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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0365780 | XP_003599312.3 | 93.139 | 787 | 53 | 1 | 1 | 786 | 1 | 787 | 0.0 | 1537 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0365780 | sp|P17801|KPRO_MAIZE | 39.599 | 798 | 429 | 17 | 24 | 788 | 37 | 814 | 0.0 | 556 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0365780 | A0A396IQZ7 | 93.139 | 787 | 53 | 1 | 1 | 786 | 1 | 787 | 0.0 | 1537 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0006070 | Msa0365780 | 0.805536 | 1.273250e-49 | -8.615850e-47 |
| Msa0007280 | Msa0365780 | 0.838938 | 2.135646e-57 | -8.615850e-47 |
| Msa0010890 | Msa0365780 | 0.818716 | 1.695369e-52 | -8.615850e-47 |
| Msa0026450 | Msa0365780 | 0.800937 | 1.139813e-48 | -8.615850e-47 |
| Msa0045790 | Msa0365780 | 0.805808 | 1.116289e-49 | -8.615850e-47 |
| Msa0046160 | Msa0365780 | 0.805079 | 1.587535e-49 | -8.615850e-47 |
| Msa0054250 | Msa0365780 | 0.809155 | 2.175447e-50 | -8.615850e-47 |
| Msa0054260 | Msa0365780 | 0.844394 | 7.768350e-59 | -8.615850e-47 |
| Msa0054310 | Msa0365780 | 0.837885 | 3.990455e-57 | -8.615850e-47 |
| Msa0054480 | Msa0365780 | 0.800941 | 1.137862e-48 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0365780 | MtrunA17_Chr3g0106201 | 93.139 | 787 | 53 | 1 | 1 | 786 | 1 | 787 | 0.0 | 1537 |
| Msa0365780 | MtrunA17_Chr3g0106211 | 77.307 | 802 | 171 | 6 | 1 | 792 | 4 | 804 | 0.0 | 1250 |
| Msa0365780 | MtrunA17_Chr3g0106161 | 93.365 | 633 | 42 | 0 | 161 | 793 | 1 | 633 | 0.0 | 1244 |
| Msa0365780 | MtrunA17_Chr3g0106151 | 77.118 | 791 | 170 | 4 | 1 | 789 | 4 | 785 | 0.0 | 1239 |
| Msa0365780 | MtrunA17_Chr3g0106121 | 72.841 | 799 | 210 | 3 | 1 | 792 | 1 | 799 | 0.0 | 1209 |
| Msa0365780 | MtrunA17_Chr3g0106141 | 72.487 | 796 | 207 | 3 | 6 | 792 | 6 | 798 | 0.0 | 1185 |
| Msa0365780 | MtrunA17_Chr3g0106131 | 72.055 | 798 | 214 | 4 | 1 | 792 | 1 | 795 | 0.0 | 1161 |
| Msa0365780 | MtrunA17_Chr3g0106221 | 73.276 | 812 | 188 | 10 | 4 | 793 | 6 | 810 | 0.0 | 1158 |
| Msa0365780 | MtrunA17_Chr3g0106191 | 77.095 | 716 | 153 | 4 | 75 | 789 | 1 | 706 | 0.0 | 1105 |
