62 | -8.615850e-47 |
| Msa0001510 | Msa0946570 | 0.851590 | 8.035680e-61 | -8.615850e-47 |
| Msa0002110 | Msa0946570 | 0.846718 | 1.821086e-59 | -8.615850e-47 |
| Msa0002690 | Msa0946570 | 0.912329 | 2.206481e-83 | -8.615850e-47 |
| Msa0002700 | Msa0946570 | 0.916585 | 1.492831e-85 | -8.615850e-47 |
| Msa0003340 | Msa0946570 | 0.834615 | 2.705358e-56 | -8.615850e-47 |
| Msa0003370 | Msa0946570 | 0.853177 | 2.839616e-61 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0946570 | MtrunA17_Chr8g0386421 | 89.933 | 298 | 21 | 2 | 1 | 290 | 1 | 297 | 0.0 | 525 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0946570 | AT2G32500.2 | 57.249 | 269 | 112 | 3 | 24 | 290 | 9 | 276 | 2.09e-106 | 311 |
| Msa0946570 | AT2G32500.1 | 56.311 | 206 | 87 | 3 | 24 | 227 | 9 | 213 | 1.53e-74 | 228 |
Find 78 sgRNAs with CRISPR-Local
Find 231 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACTTTCCTATGGCAATT+GGG | 0.428568 | 6_3:-27967232 | None:intergenic |
| AAAATAAAATTATATTGAAA+AGG | 0.440829 | 6_3:-27967406 | None:intergenic |
| AAAGAATAAACTCCACTCCA+TGG | 0.578056 | 6_3:-27965986 | None:intergenic |
| AAAGGAGGGATTATCTGAAG+AGG | 0.627071 | 6_3:+27964377 | Msa0946570:CDS |
| AAAGGTAAAGATAGAGGTGT+TGG | 0.481571 | 6_3:-27964009 | None:intergenic |
| AAGGTAAAGATAGAGGTGTT+GGG | 0.491493 | 6_3:-27964008 | None:intergenic |
| AATACCACCCATTTGATACT+GGG | 0.530236 | 6_3:-27964433 | None:intergenic |
| AATGAAGAGACAGTGATTTC+AGG | 0.265594 | 6_3:-27966954 | None:intergenic |
| AATGCATTAGCGAGCTAAAA+AGG | 0.335331 | 6_3:+27963896 | Msa0946570:five_prime_UTR |
| ACAACCCAGTATCAAATGGG+TGG | 0.704834 | 6_3:+27964429 | Msa0946570:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CATTCTAGATGAAATTCATG+TGG | - | chr6_3:27964602-27964621 | None:intergenic | 30.0% | |
| TTATATATTTCGCAAAGGAG+AGG | + | chr6_3:27965352-27965371 | Msa0946570:CDS | 30.0% | |
| TTCTGGATCGATAAATTGAA+GGG | + | chr6_3:27965398-27965417 | Msa0946570:intron | 30.0% | |
| CAATTCATATTTGACCATAC+AGG | + | chr6_3:27965440-27965459 | Msa0946570:intron | 30.0% | |
| TCTAACAGTAATTATTTGGG+GGG | + | chr6_3:27965917-27965936 | Msa0946570:intron | 30.0% | |
| GTAAATTGTACTATCAAGGA+AGG | - | chr6_3:27966092-27966111 | None:intergenic | 30.0% | |
| AACATGTGAATAAATGTTGG+TGG | - | chr6_3:27966134-27966153 | None:intergenic | 30.0% | |
| TCCTTACATCTTTGTATTCT+TGG | - | chr6_3:27966485-27966504 | None:intergenic | 30.0% | |
| TATTTATTCCAAATGCTCAC+AGG | + | chr6_3:27967074-27967093 | Msa0946570:intron | 30.0% | |
| TTTCTACATGAATTGTGACT+GGG | + | chr6_3:27967098-27967117 | Msa0946570:three_prime_UTR | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_3 | gene | 27963884 | 27967488 | 27963884 | ID=Msa0946570;Name=Msa0946570 |
| chr6_3 | mRNA | 27963884 | 27967488 | 27963884 | ID=Msa0946570-mRNA-1;Parent=Msa0946570;Name=Msa0946570-mRNA-1;_AED=0.24;_eAED=0.24;_QI=62|1|1|1|0.77|0.7|10|407|290 |
| chr6_3 | exon | 27963884 | 27964042 | 27963884 | ID=Msa0946570-mRNA-1:exon:7570;Parent=Msa0946570-mRNA-1 |
| chr6_3 | exon | 27964124 | 27964226 | 27964124 | ID=Msa0946570-mRNA-1:exon:7571;Parent=Msa0946570-mRNA-1 |
| chr6_3 | exon | 27964341 | 27964471 | 27964341 | ID=Msa0946570-mRNA-1:exon:7572;Parent=Msa0946570-mRNA-1 |
