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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1067490 | XP_004492796.1 | 93.023 | 43 | 3 | 0 | 10 | 52 | 28 | 70 | 6.25e-20 | 90.1 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1067490 | sp|O03982|HIP39_ARATH | 72.727 | 44 | 11 | 1 | 10 | 52 | 28 | 71 | 5.93e-16 | 72.8 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1067490 | V7AN78 | 67.647 | 68 | 22 | 0 | 2 | 69 | 20 | 87 | 1.41e-22 | 95.9 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0038000 | Msa1067490 | 0.806871 | 6.665149e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1067490 | MtrunA17_Chr7g0248671 | 95.122 | 41 | 2 | 0 | 10 | 50 | 28 | 68 | 2.25e-22 | 86.3 |
| Msa1067490 | MtrunA17_Chr8g0387471 | 72.340 | 47 | 13 | 0 | 10 | 56 | 28 | 74 | 3.83e-20 | 79.3 |
| Msa1067490 | MtrunA17_Chr8g0348361 | 73.913 | 46 | 12 | 0 | 10 | 55 | 28 | 73 | 8.84e-17 | 71.2 |
| Msa1067490 | MtrunA17_Chr6g0469671 | 55.814 | 43 | 19 | 0 | 10 | 52 | 28 | 70 | 1.17e-13 | 62.0 |
| Msa1067490 | MtrunA17_Chr6g0469571 | 55.814 | 43 | 19 | 0 | 10 | 52 | 28 | 70 | 5.03e-13 | 60.8 |
| Msa1067490 | MtrunA17_Chr7g0233191 | 50.000 | 56 | 27 | 1 | 10 | 65 | 28 | 82 | 5.96e-13 | 60.5 |
| Msa1067490 | MtrunA17_Chr1g0202541 | 48.837 | 43 | 22 | 0 | 10 | 52 | 28 | 70 | 8.96e-13 | 60.5 |
| Msa1067490 | MtrunA17_Chr6g0469591 | 55.814 | 43 | 19 | 0 | 10 | 52 | 28 | 70 | 9.79e-13 | 60.1 |
| Msa1067490 | MtrunA17_Chr7g0233201 | 50.000 | 56 | 27 | 1 | 10 | 65 | 28 | 82 | 1.03e-12 | 59.7 |
| Msa1067490 | MtrunA17_Chr1g0202561 | 51.163 | 43 | 21 | 0 | 10 | 52 | 28 | 70 | 1.97e-12 | 59.7 |
| Msa1067490 | MtrunA17_Chr6g0469681 | 51.163 | 43 | 21 | 0 | 10 | 52 | 28 | 70 | 2.16e-12 | 59.3 |
| Msa1067490 | MtrunA17_Chr6g0469551 | 51.064 | 47 | 23 | 0 | 10 | 56 | 28 | 74 | 3.90e-12 | 58.5 |
| Msa1067490 | MtrunA17_Chr6g0469651 | 49.275 | 69 | 35 | 0 | 10 | 78 | 28 | 96 | 4.23e-12 | 58.5 |
| Msa1067490 | MtrunA17_Chr6g0469541 | 47.368 | 57 | 29 | 1 | 10 | 66 | 28 | 83 | 7.78e-12 | 57.4 |
| Msa1067490 | MtrunA17_Chr7g0233181 | 50.000 | 56 | 27 | 1 | 10 | 65 | 28 | 82 | 1.11e-11 | 57.0 |
| Msa1067490 | MtrunA17_Chr7g0233251 | 48.214 | 56 | 28 | 1 | 10 | 65 | 28 | 82 | 4.42e-11 | 55.5 |
| Msa1067490 | MtrunA17_Chr7g0233211 | 51.111 | 45 | 22 | 0 | 10 | 54 | 28 | 72 | 5.08e-11 | 55.5 |
| Msa1067490 | MtrunA17_Chr7g0233231 | 48.214 | 56 | 28 | 1 | 10 | 65 | 28 | 82 | 7.55e-11 | 55.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1067490 | AT1G01490.4 | 72.727 | 44 | 11 | 1 | 10 | 52 | 55 | 98 | 5.75e-17 | 73.2 |
