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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1438840 | XP_013457678.1 | 96.429 | 588 | 13 | 2 | 1 | 588 | 1 | 580 | 0.0 | 1131 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1438840 | sp|F4JPR7|PUX8_ARATH | 47.876 | 612 | 247 | 17 | 1 | 588 | 1 | 564 | 4.47e-136 | 410 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1438840 | A0A072UPD8 | 96.429 | 588 | 13 | 2 | 1 | 588 | 1 | 580 | 0.0 | 1131 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0001830 | Msa1438840 | 0.834596 | 2.736197e-56 | -8.615850e-47 |
| Msa0004840 | Msa1438840 | 0.837663 | 4.550781e-57 | -8.615850e-47 |
| Msa0007470 | Msa1438840 | 0.818618 | 1.784044e-52 | -8.615850e-47 |
| Msa0010490 | Msa1438840 | 0.823072 | 1.686004e-53 | -8.615850e-47 |
| Msa0010500 | Msa1438840 | 0.809414 | 1.914559e-50 | -8.615850e-47 |
| Msa0015090 | Msa1438840 | 0.964942 | 5.758955e-124 | -8.615850e-47 |
| Msa0016510 | Msa1438840 | 0.810793 | 9.659702e-51 | -8.615850e-47 |
| Msa0017320 | Msa1438840 | 0.852004 | 6.134096e-61 | -8.615850e-47 |
| Msa0020390 | Msa1438840 | 0.818899 | 1.540914e-52 | -8.615850e-47 |
| Msa0029260 | Msa1438840 | 0.805824 | 1.107450e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1438840 | MtrunA17_Chr4g0057301 | 96.429 | 588 | 13 | 2 | 1 | 588 | 1 | 580 | 0.0 | 1131 |
| Msa1438840 | MtrunA17_Chr8g0350381 | 41.743 | 218 | 121 | 3 | 372 | 588 | 323 | 535 | 1.01e-44 | 166 |
| Msa1438840 | MtrunA17_Chr8g0350381 | 34.028 | 288 | 137 | 15 | 1 | 266 | 36 | 292 | 1.97e-20 | 95.1 |
| Msa1438840 | MtrunA17_Chr4g0058781 | 31.138 | 167 | 101 | 5 | 432 | 586 | 206 | 370 | 3.31e-13 | 71.6 |
| Msa1438840 | MtrunA17_Chr1g0188921 | 31.746 | 189 | 88 | 5 | 429 | 587 | 288 | 465 | 2.04e-11 | 66.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1438840 | AT4G11740.1 | 47.876 | 612 | 247 | 17 | 1 | 588 | 1 | 564 | 4.54e-137 | 410 |
| Msa1438840 | AT4G23040.1 | 45.805 | 596 | 244 | 17 | 1 | 588 | 1 | 525 | 3.47e-121 | 369 |
| Msa1438840 | AT4G11740.2 | 43.470 | 513 | 218 | 16 | 1 | 489 | 1 | 465 | 5.09e-89 | 284 |
| Msa1438840 | AT4G00752.1 | 53.846 | 117 | 47 | 1 | 472 | 588 | 359 | 468 | 1.05e-32 | 131 |
| Msa1438840 | AT4G00752.1 | 28.883 | 412 | 208 | 12 | 1 | 395 | 1 | 344 | 1.47e-28 | 119 |
| Msa1438840 | AT4G10790.1 | 31.953 | 169 | 86 | 5 | 438 | 587 | 321 | 479 | 3.90e-13 | 72.4 |
