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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0516020 | XP_024634285.1 | 98.435 | 703 | 10 | 1 | 1 | 703 | 2 | 703 | 0.0 | 1450 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0516020 | sp|Q9RUG2|DNAJ_DEIRA | 51.429 | 70 | 34 | 0 | 65 | 134 | 1 | 70 | 8.82e-12 | 70.9 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0516020 | A0A396IVL9 | 98.435 | 703 | 10 | 1 | 1 | 703 | 2 | 703 | 0.0 | 1450 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000910 | Msa0516020 | 0.845302 | 4.419964e-59 | -8.615850e-47 |
| Msa0002560 | Msa0516020 | 0.988104 | 9.931881e-173 | -8.615850e-47 |
| Msa0003220 | Msa0516020 | 0.876717 | 1.118453e-68 | -8.615850e-47 |
| Msa0003270 | Msa0516020 | 0.860028 | 2.748093e-63 | -8.615850e-47 |
| Msa0005620 | Msa0516020 | 0.824521 | 7.716050e-54 | -8.615850e-47 |
| Msa0008220 | Msa0516020 | 0.824483 | 7.875678e-54 | -8.615850e-47 |
| Msa0010770 | Msa0516020 | 0.891989 | 2.399014e-74 | -8.615850e-47 |
| Msa0012710 | Msa0516020 | 0.807444 | 5.038758e-50 | -8.615850e-47 |
| Msa0012940 | Msa0516020 | 0.806384 | 8.445628e-50 | -8.615850e-47 |
| Msa0013540 | Msa0516020 | 0.817398 | 3.367392e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0516020 | MtrunA17_Chr3g0126501 | 98.435 | 703 | 10 | 1 | 1 | 703 | 2 | 703 | 0.0 | 1450 |
| Msa0516020 | MtrunA17_Chr6g0476751 | 45.170 | 735 | 320 | 13 | 1 | 698 | 1 | 689 | 0.0 | 600 |
| Msa0516020 | MtrunA17_Chr3g0132181 | 40.990 | 788 | 352 | 20 | 1 | 696 | 15 | 781 | 0.0 | 538 |
| Msa0516020 | MtrunA17_Chr3g0120851 | 39.024 | 738 | 351 | 17 | 1 | 697 | 1 | 680 | 4.77e-166 | 493 |
| Msa0516020 | MtrunA17_Chr5g0447431 | 38.784 | 740 | 350 | 20 | 1 | 693 | 1 | 684 | 8.08e-154 | 462 |
| Msa0516020 | MtrunA17_Chr1g0191281 | 31.690 | 710 | 405 | 20 | 1 | 691 | 1 | 649 | 1.08e-105 | 336 |
| Msa0516020 | MtrunA17_Chr7g0273491 | 31.671 | 742 | 425 | 19 | 1 | 703 | 1 | 699 | 1.43e-104 | 343 |
| Msa0516020 | MtrunA17_Chr7g0273491 | 28.378 | 222 | 141 | 6 | 471 | 686 | 870 | 1079 | 3.12e-18 | 89.7 |
| Msa0516020 | MtrunA17_Chr4g0066631 | 32.312 | 718 | 409 | 17 | 1 | 697 | 1 | 662 | 3.01e-102 | 334 |
| Msa0516020 | MtrunA17_Chr4g0066631 | 36.864 | 236 | 125 | 10 | 466 | 690 | 730 | 952 | 1.39e-30 | 129 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0516020 | AT5G53150.3 | 46.371 | 744 | 331 | 16 | 1 | 703 | 1 | 717 | 0.0 | 628 |
| Msa0516020 | AT5G53150.6 | 46.371 | 744 | 331 | 16 | 1 | 703 | 1 | 717 | 0.0 | 628 |
| Msa0516020 | AT5G53150.2 | 46.371 | 744 | 331 | 16 | 1 | 703 | 1 | 717 | 0.0 | 628 |
| Msa0516020 | AT5G53150.4 | 46.477 | 738 | 310 | 18 | 1 | 703 | 1 | 688 | 0.0 | 616 |
| Msa0516020 | AT5G53150.1 | 46.477 | 738 | 310 | 18 | 1 | 703 | 1 | 688 | 0.0 | 616 |
