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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1405420 | XP_003590795.1 | 89.706 | 68 | 7 | 0 | 38 | 105 | 3 | 70 | 4.22e-37 | 130 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1405420 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1405420 | 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 | Msa1405420 | 0.858700 | 6.881415e-63 | -8.615850e-47 |
| Msa0077380 | Msa1405420 | 0.859126 | 5.132088e-63 | -8.615850e-47 |
| Msa0086190 | Msa1405420 | 0.824645 | 7.214658e-54 | -8.615850e-47 |
| Msa0100750 | Msa1405420 | 0.806623 | 7.520107e-50 | -8.615850e-47 |
| Msa0708600 | Msa1405420 | 0.834768 | 2.476525e-56 | -8.615850e-47 |
| Msa0744640 | Msa1405420 | 0.809072 | 2.266830e-50 | -8.615850e-47 |
| Msa0841730 | Msa1405420 | 0.809137 | 2.195307e-50 | -8.615850e-47 |
| Msa0125320 | Msa1405420 | 0.993480 | 5.005527e-200 | -8.615850e-47 |
| Msa0132430 | Msa1405420 | 0.806035 | 1.000166e-49 | -8.615850e-47 |
| Msa0174100 | Msa1405420 | 0.833316 | 5.721382e-56 | -8.615850e-47 |
| Msa0182020 | Msa1405420 | 0.803257 | 3.799784e-49 | -8.615850e-47 |
| Msa0213540 | Msa1405420 | 0.806905 | 6.555875e-50 | -8.615850e-47 |
| Msa0528990 | Msa1405420 | 0.926884 | 2.535084e-91 | -8.615850e-47 |
| Msa0529000 | Msa1405420 | 0.834368 | 3.120598e-56 | -8.615850e-47 |
| Msa0574930 | Msa1405420 | 0.829193 | 5.903625e-55 | -8.615850e-47 |
| Msa0930740 | Msa1405420 | 0.804217 | 2.401941e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1405420 | MtrunA17_Chr1g0187161 | 89.706 | 68 | 7 | 0 | 38 | 105 | 3 | 70 | 3.88e-41 | 130 |
| Msa1405420 | MtrunA17_Chr1g0187221 | 84.722 | 72 | 11 | 0 | 34 | 105 | 1 | 72 | 9.66e-41 | 129 |
| Msa1405420 | MtrunA17_Chr5g0442291 | 83.824 | 68 | 11 | 0 | 38 | 105 | 3 | 70 | 4.69e-35 | 114 |
| Msa1405420 | MtrunA17_Chr1g0187201 | 79.710 | 69 | 14 | 0 | 37 | 105 | 3 | 71 | 1.50e-32 | 108 |
| Msa1405420 | MtrunA17_Chr1g0184401 | 57.576 | 66 | 28 | 0 | 40 | 105 | 8 | 73 | 1.34e-22 | 83.6 |
| Msa1405420 | MtrunA17_Chr1g0184411 | 56.061 | 66 | 29 | 0 | 40 | 105 | 5 | 70 | 6.55e-21 | 79.0 |
| Msa1405420 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1405420 | AT5G43580.1 | 45.631 | 103 | 51 | 1 | 3 | 105 | 2 | 99 | 4.07e-23 | 85.9 |
| Msa1405420 | AT2G38870.1 | 52.239 | 67 | 32 | 0 | 39 | 105 | 4 | 70 | 5.61e-20 | 77.0 |
| Msa1405420 | AT3G46860.1 | 44.444 | 72 | 37 | 1 | 37 | 105 | 14 | 85 | 9.74e-13 | 58.9 |
| Msa1405420 | 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 | tig0023138:-23548 | Msa1405420:CDS |
| ACTTCCGCTGTGACAGGGTT+TGG | 0.267379 | tig0023138:-23555 | Msa1405420:CDS |
| CTTCCGCTGTGACAGGGTTT+GGG | 0.309008 | tig0023138:-23554 | Msa1405420:CDS |
| GCTGTGACAGGGTTTGGGTT+TGG | 0.326505 | tig0023138:-23549 | Msa1405420:CDS |
| TAAAGATGGAATTGTCTATC+AGG | 0.326953 | tig0023138:-23521 | Msa1405420:CDS |
| CCTTTGACTTCCGCTGTGAC+AGG | 0.333094 | tig0023138:-23561 | Msa1405420:CDS |
| ATAAATTTAATGTTACAATA+AGG | 0.340780 | tig0023138:-23441 | Msa1405420:three_prime_UTR |
| ATAGTAGTATAGTATAGAAT+TGG | 0.416384 | tig0023138:+23403 | None:intergenic |
| TGGGTTTGGGTTAATAAAGA+TGG | 0.418377 | tig0023138:-23535 | Msa1405420:CDS |
