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 |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0125320 | sp|P19873|ITH5_CUCMA | 60.294 | 68 | 27 | 0 | 38 | 105 | 1 | 68 | 2.32e-23 | 88.2 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0125320 | G7I3Z2 | 89.706 | 68 | 7 | 0 | 38 | 105 | 3 | 70 | 2.02e-37 | 130 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0077370 | Msa0125320 | 0.856918 | 2.324346e-62 | -8.615850e-47 |
| Msa0077380 | Msa0125320 | 0.854715 | 1.023466e-61 | -8.615850e-47 |
| Msa0086190 | Msa0125320 | 0.818856 | 1.575981e-52 | -8.615850e-47 |
| Msa0100750 | Msa0125320 | 0.809385 | 1.942676e-50 | -8.615850e-47 |
| Msa0125320 | Msa0132430 | 0.804949 | 1.689891e-49 | -8.615850e-47 |
| Msa0125320 | Msa0174100 | 0.829934 | 3.898801e-55 | -8.615850e-47 |
| Msa0125320 | Msa0182020 | 0.800255 | 1.570413e-48 | -8.615850e-47 |
| Msa0125320 | Msa0213540 | 0.803244 | 3.823034e-49 | -8.615850e-47 |
| Msa0125320 | Msa0528990 | 0.928544 | 2.486756e-92 | -8.615850e-47 |
| Msa0125320 | Msa0529000 | 0.833317 | 5.718083e-56 | -8.615850e-47 |
| Msa0125320 | Msa0574930 | 0.832639 | 8.426991e-56 | -8.615850e-47 |
| Msa0125320 | Msa0708600 | 0.830642 | 2.618248e-55 | -8.615850e-47 |
| Msa0125320 | Msa0744640 | 0.817709 | 2.864578e-52 | -8.615850e-47 |
| Msa0125320 | Msa0841730 | 0.817693 | 2.888388e-52 | -8.615850e-47 |
| Msa0125320 | Msa0930740 | 0.806827 | 6.809307e-50 | -8.615850e-47 |
| Msa0125320 | Msa1159160 | 0.800129 | 1.665674e-48 | -8.615850e-47 |
| Msa0125320 | Msa1405420 | 0.993480 | 5.005527e-200 | -8.615850e-47 |
| Msa0125320 | Msa1422340 | 0.801621 | 8.259488e-49 | -8.615850e-47 |
PPI
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0125320 | MtrunA17_Chr1g0187161 | 89.706 | 68 | 7 | 0 | 38 | 105 | 3 | 70 | 3.88e-41 | 130 |
| Msa0125320 | MtrunA17_Chr1g0187221 | 84.722 | 72 | 11 | 0 | 34 | 105 | 1 | 72 | 9.66e-41 | 129 |
| Msa0125320 | MtrunA17_Chr5g0442291 | 83.824 | 68 | 11 | 0 | 38 | 105 | 3 | 70 | 4.69e-35 | 114 |
| Msa0125320 | MtrunA17_Chr1g0187201 | 79.710 | 69 | 14 | 0 | 37 | 105 | 3 | 71 | 1.50e-32 | 108 |
| Msa0125320 | MtrunA17_Chr1g0184401 | 57.576 | 66 | 28 | 0 | 40 | 105 | 8 | 73 | 1.34e-22 | 83.6 |
| Msa0125320 | MtrunA17_Chr1g0184411 | 56.061 | 66 | 29 | 0 | 40 | 105 | 5 | 70 | 6.55e-21 | 79.0 |
| Msa0125320 | MtrunA17_Chr5g0419531 | 53.731 | 67 | 31 | 0 | 39 | 105 | 3 | 69 | 1.25e-18 | 73.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0125320 | AT5G43580.1 | 45.631 | 103 | 51 | 1 | 3 | 105 | 2 | 99 | 4.07e-23 | 85.9 |
