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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0131230 | XP_003591940.1 | 97.333 | 825 | 15 | 2 | 1 | 819 | 1 | 824 | 0.0 | 1644 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0131230 | sp|Q55680|Y005_SYNY3 | 35.642 | 491 | 288 | 7 | 130 | 617 | 47 | 512 | 1.06e-96 | 319 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000220 | Msa0131230 | 0.838653 | 2.531240e-57 | -8.615850e-47 |
| Msa0001420 | Msa0131230 | 0.810472 | 1.133399e-50 | -8.615850e-47 |
| Msa0001510 | Msa0131230 | 0.882228 | 1.241895e-70 | -8.615850e-47 |
| Msa0001540 | Msa0131230 | 0.879117 | 1.618278e-69 | -8.615850e-47 |
| Msa0001880 | Msa0131230 | 0.818833 | 1.594315e-52 | -8.615850e-47 |
| Msa0002060 | Msa0131230 | 0.857594 | 1.468016e-62 | -8.615850e-47 |
| Msa0002110 | Msa0131230 | 0.800211 | 1.602957e-48 | -8.615850e-47 |
| Msa0002690 | Msa0131230 | 0.890065 | 1.379999e-73 | -8.615850e-47 |
| Msa0002700 | Msa0131230 | 0.886910 | 2.267015e-72 | -8.615850e-47 |
| Msa0003340 | Msa0131230 | 0.848217 | 7.057103e-60 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0131230 | MtrunA17_Chr1g0199921 | 97.333 | 825 | 15 | 2 | 1 | 819 | 1 | 824 | 0.0 | 1644 |
| Msa0131230 | MtrunA17_Chr4g0012061 | 34.851 | 505 | 294 | 10 | 133 | 628 | 100 | 578 | 1.01e-85 | 287 |
| Msa0131230 | MtrunA17_Chr1g0148121 | 36.484 | 455 | 262 | 8 | 198 | 642 | 134 | 571 | 2.70e-82 | 276 |
| Msa0131230 | MtrunA17_Chr3g0136721 | 33.772 | 456 | 269 | 5 | 198 | 642 | 138 | 571 | 1.33e-81 | 276 |
| Msa0131230 | MtrunA17_Chr6g0465161 | 33.925 | 507 | 300 | 9 | 111 | 616 | 56 | 528 | 3.73e-81 | 275 |
| Msa0131230 | MtrunA17_Chr7g0230671 | 34.990 | 503 | 294 | 11 | 134 | 628 | 89 | 566 | 1.56e-77 | 265 |
| Msa0131230 | MtrunA17_Chr1g0169361 | 31.697 | 489 | 302 | 6 | 127 | 612 | 126 | 585 | 1.23e-76 | 264 |
| Msa0131230 | MtrunA17_Chr8g0382921 | 34.889 | 450 | 236 | 13 | 198 | 613 | 198 | 624 | 1.75e-60 | 218 |
| Msa0131230 | MtrunA17_Chr3g0129101 | 34.368 | 419 | 229 | 8 | 198 | 584 | 207 | 611 | 2.65e-58 | 212 |
| Msa0131230 | MtrunA17_Chr3g0120791 | 29.717 | 424 | 282 | 4 | 198 | 618 | 204 | 614 | 1.40e-51 | 192 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0131230 | AT2G39190.2 | 57.927 | 820 | 311 | 7 | 1 | 804 | 1 | 802 | 0.0 | 959 |
| Msa0131230 | AT2G39190.1 | 58.537 | 369 | 133 | 3 | 1 | 357 | 1 | 361 | 8.61e-145 | 431 |
| Msa0131230 | AT5G24970.3 | 37.844 | 436 | 233 | 4 | 198 | 612 | 140 | 558 | 2.51e-89 | 298 |