| TGTTCTCAGGAAAGAGTTCA+TGG | 0.421985 | tig0023138:-23684 | Msa1405420:intron |
| TACATATTGAAGGATCAAAA+AGG | 0.425186 | tig0023138:-23826 | Msa1405420:CDS |
| GTAACATTAAATTTATAACT+TGG | 0.441318 | tig0023138:+23448 | None:intergenic |
| AAATTGGATAGAAAGTTTCA+TGG | 0.443912 | tig0023138:-23492 | Msa1405420:exon |
| CCTTCCACTCCAACCAACTC+TGG | 0.454716 | tig0023138:+23661 | None:intergenic |
| CTTTGACTTCCGCTGTGACA+GGG | 0.463269 | tig0023138:-23560 | Msa1405420:CDS |
| CTGTCACAGCGGAAGTCAAA+GGG | 0.467050 | tig0023138:+23562 | None:intergenic |
| CAAATAGTCATACATATTGA+AGG | 0.500193 | tig0023138:-23836 | Msa1405420:CDS |
| GATGCCATCATTGTGCTAGA+AGG | 0.504821 | tig0023138:-23595 | Msa1405420:CDS |
| CCAGAGTTGGTTGGAGTGGA+AGG | 0.515293 | tig0023138:-23661 | Msa1405420:CDS |
| GTTGGTTGGAGTGGAAGGAA+AGG | 0.527079 | tig0023138:-23656 | Msa1405420:CDS |
| AGTTCCTTCTAGCACAATGA+TGG | 0.538007 | tig0023138:+23591 | None:intergenic |
| AATTCAGAGGGAGAATCCAT+TGG | 0.542280 | tig0023138:-23620 | Msa1405420:CDS |
| ATGGCCAGAGTTGGTTGGAG+TGG | 0.545068 | tig0023138:-23665 | Msa1405420:CDS |
| CCTGTCACAGCGGAAGTCAA+AGG | 0.545493 | tig0023138:+23561 | None:intergenic |
| GTGATATATAATGCATTGCA+AGG | 0.551843 | tig0023138:+23900 | None:intergenic |
| AAAGAGTTCATGGCCAGAGT+TGG | 0.558924 | tig0023138:-23674 | Msa1405420:CDS |
| AGTTCATGGCCAGAGTTGGT+TGG | 0.560974 | tig0023138:-23670 | Msa1405420:CDS |
| AGCAGAAGCTACAATTCAGA+GGG | 0.593359 | tig0023138:-23632 | Msa1405420:CDS |
| TAGCAGAAGCTACAATTCAG+AGG | 0.596029 | tig0023138:-23633 | Msa1405420:CDS |
| ACAATGATGGCATCAACCAA+TGG | 0.650325 | tig0023138:+23604 | None:intergenic |
| TCTTATGATGATGAATGCAA+AGG | 0.657039 | tig0023138:-23791 | Msa1405420:intron |
| TGTCACAGCGGAAGTCAAAG+GGG | 0.698463 | tig0023138:+23563 | None:intergenic |
| AAACCCAAACCCTGTCACAG+CGG | 0.730650 | tig0023138:+23551 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TATAATATGTTTACATTAAA+TGG | - | tig0023138:23444-23463 | Msa1405420:three_prime_UTR | 10.0% |
| !! | ATAAATTTAATGTTACAATA+AGG | - | tig0023138:23758-23777 | Msa1405420:intron | 10.0% |
| !! | TTGCAAAAAAAAAAAGAAAA+AGG | - | tig0023138:23336-23355 | Msa1405420:three_prime_UTR | 15.0% |
| !! | GTAACATTAAATTTATAACT+TGG | + | tig0023138:23754-23773 | None:intergenic | 15.0% |
| !! | ATAGTAGTATAGTATAGAAT+TGG | + | tig0023138:23799-23818 | None:intergenic | 20.0% |
| ! | CAAATAGTCATACATATTGA+AGG | - | tig0023138:23363-23382 | Msa1405420:three_prime_UTR | 25.0% |
| ! | TACATATTGAAGGATCAAAA+AGG | - | tig0023138:23373-23392 | Msa1405420:three_prime_UTR | 25.0% |
| ! | TAATCAAATATTGTGTTCTC+AGG | - | tig0023138:23502-23521 | Msa1405420:exon | 25.0% |
| !! | GAAACTTTCTATCCAATTTT+TGG | + | tig0023138:23706-23725 | None:intergenic | 25.0% |
| ! | AAATTGGATAGAAAGTTTCA+TGG | - | tig0023138:23707-23726 | Msa1405420:intron | 25.0% |
| !! | AACTTGTAATTCGTTTTCTT+TGG | - | tig0023138:23866-23885 | Msa1405420:CDS | 25.0% |
| ! | TCTTATGATGATGAATGCAA+AGG | - | tig0023138:23408-23427 | Msa1405420:three_prime_UTR | 30.0% |
| TAAAGATGGAATTGTCTATC+AGG | - | tig0023138:23678-23697 | Msa1405420:CDS | 30.0% | |
| ! | TGATGATGAATGCAAAGGTA+AGG | - | tig0023138:23413-23432 | Msa1405420:three_prime_UTR | 35.0% |
