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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0172310 | XP_024637931.1 | 91.489 | 188 | 16 | 0 | 1 | 188 | 44 | 231 | 1.03e-123 | 358 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000180 | Msa0172310 | 0.833442 | 5.321661e-56 | -8.615850e-47 |
| Msa0000220 | Msa0172310 | 0.829643 | 4.589409e-55 | -8.615850e-47 |
| Msa0000610 | Msa0172310 | 0.896196 | 4.652583e-76 | -8.615850e-47 |
| Msa0000800 | Msa0172310 | -0.832911 | 7.215297e-56 | -8.615850e-47 |
| Msa0001040 | Msa0172310 | 0.823000 | 1.752855e-53 | -8.615850e-47 |
| Msa0001510 | Msa0172310 | 0.871885 | 4.860431e-67 | -8.615850e-47 |
| Msa0002110 | Msa0172310 | 0.860962 | 1.432541e-63 | -8.615850e-47 |
| Msa0002690 | Msa0172310 | 0.911375 | 6.531506e-83 | -8.615850e-47 |
| Msa0002700 | Msa0172310 | 0.918449 | 1.538035e-86 | -8.615850e-47 |
| Msa0003340 | Msa0172310 | 0.869684 | 2.575366e-66 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0172310 | MtrunA17_Chr1g0190931 | 91.489 | 188 | 16 | 0 | 1 | 188 | 51 | 238 | 1.39e-127 | 358 |
| Msa0172310 | MtrunA17_Chr8g0348281 | 31.298 | 131 | 83 | 3 | 48 | 175 | 91 | 217 | 9.35e-19 | 80.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0172310 | AT3G04890.1 | 58.857 | 175 | 72 | 0 | 7 | 181 | 33 | 207 | 3.34e-71 | 215 |
| Msa0172310 | AT3G04890.3 | 58.857 | 175 | 72 | 0 | 7 | 181 | 37 | 211 | 5.45e-71 | 214 |
| Msa0172310 | AT3G04890.2 | 53.416 | 161 | 75 | 0 | 7 | 167 | 33 | 193 | 5.19e-57 | 179 |
| Msa0172310 | AT3G04890.4 | 53.416 | 161 | 75 | 0 | 7 | 167 | 37 | 197 | 7.61e-57 | 179 |
| Msa0172310 | AT2G46100.1 | 30.556 | 180 | 108 | 6 | 11 | 182 | 60 | 230 | 2.64e-21 | 87.8 |
Find 59 sgRNAs with CRISPR-Local
Find 216 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACCAGGTGGTTGAATGTCA+TGG | 0.570801 | 1_4:+57304707 | Msa0172310:exon |
| ACATCATCAATACTTGAAAC+TGG | 0.314009 | 1_4:-57303610 | None:intergenic |
| ACTGATAGATGAGAAGGGAA+AGG | 0.611669 | 1_4:-57304944 | None:intergenic |
| ACTGCAATCTTCAGAACCTG+AGG | 0.643213 | 1_4:-57303166 | None:intergenic |
| AGAAAGAAACAAAACCCCTC+AGG | 0.570589 | 1_4:+57303150 | Msa0172310:CDS |
| AGACATTTATTACCTGGGAG+TGG | 0.539869 | 1_4:-57302950 | None:intergenic |
| AGATACCTTGTTTGTTGGGG+AGG | 0.519985 | 1_4:-57303223 | None:intergenic |
| AGCCTTACACTTCCACTCCC+AGG | 0.566168 | 1_4:+57302938 | Msa0172310:five_prime_UTR |
| AGGCCTCTGATTGCTATTGA+TGG | 0.449120 | 1_4:+57304485 | Msa0172310:CDS |
| AGGTGGTTGAATGTCATGGC+GGG | 0.631232 | 1_4:+57304711 | Msa0172310:exon |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CATAAAGAAGTCGAATGAAA+TGG | + | chr1_4:57302878-57302897 | Msa0172310:intron | 30.0% | |
| GACTTGTGCAATTTATAACA+TGG | + | chr1_4:57303123-57303142 | Msa0172310:exon | 30.0% | |
| AAGTGTTTGTGCTACATAAA+TGG | - | chr1_4:57303252-57303271 | None:intergenic | 30.0% | |
| ATCATCAATACTTGAAACTG+GGG | - | chr1_4:57303611-57303630 | None:intergenic | 30.0% | |
| CATCATCAATACTTGAAACT+GGG | - | chr1_4:57303612-57303631 | None:intergenic | 30.0% | |
| ACATCATCAATACTTGAAAC+TGG | - | chr1_4:57303613-57303632 | None:intergenic | 30.0% | |
| TTTAGATTACATGCCAGAAA+AGG | - | chr1_4:57303801-57303820 | None:intergenic | 30.0% | |
| TCTATGATGTATGATCATAC+AGG | + | chr1_4:57304134-57304153 | Msa0172310:intron | 30.0% | |
| GATCTTTAGTAGTCTAATTG+AGG | - | chr1_4:57304213-57304232 | None:intergenic | 30.0% | |
