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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0840630 | XP_003612637.2 | 77.474 | 293 | 13 | 3 | 1 | 293 | 1 | 240 | 1.30e-149 | 432 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000180 | Msa0840630 | 0.827755 | 1.313035e-54 | -8.615850e-47 |
| Msa0000220 | Msa0840630 | 0.874965 | 4.468626e-68 | -8.615850e-47 |
| Msa0000500 | Msa0840630 | 0.814142 | 1.790690e-51 | -8.615850e-47 |
| Msa0001460 | Msa0840630 | 0.837160 | 6.124435e-57 | -8.615850e-47 |
| Msa0005690 | Msa0840630 | 0.882496 | 9.919048e-71 | -8.615850e-47 |
| Msa0006050 | Msa0840630 | 0.825859 | 3.725006e-54 | -8.615850e-47 |
| Msa0007570 | Msa0840630 | 0.811192 | 7.915141e-51 | -8.615850e-47 |
| Msa0008250 | Msa0840630 | 0.842489 | 2.506908e-58 | -8.615850e-47 |
| Msa0010460 | Msa0840630 | -0.806256 | 8.985218e-50 | -8.615850e-47 |
| Msa0012460 | Msa0840630 | 0.815641 | 8.331993e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0840630 | MtrunA17_Chr5g0409601 | 77.474 | 293 | 13 | 3 | 1 | 293 | 1 | 240 | 1.20e-153 | 432 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0840630 | AT5G48790.2 | 50.836 | 299 | 80 | 6 | 2 | 296 | 5 | 240 | 6.17e-89 | 266 |
| Msa0840630 | AT5G48790.3 | 50.836 | 299 | 80 | 6 | 2 | 296 | 5 | 240 | 6.17e-89 | 266 |
| Msa0840630 | AT5G48790.1 | 50.338 | 296 | 80 | 6 | 2 | 293 | 5 | 237 | 2.49e-85 | 259 |
Find 99 sgRNAs with CRISPR-Local
Find 266 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATTGGTGTATTTCCGAC+AGG | 0.519994 | 5_4:-16461066 | Msa0840630:CDS |
| AAACAACAGGGGTTGGTCTC+CGG | 0.421170 | 5_4:-16458646 | Msa0840630:intron |
| AAACTGTACAGCAACGAACA+TGG | 0.641772 | 5_4:+16458512 | None:intergenic |
| AAAGATGTGATTTGATCAAT+CGG | 0.457544 | 5_4:+16458399 | None:intergenic |
| AAATCGACCGTATCAGATCT+GGG | 0.581224 | 5_4:-16459731 | Msa0840630:CDS |
| AAGCTGTCGTGAACACTGAA+CGG | 0.604893 | 5_4:-16459776 | Msa0840630:CDS |
| AAGTCGACTTCATTAGCTTC+TGG | 0.359116 | 5_4:+16460078 | None:intergenic |
| AATATATACCTATAGCCTAT+AGG | 0.467581 | 5_4:-16458262 | None:intergenic |
| AATGGTGGGTTTATCAGAAT+TGG | 0.317994 | 5_4:-16462488 | Msa0840630:CDS |
| AATGTAATACACAGTTTCCA+TGG | 0.519031 | 5_4:+16459480 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATCAAATGGTCTAAATCAAG+GGG | + | chr5_4:16458296-16458315 | None:intergenic | 30.0% | |
| GATCAAATGGTCTAAATCAA+GGG | + | chr5_4:16458297-16458316 | None:intergenic | 30.0% | |
| AGATCAAATGGTCTAAATCA+AGG | + | chr5_4:16458298-16458317 | None:intergenic | 30.0% | |
| ATGGTCAAAATCAAAGTGAA+AGG | + | chr5_4:16458390-16458409 | None:intergenic | 30.0% | |
| GCTAAGTCCAACATATTTAA+TGG | + | chr5_4:16458409-16458428 | None:intergenic | 30.0% | |
| AGAAAAAGAGAACATGTTTG+TGG | + | chr5_4:16458476-16458495 | None:intergenic | 30.0% | |
| TCAGAGTAATCAAAAGGAAA+AGG | + | chr5_4:16458777-16458796 | None:intergenic | 30.0% | |
| AGAGTCATATCTAATCAATG+TGG | - | chr5_4:16459206-16459225 | Msa0840630:intron | 30.0% | |
| GAGTCATATCTAATCAATGT+GGG | - | chr5_4:16459207-16459226 | Msa0840630:intron | 30.0% | |
| GTATTAGGGTATGTTTGAAT+TGG | + | chr5_4:16459390-16459409 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_4 | gene | 16458264 | 16462894 | 16458264 | ID=Msa0840630;Name=Msa0840630 |
| chr5_4 | mRNA | 16458264 | 16462894 | 16458264 | ID=Msa0840630-mRNA-1;Parent=Msa0840630;Name=Msa0840630-mRNA-1;_AED=0.28;_eAED=0.28;_QI=217|0.75|0.66|1|0.87|0.66|9|801|304 |