Find 173 sgRNAs with CRISPR-Local
Find 302 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGAATTGAAGGCCATTG+CGG | 0.632012 | tig0028644:-19648 | Msa1438840:CDS |
| AAAAGTGATTGCCTTGGGTT+AGG | 0.405676 | tig0028644:+20797 | None:intergenic |
| AAACAAAGCTTCTTGCTTAT+TGG | 0.125120 | tig0028644:+18928 | None:intergenic |
| AAAGCACGGCGTGTACAAGA+AGG | 0.613259 | tig0028644:-20556 | Msa1438840:CDS |
| AACAATAACCGTATCTAAAT+TGG | 0.200110 | tig0028644:+18604 | None:intergenic |
| AACTTAAAGGTGTACCTTCA+AGG | 0.447852 | tig0028644:+20739 | None:intergenic |
| AAGAAAGTTGCAGGAAGAGC+AGG | 0.467946 | tig0028644:-19576 | Msa1438840:intron |
| AAGACACAAGGAGTTGACTT+AGG | 0.474030 | tig0028644:-20502 | Msa1438840:CDS |
| AAGCGCTGAGCCTCCAATGA+TGG | 0.546680 | tig0028644:+19833 | None:intergenic |
| AAGGAATTGTCATTATGCGG+AGG | 0.670479 | tig0028644:+20142 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATGATGAAACAAAGAGGATT+TGG | + | tig0028644:18750-18769 | None:intergenic | 30.0% | |
| CAGAAAAGTGAATAAGGAAA+AGG | + | tig0028644:18898-18917 | None:intergenic | 30.0% | |
| ACTTATGCAAGTAGTTATCT+CGG | - | tig0028644:19437-19456 | Msa1438840:intron | 30.0% | |
| TAGTTATCTCGGATGATTTA+GGG | - | tig0028644:19448-19467 | Msa1438840:intron | 30.0% | |
| TATTATTCATAAGCTTGTCG+AGG | - | tig0028644:19537-19556 | Msa1438840:intron | 30.0% | |
| TAAGAAACTAATGGCATGTT+TGG | + | tig0028644:19629-19648 | None:intergenic | 30.0% | |
| TAAGTTCTCTTTAATGGTGT+TGG | - | tig0028644:19803-19822 | Msa1438840:intron | 30.0% | |
| TGCTTCTAATGCATGAAAAA+AGG | + | tig0028644:19956-19975 | None:intergenic | 30.0% | |
| TATATCCATGAAATCTCCTT+GGG | + | tig0028644:20109-20128 | None:intergenic | 30.0% | |
| CTTGCAAAAGATAAAAGAGA+TGG | + | tig0028644:20162-20181 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0028644 | gene | 18617 | 22925 | 18617 | ID=Msa1438840;Name=Msa1438840 |
| tig0028644 | mRNA | 18617 | 22925 | 18617 | ID=Msa1438840-mRNA-1;Parent=Msa1438840;Name=Msa1438840-mRNA-1;_AED=0.12;_eAED=0.12;_QI=191|0.9|0.90|1|1|1|11|296|588 |
| tig0028644 | exon | 18617 | 19020 | 18617 | ID=Msa1438840-mRNA-1:exon:11477;Parent=Msa1438840-mRNA-1 |
| tig0028644 | exon | 19132 | 19188 | 19132 | ID=Msa1438840-mRNA-1:exon:11476;Parent=Msa1438840-mRNA-1 |
