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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0073790 | GAU51660.1 | 65.705 | 624 | 104 | 6 | 81 | 631 | 1 | 587 | 0.0 | 768 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0073790 | sp|Q9SZL8|FRS5_ARATH | 26.756 | 299 | 190 | 7 | 52 | 343 | 74 | 350 | 5.14e-24 | 111 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0073790 | A0A2Z6PJC0 | 65.705 | 624 | 104 | 6 | 81 | 631 | 1 | 587 | 0.0 | 768 |
Co-expression Network
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0073790 | MtrunA17_Chr3g0088371 | 90.196 | 102 | 10 | 0 | 530 | 631 | 1 | 102 | 6.41e-58 | 194 |
| Msa0073790 | MtrunA17_Chr1g0172971 | 75.758 | 132 | 17 | 1 | 1 | 132 | 1 | 117 | 2.11e-55 | 198 |
| Msa0073790 | MtrunA17_Chr6g0475591 | 97.260 | 73 | 2 | 0 | 204 | 276 | 1 | 73 | 2.28e-43 | 150 |
| Msa0073790 | MtrunA17_Chr7g0258861 | 32.090 | 268 | 160 | 5 | 46 | 310 | 2 | 250 | 3.87e-38 | 144 |
| Msa0073790 | MtrunA17_Chr2g0324011 | 29.801 | 302 | 187 | 7 | 47 | 343 | 3 | 284 | 4.86e-32 | 131 |
| Msa0073790 | MtrunA17_Chr2g0324011 | 26.493 | 268 | 148 | 6 | 310 | 577 | 353 | 571 | 2.10e-20 | 95.9 |
| Msa0073790 | MtrunA17_Chr3g0082121 | 29.371 | 286 | 171 | 8 | 65 | 347 | 57 | 314 | 1.10e-25 | 112 |
| Msa0073790 | MtrunA17_Chr3g0082121 | 26.006 | 323 | 184 | 8 | 311 | 632 | 380 | 648 | 4.73e-24 | 107 |
| Msa0073790 | MtrunA17_Chr1g0202341 | 27.304 | 293 | 191 | 6 | 57 | 347 | 57 | 329 | 7.11e-25 | 110 |
| Msa0073790 | MtrunA17_Chr1g0202341 | 27.376 | 263 | 136 | 9 | 315 | 574 | 399 | 609 | 1.11e-16 | 84.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0073790 | AT4G38180.1 | 26.756 | 299 | 190 | 7 | 52 | 343 | 74 | 350 | 5.22e-25 | 111 |
| Msa0073790 | AT4G15090.1 | 25.234 | 321 | 182 | 8 | 311 | 630 | 398 | 661 | 1.91e-20 | 97.1 |
| Msa0073790 | AT4G15090.5 | 25.234 | 321 | 182 | 8 | 311 | 630 | 398 | 661 | 1.91e-20 | 97.1 |
| Msa0073790 | AT4G15090.3 | 25.234 | 321 | 182 | 8 | 311 | 630 | 398 | 661 | 1.91e-20 | 97.1 |
| Msa0073790 | AT4G15090.2 | 25.234 | 321 | 182 | 8 | 311 | 630 | 398 | 661 | 1.91e-20 | 97.1 |
| Msa0073790 | AT4G15090.4 | 25.234 | 321 | 182 | 8 | 311 | 630 | 398 | 661 | 1.91e-20 | 97.1 |
| Msa0073790 | AT5G28530.3 | 21.870 | 599 | 369 | 17 | 56 | 590 | 60 | 623 | 1.13e-18 | 90.9 |
| Msa0073790 | AT5G28530.2 | 21.870 | 599 | 369 | 17 | 56 | 590 | 60 | 623 | 1.13e-18 | 90.9 |
| Msa0073790 | AT5G28530.1 | 24.503 | 302 | 196 | 7 | 56 | 343 | 60 | 343 | 8.55e-15 | 78.6 |
| Msa0073790 | AT4G19990.5 | 36.082 | 97 | 52 | 2 | 505 | 601 | 497 | 583 | 1.43e-11 | 68.2 |
Find 88 sgRNAs with CRISPR-Local