| Msa0365780 | MtrunA17_Chr7g0237341 | 60.053 | 761 | 296 | 6 | 29 | 789 | 37 | 789 | 0.0 | 910 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0365780 | AT2G19130.1 | 32.811 | 829 | 441 | 30 | 4 | 786 | 8 | 766 | 2.11e-110 | 356 |
| Msa0365780 | AT5G24080.2 | 32.062 | 839 | 461 | 30 | 5 | 786 | 15 | 801 | 4.23e-104 | 340 |
| Msa0365780 | AT4G00340.1 | 31.686 | 789 | 442 | 27 | 34 | 786 | 32 | 759 | 1.53e-99 | 327 |
| Msa0365780 | AT4G00340.2 | 30.867 | 784 | 434 | 24 | 34 | 786 | 32 | 738 | 5.37e-97 | 320 |
| Msa0365780 | AT1G34300.1 | 30.779 | 783 | 439 | 25 | 37 | 786 | 44 | 756 | 3.72e-94 | 313 |
| Msa0365780 | AT5G24080.3 | 32.039 | 721 | 387 | 26 | 122 | 786 | 1 | 674 | 4.51e-89 | 297 |
| Msa0365780 | AT5G24080.1 | 32.039 | 721 | 387 | 26 | 122 | 786 | 1 | 674 | 4.51e-89 | 297 |
| Msa0365780 | AT5G35370.1 | 29.829 | 818 | 454 | 31 | 27 | 783 | 42 | 800 | 4.59e-87 | 295 |
| Msa0365780 | AT4G21390.1 | 28.386 | 849 | 480 | 27 | 10 | 788 | 11 | 801 | 2.15e-83 | 284 |
| Msa0365780 | AT1G11303.1 | 28.791 | 844 | 456 | 29 | 14 | 789 | 10 | 776 | 2.87e-80 | 275 |
Find 165 sgRNAs with CRISPR-Local
Find 392 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGGTATCACATTGCTAT+AGG | 0.400856 | 3_1:+60038387 | Msa0365780:CDS |
| AAACAACGGTAGCATTGGTG+AGG | 0.644579 | 3_1:-60036781 | None:intergenic |
| AAACCAAAGTCTGCAACCTT+AGG | 0.483995 | 3_1:-60038510 | None:intergenic |
| AAACCAAGTTATCATACTCG+GGG | 0.657263 | 3_1:-60037840 | None:intergenic |
| AAAGGTTGGTAACATGGGTT+AGG | 0.373930 | 3_1:+60038745 | Msa0365780:CDS |
| AAAGTGGATGTTTATAGCTA+TGG | 0.438050 | 3_1:+60038642 | Msa0365780:CDS |
| AAATTATGATGTAAAGAAAA+TGG | 0.304020 | 3_1:+60038836 | Msa0365780:CDS |
| AACATTGAACTGTCCTGCGT+CGG | 0.630457 | 3_1:-60036882 | None:intergenic |
| AACCAAGTTATCATACTCGG+GGG | 0.737906 | 3_1:-60037839 | None:intergenic |
| AAGAAGAGTTATGTCATGAA+AGG | 0.554259 | 3_1:+60038727 | Msa0365780:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATCCATGTACAATCATAACA+GGG | + | chr3_1:60037222-60037241 | Msa0365780:CDS | 30.0% | |
| GTAGCAACATTAAATCGTTT+GGG | + | chr3_1:60037244-60037263 | Msa0365780:CDS | 30.0% | |
| CAAATTCCATGTATTTGACA+AGG | - | chr3_1:60037427-60037446 | None:intergenic | 30.0% | |