| Msa0125320 | AT2G38870.1 | 52.239 | 67 | 32 | 0 | 39 | 105 | 4 | 70 | 5.61e-20 | 77.0 |
| Msa0125320 | AT3G46860.1 | 44.444 | 72 | 37 | 1 | 37 | 105 | 14 | 85 | 9.74e-13 | 58.9 |
| Msa0125320 | AT2G38900.1 | 42.188 | 64 | 37 | 0 | 42 | 105 | 10 | 73 | 6.56e-11 | 53.9 |
Find 33 sgRNAs with CRISPR-Local
Find 40 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTGTGACAGGGTTTGGGTTT+GGG | 0.259063 | 1_3:-53824389 | Msa0125320:CDS |
| ACTTCCGCTGTGACAGGGTT+TGG | 0.267379 | 1_3:-53824396 | Msa0125320:CDS |
| CTTCCGCTGTGACAGGGTTT+GGG | 0.309008 | 1_3:-53824395 | Msa0125320:CDS |
| GCTGTGACAGGGTTTGGGTT+TGG | 0.326505 | 1_3:-53824390 | Msa0125320:CDS |
| TAAAGATGGAATTGTCTATC+AGG | 0.326953 | 1_3:-53824362 | Msa0125320:CDS |
| CCTTTGACTTCCGCTGTGAC+AGG | 0.333094 | 1_3:-53824402 | Msa0125320:CDS |
| ATAAATTTAATGTTACAATA+AGG | 0.340780 | 1_3:-53824282 | Msa0125320:three_prime_UTR |
| ATAGTAGTATAGTATAGAAT+TGG | 0.416384 | 1_3:+53824244 | None:intergenic |
| TGGGTTTGGGTTAATAAAGA+TGG | 0.418377 | 1_3:-53824376 | Msa0125320:CDS |
| TGTTCTCAGGAAAGAGTTCA+TGG | 0.421985 | 1_3:-53824525 | Msa0125320:intron |
| TACATATTGAAGGATCAAAA+AGG | 0.425186 | 1_3:-53824667 | Msa0125320:CDS |
| GTAACATTAAATTTATAACT+TGG | 0.441318 | 1_3:+53824289 | None:intergenic |
| AAATTGGATAGAAAGTTTCA+TGG | 0.443912 | 1_3:-53824333 | Msa0125320:exon |
| CCTTCCACTCCAACCAACTC+TGG | 0.454716 | 1_3:+53824502 | None:intergenic |
| CTTTGACTTCCGCTGTGACA+GGG | 0.463269 | 1_3:-53824401 | Msa0125320:CDS |
| CTGTCACAGCGGAAGTCAAA+GGG | 0.467050 | 1_3:+53824403 | None:intergenic |
| CAAATAGTCATACATATTGA+AGG | 0.500193 | 1_3:-53824677 | Msa0125320:CDS |
| GATGCCATCATTGTGCTAGA+AGG | 0.504821 | 1_3:-53824436 | Msa0125320:CDS |
| CCAGAGTTGGTTGGAGTGGA+AGG | 0.515293 | 1_3:-53824502 | Msa0125320:CDS |
| GTTGGTTGGAGTGGAAGGAA+AGG | 0.527079 | 1_3:-53824497 | Msa0125320:CDS |
| AGTTCCTTCTAGCACAATGA+TGG | 0.538007 | 1_3:+53824432 | None:intergenic |
| AATTCAGAGGGAGAATCCAT+TGG | 0.542280 | 1_3:-53824461 | Msa0125320:CDS |
| ATGGCCAGAGTTGGTTGGAG+TGG | 0.545068 | 1_3:-53824506 | Msa0125320:CDS |
| CCTGTCACAGCGGAAGTCAA+AGG | 0.545493 | 1_3:+53824402 | None:intergenic |
| GTGATATATAATGCATTGCA+AGG | 0.551843 | 1_3:+53824741 | None:intergenic |
| AAAGAGTTCATGGCCAGAGT+TGG | 0.558924 | 1_3:-53824515 | Msa0125320:CDS |
| AGTTCATGGCCAGAGTTGGT+TGG | 0.560974 | 1_3:-53824511 | Msa0125320:CDS |
| AGCAGAAGCTACAATTCAGA+GGG | 0.593359 | 1_3:-53824473 | Msa0125320:CDS |
| TAGCAGAAGCTACAATTCAG+AGG | 0.596029 | 1_3:-53824474 | Msa0125320:CDS |