Find 164 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACAAACAAGGTTTCAAGAA+GGG | 0.554561 | 1_2:-47670353 | Msa0073790:CDS |
| AACAATAAATATCGGCCATT+AGG | 0.388497 | 1_2:-47669753 | Msa0073790:intron |
| AACCGCATCAGCTGACTGTT+AGG | 0.450316 | 1_2:+47668533 | None:intergenic |
| AAGATCTTGGAGTTCCTAGG+TGG | 0.662062 | 1_2:-47668164 | Msa0073790:CDS |
| AATAGAACAAGTGAATGGTC+TGG | 0.523171 | 1_2:+47668650 | None:intergenic |
| ACAAAATAAGAAATTTGATA+AGG | 0.431852 | 1_2:-47670399 | Msa0073790:CDS |
| ACATTATGGTTCGGAGAATG+AGG | 0.494807 | 1_2:-47668613 | Msa0073790:CDS |
| ACCGAACAAACAATAAATAT+CGG | 0.389395 | 1_2:-47669761 | Msa0073790:CDS |
| ACGTGTTTGTGCAGATTCGG+AGG | 0.616020 | 1_2:-47667964 | Msa0073790:CDS |
| AGAACGTCTTATGAAGTTAT+GGG | 0.466325 | 1_2:-47670050 | Msa0073790:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TCCATGATACTTTATTGCTA+GGG | + | chr1_2:47667883-47667902 | None:intergenic | 30.0% | |
| TTCCATGATACTTTATTGCT+AGG | + | chr1_2:47667884-47667903 | None:intergenic | 30.0% | |
| CGTTATGTTTGTAACAAACA+AGG | - | chr1_2:47668043-47668062 | Msa0073790:CDS | 30.0% | |
| TAACAAACAAGGTTTCAAGA+AGG | - | chr1_2:47668054-47668073 | Msa0073790:CDS | 30.0% | |
| AACAAACAAGGTTTCAAGAA+GGG | - | chr1_2:47668055-47668074 | Msa0073790:CDS | 30.0% | |
| TTCACAAACTCAATAACCAA+TGG | + | chr1_2:47668121-47668140 | None:intergenic | 30.0% | |
| TGTGAAAGTGAAAGAAAAAC+CGG | - | chr1_2:47668135-47668154 | Msa0073790:CDS | 30.0% | |
| TTACTTCTCGAAATGATCTA+AGG | + | chr1_2:47668285-47668304 | None:intergenic | 30.0% | |
| AGAACGTCTTATGAAGTTAT+GGG | - | chr1_2:47668358-47668377 | Msa0073790:CDS | 30.0% | |
| TTTAAGTCTGAAAACCGAAA+AGG | + | chr1_2:47668412-47668431 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 47667746 | 47670684 | 47667746 | ID=Msa0073790;Name=Msa0073790 |
| chr1_2 | mRNA | 47667746 | 47670684 | 47667746 | ID=Msa0073790-mRNA-1;Parent=Msa0073790;Name=Msa0073790-mRNA-1;_AED=0.04;_eAED=0.05;_QI=0|0|0|1|1|1|2|0|688 |
| chr1_2 | exon | 47669754 | 47670684 | 47669754 | ID=Msa0073790-mRNA-1:exon:14529;Parent=Msa0073790-mRNA-1 |
| chr1_2 | exon | 47667746 | 47668881 | 47667746 | ID=Msa0073790-mRNA-1:exon:14528;Parent=Msa0073790-mRNA-1 |
| chr1_2 | CDS | 47669754 | 47670684 | 47669754 | ID=Msa0073790-mRNA-1:cds;Parent=Msa0073790-mRNA-1 |
| chr1_2 | CDS | 47667746 | 47668881 | 47667746 | ID=Msa0073790-mRNA-1:cds;Parent=Msa0073790-mRNA-1 |
| Gene Sequence |