| tig0028644 | exon | 19281 | 19424 | 19281 | ID=Msa1438840-mRNA-1:exon:11475;Parent=Msa1438840-mRNA-1 |
| tig0028644 | exon | 19577 | 19708 | 19577 | ID=Msa1438840-mRNA-1:exon:11474;Parent=Msa1438840-mRNA-1 |
| tig0028644 | exon | 19817 | 20026 | 19817 | ID=Msa1438840-mRNA-1:exon:11473;Parent=Msa1438840-mRNA-1 |
| tig0028644 | exon | 20129 | 20360 | 20129 | ID=Msa1438840-mRNA-1:exon:11472;Parent=Msa1438840-mRNA-1 |
| tig0028644 | exon | 20481 | 20593 | 20481 | ID=Msa1438840-mRNA-1:exon:11471;Parent=Msa1438840-mRNA-1 |
| tig0028644 | exon | 20754 | 20837 | 20754 | ID=Msa1438840-mRNA-1:exon:11470;Parent=Msa1438840-mRNA-1 |
| tig0028644 | exon | 20919 | 21450 | 20919 | ID=Msa1438840-mRNA-1:exon:11469;Parent=Msa1438840-mRNA-1 |
| tig0028644 | exon | 21595 | 21665 | 21595 | ID=Msa1438840-mRNA-1:exon:11468;Parent=Msa1438840-mRNA-1 |
| tig0028644 | exon | 22651 | 22925 | 22651 | ID=Msa1438840-mRNA-1:exon:11467;Parent=Msa1438840-mRNA-1 |
| tig0028644 | five_prime_UTR | 22735 | 22925 | 22735 | ID=Msa1438840-mRNA-1:five_prime_utr;Parent=Msa1438840-mRNA-1 |
| tig0028644 | CDS | 22651 | 22734 | 22651 | ID=Msa1438840-mRNA-1:cds;Parent=Msa1438840-mRNA-1 |
| tig0028644 | CDS | 21595 | 21665 | 21595 | ID=Msa1438840-mRNA-1:cds;Parent=Msa1438840-mRNA-1 |
| tig0028644 | CDS | 20919 | 21450 | 20919 | ID=Msa1438840-mRNA-1:cds;Parent=Msa1438840-mRNA-1 |
| tig0028644 | CDS | 20754 | 20837 | 20754 | ID=Msa1438840-mRNA-1:cds;Parent=Msa1438840-mRNA-1 |
| tig0028644 | CDS | 20481 | 20593 | 20481 | ID=Msa1438840-mRNA-1:cds;Parent=Msa1438840-mRNA-1 |
| tig0028644 | CDS | 20129 | 20360 | 20129 | ID=Msa1438840-mRNA-1:cds;Parent=Msa1438840-mRNA-1 |
| tig0028644 | CDS | 19817 | 20026 | 19817 | ID=Msa1438840-mRNA-1:cds;Parent=Msa1438840-mRNA-1 |
| tig0028644 | CDS | 19577 | 19708 | 19577 | ID=Msa1438840-mRNA-1:cds;Parent=Msa1438840-mRNA-1 |
| tig0028644 | CDS | 19281 | 19424 | 19281 | ID=Msa1438840-mRNA-1:cds;Parent=Msa1438840-mRNA-1 |
| tig0028644 | CDS | 19132 | 19188 | 19132 | ID=Msa1438840-mRNA-1:cds;Parent=Msa1438840-mRNA-1 |
| tig0028644 | CDS | 18913 | 19020 | 18913 | ID=Msa1438840-mRNA-1:cds;Parent=Msa1438840-mRNA-1 |
| tig0028644 | three_prime_UTR | 18617 | 18912 | 18617 | ID=Msa1438840-mRNA-1:three_prime_utr;Parent=Msa1438840-mRNA-1 |
| Gene Sequence |
