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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0956580 | XP_039682549.1 | 93.576 | 467 | 22 | 1 | 1 | 467 | 1 | 459 | 0.0 | 782 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0956580 | sp|Q9FIT1|IQD23_ARATH | 47.309 | 446 | 135 | 18 | 1 | 434 | 1 | 358 | 1.06e-60 | 206 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0956580 | A0A072TIL7 | 93.362 | 467 | 20 | 1 | 1 | 467 | 1 | 456 | 0.0 | 779 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000610 | Msa0956580 | 0.815228 | 1.029600e-51 | -8.615850e-47 |
| Msa0002690 | Msa0956580 | 0.840766 | 7.136888e-58 | -8.615850e-47 |
| Msa0002700 | Msa0956580 | 0.849473 | 3.160780e-60 | -8.615850e-47 |
| Msa0003370 | Msa0956580 | 0.827975 | 1.162120e-54 | -8.615850e-47 |
| Msa0004180 | Msa0956580 | 0.814148 | 1.785416e-51 | -8.615850e-47 |
| Msa0005500 | Msa0956580 | 0.833962 | 3.944968e-56 | -8.615850e-47 |
| Msa0007570 | Msa0956580 | 0.805209 | 1.491083e-49 | -8.615850e-47 |
| Msa0011060 | Msa0956580 | 0.810574 | 1.077452e-50 | -8.615850e-47 |
| Msa0011100 | Msa0956580 | 0.807710 | 4.426385e-50 | -8.615850e-47 |
| Msa0011410 | Msa0956580 | 0.807730 | 4.382158e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0956580 | MtrunA17_Chr6g0472551 | 93.362 | 467 | 20 | 1 | 1 | 467 | 1 | 456 | 0.0 | 779 |
| Msa0956580 | MtrunA17_Chr1g0203711 | 63.202 | 481 | 123 | 15 | 1 | 467 | 1 | 441 | 1.44e-158 | 456 |
| Msa0956580 | MtrunA17_Chr4g0057321 | 38.122 | 362 | 186 | 8 | 119 | 467 | 90 | 426 | 3.80e-56 | 192 |
| Msa0956580 | MtrunA17_Chr8g0346021 | 34.167 | 360 | 173 | 13 | 119 | 425 | 129 | 477 | 2.03e-28 | 118 |
| Msa0956580 | MtrunA17_Chr8g0389781 | 34.211 | 304 | 148 | 12 | 119 | 419 | 128 | 382 | 2.10e-28 | 117 |
| Msa0956580 | MtrunA17_Chr8g0340761 | 34.375 | 416 | 180 | 11 | 25 | 422 | 36 | 376 | 5.68e-28 | 115 |
| Msa0956580 | MtrunA17_Chr1g0166431 | 39.752 | 161 | 60 | 5 | 17 | 169 | 38 | 169 | 1.01e-20 | 94.4 |
| Msa0956580 | MtrunA17_Chr1g0166431 | 34.568 | 162 | 93 | 6 | 278 | 432 | 216 | 371 | 9.80e-12 | 66.6 |
| Msa0956580 | MtrunA17_Chr1g0204901 | 58.974 | 78 | 30 | 1 | 107 | 182 | 124 | 201 | 6.29e-20 | 92.0 |
| Msa0956580 | MtrunA17_Chr1g0204901 | 36.420 | 162 | 89 | 6 | 278 | 432 | 232 | 386 | 3.94e-12 | 68.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0956580 | AT5G62070.1 | 47.309 | 446 | 135 | 18 | 1 | 434 | 1 | 358 | 1.08e-61 | 206 |
| Msa0956580 | AT5G07240.1 | 43.363 | 452 | 135 | 19 | 1 | 434 | 1 | 349 | 3.45e-55 | 189 |
| Msa0956580 | AT5G07240.2 | 43.363 | 452 | 135 | 19 | 1 | 434 | 47 | 395 | 5.98e-55 | 190 |
| Msa0956580 | AT4G23060.1 | 34.771 | 371 | 183 | 13 | 109 | 467 | 160 | 483 | 6.74e-34 | 133 |
| Msa0956580 | AT1G01110.2 | 34.593 | 344 | 161 | 12 | 119 | 417 | 123 | 447 | 1.37e-28 | 119 |
| Msa0956580 | AT4G00820.1 | 33.511 | 376 | 144 | 18 | 106 | 417 | 120 | 453 | 1.34e-24 | 107 |