| ! | TGGGTTTGGGTTAATAAAGA+TGG | - | tig0023138:23664-23683 | Msa1405420:CDS | 35.0% |
| GTCTATCAGGTTCCAAAAAT+TGG | - | tig0023138:23691-23710 | Msa1405420:intron | 35.0% | |
| TGTTCTCAGGAAAGAGTTCA+TGG | - | tig0023138:23515-23534 | Msa1405420:CDS | 40.0% | |
| TAGCAGAAGCTACAATTCAG+AGG | - | tig0023138:23566-23585 | Msa1405420:CDS | 40.0% | |
| AGCAGAAGCTACAATTCAGA+GGG | - | tig0023138:23567-23586 | Msa1405420:CDS | 40.0% | |
| AATTCAGAGGGAGAATCCAT+TGG | - | tig0023138:23579-23598 | Msa1405420:CDS | 40.0% | |
| ACAATGATGGCATCAACCAA+TGG | + | tig0023138:23598-23617 | None:intergenic | 40.0% | |
| AGTTCCTTCTAGCACAATGA+TGG | + | tig0023138:23611-23630 | None:intergenic | 40.0% | |
| AAAGAGTTCATGGCCAGAGT+TGG | - | tig0023138:23525-23544 | Msa1405420:CDS | 45.0% | |
| GATGCCATCATTGTGCTAGA+AGG | - | tig0023138:23604-23623 | Msa1405420:CDS | 45.0% | |
| !!! | AAATTTTTATTATAATTTGA+TGG | - | tig0023138:23473-23492 | Msa1405420:three_prime_UTR | 5.0% |
| ! | AGTTCATGGCCAGAGTTGGT+TGG | - | tig0023138:23529-23548 | Msa1405420:CDS | 50.0% |
| GTTGGTTGGAGTGGAAGGAA+AGG | - | tig0023138:23543-23562 | Msa1405420:CDS | 50.0% | |
| TGTCACAGCGGAAGTCAAAG+GGG | + | tig0023138:23639-23658 | None:intergenic | 50.0% | |
| CTGTCACAGCGGAAGTCAAA+GGG | + | tig0023138:23640-23659 | None:intergenic | 50.0% | |
| ! | CTTTGACTTCCGCTGTGACA+GGG | - | tig0023138:23639-23658 | Msa1405420:CDS | 50.0% |
| AAACCCAAACCCTGTCACAG+CGG | + | tig0023138:23651-23670 | None:intergenic | 50.0% | |
| ! | CTGTGACAGGGTTTGGGTTT+GGG | - | tig0023138:23651-23670 | Msa1405420:CDS | 50.0% |
| ! | ATGGCCAGAGTTGGTTGGAG+TGG | - | tig0023138:23534-23553 | Msa1405420:CDS | 55.0% |
| CCTTCCACTCCAACCAACTC+TGG | + | tig0023138:23541-23560 | None:intergenic | 55.0% | |
| ! | CCAGAGTTGGTTGGAGTGGA+AGG | - | tig0023138:23538-23557 | Msa1405420:CDS | 55.0% |
| CCTGTCACAGCGGAAGTCAA+AGG | + | tig0023138:23641-23660 | None:intergenic | 55.0% | |
| ! | CCTTTGACTTCCGCTGTGAC+AGG | - | tig0023138:23638-23657 | Msa1405420:CDS | 55.0% |
| ACTTCCGCTGTGACAGGGTT+TGG | - | tig0023138:23644-23663 | Msa1405420:CDS | 55.0% | |
| CTTCCGCTGTGACAGGGTTT+GGG | - | tig0023138:23645-23664 | Msa1405420:CDS | 55.0% | |
| ! | GCTGTGACAGGGTTTGGGTT+TGG | - | tig0023138:23650-23669 | Msa1405420:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0023138 | gene | 23302 | 23919 | 23302 | ID=Msa1405420;Name=Msa1405420 |
| tig0023138 | mRNA | 23302 | 23919 | 23302 | ID=Msa1405420-mRNA-1;Parent=Msa1405420;Name=Msa1405420-mRNA-1;_AED=0.00;_eAED=0.00;_QI=4|1|1|1|1|1|2|202|105 |
| tig0023138 | exon | 23302 | 23697 | 23302 | ID=Msa1405420-mRNA-1:exon:24124;Parent=Msa1405420-mRNA-1 |
| tig0023138 | exon | 23792 | 23919 | 23792 | ID=Msa1405420-mRNA-1:exon:24123;Parent=Msa1405420-mRNA-1 |
| tig0023138 | five_prime_UTR | 23916 | 23919 | 23916 | ID=Msa1405420-mRNA-1:five_prime_utr;Parent=Msa1405420-mRNA-1 |
| tig0023138 | CDS | 23792 | 23915 | 23792 | ID=Msa1405420-mRNA-1:cds;Parent=Msa1405420-mRNA-1 |
| tig0023138 | CDS | 23504 | 23697 | 23504 | ID=Msa1405420-mRNA-1:cds;Parent=Msa1405420-mRNA-1 |
| tig0023138 | three_prime_UTR | 23302 | 23503 | 23302 | ID=Msa1405420-mRNA-1:three_prime_utr;Parent=Msa1405420-mRNA-1 |
| Gene Sequence |
| Protein sequence |