| ACAATGATGGCATCAACCAA+TGG | 0.650325 | 1_3:+53824445 | None:intergenic |
| TCTTATGATGATGAATGCAA+AGG | 0.657039 | 1_3:-53824632 | Msa0125320:intron |
| TGTCACAGCGGAAGTCAAAG+GGG | 0.698463 | 1_3:+53824404 | None:intergenic |
| AAACCCAAACCCTGTCACAG+CGG | 0.730650 | 1_3:+53824392 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TATAATATGTTTACATTAAA+TGG | - | chr1_3:53824285-53824304 | Msa0125320:three_prime_UTR | 10.0% |
| !! | ATAAATTTAATGTTACAATA+AGG | - | chr1_3:53824599-53824618 | Msa0125320:intron | 10.0% |
| !! | TTGCAAAAAAAAAAAGAAAA+AGG | - | chr1_3:53824177-53824196 | Msa0125320:three_prime_UTR | 15.0% |
| !! | GTAACATTAAATTTATAACT+TGG | + | chr1_3:53824595-53824614 | None:intergenic | 15.0% |
| !! | ATAGTAGTATAGTATAGAAT+TGG | + | chr1_3:53824640-53824659 | None:intergenic | 20.0% |
| ! | CAAATAGTCATACATATTGA+AGG | - | chr1_3:53824204-53824223 | Msa0125320:three_prime_UTR | 25.0% |
| ! | TACATATTGAAGGATCAAAA+AGG | - | chr1_3:53824214-53824233 | Msa0125320:three_prime_UTR | 25.0% |
| ! | TAATCAAATATTGTGTTCTC+AGG | - | chr1_3:53824343-53824362 | Msa0125320:exon | 25.0% |
| !! | GAAACTTTCTATCCAATTTT+TGG | + | chr1_3:53824547-53824566 | None:intergenic | 25.0% |
| ! | AAATTGGATAGAAAGTTTCA+TGG | - | chr1_3:53824548-53824567 | Msa0125320:intron | 25.0% |
| !! | AACTTGTAATTCGTTTTCTT+TGG | - | chr1_3:53824707-53824726 | Msa0125320:CDS | 25.0% |
| ! | TCTTATGATGATGAATGCAA+AGG | - | chr1_3:53824249-53824268 | Msa0125320:three_prime_UTR | 30.0% |
| TAAAGATGGAATTGTCTATC+AGG | - | chr1_3:53824519-53824538 | Msa0125320:CDS | 30.0% | |
| ! | TGATGATGAATGCAAAGGTA+AGG | - | chr1_3:53824254-53824273 | Msa0125320:three_prime_UTR | 35.0% |
| ! | TGGGTTTGGGTTAATAAAGA+TGG | - | chr1_3:53824505-53824524 | Msa0125320:CDS | 35.0% |
| GTCTATCAGGTTCCAAAAAT+TGG | - | chr1_3:53824532-53824551 | Msa0125320:intron | 35.0% | |
| TGTTCTCAGGAAAGAGTTCA+TGG | - | chr1_3:53824356-53824375 | Msa0125320:CDS | 40.0% | |
| TAGCAGAAGCTACAATTCAG+AGG | - | chr1_3:53824407-53824426 | Msa0125320:CDS | 40.0% | |
| AGCAGAAGCTACAATTCAGA+GGG | - | chr1_3:53824408-53824427 | Msa0125320:CDS | 40.0% | |
| AATTCAGAGGGAGAATCCAT+TGG | - | chr1_3:53824420-53824439 | Msa0125320:CDS | 40.0% | |
| ACAATGATGGCATCAACCAA+TGG | + | chr1_3:53824439-53824458 | None:intergenic | 40.0% | |
| AGTTCCTTCTAGCACAATGA+TGG | + | chr1_3:53824452-53824471 | None:intergenic | 40.0% | |
| AAAGAGTTCATGGCCAGAGT+TGG | - | chr1_3:53824366-53824385 | Msa0125320:CDS | 45.0% | |