| Msa0956580 | AT3G49260.3 | 33.047 | 233 | 106 | 6 | 109 | 291 | 112 | 344 | 5.19e-23 | 102 |
| Msa0956580 | AT3G49260.1 | 33.047 | 233 | 105 | 7 | 109 | 291 | 112 | 343 | 5.24e-21 | 95.9 |
| Msa0956580 | AT3G49260.4 | 33.047 | 233 | 105 | 7 | 109 | 291 | 112 | 343 | 5.24e-21 | 95.9 |
| Msa0956580 | AT3G49260.2 | 33.047 | 233 | 105 | 7 | 109 | 291 | 112 | 343 | 5.24e-21 | 95.9 |
Find 152 sgRNAs with CRISPR-Local
Find 747 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGTCAAAAGTCAACCATG+TGG | 0.740937 | 6_3:+64268389 | None:intergenic |
| AAATGCCTGTGGACTACTCT+CGG | 0.609558 | 6_3:+64269126 | None:intergenic |
| AAATTCTTGAAGTAGATACT+TGG | 0.490960 | 6_3:-64269342 | Msa0956580:CDS |
| AAATTGCAAGCTTTGGTGAG+AGG | 0.564599 | 6_3:-64270869 | Msa0956580:CDS |
| AAATTGGTTAGACAGTTGGA+TGG | 0.594225 | 6_3:-64269434 | Msa0956580:CDS |
| AACCGCCGAGAGTAGTCCAC+AGG | 0.576504 | 6_3:-64269131 | Msa0956580:CDS |
| AACCGTCTCCGACCAGTCGT+CGG | 0.595592 | 6_3:+64275378 | None:intergenic |
| AACCGTCTCCGACCAGTCGT+CGG | 0.595592 | 6_3:+64280915 | None:intergenic |
| AACTTAGAAAGAGCCCGGTT+AGG | 0.536800 | 6_3:-64269460 | Msa0956580:CDS |
| AACTTTCTCCGACGACTCTT+CGG | 0.424546 | 6_3:-64275690 | Msa0956580:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TGTTACATACCAAATAACCT+CGG | + | chr6_3:64268526-64268545 | None:intergenic | 30.0% | |
| TTCTCATAAAAAGAATCGGA+TGG | + | chr6_3:64268610-64268629 | None:intergenic | 30.0% | |
| CATTTAGCGAGCAATAAAAT+TGG | - | chr6_3:64268721-64268740 | Msa0956580:three_prime_UTR | 30.0% | |
| GACTTAAGATCCTCTTTATT+TGG | - | chr6_3:64269464-64269483 | Msa0956580:CDS | 30.0% | |
| TACCATAGCAGTAGTAAAAA+AGG | + | chr6_3:64270211-64270230 | None:intergenic | 30.0% | |
| AATATTCAGACTTGAGAGTT+GGG | + | chr6_3:64270409-64270428 | None:intergenic | 30.0% | |
| AAATATTCAGACTTGAGAGT+TGG | + | chr6_3:64270410-64270429 | None:intergenic | 30.0% | |
| TTAAAAATGGTATATCCGGA+CGG | - | chr6_3:64270775-64270794 | Msa0956580:CDS | 30.0% | |
| ATTGGAGTTGTCAAAATAGT+TGG | - | chr6_3:64270799-64270818 | Msa0956580:CDS | 30.0% | |
| TTGGAGTTGTCAAAATAGTT+GGG | - | chr6_3:64270800-64270819 | Msa0956580:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_3 | gene | 64268271 | 64281124 | 64268271 | ID=Msa0956580;Name=Msa0956580 |
| chr6_3 | mRNA | 64268271 | 64281124 | 64268271 | ID=Msa0956580-mRNA-1;Parent=Msa0956580;Name=Msa0956580-mRNA-1;_AED=0.28;_eAED=0.28;_QI=496|0.75|0.8|1|0.75|0.6|5|534|467 |
| chr6_3 | exon | 64268271 | 64269515 | 64268271 | ID=Msa0956580-mRNA-1:exon:12261;Parent=Msa0956580-mRNA-1 |
| chr6_3 | exon | 64269707 | 64269775 | 64269707 | ID=Msa0956580-mRNA-1:exon:12260;Parent=Msa0956580-mRNA-1 |
| chr6_3 | exon | 64270697 | 64270927 | 64270697 | ID=Msa0956580-mRNA-1:exon:12259;Parent=Msa0956580-mRNA-1 |
| chr6_3 | exon | 64275323 | 64275946 | 64275323 | ID=Msa0956580-mRNA-1:exon:12258;Parent=Msa0956580-mRNA-1 |
