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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1346340 | XP_003595673.1 | 94.925 | 670 | 30 | 1 | 1 | 666 | 1 | 670 | 0.0 | 1226 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1346340 | sp|Q9C9C0|SPPA1_ARATH | 70.533 | 638 | 175 | 4 | 38 | 666 | 43 | 676 | 0.0 | 905 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000180 | Msa1346340 | 0.821109 | 4.809296e-53 | -8.615850e-47 |
| Msa0000220 | Msa1346340 | 0.811783 | 5.890084e-51 | -8.615850e-47 |
| Msa0000610 | Msa1346340 | 0.854399 | 1.263067e-61 | -8.615850e-47 |
| Msa0001040 | Msa1346340 | 0.827563 | 1.460292e-54 | -8.615850e-47 |
| Msa0001510 | Msa1346340 | 0.873232 | 1.724706e-67 | -8.615850e-47 |
| Msa0002110 | Msa1346340 | 0.872418 | 3.228793e-67 | -8.615850e-47 |
| Msa0002690 | Msa1346340 | 0.870496 | 1.396302e-66 | -8.615850e-47 |
| Msa0002700 | Msa1346340 | 0.866044 | 3.800741e-65 | -8.615850e-47 |
| Msa0003340 | Msa1346340 | 0.887013 | 2.071276e-72 | -8.615850e-47 |
| Msa0004180 | Msa1346340 | 0.876116 | 1.803041e-68 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1346340 | MtrunA17_Chr2g0307851 | 94.925 | 670 | 30 | 1 | 1 | 666 | 1 | 670 | 0.0 | 1226 |
| Msa1346340 | MtrunA17_Chr4g0061881 | 78.814 | 590 | 124 | 1 | 77 | 665 | 68 | 657 | 0.0 | 968 |
| Msa1346340 | MtrunA17_Chr4g0061841 | 52.412 | 311 | 64 | 5 | 151 | 461 | 8 | 234 | 5.09e-95 | 293 |
| Msa1346340 | MtrunA17_Chr4g0073611 | 49.518 | 311 | 111 | 6 | 152 | 457 | 2 | 271 | 7.07e-90 | 281 |
| Msa1346340 | MtrunA17_Chr5g0408331 | 43.478 | 368 | 118 | 6 | 79 | 445 | 34 | 312 | 1.35e-86 | 274 |
| Msa1346340 | MtrunA17_Chr5g0437391 | 44.709 | 378 | 119 | 12 | 198 | 568 | 6 | 300 | 2.03e-80 | 258 |
| Msa1346340 | MtrunA17_Chr4g0076561 | 63.636 | 209 | 40 | 2 | 346 | 554 | 14 | 186 | 1.34e-79 | 251 |
| Msa1346340 | MtrunA17_Chr4g0069071 | 39.426 | 383 | 199 | 11 | 138 | 509 | 11 | 371 | 4.19e-67 | 224 |
| Msa1346340 | MtrunA17_Chr8g0344851 | 62.778 | 180 | 56 | 5 | 427 | 603 | 1 | 172 | 2.24e-58 | 194 |
| Msa1346340 | MtrunA17_Chr4g0061831 | 85.437 | 103 | 15 | 0 | 489 | 591 | 9 | 111 | 1.61e-53 | 179 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1346340 | AT1G73990.1 | 70.533 | 638 | 175 | 4 | 38 | 666 | 43 | 676 | 0.0 | 905 |
| Msa1346340 | AT1G73990.2 | 71.456 | 515 | 134 | 4 | 38 | 543 | 43 | 553 | 0.0 | 748 |
Find 172 sgRNAs with CRISPR-Local
Find 687 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACCAGTCATTGCTTCAA+TGG | 0.389485 | tig0008587:-56210 | Msa1346340:CDS |
| AAACTGCCAACGGTCGATTA+CGG | 0.362185 | tig0008587:-58635 | Msa1346340:CDS |
| AAAGAAAAGTAAGCACTTGG+AGG | 0.543239 | tig0008587:+60840 | Msa1346340:intergenic |
| AAATGGACACTTGGAATTTC+AGG | 0.199983 | tig0008587:-57696 | Msa1346340:CDS |
| AAATTCCTCCAACCAGTAAT+AGG | 0.377007 | tig0008587:+63055 | Msa1346340:intergenic |
| AAATTTAATGTATGATGATG+AGG | 0.565513 | tig0008587:-59032 | Msa1346340:intron |
| AACAAAGAAAAGTAAGCACT+TGG | 0.548235 | tig0008587:+60837 | Msa1346340:intergenic |
| AACCTAGGTGGACAAGATGG+AGG | 0.648031 | tig0008587:-53258 | Msa1346340:intron |
| AACTCGACTAATGCTCCCTG+AGG | 0.724123 | tig0008587:+57644 | Msa1346340:intergenic |