| chr6_3 | exon | 27965055 | 27965194 | 27965055 | ID=Msa0946570-mRNA-1:exon:7573;Parent=Msa0946570-mRNA-1 |
| chr6_3 | exon | 27965305 | 27965373 | 27965305 | ID=Msa0946570-mRNA-1:exon:7574;Parent=Msa0946570-mRNA-1 |
| chr6_3 | exon | 27965978 | 27966116 | 27965978 | ID=Msa0946570-mRNA-1:exon:7575;Parent=Msa0946570-mRNA-1 |
| chr6_3 | exon | 27966302 | 27966364 | 27966302 | ID=Msa0946570-mRNA-1:exon:7576;Parent=Msa0946570-mRNA-1 |
| chr6_3 | exon | 27966454 | 27966497 | 27966454 | ID=Msa0946570-mRNA-1:exon:7577;Parent=Msa0946570-mRNA-1 |
| chr6_3 | exon | 27966925 | 27967025 | 27966925 | ID=Msa0946570-mRNA-1:exon:7578;Parent=Msa0946570-mRNA-1 |
| chr6_3 | exon | 27967096 | 27967488 | 27967096 | ID=Msa0946570-mRNA-1:exon:7579;Parent=Msa0946570-mRNA-1 |
| chr6_3 | five_prime_UTR | 27963884 | 27963945 | 27963884 | ID=Msa0946570-mRNA-1:five_prime_utr;Parent=Msa0946570-mRNA-1 |
| chr6_3 | CDS | 27963946 | 27964042 | 27963946 | ID=Msa0946570-mRNA-1:cds;Parent=Msa0946570-mRNA-1 |
| chr6_3 | CDS | 27964124 | 27964226 | 27964124 | ID=Msa0946570-mRNA-1:cds;Parent=Msa0946570-mRNA-1 |
| chr6_3 | CDS | 27964341 | 27964471 | 27964341 | ID=Msa0946570-mRNA-1:cds;Parent=Msa0946570-mRNA-1 |
| chr6_3 | CDS | 27965055 | 27965194 | 27965055 | ID=Msa0946570-mRNA-1:cds;Parent=Msa0946570-mRNA-1 |
| chr6_3 | CDS | 27965305 | 27965373 | 27965305 | ID=Msa0946570-mRNA-1:cds;Parent=Msa0946570-mRNA-1 |
| chr6_3 | CDS | 27965978 | 27966116 | 27965978 | ID=Msa0946570-mRNA-1:cds;Parent=Msa0946570-mRNA-1 |
| chr6_3 | CDS | 27966302 | 27966364 | 27966302 | ID=Msa0946570-mRNA-1:cds;Parent=Msa0946570-mRNA-1 |
| chr6_3 | CDS | 27966454 | 27966497 | 27966454 | ID=Msa0946570-mRNA-1:cds;Parent=Msa0946570-mRNA-1 |
| chr6_3 | CDS | 27966925 | 27967011 | 27966925 | ID=Msa0946570-mRNA-1:cds;Parent=Msa0946570-mRNA-1 |
| chr6_3 | three_prime_UTR | 27967012 | 27967025 | 27967012 | ID=Msa0946570-mRNA-1:three_prime_utr;Parent=Msa0946570-mRNA-1 |
| chr6_3 | three_prime_UTR | 27967096 | 27967488 | 27967096 | ID=Msa0946570-mRNA-1:three_prime_utr;Parent=Msa0946570-mRNA-1 |
| Gene Sequence |
>Msa0946570 ATGAGTTTTGCAATGCAATGCTCAAACTATTCTTCTTTTTGTGTCCCTCGTCAATTCACCCCCCCAACACCTCTATCTTTACCTTTACAAGGTCCAGCATGCCAGTGGAATGGATTCAAGAGCCAACCAAAGAAGAATCAGATGAGAGTATTTTGTAGTTCAGACGACCAAAGCTCCAATCTCGCTTCTCAGAGGAAAAGAAGAAAAGTTGTGGAGCACATTTGTCTGCTAAAAGCAAAGGAGGGATTATCTGAAGAGGAAGAGAATGACATGCTTGATTATTTGTACACAACCCAGTATCAAATGGGTGGTATTATTGCTATTTCATTAGGGCGTGTTTCTGCTCAGAATCCTGACCACTATACTCATGCCGTTTACATGCGGTTTCAGAAAAAGGAAAACCTTGAAAAGTTCTATGAAAACTCCTTTTACTTGAAGGTTCTCAAGGATCACGTAATGACTTACTGCCATGGATTAATTAATGTGGACTACGAATCTGAAGTCGATGATGACATGATTTATATATTTCGCAAAGGAGAGGAGTTCAGCCATGGAGTGGAGTTTATTCTTTTGATATCATTTAATGAGGGTACCTTAGGTAACCAGGCGGAACATGCACTGGCATCTCTGGCAACAGTGATGTTGGAATCTCCTTCCTTGATAGTACAATTTACACAAGGTTTGAATTTCCATGAAAGCTCTAAGGAGTATACTCATGGAGTAGTGATACGATTCCGATCAGTTGAGGCCTTCGAGATATTTATACGCAGCCAAGAATACAAAGATGTATGGATATCTAAGTTCCAGCCTATTGTCCTGAAATCACTGTCTCTTCATTTCTCTGTTGATCCAGTGGGAACTGAGCTTATGTAG |
| Protein sequence |
>Msa0946570 MSFAMQCSNYSSFCVPRQFTPPTPLSLPLQGPACQWNGFKSQPKKNQMRVFCSSDDQSSNLASQRKRRKVVEHICLLKAKEGLSEEEENDMLDYLYTTQYQMGGIIAISLGRVSAQNPDHYTHAVYMRFQKKENLEKFYENSFYLKVLKDHVMTYCHGLINVDYESEVDDDMIYIFRKGEEFSHGVEFILLISFNEGTLGNQAEHALASLATVMLESPSLIVQFTQGLNFHESSKEYTHGVVIRFRSVEAFEIFIRSQEYKDVWISKFQPIVLKSLSLHFSVDPVGTELM* |