>Msa1438840 ATGGCGACACCTAATCAAGAGACGATTGACACATTCATCAGCATCACCGGTGTTTCTCAACCAATTGCACTGCAAAAGCTTCAGGAGCATGGTGGTAGTCTTAATGAAGCTGTTAATGCATATTTCAGCGAAGGAGACAGAAATTTGATGGCCAGCTCTGCCGCCGTTCCCCAAGGAGATTTCATGGATATAGATGATCAACATGATGAAATTCTTAGACCTCCATCTCTTTTATCTTTTGCAAGAAATCTCGATCCATTTTCTCTTATTGATCCTACAATTGGGAGAAGTATACTTGATACTCATCTTGGTGCAACAAACCAGGCGCCGTTTGTCACTCATCCAAGAGAGGTAAGGCAAATTCCGATAGAGGATAAGGATGGTAGTCAATCAACTCCTCAAGCTGGCCATATTCCAATAGTTGAAGATGTTACTGGAACTGTTCATGCCCAAGGTCCAGATATACATGGGAGTGTCATAGTACTTGATGATGATGATGATGACAATACTCTGCCTGCTCCGACTAATTCTTCACCTGACAGTAGTGCGAGACCTAGTGCTCCCACATTGGAGAATTTACCAGATAGCAGCAATGACATAGAAGAAGAAATGATTCGTGCAGCCATTGAGGCATCCAGACGAGAGGCTGAGGAAAATTACAGCAATCATGAAGTTGACAGACAAATTGACGTGAGTGAATCTGGGCCTAACCCAAGGCAATCACTTTTAGAGGATCCTGAGCTTGCTCGTGCAGTTTCATTGTCCTTGAAGACAGCAGAGCAAGAAAAAGCACGGCGTGTACAAGAAGGTGATGCTGGAGCACCTACGGCAGGGCCATCTAAGACACAAGGAGTTGACTTAGGGGAAGTATCTTCAAATGGAAGTAAATATGGTCATTGTAGATTGCAGGCAGGAGAAGATGAAGATGAAGATGAAGAAGATGAAGATGTAGAGGAGATGCCTTTGGTTAGGAACAGGTCTACTAGACATGTGTCACTTAGCTCCACAGGGTCAGGCAAAGATGCTGAATTAATCGAGTCCAGCACACTGGCAGGCACAACAGTTCCGGAAAGCAGCAGTCCTCCGCATAATGACAATTCCTTCCCATCTGATGAATGGGGTGGCATGTCTTCAGTGGAACATGATGAAGCAGTAATGCTTGAGGCTGCAATGTTCGGTGGAATCCCGGAAGGAAGTGGTTATCGCCGTGCTTATGCACCACATGAGTTCATGCAGAATAGGGGTTTCCATCCTCAGCCCGCACCTCTTGCATATCACCCTCCTTCACCATCATTGGAGGCTCAGCGCTTGATAAGGGAACAACAGGATGATGAATACCTTGCATCATTAGAAGCAGACAGAGAAAAAGAATTGAAGGCCATTGCGGAAGCTGAGGTTGCTCGCGAAGAGGAAAAACAGAGAGCAGAAGAATCTCAAAGAAAGTTGCAGGAAGAGCAGGAATTGGAAGCACAGTTAGCTGCCAAAGAAGTCTCTCTACCACCAGAACCATCCTCTGATGATGACAGTGCTGTGAATCTGATGGTAAAAATGCCAGATGGCAGCCGTCGTGGGCGCCGATTCCTAAGATCTCATAAGCTCCAGTCTCTTTTCGACTTCATAGATATTGGTAGACAGGTCAAACCAAGCAGTTACAGACTGGTAAGACCATATCCTAGGCGTGCCTTTGGTGTTGAGGAAAGTGCTGTGACATTGGACGAACTTGGCTTAACCAATAAGCAAGAAGCTTTGTTTTTGGAGTTAGTCTGA |
| Protein sequence |
>Msa1438840 MATPNQETIDTFISITGVSQPIALQKLQEHGGSLNEAVNAYFSEGDRNLMASSAAVPQGDFMDIDDQHDEILRPPSLLSFARNLDPFSLIDPTIGRSILDTHLGATNQAPFVTHPREVRQIPIEDKDGSQSTPQAGHIPIVEDVTGTVHAQGPDIHGSVIVLDDDDDDNTLPAPTNSSPDSSARPSAPTLENLPDSSNDIEEEMIRAAIEASRREAEENYSNHEVDRQIDVSESGPNPRQSLLEDPELARAVSLSLKTAEQEKARRVQEGDAGAPTAGPSKTQGVDLGEVSSNGSKYGHCRLQAGEDEDEDEEDEDVEEMPLVRNRSTRHVSLSSTGSGKDAELIESSTLAGTTVPESSSPPHNDNSFPSDEWGGMSSVEHDEAVMLEAAMFGGIPEGSGYRRAYAPHEFMQNRGFHPQPAPLAYHPPSPSLEAQRLIREQQDDEYLASLEADREKELKAIAEAEVAREEEKQRAEESQRKLQEEQELEAQLAAKEVSLPPEPSSDDDSAVNLMVKMPDGSRRGRRFLRSHKLQSLFDFIDIGRQVKPSSYRLVRPYPRRAFGVEESAVTLDELGLTNKQEALFLELV* |