| Msa1067490 | AT1G01490.1 | 72.727 | 44 | 11 | 1 | 10 | 52 | 28 | 71 | 6.03e-17 | 72.8 |
| Msa1067490 | AT1G01490.2 | 72.727 | 44 | 11 | 1 | 10 | 52 | 28 | 71 | 6.03e-17 | 72.8 |
| Msa1067490 | AT1G01490.3 | 73.684 | 38 | 9 | 1 | 16 | 52 | 1 | 38 | 1.28e-13 | 63.2 |
Find 30 sgRNAs with CRISPR-Local
Find 43 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTCTTTGGTTCTTCTTTCTT+TGG | 0.149957 | 7_2:+62183603 | None:intergenic |
| TTCTTCTCTTCTTCCTTCTT+TGG | 0.171329 | 7_2:+62183561 | None:intergenic |
| TCTTTCTTCTCTTCCTTCTT+TGG | 0.187673 | 7_2:+62183588 | None:intergenic |
| AAAGAAAGAAGAAGAGAAAA+AGG | 0.206462 | 7_2:-62183514 | Msa1067490:CDS |
| TTCTTCTCTGGCTCCTTTGC+TGG | 0.215212 | 7_2:+62183633 | None:intergenic |
| TAAGCAAACTTCGAAAATAT+TGG | 0.282791 | 7_2:-62183680 | Msa1067490:CDS |
| TTTGGCTCTTCTTTCTTCTC+TGG | 0.337304 | 7_2:+62183621 | None:intergenic |
| AGGAAGAAGAGAAGAAAGAA+GGG | 0.355829 | 7_2:-62183554 | Msa1067490:CDS |
| GAAGAAAGAAGGGGAAAAGA+AGG | 0.376587 | 7_2:-62183544 | Msa1067490:CDS |
| AAGGAAGAGAAGAAAGAAGA+AGG | 0.422824 | 7_2:-62183495 | Msa1067490:CDS |
| AAGGAAGAAGAGAAGAAAGA+AGG | 0.424830 | 7_2:-62183555 | Msa1067490:CDS |
| CTCCTTCATGTCCATGGTGA+TGG | 0.433350 | 7_2:+62183746 | None:intergenic |
| TTTCTTCTCCTTCATGTCCA+TGG | 0.439474 | 7_2:+62183740 | None:intergenic |
| AGGAAGAGAAGAAAGAAGAA+GGG | 0.441272 | 7_2:-62183494 | Msa1067490:CDS |
| GAAGAAAGAAGAACCAAAGA+AGG | 0.443462 | 7_2:-62183574 | Msa1067490:CDS |
| AAAGAAAGAAGAACCAAAGA+AGG | 0.447330 | 7_2:-62183601 | Msa1067490:CDS |
| TTCTAAACAGGGTCAGGGGC+TGG | 0.461629 | 7_2:+62183443 | None:intergenic |
| CGTGGTAGGAAACGTGGATC+CGG | 0.463472 | 7_2:-62183712 | Msa1067490:CDS |
| CAACTTGTGCAACCATATGT+AGG | 0.511265 | 7_2:-62183777 | Msa1067490:CDS |
| ATGGCATCAATCCCTACATA+TGG | 0.512798 | 7_2:+62183765 | None:intergenic |
| TGCCATCACCATGGACATGA+AGG | 0.529894 | 7_2:-62183748 | Msa1067490:CDS |
| AACTTGTGCAACCATATGTA+GGG | 0.530579 | 7_2:-62183776 | Msa1067490:CDS |
| CGGATCCACGTTTCCTACCA+CGG | 0.551325 | 7_2:+62183713 | None:intergenic |
| GGAAGAAGAGAAGAAAGAAG+GGG | 0.564516 | 7_2:-62183553 | Msa1067490:CDS |
| GAGAAGAAATTAACCGTGGT+AGG | 0.589258 | 7_2:-62183726 | Msa1067490:CDS |
| CAAGCAGATTTAATCTCAGT+AGG | 0.594275 | 7_2:-62183657 | Msa1067490:CDS |
| AATCTCAGTAGGACCAGCAA+AGG | 0.617657 | 7_2:-62183646 | Msa1067490:CDS |