>Msa0073790 ATGGATTTGATATCAACTTCATCTGAGAGTGGACAACTGAGTGTTGAAACTTCATTACTAATTCATGCTGAGAGTGGACAACTGAGTGTTGAAACTTCTTCAATGATTCATGCCGATAGTTCTCAATGTTACTCCCCTAGCAATAAAGTATCATGGAAGTCTTTATTCTTTCATTCTATTAAAGAGATTGAAGATTTTTATGGTAATTATGCATATAAAACTGGATTTTCTATTAGGACTATGTTGAAGTCGAAGAATAATTCACAAAATAAGAAATTTGATAAGGTACACTATGTGCGTTATGTTTGTAACAAACAAGGTTTCAAGAAGGGAAGTTTGCTTAATCCTAACAACAGGACAACATCAGACAGTCCATTGGTTATTGAGTTTGTGAAAGTGAAAGAAAAACCGGAGGAAAGGGTTGGTTGTAAAGCTGGAATATCTTTGAAGCTGGATGAAGTTTTCAATGTGTATAAGATATATAGATGGGATGTAGCTCACTGTCATCCATTACATAAACCAGAGCATTCATGTTACCTTAGATCATTTCGAGAAGTAAATGAAGTTCAAGGACAACTAGCTCTTATAAATTCTAAAGCTGGAATGTCGATGAGAACGTCTTATGAAGTTATGGGTCAAGGAGTTGGAGGCACGAAGAATCTTCCTTTTCGGTTTTCAGACTTAAAGAACTATCTAATGACAATTCGTCAAAAAGAGATGGTGGTTGGTGAAGCAACTGTAATTCAAGAATTCTTTAGAAATGAAGCTCTCTCGAAACCATCTTTTTACTATGATATCCAAGTTGATGCTGCAGAAGACATAGCTAGTATTTTTTGGGCAGATGGAATTATGCAACTAGATTATTCTCTATTCGGCGATGTCATAAGTTTTGATACAACTTACCGAACAAACAATAAATATCGGCCATTAGATGATGAATCAGATTTTGACTATAATTGGGATCAGATGATGAAAAATTGTTTTAATGGAAGGCCTACTTCAGACTTTAGGTGGCTTGCCCAAACTTACGAAAATCGTATGCATTGGTCTTCAGCTTGGGTCAAGTCATATTTTACAGCTGGTCTGAAAACGACTCAGTTAAGTGAGTCTTTCAATGCTTTTCTTTGTGGATTTCTGCAGCCAGACCATTCACTTGTTCTATTCTTTAGTCATTTCAACATTATGGTTCGGAGAATGAGGGATAATCATGCTGAATTGGACTTCAAGGCTGCAAATAATAGAACAAAAAAAAATTATCCTAACAGTCAGCTGATGCGGTTCGTTGTAAACAAGTACACACCAGCTTGCTTTGCATTTATTCACAGGCAGTATGACCTTTCCTTCAAATACTATTATGAGGAGGACACGACAAAAGGGTCTGCGTTGGAGAAGTTTTTCAAAGTTTTTACAATTGAAAAGGTTGATGATAATTATGATGATGCTGATAATGACGGGCCTTCCAATGTTGATGTTTTAGAAGCAGAACTTCAAGAAAACGTTTTCCCAAGTTTTGAAGATCATGATCGATTTGATGAAAGGCTTGTCACAGTTGACATTAGAAGCAAAAGTTTTATTTGTTCATGTCGTATGTTTGAGAACAGGGGCTTCTTATGTCGACATGTTTTGAAGATCTTGGAGTTCCTAGGTGGTCATGTGCAATATCATTTTTTGAAGACAATACCTGGACAATATGTTTTAAAGCGTTGGACTAGAGATGTGCGTCCGTCTGTCGATAAGCTGAAATCGACCATCCATGTTGGCACTGAAGACACCACTCAAGCACAACGATATCAACAAATTTGTGCTGTTACAGTTCAGCTTTCTACACGTGTTTGTGCAGATTCGGAGGCATCTGAATTTTTTCTACACGGTGTTCTTGAAGCTGGGAAAAAATTTAAACCAACATCAAGCAAAAACATAATGTTTCTTGAAGACAATAAGTTTTGTAGCAACTATTTGATATCTACGTGTTTCTCAATGATTTCATACTTCCTAGCACATTCATATAATCTTCTATCATCATCTGCATCTTGTGATATCATTTCTGTAACTTGGTGCTTTTGGTGA |
| Protein sequence |
>Msa0073790 MDLISTSSESGQLSVETSLLIHAESGQLSVETSSMIHADSSQCYSPSNKVSWKSLFFHSIKEIEDFYGNYAYKTGFSIRTMLKSKNNSQNKKFDKVHYVRYVCNKQGFKKGSLLNPNNRTTSDSPLVIEFVKVKEKPEERVGCKAGISLKLDEVFNVYKIYRWDVAHCHPLHKPEHSCYLRSFREVNEVQGQLALINSKAGMSMRTSYEVMGQGVGGTKNLPFRFSDLKNYLMTIRQKEMVVGEATVIQEFFRNEALSKPSFYYDIQVDAAEDIASIFWADGIMQLDYSLFGDVISFDTTYRTNNKYRPLDDESDFDYNWDQMMKNCFNGRPTSDFRWLAQTYENRMHWSSAWVKSYFTAGLKTTQLSESFNAFLCGFLQPDHSLVLFFSHFNIMVRRMRDNHAELDFKAANNRTKKNYPNSQLMRFVVNKYTPACFAFIHRQYDLSFKYYYEEDTTKGSALEKFFKVFTIEKVDDNYDDADNDGPSNVDVLEAELQENVFPSFEDHDRFDERLVTVDIRSKSFICSCRMFENRGFLCRHVLKILEFLGGHVQYHFLKTIPGQYVLKRWTRDVRPSVDKLKSTIHVGTEDTTQAQRYQQICAVTVQLSTRVCADSEASEFFLHGVLEAGKKFKPTSSKNIMFLEDNKFCSNYLISTCFSMISYFLAHSYNLLSSSASCDIISVTWCFW* |