| TGTCAAATACATGGAATTTG+TGG | + | chr3_1:60037427-60037446 | Msa0365780:CDS | 30.0% | |
| CAAATGCTCACATTGTTTAT+AGG | - | chr3_1:60037659-60037678 | None:intergenic | 30.0% | |
| ACAAACCAAGTTATCATACT+CGG | - | chr3_1:60037845-60037864 | None:intergenic | 30.0% | |
| TACGTCAGTGAAAAAGAAAA+TGG | + | chr3_1:60037901-60037920 | Msa0365780:CDS | 30.0% | |
| GGTGTATCTTATTCAAGAAT+AGG | + | chr3_1:60037995-60038014 | Msa0365780:CDS | 30.0% | |
| GAATTAAAACAAGCTACATC+AGG | + | chr3_1:60038090-60038109 | Msa0365780:CDS | 30.0% | |
| ACATGAATTTGATTGGTATG+TGG | + | chr3_1:60038265-60038284 | Msa0365780:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 60036584 | 60038965 | 60036584 | ID=Msa0365780;Name=Msa0365780 |
| chr3_1 | mRNA | 60036584 | 60038965 | 60036584 | ID=Msa0365780-mRNA-1;Parent=Msa0365780;Name=Msa0365780-mRNA-1;_AED=0.28;_eAED=0.28;_QI=0|-1|0|1|-1|1|1|0|793 |
| chr3_1 | exon | 60036584 | 60038965 | 60036584 | ID=Msa0365780-mRNA-1:exon:11540;Parent=Msa0365780-mRNA-1 |
| chr3_1 | CDS | 60036584 | 60038965 | 60036584 | ID=Msa0365780-mRNA-1:cds;Parent=Msa0365780-mRNA-1 |
| Gene Sequence |
>Msa0365780 ATGATTCATTCATCATTCTTCTTCACACTTCTCATCTTTCTCTTGCATTTTCAACATTCATCATCATTTTCCCTATCAGTGGAGAAACATGAAGAAGACGTTATAGTCTCACCCAAAGGCACATTCACCGCGGGCTTTTATCCCGTAGGTGAGAATGCTTATTCATTCGCCATATGGTTCACTCAAAAACACAAAAACCTCACCAATGCTACCGTTGTTTGGATGGCAAATCGTGACCAACCAGTTAACGGAAAACGCTCAACACTTTCCCTTCTTAATACCGGCAACCTCATTTTAACCGACGCAGGACAGTTCAATGTTTGGTCCACAAACACATACTCATCCAAAAAACTTAAGTTGTTTTTGTACGATACGGGAAATCTCATTCTCAGAGAGTACAAAACAAATGGTTCTATTTTGTGGCAAAGTTTTGATTTTCCAACAGATACCCTCCTCCCCGATCAAAATTTCACAAGGTATATGAACCTTGTTTCGTCCAAAAGTGATACCAACTATTCCTCTAGCTGCTACAAGCTTTTTTTTGACAACGATAATCTTCTCCGTCTTCTCTATGATGGCCCTGGAGATTCAAGCGTTTATTGGCCAGATCCTTTGCTTCTTGATTGGCAAGATTCTAGATCCATGTACAATCATAACAGGGTAGCAACATTAAATCGTTTGGGAAACTTCAGTTCTTCAGATAATTTCACTTTCATAACAAGTGATTATGGAACAGTGCTACAACGAAGACTTACGCTTGATTTTGATGGCAATGTTCGTGTTTATAGCCGAAAACAAGGGCAAGAGAAGTGGTTAGTGTCAGGGCAATTCGTCCAACAACCTTGTCAAATACATGGAATTTGTGGACCGAACAGCACTTGCAGTTATGGTCCAATAAATGGTAGAAAATGTTCGTGTCTTCCCGGTTATAGCATAATTAATAACCAAGATTGGTCTCAAGGGTGCAAACCAAGCTTCCAATTTTCATGCAATAAGAAGACAGAATATCGCTTCAAATTCTTACCCCGTGTTGAGTTTAACAGCTATGACTATGGATTCCATAAAAATTACACCTATAAACAATGTGAGCATTTGTGCTTACGATTGTGTGAATGCATAGCCTTTCAATTTCGCTATGTCAAGAACAAGGGTGTGCATAATTGTTATCCAAAGACGCAGTTACTAAACGGCCTTCATTCGACAAAGTTCAGAGGTTCGCTCTTTTTGAAATTGCCAAAAAACAATATTGTTTTCTCCCCCGAGTATGATAACTTGGTTTGTTCGAGAAATAATGGAGTAAAACAACTACAAAGATTATACGTCAGTGAAAAAGAAAATGGATTAGTGAAGTTCATGCTTATGTTTGCAAGTGGCTTGGGCGGAATTGAGGTCTTATGCTTCTTTCTAGTAGGGTGTATCTTATTCAAGAATAGGAAGCAATCTAGTGTTGATAATCATGGGTATGTTCTAGCATCAGCAACCGGGTTTAGAAAATTCAGTTATTCGGAATTAAAACAAGCTACATCAGGTTTTAGCCAAGAGATTGGAAGGGGAGCTGGAGGAACCGTGTATAAAGGTATTTTATCTGATGATCGAGTTGCTGCGATAAAGCATTTGCATGACACAAACCAAGGAGATAGTGAGTTTCTTGCTGAAGTTAGCATCATTGGAAGGCTTAATCACATGAATTTGATTGGTATGTGGGGTTATTGTGCCGAGGGAAAACATAGATTGTTGGTTTACGAGTACATGGAAAAAGGTACTTTAGCCGATAATCTTTCATCAAATGAACTTGATTGGAGTAAAAGGTATCACATTGCTATAGGAACTGCAAAATGTCTTGCTTATTTACATGAAGAGTGTTTGGAGTGGATTTTGCATTGTGATATTAAACCACAAAACATACTTCTTGACTCTGATTATCGACCTAAGGTTGCAGACTTTGGTTTGTCTAAGCTATTGAACAGGAATGAGCATGATAATTCAAATTTCTCGAGGATTCGAGGGACAAGAGGTTACATGGCACCTGAATGGGTTTTCAATATGCAAATCACTTCTAAAGTGGATGTTTATAGCTATGGAGTTGTGGTGTTGGAGATGATTACCGGAAAGAGTCCAACAACCGGTATTCAAATCAAAGATAAAGAAGAGTTATGTCATGAAAGGTTGGTAACATGGGTTAGGGAAAAAAGGAGAAAAGAATTAGAAGTTGCTTGTTGGGTGGAACAAATTGTTGACCCTAAATTGGGATCAAATTATGATGTAAAGAAAATGGAGACATTGGCAAATGTTGCTTTGGATTGTGTACAGGAAGATAAAGATGTTAGACCTACCATGAGTCAAGTTGTTGAGAGGCTCCTAAGTCATCAACATAACTATTAA |
| Protein sequence |
>Msa0365780 MIHSSFFFTLLIFLLHFQHSSSFSLSVEKHEEDVIVSPKGTFTAGFYPVGENAYSFAIWFTQKHKNLTNATVVWMANRDQPVNGKRSTLSLLNTGNLILTDAGQFNVWSTNTYSSKKLKLFLYDTGNLILREYKTNGSILWQSFDFPTDTLLPDQNFTRYMNLVSSKSDTNYSSSCYKLFFDNDNLLRLLYDGPGDSSVYWPDPLLLDWQDSRSMYNHNRVATLNRLGNFSSSDNFTFITSDYGTVLQRRLTLDFDGNVRVYSRKQGQEKWLVSGQFVQQPCQIHGICGPNSTCSYGPINGRKCSCLPGYSIINNQDWSQGCKPSFQFSCNKKTEYRFKFLPRVEFNSYDYGFHKNYTYKQCEHLCLRLCECIAFQFRYVKNKGVHNCYPKTQLLNGLHSTKFRGSLFLKLPKNNIVFSPEYDNLVCSRNNGVKQLQRLYVSEKENGLVKFMLMFASGLGGIEVLCFFLVGCILFKNRKQSSVDNHGYVLASATGFRKFSYSELKQATSGFSQEIGRGAGGTVYKGILSDDRVAAIKHLHDTNQGDSEFLAEVSIIGRLNHMNLIGMWGYCAEGKHRLLVYEYMEKGTLADNLSSNELDWSKRYHIAIGTAKCLAYLHEECLEWILHCDIKPQNILLDSDYRPKVADFGLSKLLNRNEHDNSNFSRIRGTRGYMAPEWVFNMQITSKVDVYSYGVVVLEMITGKSPTTGIQIKDKEELCHERLVTWVREKRRKELEVACWVEQIVDPKLGSNYDVKKMETLANVALDCVQEDKDVRPTMSQVVERLLSHQHNY* |