| Msa0131230 | AT5G24970.2 | 37.844 | 436 | 233 | 4 | 198 | 612 | 179 | 597 | 5.48e-89 | 298 |
| Msa0131230 | AT5G24970.1 | 37.385 | 436 | 232 | 5 | 198 | 612 | 140 | 555 | 1.74e-85 | 287 |
| Msa0131230 | AT1G79600.1 | 33.673 | 490 | 296 | 8 | 134 | 620 | 96 | 559 | 2.80e-83 | 281 |
| Msa0131230 | AT4G31390.1 | 37.204 | 422 | 247 | 5 | 198 | 616 | 170 | 576 | 6.64e-82 | 277 |
| Msa0131230 | AT1G71810.1 | 32.661 | 545 | 318 | 11 | 80 | 616 | 16 | 519 | 4.15e-79 | 269 |
| Msa0131230 | AT3G24190.1 | 32.305 | 486 | 297 | 6 | 130 | 612 | 137 | 593 | 4.84e-79 | 271 |
| Msa0131230 | AT4G31390.2 | 35.782 | 422 | 228 | 6 | 198 | 616 | 170 | 551 | 8.63e-74 | 254 |
Find 248 sgRNAs with CRISPR-Local
Find 759 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACATCTGAATATAATTT+TGG | 0.070427 | 1_3:+61984464 | Msa0131230:CDS |
| AAAGCGACACCATCTTTGGA+TGG | 0.633807 | 1_3:-61990896 | None:intergenic |
| AAATAGTGAGCGACATCCTG+AGG | 0.636549 | 1_3:-61983100 | None:intergenic |
| AAATATCCGGCTTGTTACCA+TGG | 0.579205 | 1_3:+61986854 | Msa0131230:CDS |
| AACAAAGTCATCAACTTTCT+TGG | 0.258309 | 1_3:-61981775 | None:intergenic |
| AACAAGGAAAATATTGCATT+CGG | 0.460309 | 1_3:+61988251 | Msa0131230:CDS |
| AACTTGCGCTGCACTTCATC+AGG | 0.431810 | 1_3:+61986591 | Msa0131230:CDS |
| AAGAAGAATCATTCGAATTT+CGG | 0.277484 | 1_3:+61981651 | Msa0131230:CDS |
| AAGACAAGTGTATAATATGC+TGG | 0.535650 | 1_3:-61987940 | None:intergenic |
| AAGAGCCACAACATGGGGTC+TGG | 0.491274 | 1_3:-61983128 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CAATTTCATCAACTTAACTG+TGG | - | chr1_3:61981356-61981375 | None:intergenic | 30.0% | |
| ATTCTTCTTCTTCTTCTTAC+TGG | - | chr1_3:61981640-61981659 | None:intergenic | 30.0% | |
| AACAAAGTCATCAACTTTCT+TGG | - | chr1_3:61981778-61981797 | None:intergenic | 30.0% | |
| TTGTTTGATGAAATGGGTAT+TGG | + | chr1_3:61981946-61981965 | Msa0131230:intron | 30.0% | |
| TGTTTGATGAAATGGGTATT+GGG | + | chr1_3:61981947-61981966 | Msa0131230:intron | 30.0% | |
| TGGCTTGAAATGATTGTTAT+AGG | + | chr1_3:61982009-61982028 | Msa0131230:intron | 30.0% | |
| ATAACTAGACTAACTGTGTT+CGG | + | chr1_3:61982149-61982168 | Msa0131230:intron | 30.0% | |
| TAACATTCCACTTCATGAAA+TGG | - | chr1_3:61982236-61982255 | None:intergenic | 30.0% | |
| TAAGTTGTTTATCCAAACAG+GGG | + | chr1_3:61982508-61982527 | Msa0131230:intron | 30.0% | |