| chr5_4 | exon | 16458264 | 16458659 | 16458264 | ID=Msa0840630-mRNA-1:exon:7082;Parent=Msa0840630-mRNA-1 |
| chr5_4 | exon | 16459070 | 16459221 | 16459070 | ID=Msa0840630-mRNA-1:exon:7081;Parent=Msa0840630-mRNA-1 |
| chr5_4 | exon | 16459442 | 16459828 | 16459442 | ID=Msa0840630-mRNA-1:exon:7080;Parent=Msa0840630-mRNA-1 |
| chr5_4 | exon | 16459914 | 16460138 | 16459914 | ID=Msa0840630-mRNA-1:exon:7079;Parent=Msa0840630-mRNA-1 |
| chr5_4 | exon | 16460595 | 16460777 | 16460595 | ID=Msa0840630-mRNA-1:exon:7078;Parent=Msa0840630-mRNA-1 |
| chr5_4 | exon | 16460868 | 16460907 | 16460868 | ID=Msa0840630-mRNA-1:exon:7077;Parent=Msa0840630-mRNA-1 |
| chr5_4 | exon | 16461019 | 16461108 | 16461019 | ID=Msa0840630-mRNA-1:exon:7076;Parent=Msa0840630-mRNA-1 |
| chr5_4 | exon | 16462349 | 16462540 | 16462349 | ID=Msa0840630-mRNA-1:exon:7075;Parent=Msa0840630-mRNA-1 |
| chr5_4 | exon | 16462627 | 16462894 | 16462627 | ID=Msa0840630-mRNA-1:exon:7074;Parent=Msa0840630-mRNA-1 |
| chr5_4 | five_prime_UTR | 16462678 | 16462894 | 16462678 | ID=Msa0840630-mRNA-1:five_prime_utr;Parent=Msa0840630-mRNA-1 |
| chr5_4 | CDS | 16462627 | 16462677 | 16462627 | ID=Msa0840630-mRNA-1:cds;Parent=Msa0840630-mRNA-1 |
| chr5_4 | CDS | 16462349 | 16462540 | 16462349 | ID=Msa0840630-mRNA-1:cds;Parent=Msa0840630-mRNA-1 |
| chr5_4 | CDS | 16461019 | 16461108 | 16461019 | ID=Msa0840630-mRNA-1:cds;Parent=Msa0840630-mRNA-1 |
| chr5_4 | CDS | 16460868 | 16460907 | 16460868 | ID=Msa0840630-mRNA-1:cds;Parent=Msa0840630-mRNA-1 |
| chr5_4 | CDS | 16460595 | 16460777 | 16460595 | ID=Msa0840630-mRNA-1:cds;Parent=Msa0840630-mRNA-1 |
| chr5_4 | CDS | 16459914 | 16460138 | 16459914 | ID=Msa0840630-mRNA-1:cds;Parent=Msa0840630-mRNA-1 |
| chr5_4 | CDS | 16459695 | 16459828 | 16459695 | ID=Msa0840630-mRNA-1:cds;Parent=Msa0840630-mRNA-1 |
| chr5_4 | three_prime_UTR | 16459442 | 16459694 | 16459442 | ID=Msa0840630-mRNA-1:three_prime_utr;Parent=Msa0840630-mRNA-1 |
| chr5_4 | three_prime_UTR | 16459070 | 16459221 | 16459070 | ID=Msa0840630-mRNA-1:three_prime_utr;Parent=Msa0840630-mRNA-1 |
| chr5_4 | three_prime_UTR | 16458264 | 16458659 | 16458264 | ID=Msa0840630-mRNA-1:three_prime_utr;Parent=Msa0840630-mRNA-1 |
| Gene Sequence |
>Msa0840630 ATGTTCTCTTTTTCTCCTGTAATAACACCCTCTTCCATCTCATCTTCAACGGTTCTCAAGTTGGAAACTTTTTCTCTTAAAAATGGTGGGTTTATCAGAATTGGAGGGATTACTGCTCCTTCAATGGTATCTAGAAATCAAAAATTAGCAATGTGTTCTTCTGTTTCTGCTACTGGTGATGGCAATGCTTCTGTTCAGACTGATGTTCCTTTTCCTTTTGATTACTCTGAGCTTCTGGAACAAAAGCATGCTAATAAAGCACTAAAATTGGTGTATTTCCGACAGGCTAGAGTTGCAGTGGAATTGGCCATGAAAGATAACAAACAGCTAATGGAGATTGAGTTTCCCACAGCTGGACTCGAATCCGTACCAGGTGATGGTGAAGGTGGAATAGAGATGACCGGAAGCATGCAATTGATTCGTGAATTTTGCGACCTCTCCATTTCTGCAGAGAAAATCACGCGAACAAGAATAGTAATTTTCTTGATTTACCATTCTTCTTTATGCTCCCAGTATTCCTTTCTTGATGAAATGAAAAGGCCTATCTTCACAACTTTTGAAATTGATGTTCAACCTTGTAAAAATCAGTTTTTTCCAGAAGCTAATGAAGTCGACTTTGCAAGACAATCGGCCTTCAGTGGAGCTTCTTTTAAGTTGGACTATCTGACAAAGCCTTCATTTTTTCAAGATTTTGGTTTTGTTGAGAAAGTAAAAATGTCGGACAGAGTGAAGGCAGAGGATGAACTTTTCGTAGTAGCCTACCCATATTTCAATGTCAACGAAATGCTTGTTGTCGAAGAACTTTACAAAGAAGCTGTCGTGAACACTGAACGGAAACTGATCATTTTCAATGGAGAAATCGACCGTATCAGATCTGGGTGTATCCTTTTGCAAAATTATGCAGCTATTTATTAA |
| Protein sequence |
>Msa0840630 MFSFSPVITPSSISSSTVLKLETFSLKNGGFIRIGGITAPSMVSRNQKLAMCSSVSATGDGNASVQTDVPFPFDYSELLEQKHANKALKLVYFRQARVAVELAMKDNKQLMEIEFPTAGLESVPGDGEGGIEMTGSMQLIREFCDLSISAEKITRTRIVIFLIYHSSLCSQYSFLDEMKRPIFTTFEIDVQPCKNQFFPEANEVDFARQSAFSGASFKLDYLTKPSFFQDFGFVEKVKMSDRVKAEDELFVVAYPYFNVNEMLVVEELYKEAVVNTERKLIIFNGEIDRIRSGCILLQNYAAIY* |
