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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0459080 | XP_024633413.1 | 96.699 | 515 | 17 | 0 | 1 | 515 | 1 | 515 | 0.0 | 1008 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0459080 | sp|F4I9E1|NFD4_ARATH | 38.447 | 528 | 294 | 11 | 7 | 511 | 43 | 562 | 8.16e-100 | 315 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0459080 | A0A072UZ85 | 97.089 | 481 | 14 | 0 | 1 | 481 | 1 | 481 | 0.0 | 944 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0026120 | Msa0459080 | 0.851406 | 9.064012e-61 | -8.615850e-47 |
| Msa0035090 | Msa0459080 | 0.817073 | 3.984417e-52 | -8.615850e-47 |
| Msa0039200 | Msa0459080 | 0.815031 | 1.138293e-51 | -8.615850e-47 |
| Msa0040190 | Msa0459080 | 0.813447 | 2.548304e-51 | -8.615850e-47 |
| Msa0046670 | Msa0459080 | 0.825421 | 4.731105e-54 | -8.615850e-47 |
| Msa0050400 | Msa0459080 | 0.802888 | 4.529659e-49 | -8.615850e-47 |
| Msa0057740 | Msa0459080 | 0.800354 | 1.499320e-48 | -8.615850e-47 |
| Msa0065190 | Msa0459080 | 0.811148 | 8.091156e-51 | -8.615850e-47 |
| Msa0073660 | Msa0459080 | 0.802262 | 6.099351e-49 | -8.615850e-47 |
| Msa0086820 | Msa0459080 | 0.812941 | 3.290613e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0459080 | MtrunA17_Chr3g0106801 | 85.465 | 516 | 74 | 1 | 1 | 515 | 1 | 516 | 0.0 | 852 |
| Msa0459080 | MtrunA17_Chr3g0106821 | 97.340 | 376 | 10 | 0 | 1 | 376 | 1 | 376 | 0.0 | 738 |
| Msa0459080 | MtrunA17_Chr5g0408921 | 36.572 | 566 | 298 | 12 | 1 | 512 | 1 | 559 | 6.19e-108 | 333 |
| Msa0459080 | MtrunA17_Chr7g0251871 | 35.432 | 556 | 310 | 10 | 1 | 512 | 1 | 551 | 2.78e-104 | 323 |
| Msa0459080 | MtrunA17_Chr8g0369621 | 36.945 | 563 | 302 | 12 | 1 | 513 | 42 | 601 | 1.55e-100 | 315 |
| Msa0459080 | MtrunA17_Chr4g0037301 | 31.429 | 525 | 344 | 7 | 3 | 512 | 11 | 534 | 4.59e-79 | 257 |
| Msa0459080 | MtrunA17_Chr3g0106831 | 95.200 | 125 | 6 | 0 | 391 | 515 | 1 | 125 | 3.67e-72 | 225 |
| Msa0459080 | MtrunA17_Chr5g0405621 | 31.274 | 518 | 336 | 7 | 7 | 512 | 13 | 522 | 2.90e-64 | 218 |
| Msa0459080 | MtrunA17_Chr2g0304561 | 28.807 | 545 | 342 | 11 | 8 | 511 | 13 | 552 | 1.94e-58 | 203 |
| Msa0459080 | MtrunA17_Chr4g0064981 | 28.467 | 548 | 347 | 15 | 8 | 511 | 12 | 558 | 2.07e-53 | 189 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0459080 | AT2G30300.1 | 50.286 | 525 | 224 | 8 | 1 | 514 | 1 | 499 | 3.03e-155 | 452 |
| Msa0459080 | AT5G45275.1 | 38.407 | 565 | 284 | 15 | 1 | 511 | 1 | 555 | 1.79e-111 | 342 |
| Msa0459080 | AT4G19450.1 | 38.938 | 565 | 283 | 14 | 1 | 511 | 1 | 557 | 3.10e-110 | 339 |
| Msa0459080 | AT1G31470.1 | 38.447 | 528 | 294 | 11 | 7 | 511 | 43 | 562 | 8.30e-101 | 315 |