| CTTTGAATTTCGCCATTATA+AGG | + | chr1_3:61982691-61982710 | Msa0131230:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_3 | gene | 61981299 | 61992512 | 61981299 | ID=Msa0131230;Name=Msa0131230 |
| chr1_3 | mRNA | 61981299 | 61992512 | 61981299 | ID=Msa0131230-mRNA-1;Parent=Msa0131230;Name=Msa0131230-mRNA-1;_AED=0.10;_eAED=0.10;_QI=280|1|1|1|1|1|16|512|819 |
| chr1_3 | exon | 61981299 | 61981870 | 61981299 | ID=Msa0131230-mRNA-1:exon:20599;Parent=Msa0131230-mRNA-1 |
| chr1_3 | exon | 61982987 | 61983162 | 61982987 | ID=Msa0131230-mRNA-1:exon:20600;Parent=Msa0131230-mRNA-1 |
| chr1_3 | exon | 61984371 | 61984536 | 61984371 | ID=Msa0131230-mRNA-1:exon:20601;Parent=Msa0131230-mRNA-1 |
| chr1_3 | exon | 61984740 | 61984792 | 61984740 | ID=Msa0131230-mRNA-1:exon:20602;Parent=Msa0131230-mRNA-1 |
| chr1_3 | exon | 61985110 | 61985253 | 61985110 | ID=Msa0131230-mRNA-1:exon:20603;Parent=Msa0131230-mRNA-1 |
| chr1_3 | exon | 61985371 | 61985475 | 61985371 | ID=Msa0131230-mRNA-1:exon:20604;Parent=Msa0131230-mRNA-1 |
| chr1_3 | exon | 61985571 | 61985696 | 61985571 | ID=Msa0131230-mRNA-1:exon:20605;Parent=Msa0131230-mRNA-1 |
| chr1_3 | exon | 61985890 | 61986078 | 61985890 | ID=Msa0131230-mRNA-1:exon:20606;Parent=Msa0131230-mRNA-1 |
| chr1_3 | exon | 61986516 | 61986622 | 61986516 | ID=Msa0131230-mRNA-1:exon:20607;Parent=Msa0131230-mRNA-1 |
| chr1_3 | exon | 61986713 | 61986875 | 61986713 | ID=Msa0131230-mRNA-1:exon:20608;Parent=Msa0131230-mRNA-1 |
| chr1_3 | exon | 61987038 | 61987103 | 61987038 | ID=Msa0131230-mRNA-1:exon:20609;Parent=Msa0131230-mRNA-1 |
| chr1_3 | exon | 61987892 | 61987985 | 61987892 | ID=Msa0131230-mRNA-1:exon:20610;Parent=Msa0131230-mRNA-1 |
| chr1_3 | exon | 61988160 | 61988272 | 61988160 | ID=Msa0131230-mRNA-1:exon:20611;Parent=Msa0131230-mRNA-1 |
| chr1_3 | exon | 61988606 | 61988676 | 61988606 | ID=Msa0131230-mRNA-1:exon:20612;Parent=Msa0131230-mRNA-1 |
| chr1_3 | exon | 61990790 | 61990940 | 61990790 | ID=Msa0131230-mRNA-1:exon:20613;Parent=Msa0131230-mRNA-1 |
| chr1_3 | exon | 61991557 | 61992512 | 61991557 | ID=Msa0131230-mRNA-1:exon:20614;Parent=Msa0131230-mRNA-1 |
| chr1_3 | five_prime_UTR | 61981299 | 61981578 | 61981299 | ID=Msa0131230-mRNA-1:five_prime_utr;Parent=Msa0131230-mRNA-1 |
| chr1_3 | CDS | 61981579 | 61981870 | 61981579 | ID=Msa0131230-mRNA-1:cds;Parent=Msa0131230-mRNA-1 |
| chr1_3 | CDS | 61982987 | 61983162 | 61982987 | ID=Msa0131230-mRNA-1:cds;Parent=Msa0131230-mRNA-1 |