| ATTAACCGTGGTAGGAAACG+TGG | 0.645038 | 7_2:-62183718 | Msa1067490:CDS |
| AGGGATTGATGCCATCACCA+TGG | 0.669831 | 7_2:-62183757 | Msa1067490:CDS |
| GAAGGAGAAGAAATTAACCG+TGG | 0.732069 | 7_2:-62183730 | Msa1067490:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTTTCTTTAAATCAAAATA+AGG | - | chr7_2:62183614-62183633 | Msa1067490:CDS | 10.0% |
| !!! | TATGTATTTTTGTTAATGTT+CGG | - | chr7_2:62183527-62183546 | Msa1067490:CDS | 15.0% |
| !!! | ATGTATTTTTGTTAATGTTC+GGG | - | chr7_2:62183528-62183547 | Msa1067490:CDS | 20.0% |
| ! | GAGGTAAAATATATTTCATG+CGG | + | chr7_2:62183481-62183500 | None:intergenic | 25.0% |
| !! | GCATGAAATATATTTTACCT+CGG | - | chr7_2:62183480-62183499 | Msa1067490:CDS | 25.0% |
| !!! | TGTATTTTTGTTAATGTTCG+GGG | - | chr7_2:62183529-62183548 | Msa1067490:CDS | 25.0% |
| !!! | AGTTTGCTTACAATTTTTAC+CGG | + | chr7_2:62183792-62183811 | None:intergenic | 25.0% |
| ! | TAAGCAAACTTCGAAAATAT+TGG | - | chr7_2:62183802-62183821 | Msa1067490:intron | 25.0% |
| !! | TTTTTCTCTTCTTCTTTCTT+TGG | + | chr7_2:62183969-62183988 | None:intergenic | 25.0% |
| ! | AAAGAAAGAAGAAGAGAAAA+AGG | - | chr7_2:62183968-62183987 | Msa1067490:intron | 25.0% |
| TAAAACTTCAAATTCTACCG+AGG | + | chr7_2:62183500-62183519 | None:intergenic | 30.0% | |
| !! | TTCTTTGGTTCTTCTTTCTT+TGG | + | chr7_2:62183882-62183901 | None:intergenic | 30.0% |
| AAAGAAAGAAGAACCAAAGA+AGG | - | chr7_2:62183881-62183900 | Msa1067490:intron | 30.0% | |
| ! | ACAGTGCATGTTTAGAATGA+CGG | - | chr7_2:62183568-62183587 | Msa1067490:CDS | 35.0% |
| ! | AGAATGACGGTGAAGTTTTA+TGG | - | chr7_2:62183581-62183600 | Msa1067490:CDS | 35.0% |
| AACTTGTGCAACCATATGTA+GGG | - | chr7_2:62183706-62183725 | Msa1067490:CDS | 35.0% | |
| CAAGCAGATTTAATCTCAGT+AGG | - | chr7_2:62183825-62183844 | Msa1067490:intron | 35.0% | |
| TCTTTCTTCTCTTCCTTCTT+TGG | + | chr7_2:62183897-62183916 | None:intergenic | 35.0% | |
| GAAGAAAGAAGAACCAAAGA+AGG | - | chr7_2:62183908-62183927 | Msa1067490:intron | 35.0% | |
| TTCTTCTCTTCTTCCTTCTT+TGG | + | chr7_2:62183924-62183943 | None:intergenic | 35.0% | |
| AAGGAAGAAGAGAAGAAAGA+AGG | - | chr7_2:62183927-62183946 | Msa1067490:intron | 35.0% | |
| AGGAAGAAGAGAAGAAAGAA+GGG | - | chr7_2:62183928-62183947 | Msa1067490:intron | 35.0% | |
| AAGGAAGAGAAGAAAGAAGA+AGG | - | chr7_2:62183900-62183919 | Msa1067490:intron | 35.0% | |
| AGGAAGAGAAGAAAGAAGAA+GGG | - | chr7_2:62183901-62183920 | Msa1067490:intron | 35.0% | |