| chr6_3 | exon | 64280860 | 64281124 | 64280860 | ID=Msa0956580-mRNA-1:exon:12257;Parent=Msa0956580-mRNA-1 |
| chr6_3 | five_prime_UTR | 64280860 | 64281124 | 64280860 | ID=Msa0956580-mRNA-1:five_prime_utr;Parent=Msa0956580-mRNA-1 |
| chr6_3 | five_prime_UTR | 64275716 | 64275946 | 64275716 | ID=Msa0956580-mRNA-1:five_prime_utr;Parent=Msa0956580-mRNA-1 |
| chr6_3 | CDS | 64275323 | 64275715 | 64275323 | ID=Msa0956580-mRNA-1:cds;Parent=Msa0956580-mRNA-1 |
| chr6_3 | CDS | 64270697 | 64270927 | 64270697 | ID=Msa0956580-mRNA-1:cds;Parent=Msa0956580-mRNA-1 |
| chr6_3 | CDS | 64269707 | 64269775 | 64269707 | ID=Msa0956580-mRNA-1:cds;Parent=Msa0956580-mRNA-1 |
| chr6_3 | CDS | 64268805 | 64269515 | 64268805 | ID=Msa0956580-mRNA-1:cds;Parent=Msa0956580-mRNA-1 |
| chr6_3 | three_prime_UTR | 64268271 | 64268804 | 64268271 | ID=Msa0956580-mRNA-1:three_prime_utr;Parent=Msa0956580-mRNA-1 |
| Gene Sequence |
>Msa0956580 ATGAACTTTCTCCGACGACTCTTCGGCGGCAAAAAACACCGTAATCCACCACCAGAACCACCCACCAACAACAAAAAAGACAAAAGAACATGGAGTTTCACAAAGAACAACACAAGACAAAAAACCAACAAAAATTCTGACCCTTCAACTTCTTCTTTCTCTGATAACTATGATGCTAATAAACATGCCATTGCTGTTGCTGCTGCTACTGCCGCCGTTGCTGAAGCTGCACTCGCTGCTGCTCATGCCGCCGCTGAGGTTGTTAGATTGACAAGTAATACGGCTGGAGGAAATTCTGCTGGGGGTCCTCGAACTCCGACGACTGGTCGGAGACGGTTGTCGGAAGAAATTGATGCTGCCGTGAAGATTCAGTCGGCTTTCCGAGGTTATTTGGCAAGGAGGGCATTAAGAGCACTTAAAGCATTGGTGAAATTGCAAGCTTTGGTGAGAGGTCACATTGTAAGAAAACAAACAGCTGATATGCTAAGACGAATGCAAACATTGGTTCGACTTCAGTCTCGGGCACGTGCAAGTCGTGTGCACATTTCGGATAATATGCACTCTTTCAAGTCTTCGCTTTCTCGTTACCTTGTAAGCAAATCAAACTTAATACTTTTTGAGCAAGTTCCTGATGATTATGAACACCCACTTCGCGTCTATAGTACGAAATTTGACGGATCTTCCATCCTCAAGAGATGTAGCTCAAATGCAAATTTTAGAGACATGAACTTAGAAAGAGCCCGGTTAGGTTCAAATTGGTTAGACAGTTGGATGGAAGAATACACATGGAGCCAAACCGGCGGCGCTTCATCGAAAAATGTAAATGATGATGAGAAGAGTGACAAAATTCTTGAAGTAGATACTTGGAAACCACATTTGAAATCACAACATAGTACTAGCACCTCTTTTCAACATCATTATTCATCTTCTGATTACAATAATGAAAATTTTATGGTACACGAATCGCCGTCGAAACGCTCTTCTAAAGCTTATAATCCAAGTCTCTCTTCTATGAAGCATCAGAAAGGAAAAGAAGAAGAAGTAGCTTCTTCCCGAACCGCCGAGAGTAGTCCACAGGCATTTTCGGCTTCTTCAAGACTCGAAAGTGGTTCGAGGCGAGGTCCTTTTACACCTACTAAAAGTGAGAGTTCATGGGGATTTTTCAATGCTTACTCTGGTTATCCTAGTTATATGGCAAATACTCAATCTTCTAGGGCTAAGGTTAGGTCACAAAGTGCTCCAAGACAAAGGCTAGAGTTTGAGAGATATGGTTCATCTACTAGGTCTATTCAAGGCCTTTGGGAATCAGGGTCTAATTCAGAAATAGATTCTGATTTTAGGAGCAAGGTTTATCCAGCCACAAGTAGCTTGAACAGAATTGGGAGTAGTACCAATTTAAGGTGA |
| Protein sequence |
>Msa0956580 MNFLRRLFGGKKHRNPPPEPPTNNKKDKRTWSFTKNNTRQKTNKNSDPSTSSFSDNYDANKHAIAVAAATAAVAEAALAAAHAAAEVVRLTSNTAGGNSAGGPRTPTTGRRRLSEEIDAAVKIQSAFRGYLARRALRALKALVKLQALVRGHIVRKQTADMLRRMQTLVRLQSRARASRVHISDNMHSFKSSLSRYLVSKSNLILFEQVPDDYEHPLRVYSTKFDGSSILKRCSSNANFRDMNLERARLGSNWLDSWMEEYTWSQTGGASSKNVNDDEKSDKILEVDTWKPHLKSQHSTSTSFQHHYSSSDYNNENFMVHESPSKRSSKAYNPSLSSMKHQKGKEEEVASSRTAESSPQAFSASSRLESGSRRGPFTPTKSESSWGFFNAYSGYPSYMANTQSSRAKVRSQSAPRQRLEFERYGSSTRSIQGLWESGSNSEIDSDFRSKVYPATSSLNRIGSSTNLR* |