| Msa0516020 | AT2G25560.1 | 39.210 | 709 | 354 | 16 | 1 | 691 | 1 | 650 | 6.22e-146 | 441 |
| Msa0516020 | AT2G05230.1 | 34.293 | 764 | 377 | 19 | 1 | 697 | 1 | 706 | 2.60e-136 | 417 |
| Msa0516020 | AT2G05250.1 | 34.293 | 764 | 377 | 19 | 1 | 697 | 1 | 706 | 2.60e-136 | 417 |
| Msa0516020 | AT5G53150.5 | 41.788 | 548 | 252 | 15 | 1 | 508 | 1 | 521 | 8.96e-122 | 375 |
| Msa0516020 | AT5G35753.1 | 38.462 | 364 | 201 | 7 | 339 | 691 | 72 | 423 | 8.20e-77 | 253 |
Find 171 sgRNAs with CRISPR-Local
Find 428 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACCAGCCATTCTGGAGT+GGG | 0.608477 | 3_4:+67459840 | None:intergenic |
| AAACAAGTCTTTAGGTGCAG+AGG | 0.591608 | 3_4:-67460331 | Msa0516020:CDS |
| AAAGATGCGGACAACTCCTC+TGG | 0.465447 | 3_4:+67458913 | None:intergenic |
| AAAGCCAGGAAACTTAACAA+GGG | 0.677929 | 3_4:+67458748 | None:intergenic |
| AAATGATTTGCCGTATATCC+TGG | 0.452218 | 3_4:+67459634 | None:intergenic |
| AAATTGTGAAAATCAGGATC+CGG | 0.532427 | 3_4:+67459223 | None:intergenic |
| AAATTTGTATGCTGATTTGG+AGG | 0.472377 | 3_4:-67460517 | Msa0516020:CDS |
| AACAAGTCTTTAGGTGCAGA+GGG | 0.573429 | 3_4:-67460330 | Msa0516020:CDS |
| AACAGTCTCTTCATCAGCAA+AGG | 0.522182 | 3_4:+67460398 | None:intergenic |
| AACCAGAAGAGGAGTTTGAA+AGG | 0.568957 | 3_4:-67460243 | Msa0516020:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TTTGAACTAGGTACATTTGA+TGG | + | chr3_4:67458970-67458989 | None:intergenic | 30.0% | |
| TCAAATGTACCTAGTTCAAA+TGG | - | chr3_4:67458970-67458989 | Msa0516020:CDS | 30.0% | |
| CTTATTACAGATAGTCCAAA+AGG | + | chr3_4:67459097-67459116 | None:intergenic | 30.0% | |
| ACAAAAGCTTCATTACAGTT+GGG | + | chr3_4:67459174-67459193 | None:intergenic | 30.0% | |
| AGGTTTGAATTATTACTTCC+AGG | + | chr3_4:67459282-67459301 | None:intergenic | 30.0% | |
| GTAATAATTCAAACCTTCAG+TGG | - | chr3_4:67459286-67459305 | Msa0516020:CDS | 30.0% | |
| AATAATTCAAACCTTCAGTG+GGG | - | chr3_4:67459288-67459307 | Msa0516020:CDS | 30.0% | |
| TTGGAAAAAGAAAGGACTTA+TGG | - | chr3_4:67459600-67459619 | Msa0516020:CDS | 30.0% | |
| GTAAAAAACTTGAAGAATGG+AGG | - | chr3_4:67459718-67459737 | Msa0516020:CDS | 30.0% | |
| CTATGTTACAATCAATGTTC+CGG | - | chr3_4:67459911-67459930 | Msa0516020:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 67458532 | 67460643 | 67458532 | ID=Msa0516020;Name=Msa0516020 |
| chr3_4 | mRNA | 67458532 | 67460643 | 67458532 | ID=Msa0516020-mRNA-1;Parent=Msa0516020;Name=Msa0516020-mRNA-1;_AED=0.15;_eAED=0.15;_QI=0|-1|0|1|-1|1|1|0|703 |
| chr3_4 | exon | 67458532 | 67460643 | 67458532 | ID=Msa0516020-mRNA-1:exon:17569;Parent=Msa0516020-mRNA-1 |
| chr3_4 | CDS | 67458532 | 67460643 | 67458532 | ID=Msa0516020-mRNA-1:cds;Parent=Msa0516020-mRNA-1 |
| Gene Sequence |