| chr1_3 | CDS | 61984371 | 61984536 | 61984371 | ID=Msa0131230-mRNA-1:cds;Parent=Msa0131230-mRNA-1 |
| chr1_3 | CDS | 61984740 | 61984792 | 61984740 | ID=Msa0131230-mRNA-1:cds;Parent=Msa0131230-mRNA-1 |
| chr1_3 | CDS | 61985110 | 61985253 | 61985110 | ID=Msa0131230-mRNA-1:cds;Parent=Msa0131230-mRNA-1 |
| chr1_3 | CDS | 61985371 | 61985475 | 61985371 | ID=Msa0131230-mRNA-1:cds;Parent=Msa0131230-mRNA-1 |
| chr1_3 | CDS | 61985571 | 61985696 | 61985571 | ID=Msa0131230-mRNA-1:cds;Parent=Msa0131230-mRNA-1 |
| chr1_3 | CDS | 61985890 | 61986078 | 61985890 | ID=Msa0131230-mRNA-1:cds;Parent=Msa0131230-mRNA-1 |
| chr1_3 | CDS | 61986516 | 61986622 | 61986516 | ID=Msa0131230-mRNA-1:cds;Parent=Msa0131230-mRNA-1 |
| chr1_3 | CDS | 61986713 | 61986875 | 61986713 | ID=Msa0131230-mRNA-1:cds;Parent=Msa0131230-mRNA-1 |
| chr1_3 | CDS | 61987038 | 61987103 | 61987038 | ID=Msa0131230-mRNA-1:cds;Parent=Msa0131230-mRNA-1 |
| chr1_3 | CDS | 61987892 | 61987985 | 61987892 | ID=Msa0131230-mRNA-1:cds;Parent=Msa0131230-mRNA-1 |
| chr1_3 | CDS | 61988160 | 61988272 | 61988160 | ID=Msa0131230-mRNA-1:cds;Parent=Msa0131230-mRNA-1 |
| chr1_3 | CDS | 61988606 | 61988676 | 61988606 | ID=Msa0131230-mRNA-1:cds;Parent=Msa0131230-mRNA-1 |
| chr1_3 | CDS | 61990790 | 61990940 | 61990790 | ID=Msa0131230-mRNA-1:cds;Parent=Msa0131230-mRNA-1 |
| chr1_3 | CDS | 61991557 | 61992000 | 61991557 | ID=Msa0131230-mRNA-1:cds;Parent=Msa0131230-mRNA-1 |
| chr1_3 | three_prime_UTR | 61992001 | 61992512 | 61992001 | ID=Msa0131230-mRNA-1:three_prime_utr;Parent=Msa0131230-mRNA-1 |
| Gene Sequence |
>Msa0131230 ATGGCGACGGTGACAGCACCTCCGTCACTCCCCTTTGTACGGGCCACAACGACGCCGTCCAGTAAGAAGAAGAAGAAGAATCATTCGAATTTCGGTCACTTTGGTCAAGTGGTTCGCAAGGACATGGAGTTTCTTAAAAGAGGATTTAACAATGGTGTTGAGTGGGCCAATGATGCATTCCGCATTCCTCAAATTGCCAAGAAAGTTGATGACTTTGTTTGGCTTCGAAATCTTGAAAACCCTCAAGCTACTTCGTTTTCCACTCCTTCTTGGCCTGAGCCTTGGTATCCAGGACTGTCTGGAGTGGATTTGCTCATGTATGATCTGAAGGCCTTGGAAGCATATGCTAGTTACTTCTATCATTTGTCTAAGATTTGGTCAAAGCCACTGCCTGAAACTTATGATCCTCAGGATGTCGCTCACTATTTCAGTGCCAGACCCCATGTTGTGGCTCTTCGTATGCTCGAGGTATTTTCCTCCTTTGCCTCTGCTGCGGTCAGTATTCGGACTTCAGGGTTAAGAAAATTTCTACCAATAAATGCAGAAGGGGATATGGACGATAAAACATCTGAATATAATTTTGGGTTGGTTTTAAAGGAAACAATGCTTAATCTTGGCCCCACATTTATAAAAGTTGGTCAGTCACTTTCCACGAGGCCAGATATCATTGGTGTTGAGATGTCCAAGGCATTGTCAGAATTGCATGATCAAATCCCTCCCTTTCCTAGGACTGTTGCTATGAAGATTCTTGAGGAAGAATTAGGAGCTCCCCTGGAATCATTTTTCAGCTACATTTCTGAGGAACCTGTAGCCGCTGCATCATTTGGTCAGGTTTACTTTGCCCGTACTATTGATGGTGTTAATGTTGCTGTAAAAGTTCAGCGTCCTAATTTGCGGCACGTGGTGGTGCGGGATATCTACATTCTTCGCCTTGGGTTGGGGCTGCTGCAAAAGATTGCCAAGAGAAAGAGTGACCCTCGCCTTTATGCTGATGAGCTTGGGCGAGGTTTTGTTGGTGAATTGGATTACACTTTAGAGGCAGCAAATGCATTGAAGTTTCGGGAAGTTCACTCGTCATTTTCTTTCATGCGCGTGCCAAAAATATTTTTACATTTAAGTCGAAAGAGAGTTCTGACCATGGAGTGGATGGTCGGTGAAAGTCCAACAGATTTAATCTCTGTATCTACCGGAAACTCTACTGAATATTCAGATAGGCAAAAAGTAGATGCAAAAAGGCGTCTACTTGATCTGGTCAATAAAGGTGTTGAAGCAACATTGGTTCAACTTCTTGAAACGGGCTTAATACACGCCGATCCACATCCTGGTAACTTGCGCTGCACTTCATCAGGAGAAATAGGGTTTTTGGATTTTGGTTTGCTCTGTCAAATGGAAAAAAGGCATCAATTCGCTATGCTGGCTTCAATAGTTCATATAGTAAACGGTGACTGGGCATCTCTTGTCAACGCTCTGATTGATATGGATATGGTGAGACCAGGGACAAATATCCGGCTTGTTACCATGGAACTGGAACAGGCCTTGGGGGAAGTGGAATTTAAGGATGGAATTCCTGATGTGAAGTTCAGCAGGGTTCTGGGAAAGATTTTGTCTGTAGCATTCAAGTATCATTTCCGTATGCCAGCATATTATACACTTGTCTTACGATCCCTAGCCTCTTTCGAAGGTTTGGCTATAGCTGCAGATAAAAAATTCAAGACTTTTGAAGCTGCCTACCCCTACGTCGTTCGGAAACTTCTAACAGAAAACTCAGCCGCAACAAGGAAAATATTGCATTCGGTACTTCTAAATCGAAAGAAGGAGTTCCAATGGCAAAGGCTTTCCATGTTCTTGAGAGTAGGGGCAACTAGGAAAGCCTTGCAACTAGTAACTTCAAATAGTGAGACTTCCCCCGATCAATCACCAAATAAGGCCGCTGGTACATTTGATATTGCATACTTGATCTTGACGATTTTACCATCCAAAGATGGTGTCGCTTTGAGAAGGCTTCTCATGACTGCTGACGGAGCTTCAATAATCAGAGCAATGGTCTCGAAGGAGGGAAAGGTCATCCGCCAACAACTTTGCAAGGTCATAGCCGATGCATTGTGTCAATGGATGATTAAATTATGTGGACAAGGAGTTACAGATACTCAATATCCAAGGGTGATGTTGGCTAATGGAACTAGCAACAAAGAATCTGGTCGATCTACTCGATCATCTTCGCCTGCATATGATTATATTTCCTTATTTAGAGATCGGCGACTTCGGGTGATATTTTCTAAGGTTTTGAAATCTGCAAGCAGTCATAAAATACTGATGCTGCGGTTCTGTTGGTCTTCCCTTGTTATAATCATTACAGCTTCAGCTTTGGCAAGCCATCGGGTTGTTCTGTCGCTGTCTGAGGCTTACCTGGGCCCAATATTCGATGCACCTAAGCGTAAGAGATATGCAGTCAGTGCATGA |
| Protein sequence |
>Msa0131230 MATVTAPPSLPFVRATTTPSSKKKKKNHSNFGHFGQVVRKDMEFLKRGFNNGVEWANDAFRIPQIAKKVDDFVWLRNLENPQATSFSTPSWPEPWYPGLSGVDLLMYDLKALEAYASYFYHLSKIWSKPLPETYDPQDVAHYFSARPHVVALRMLEVFSSFASAAVSIRTSGLRKFLPINAEGDMDDKTSEYNFGLVLKETMLNLGPTFIKVGQSLSTRPDIIGVEMSKALSELHDQIPPFPRTVAMKILEEELGAPLESFFSYISEEPVAAASFGQVYFARTIDGVNVAVKVQRPNLRHVVVRDIYILRLGLGLLQKIAKRKSDPRLYADELGRGFVGELDYTLEAANALKFREVHSSFSFMRVPKIFLHLSRKRVLTMEWMVGESPTDLISVSTGNSTEYSDRQKVDAKRRLLDLVNKGVEATLVQLLETGLIHADPHPGNLRCTSSGEIGFLDFGLLCQMEKRHQFAMLASIVHIVNGDWASLVNALIDMDMVRPGTNIRLVTMELEQALGEVEFKDGIPDVKFSRVLGKILSVAFKYHFRMPAYYTLVLRSLASFEGLAIAADKKFKTFEAAYPYVVRKLLTENSAATRKILHSVLLNRKKEFQWQRLSMFLRVGATRKALQLVTSNSETSPDQSPNKAAGTFDIAYLILTILPSKDGVALRRLLMTADGASIIRAMVSKEGKVIRQQLCKVIADALCQWMIKLCGQGVTDTQYPRVMLANGTSNKESGRSTRSSSPAYDYISLFRDRRLRVIFSKVLKSASSHKILMLRFCWSSLVIIITASALASHRVVLSLSEAYLGPIFDAPKRKRYAVSA* |