| AAACATGCACTGTCCTTCTA+GGG | + | chr7_2:62183561-62183580 | None:intergenic | 40.0% | |
| TAAACATGCACTGTCCTTCT+AGG | + | chr7_2:62183562-62183581 | None:intergenic | 40.0% | |
| CAACTTGTGCAACCATATGT+AGG | - | chr7_2:62183705-62183724 | Msa1067490:CDS | 40.0% | |
| ATGGCATCAATCCCTACATA+TGG | + | chr7_2:62183720-62183739 | None:intergenic | 40.0% | |
| TTTCTTCTCCTTCATGTCCA+TGG | + | chr7_2:62183745-62183764 | None:intergenic | 40.0% | |
| GAAGGAGAAGAAATTAACCG+TGG | - | chr7_2:62183752-62183771 | Msa1067490:CDS | 40.0% | |
| GAGAAGAAATTAACCGTGGT+AGG | - | chr7_2:62183756-62183775 | Msa1067490:CDS | 40.0% | |
| !! | TTTGGCTCTTCTTTCTTCTC+TGG | + | chr7_2:62183864-62183883 | None:intergenic | 40.0% |
| GGAAGAAGAGAAGAAAGAAG+GGG | - | chr7_2:62183929-62183948 | Msa1067490:intron | 40.0% | |
| GAAGAAAGAAGGGGAAAAGA+AGG | - | chr7_2:62183938-62183957 | Msa1067490:intron | 40.0% | |
| ATTAACCGTGGTAGGAAACG+TGG | - | chr7_2:62183764-62183783 | Msa1067490:CDS | 45.0% | |
| AATCTCAGTAGGACCAGCAA+AGG | - | chr7_2:62183836-62183855 | Msa1067490:intron | 45.0% | |
| AGGGATTGATGCCATCACCA+TGG | - | chr7_2:62183725-62183744 | Msa1067490:CDS | 50.0% | |
| TGCCATCACCATGGACATGA+AGG | - | chr7_2:62183734-62183753 | Msa1067490:CDS | 50.0% | |
| CTCCTTCATGTCCATGGTGA+TGG | + | chr7_2:62183739-62183758 | None:intergenic | 50.0% | |
| ! | TTCTTCTCTGGCTCCTTTGC+TGG | + | chr7_2:62183852-62183871 | None:intergenic | 50.0% |
| TTCGGGGTTCGAACCCTAGA+AGG | - | chr7_2:62183545-62183564 | Msa1067490:CDS | 55.0% | |
| CGGATCCACGTTTCCTACCA+CGG | + | chr7_2:62183772-62183791 | None:intergenic | 55.0% | |
| CGTGGTAGGAAACGTGGATC+CGG | - | chr7_2:62183770-62183789 | Msa1067490:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_2 | gene | 62183455 | 62184049 | 62183455 | ID=Msa1067490;Name=Msa1067490 |
| chr7_2 | mRNA | 62183455 | 62184049 | 62183455 | ID=Msa1067490-mRNA-1;Parent=Msa1067490;Name=Msa1067490-mRNA-1;_AED=0.45;_eAED=0.45;_QI=0|0|0|0.5|0|0|2|0|116 |
| chr7_2 | exon | 62184046 | 62184049 | 62184046 | ID=Msa1067490-mRNA-1:exon:12605;Parent=Msa1067490-mRNA-1 |
| chr7_2 | exon | 62183455 | 62183801 | 62183455 | ID=Msa1067490-mRNA-1:exon:12604;Parent=Msa1067490-mRNA-1 |
| chr7_2 | CDS | 62184046 | 62184049 | 62184046 | ID=Msa1067490-mRNA-1:cds;Parent=Msa1067490-mRNA-1 |
| chr7_2 | CDS | 62183455 | 62183801 | 62183455 | ID=Msa1067490-mRNA-1:cds;Parent=Msa1067490-mRNA-1 |
| Gene Sequence |
| Protein sequence |