>Msa0516020 ATGGAGTGCAACAAAGATGAGGCAGTCAGGGCTAAAGAAATAGCGGAGAGGAAATTTTCTGAAAGGGAATATATTGGTGCAAAGAAGTTTGCTATCAAGGCTAAAAATTTGTATGCTGATTTGGAGGATATTTCCCAGTTTTTGACTACTATTGATATTTATATATCTGCTGAGAACAAAGTAAGTGGAGAAATGGATTGGTATGGTATACTTGGAGTGAGTCCCTTTGCTGATGAAGAGACTGTTAGAAAGCAGTACAGGAAACTGGCTCTCACCCTTCACCCTGACAAAAACAAGTCTTTAGGTGCAGAGGGTGCATTTCAGCTGGTTTCAGAGGCATGGAGTTTGTTATCAGATAAGACCAAGAGACTAGAATATAACCAGAAGAGGAGTTTGAAAGGCTTCCAACATACTACTCCAAACCGTGCTGGGCATCCATCAAATGTACCTAGTTCAAATGGTTATTATCATTTTAAGAAGAATGCAACTTCAAATGTGAGGTCTGGGAATCATAATGCTCGGGCTCCTGCCACTTCTGCCCCTCCACAGAAAAAGGCTGAAACCTTTTGGACTATCTGTAATAAGTGCAGGACACATTATGAATATCTCAGAGTTTATTTGAATCACACTCTTCTATGTCCCAACTGTAATGAAGCTTTTGTGGCCATAGAGAGGAGTCCTCCTCCCAATGTTTTTAAGCCATCAAGTTTGCCCTCCCATCAACAGCACCAGAATTCACAACGTCATCCTGGAAGTAATAATTCAAACCTTCAGTGGGGTTCCCACTCCAGAATGGCTGGTTTTGGTAGCACCGATGGATCGTCGTCTGTTGCCGCTCAAGCTGCAAGTGTCGTGCAAAAGGCAAGTGAGAAAGTGAAGAGAGAAGGAGCACCATCAATTGCTGAATGGGAGAGGATTCAAATGTCTAAGAAGGCTGATGGTTCTATGAAGAAAAGGAAGGCAGATGATATTCGCGTTAATGGCTATCCAGGATATACGGCAAATCATTTTGCTACGGGATCTGGAGCAGCAGGTTTGGGCAGTTTCTCTGGATCAGGAAAGGCTAACTTGGAAAAAGAAAGGACTTATGGTTTTTCAGGTCTTGGAGGCAAACATTACAGCATACGAGAGTTGTCATTGTTTGAGTTACGAAACATGTTGATGGATAAGGCACGGAATGAAATTAGTAAAAAACTTGAAGAATGGAGGTTAATGGCTGAAGCTAAGATTGTCAACAAGAATAAGAGACAGAAAAACATATTCAATGACAAAACAACTGGTTCAGAGAAGTATGGAGAGTCCAATGTTAATGGTAACAAGCATTTTTCTGTTGATTCTTTACCTGTCACATCTGATGGTACAGTTAAGAAGAGCCAAGCCTATGTTACAATCAATGTTCCGGATCCTGATTTTCACAATTTTGACCTGGATAGAGCTGAAAGTTCCTTTGCAGAGGACCAGGTCTGGGCTGCTTATGACGATGATGATGGAATGCCTAGATATTATGCTAGAATTCACAAGGTGATCTCCACAAAGCCATTTAGAATGCGGATTAGTTGGCTTAACTCTCGAAGCAACAGTGAATTGGGCCCAATAGATTGGGTAGGTTCTGGTTTTTATAAAACTTGTGGGGATTTCAGGACTGGCAAGCATGAAGTATCTGAATCATTAAATTCATTTTCACACAAGGTTAGGTGGACAAAAGGCACCAGAGGAGTTGTCCGCATCTTTCCAGGTAAGGGGGAAGTCTGGGCACTTTATAGAAACTGGTCTCCTGATTGGAATGAACATACTCCAGATGAAGTGATACACAAGTATGACATGGTGGAAGTGCTTGATGATTTCAGTGAAGAGCAAGGTATATTAGTTACTCCCCTTGTTAAGTTTCCTGGCTTTAGGACAGTATTTCGAAGGCACCAGGACCAGAATGAGGTTAGGAGGATTCCTAAAGAGGAGATGTTTCGATTCTCTCATCAGGTTCCTAATCACTTGCTCAGTGGCCAGGAAGCTCATAACGCTCCAATAGGTTGCCGAGAGTTGGATCCAGCAGCTACACCTTTAGACCTCCTTCAGATAGCAACAGAAGCTAATGAGGCAGCAGGTAATGTTTAG |
| Protein sequence |
>Msa0516020 MECNKDEAVRAKEIAERKFSEREYIGAKKFAIKAKNLYADLEDISQFLTTIDIYISAENKVSGEMDWYGILGVSPFADEETVRKQYRKLALTLHPDKNKSLGAEGAFQLVSEAWSLLSDKTKRLEYNQKRSLKGFQHTTPNRAGHPSNVPSSNGYYHFKKNATSNVRSGNHNARAPATSAPPQKKAETFWTICNKCRTHYEYLRVYLNHTLLCPNCNEAFVAIERSPPPNVFKPSSLPSHQQHQNSQRHPGSNNSNLQWGSHSRMAGFGSTDGSSSVAAQAASVVQKASEKVKREGAPSIAEWERIQMSKKADGSMKKRKADDIRVNGYPGYTANHFATGSGAAGLGSFSGSGKANLEKERTYGFSGLGGKHYSIRELSLFELRNMLMDKARNEISKKLEEWRLMAEAKIVNKNKRQKNIFNDKTTGSEKYGESNVNGNKHFSVDSLPVTSDGTVKKSQAYVTINVPDPDFHNFDLDRAESSFAEDQVWAAYDDDDGMPRYYARIHKVISTKPFRMRISWLNSRSNSELGPIDWVGSGFYKTCGDFRTGKHEVSESLNSFSHKVRWTKGTRGVVRIFPGKGEVWALYRNWSPDWNEHTPDEVIHKYDMVEVLDDFSEEQGILVTPLVKFPGFRTVFRRHQDQNEVRRIPKEEMFRFSHQVPNHLLSGQEAHNAPIGCRELDPAATPLDLLQIATEANEAAGNV* |