| Msa0459080 | AT3G01630.1 | 36.059 | 538 | 294 | 12 | 7 | 511 | 23 | 543 | 7.74e-96 | 301 |
| Msa0459080 | AT3G01630.2 | 36.059 | 538 | 294 | 12 | 7 | 511 | 41 | 561 | 1.59e-95 | 301 |
| Msa0459080 | AT4G19450.2 | 38.517 | 418 | 205 | 11 | 1 | 373 | 1 | 411 | 5.03e-78 | 251 |
| Msa0459080 | AT4G34950.1 | 29.630 | 540 | 344 | 9 | 6 | 512 | 15 | 551 | 3.13e-71 | 237 |
| Msa0459080 | AT2G16660.1 | 31.227 | 538 | 327 | 9 | 2 | 512 | 9 | 530 | 1.25e-68 | 230 |
| Msa0459080 | AT1G80530.1 | 29.455 | 550 | 334 | 12 | 2 | 511 | 8 | 543 | 3.81e-63 | 216 |
Find 99 sgRNAs with CRISPR-Local
Find 298 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACAAACACTAGAATGTTT+AGG | 0.266198 | 3_3:-55416261 | None:intergenic |
| AAAGGAACCCCAAATAATAA+AGG | 0.406648 | 3_3:-55417835 | None:intergenic |
| AAATTTCTTCTATGTCATAT+TGG | 0.331796 | 3_3:+55415962 | Msa0459080:CDS |
| AACAAACACTAGAATGTTTA+GGG | 0.279536 | 3_3:-55416260 | None:intergenic |
| AACAAATGCTATTCCCAGCA+AGG | 0.604864 | 3_3:-55416005 | None:intergenic |
| AACTAAAACTTCTAAACTCT+TGG | 0.405485 | 3_3:-55415636 | None:intergenic |
| AAGAAGAATGCAAATGTTGT+TGG | 0.467873 | 3_3:-55417558 | None:intergenic |
| AAGAATCTACCATTTCACCA+TGG | 0.716797 | 3_3:+55416479 | Msa0459080:CDS |
| AATATGACATAGAAGAAATT+TGG | 0.235115 | 3_3:-55415960 | None:intergenic |
| AATCTACCATTTCACCATGG+AGG | 0.703159 | 3_3:+55416482 | Msa0459080:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TGACATAGAAGAAATTTGGT+TGG | - | chr3_3:55415959-55415978 | None:intergenic | 30.0% | |
| TTCTTATTAACTTTCCTTGC+TGG | + | chr3_3:55415991-55416010 | Msa0459080:CDS | 30.0% | |
| TCTTATTAACTTTCCTTGCT+GGG | + | chr3_3:55415992-55416011 | Msa0459080:CDS | 30.0% | |
| GGATTAACAACTAGTTATCA+AGG | + | chr3_3:55416093-55416112 | Msa0459080:CDS | 30.0% | |
| ACTATTATACCAACTACAAC+AGG | - | chr3_3:55416207-55416226 | None:intergenic | 30.0% | |
| ACAAACAAAATATCCTCACT+TGG | + | chr3_3:55416351-55416370 | Msa0459080:CDS | 30.0% | |
| TCTTGATCTTCACAGAAATT+GGG | - | chr3_3:55416422-55416441 | None:intergenic | 30.0% | |
| TTCTTGATCTTCACAGAAAT+TGG | - | chr3_3:55416423-55416442 | None:intergenic | 30.0% | |
| GATAGAGAATGAAGTAAAAG+AGG | + | chr3_3:55416524-55416543 | Msa0459080:CDS | 30.0% | |
| AGTTGTGAAATTCAAGAGAT+TGG | + | chr3_3:55416555-55416574 | Msa0459080:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 55415638 | 55417976 | 55415638 | ID=Msa0459080;Name=Msa0459080 |
| chr3_3 | mRNA | 55415638 | 55417976 | 55415638 | ID=Msa0459080-mRNA-1;Parent=Msa0459080;Name=Msa0459080-mRNA-1;_AED=0.01;_eAED=0.01;_QI=38|1|1|1|1|1|2|47|515 |
| chr3_3 | exon | 55415638 | 55416802 | 55415638 | ID=Msa0459080-mRNA-1:exon:10967;Parent=Msa0459080-mRNA-1 |