| TAGACTACTAAAGATCGAAA+AGG | + | chr1_4:57304217-57304236 | Msa0172310:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_4 | gene | 57302831 | 57304965 | 57302831 | ID=Msa0172310;Name=Msa0172310 |
| chr1_4 | mRNA | 57302831 | 57304965 | 57302831 | ID=Msa0172310-mRNA-1;Parent=Msa0172310;Name=Msa0172310-mRNA-1;_AED=0.15;_eAED=0.15;_QI=188|1|1|1|0.75|0.66|9|245|188 |
| chr1_4 | exon | 57302831 | 57302860 | 57302831 | ID=Msa0172310-mRNA-1:exon:17522;Parent=Msa0172310-mRNA-1 |
| chr1_4 | exon | 57302884 | 57302959 | 57302884 | ID=Msa0172310-mRNA-1:exon:17523;Parent=Msa0172310-mRNA-1 |
| chr1_4 | exon | 57303060 | 57303239 | 57303060 | ID=Msa0172310-mRNA-1:exon:17524;Parent=Msa0172310-mRNA-1 |
| chr1_4 | exon | 57303570 | 57303679 | 57303570 | ID=Msa0172310-mRNA-1:exon:17525;Parent=Msa0172310-mRNA-1 |
| chr1_4 | exon | 57303847 | 57303912 | 57303847 | ID=Msa0172310-mRNA-1:exon:17526;Parent=Msa0172310-mRNA-1 |
| chr1_4 | exon | 57304156 | 57304238 | 57304156 | ID=Msa0172310-mRNA-1:exon:17527;Parent=Msa0172310-mRNA-1 |
| chr1_4 | exon | 57304334 | 57304380 | 57304334 | ID=Msa0172310-mRNA-1:exon:17528;Parent=Msa0172310-mRNA-1 |
| chr1_4 | exon | 57304463 | 57304541 | 57304463 | ID=Msa0172310-mRNA-1:exon:17529;Parent=Msa0172310-mRNA-1 |
| chr1_4 | exon | 57304637 | 57304965 | 57304637 | ID=Msa0172310-mRNA-1:exon:17530;Parent=Msa0172310-mRNA-1 |
| chr1_4 | five_prime_UTR | 57302831 | 57302860 | 57302831 | ID=Msa0172310-mRNA-1:five_prime_utr;Parent=Msa0172310-mRNA-1 |
| chr1_4 | five_prime_UTR | 57302884 | 57302959 | 57302884 | ID=Msa0172310-mRNA-1:five_prime_utr;Parent=Msa0172310-mRNA-1 |
| chr1_4 | five_prime_UTR | 57303060 | 57303141 | 57303060 | ID=Msa0172310-mRNA-1:five_prime_utr;Parent=Msa0172310-mRNA-1 |
| chr1_4 | CDS | 57303142 | 57303239 | 57303142 | ID=Msa0172310-mRNA-1:cds;Parent=Msa0172310-mRNA-1 |
| chr1_4 | CDS | 57303570 | 57303679 | 57303570 | ID=Msa0172310-mRNA-1:cds;Parent=Msa0172310-mRNA-1 |
| chr1_4 | CDS | 57303847 | 57303912 | 57303847 | ID=Msa0172310-mRNA-1:cds;Parent=Msa0172310-mRNA-1 |
| chr1_4 | CDS | 57304156 | 57304238 | 57304156 | ID=Msa0172310-mRNA-1:cds;Parent=Msa0172310-mRNA-1 |
| chr1_4 | CDS | 57304334 | 57304380 | 57304334 | ID=Msa0172310-mRNA-1:cds;Parent=Msa0172310-mRNA-1 |
| chr1_4 | CDS | 57304463 | 57304541 | 57304463 | ID=Msa0172310-mRNA-1:cds;Parent=Msa0172310-mRNA-1 |
| chr1_4 | CDS | 57304637 | 57304720 | 57304637 | ID=Msa0172310-mRNA-1:cds;Parent=Msa0172310-mRNA-1 |
| chr1_4 | three_prime_UTR | 57304721 | 57304965 | 57304721 | ID=Msa0172310-mRNA-1:three_prime_utr;Parent=Msa0172310-mRNA-1 |
| Gene Sequence |
>Msa0172310 ATGGTAAGAGAAAGAAACAAAACCCCTCAGGTTCTGAAGATTGCAGTGAGCGGAGTGACGGAGCTCCTGAGGCTTTTCTCTCCTCCCCAACAAACAAGTGTTTTAAGCAGTAACGTTGAGAAACAGAATAATGACTCCCCAGTTTCAAGTATTGATGATGTTCTAATCATCATAAAGGATGATTATGACAGCGCTTATTTTGTCACAGGGAACTTCACTTCTTCAATTTACGCAGAAAATTGTATCTTTGAAGATCCAACTATTAAATTTAGTGGTAGGGACTTATATGCGCGCAACTTGAAATTACTCGTTCCATTCTTCGACTGTGCCTCAATTAGACTACTAAAGATCGAAAAGGATGTTGAATCTGGCACAAATTTTCTGCGTGCATCTTGGAAATTAAGGACCAACTTAAAACTTCCGTGGAGGCCTCTGATTGCTATTGATGGAAGCACTTCTTATGAATTGAATGAAGATTTCAAAATCGTTCGGCATATTGAGAGTTGGAATGTTTCTGCACTTGAAGCAGTTTTGCAGATTTTCAAGTTTGAAAAACCAGGTGGTTGA |
| Protein sequence |
>Msa0172310 MVRERNKTPQVLKIAVSGVTELLRLFSPPQQTSVLSSNVEKQNNDSPVSSIDDVLIIIKDDYDSAYFVTGNFTSSIYAENCIFEDPTIKFSGRDLYARNLKLLVPFFDCASIRLLKIEKDVESGTNFLRASWKLRTNLKLPWRPLIAIDGSTSYELNEDFKIVRHIESWNVSALEAVLQIFKFEKPGG* |