| GATGCCATCATTGTGCTAGA+AGG | - | chr1_3:53824445-53824464 | Msa0125320:CDS | 45.0% | |
| !!! | AAATTTTTATTATAATTTGA+TGG | - | chr1_3:53824314-53824333 | Msa0125320:three_prime_UTR | 5.0% |
| ! | AGTTCATGGCCAGAGTTGGT+TGG | - | chr1_3:53824370-53824389 | Msa0125320:CDS | 50.0% |
| GTTGGTTGGAGTGGAAGGAA+AGG | - | chr1_3:53824384-53824403 | Msa0125320:CDS | 50.0% | |
| TGTCACAGCGGAAGTCAAAG+GGG | + | chr1_3:53824480-53824499 | None:intergenic | 50.0% | |
| CTGTCACAGCGGAAGTCAAA+GGG | + | chr1_3:53824481-53824500 | None:intergenic | 50.0% | |
| ! | CTTTGACTTCCGCTGTGACA+GGG | - | chr1_3:53824480-53824499 | Msa0125320:CDS | 50.0% |
| AAACCCAAACCCTGTCACAG+CGG | + | chr1_3:53824492-53824511 | None:intergenic | 50.0% | |
| ! | CTGTGACAGGGTTTGGGTTT+GGG | - | chr1_3:53824492-53824511 | Msa0125320:CDS | 50.0% |
| ! | ATGGCCAGAGTTGGTTGGAG+TGG | - | chr1_3:53824375-53824394 | Msa0125320:CDS | 55.0% |
| CCTTCCACTCCAACCAACTC+TGG | + | chr1_3:53824382-53824401 | None:intergenic | 55.0% | |
| ! | CCAGAGTTGGTTGGAGTGGA+AGG | - | chr1_3:53824379-53824398 | Msa0125320:CDS | 55.0% |
| CCTGTCACAGCGGAAGTCAA+AGG | + | chr1_3:53824482-53824501 | None:intergenic | 55.0% | |
| ! | CCTTTGACTTCCGCTGTGAC+AGG | - | chr1_3:53824479-53824498 | Msa0125320:CDS | 55.0% |
| ACTTCCGCTGTGACAGGGTT+TGG | - | chr1_3:53824485-53824504 | Msa0125320:CDS | 55.0% | |
| CTTCCGCTGTGACAGGGTTT+GGG | - | chr1_3:53824486-53824505 | Msa0125320:CDS | 55.0% | |
| ! | GCTGTGACAGGGTTTGGGTT+TGG | - | chr1_3:53824491-53824510 | Msa0125320:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_3 | gene | 53824143 | 53824760 | 53824143 | ID=Msa0125320;Name=Msa0125320 |
| chr1_3 | mRNA | 53824143 | 53824760 | 53824143 | ID=Msa0125320-mRNA-1;Parent=Msa0125320;Name=Msa0125320-mRNA-1;_AED=0.00;_eAED=0.00;_QI=4|1|1|1|1|1|2|202|105 |
| chr1_3 | exon | 53824143 | 53824538 | 53824143 | ID=Msa0125320-mRNA-1:exon:16515;Parent=Msa0125320-mRNA-1 |
| chr1_3 | exon | 53824633 | 53824760 | 53824633 | ID=Msa0125320-mRNA-1:exon:16514;Parent=Msa0125320-mRNA-1 |
| chr1_3 | five_prime_UTR | 53824757 | 53824760 | 53824757 | ID=Msa0125320-mRNA-1:five_prime_utr;Parent=Msa0125320-mRNA-1 |
| chr1_3 | CDS | 53824633 | 53824756 | 53824633 | ID=Msa0125320-mRNA-1:cds;Parent=Msa0125320-mRNA-1 |
| chr1_3 | CDS | 53824345 | 53824538 | 53824345 | ID=Msa0125320-mRNA-1:cds;Parent=Msa0125320-mRNA-1 |
| chr1_3 | three_prime_UTR | 53824143 | 53824344 | 53824143 | ID=Msa0125320-mRNA-1:three_prime_utr;Parent=Msa0125320-mRNA-1 |
| Gene Sequence |
| Protein sequence |