| chr3_3 | exon | 55417509 | 55417976 | 55417509 | ID=Msa0459080-mRNA-1:exon:10968;Parent=Msa0459080-mRNA-1 |
| chr3_3 | five_prime_UTR | 55415638 | 55415675 | 55415638 | ID=Msa0459080-mRNA-1:five_prime_utr;Parent=Msa0459080-mRNA-1 |
| chr3_3 | CDS | 55415676 | 55416802 | 55415676 | ID=Msa0459080-mRNA-1:cds;Parent=Msa0459080-mRNA-1 |
| chr3_3 | CDS | 55417509 | 55417929 | 55417509 | ID=Msa0459080-mRNA-1:cds;Parent=Msa0459080-mRNA-1 |
| chr3_3 | three_prime_UTR | 55417930 | 55417976 | 55417930 | ID=Msa0459080-mRNA-1:three_prime_utr;Parent=Msa0459080-mRNA-1 |
| Gene Sequence |
>Msa0459080 ATGTCTTCTTCTACTCTTCAATGGCTAAGCCTAGTTGGCATAATTTGGCTCCAAGCCATAAATGGAACAAACACAAATTTCCCTGCTTACTCTTCCCAGCTGAAACAACTTCTTTCCATTTCACAAGTAGAGCTCAATAACCTTGCTTTTGCATCTGATGCTGGCAAACTTTTTGGTTGGTTTTCTGGCCTTGCTGCTATTTACCTTCCCTTATGGCTCGTCCTCATCATCGGTTCGTTTCTCGGACTAATCGGTTATGGTCTACAATATCTCTTCATAACCAACCAAATTTCTTCTATGTCATATTGGCAAGTCTTCTTATTAACTTTCCTTGCTGGGAATAGCATTTGTTGGATTAACACTGTCTGTTATGTTGTCGCCATACGAAACTTTATATTCGATCGGCAAGTTGCCGTTGGATTAACAACTAGTTATCAAGGATTAAGTGCAAAGATTTATACCAATATTGTTGCTTTTATTTCTCCAAATAAAAAAGCTGAGACATTTCTTTTCTTGAACTCTCTTGTACCTGTTGTAGTTGGTATAATAGTAGCTCCTCTAGTAAGAGAAATTAAAGTGAAAAACCCTAAACATTCTAGTGTTTGTTTTGCTATTATGTTTGTTATTACAATTGCAACTGGAATATATGCTGTGATGAGTAGTTTGCAATATTTCACAAACAAAATATCCTCACTTGGTGTGCTTATTGGTATTCTAGTTTCTCTTCTCTTACCTCTTTTACTCCCAATTTCTGTGAAGATCAAGAAACTATTAGAATCATGGCATAAAAAGAGAGAAAGGTTAAGAATCTACCATTTCACCATGGAGGAGAATAATAGTGAAGAGAGGATAGAGAATGAAGTAAAAGAGGGTGAAGATAGTTGTGAAATTCAAGAGATTGGTGTTATGGAAGAAATTGGAGTGAAGTTAATGTTGAGAAGAATAAATTTCTGGTTATATTTCTTTGTGTATTTTTTTGGTGCAACTATTGGTTTGGTGTTTCTTAACAATTTGGGACAAATAGCTGAATCAAGAGGTTGTTCTGCTACTTCATCTTTGGTGTCTTTGTCTTCTGCTTTTGGATTTTTTGGACGTCTCATTCCATCTCTTTTGGACTACTTCTATAGGGGAAAACATACAATTTCAAGACCTGCCACTATAGTAGCAGTTATGGCACCAACAACATTTGCATTCTTCTTACTTCTCAACAAAACTGACCTTGCCCTTTACATAAGCACTGCAGTAATTGGAGTTTCTACTGGAGCAATCACTTCCACTGCTATTTCCAAAACAACTGAGCTATTTGGCACAAAGAATTTTTCTGTAAATCATAATGTAGTTGTGGCAAATATTCCAATGGGATCCTTTTTGTTTGGTTACTCAGCTGCACTTATTTACCGTGGTGAAGGGAATGAACATGGGAAATGCATGGGCATGGAATGTTATAGTAAAACCTTTATTATTTGGGGTTCCTTTTGTTGCCTTGGAACTTTATTGGCTTTGATTCTATATTTTAGGACTCGTAAGTTTTACTCATATAAACAATAG |
| Protein sequence |
>Msa0459080 MSSSTLQWLSLVGIIWLQAINGTNTNFPAYSSQLKQLLSISQVELNNLAFASDAGKLFGWFSGLAAIYLPLWLVLIIGSFLGLIGYGLQYLFITNQISSMSYWQVFLLTFLAGNSICWINTVCYVVAIRNFIFDRQVAVGLTTSYQGLSAKIYTNIVAFISPNKKAETFLFLNSLVPVVVGIIVAPLVREIKVKNPKHSSVCFAIMFVITIATGIYAVMSSLQYFTNKISSLGVLIGILVSLLLPLLLPISVKIKKLLESWHKKRERLRIYHFTMEENNSEERIENEVKEGEDSCEIQEIGVMEEIGVKLMLRRINFWLYFFVYFFGATIGLVFLNNLGQIAESRGCSATSSLVSLSSAFGFFGRLIPSLLDYFYRGKHTISRPATIVAVMAPTTFAFFLLLNKTDLALYISTAVIGVSTGAITSTAISKTTELFGTKNFSVNHNVVVANIPMGSFLFGYSAALIYRGEGNEHGKCMGMECYSKTFIIWGSFCCLGTLLALILYFRTRKFYSYKQ* |