| AACTGCCAACGGTCGATTAC+GGG | 0.340728 | tig0008587:-58634 | Msa1346340:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TCTTCTTCTTGAATGAGTTT+GGG | + | tig0008587:52761-52780 | None:intergenic | 30.0% | |
| GAAGAAAAAGTGATTCAAGA+AGG | - | tig0008587:52826-52845 | Msa1346340:CDS | 30.0% | |
| TTTGAATTCGAACCTATTAC+TGG | - | tig0008587:52892-52911 | Msa1346340:CDS | 30.0% | |
| TGAAAATGGAAAAGGATAGA+AGG | + | tig0008587:53019-53038 | Msa1346340:intergenic | 30.0% | |
| TTTGCTTTCATGAGCTATAT+TGG | - | tig0008587:53507-53526 | Msa1346340:intron | 30.0% | |
| AAGTACTTATGTGAGTAGAA+AGG | - | tig0008587:53609-53628 | Msa1346340:intron | 30.0% | |
| CAAATCATGACGCAATATTA+AGG | - | tig0008587:53839-53858 | Msa1346340:intron | 30.0% | |
| GTAAAGTAGAAGAAATTCGA+AGG | - | tig0008587:54238-54257 | Msa1346340:intron | 30.0% | |
| TTTCTTGGAAAATTCTGCAT+AGG | + | tig0008587:54389-54408 | Msa1346340:intergenic | 30.0% | |
| CTGCAGTTAGTAATTATTGA+TGG | - | tig0008587:54440-54459 | Msa1346340:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0008587 | gene | 52497 | 63484 | 52497 | ID=Msa1346340;Name=Msa1346340 |
| tig0008587 | mRNA | 52497 | 63484 | 52497 | ID=Msa1346340-mRNA-1;Parent=Msa1346340;Name=Msa1346340-mRNA-1;_AED=0.11;_eAED=0.11;_QI=111|1|1|1|0.92|0.85|14|310|666 |
| tig0008587 | exon | 52497 | 53037 | 52497 | ID=Msa1346340-mRNA-1:exon:5453;Parent=Msa1346340-mRNA-1 |
| tig0008587 | exon | 53130 | 53273 | 53130 | ID=Msa1346340-mRNA-1:exon:5452;Parent=Msa1346340-mRNA-1 |
| tig0008587 | exon | 53370 | 53457 | 53370 | ID=Msa1346340-mRNA-1:exon:5451;Parent=Msa1346340-mRNA-1 |
| tig0008587 | exon | 54606 | 54711 | 54606 | ID=Msa1346340-mRNA-1:exon:5450;Parent=Msa1346340-mRNA-1 |
| tig0008587 | exon | 56111 | 56265 | 56111 | ID=Msa1346340-mRNA-1:exon:5449;Parent=Msa1346340-mRNA-1 |
| tig0008587 | exon | 56922 | 56991 | 56922 | ID=Msa1346340-mRNA-1:exon:5448;Parent=Msa1346340-mRNA-1 |
| tig0008587 | exon | 57571 | 57737 | 57571 | ID=Msa1346340-mRNA-1:exon:5447;Parent=Msa1346340-mRNA-1 |
| tig0008587 | exon | 58635 | 58702 | 58635 | ID=Msa1346340-mRNA-1:exon:5446;Parent=Msa1346340-mRNA-1 |
| tig0008587 | exon | 59033 | 59136 | 59033 | ID=Msa1346340-mRNA-1:exon:5445;Parent=Msa1346340-mRNA-1 |
| tig0008587 | exon | 59212 | 59382 | 59212 | ID=Msa1346340-mRNA-1:exon:5444;Parent=Msa1346340-mRNA-1 |
| tig0008587 | exon | 60805 | 60942 | 60805 | ID=Msa1346340-mRNA-1:exon:5443;Parent=Msa1346340-mRNA-1 |
| tig0008587 | exon | 61696 | 61879 | 61696 | ID=Msa1346340-mRNA-1:exon:5442;Parent=Msa1346340-mRNA-1 |
| tig0008587 | exon | 62970 | 63390 | 62970 | ID=Msa1346340-mRNA-1:exon:5441;Parent=Msa1346340-mRNA-1 |
| tig0008587 | exon | 63420 | 63484 | 63420 | ID=Msa1346340-mRNA-1:exon:5440;Parent=Msa1346340-mRNA-1 |
| tig0008587 | five_prime_UTR | 63420 | 63484 | 63420 | ID=Msa1346340-mRNA-1:five_prime_utr;Parent=Msa1346340-mRNA-1 |
| tig0008587 | five_prime_UTR | 63345 | 63390 | 63345 | ID=Msa1346340-mRNA-1:five_prime_utr;Parent=Msa1346340-mRNA-1 |
| tig0008587 | CDS | 62970 | 63344 | 62970 | ID=Msa1346340-mRNA-1:cds;Parent=Msa1346340-mRNA-1 |
| tig0008587 | CDS | 61696 | 61879 | 61696 | ID=Msa1346340-mRNA-1:cds;Parent=Msa1346340-mRNA-1 |
| tig0008587 | CDS | 60805 | 60942 | 60805 | ID=Msa1346340-mRNA-1:cds;Parent=Msa1346340-mRNA-1 |
| tig0008587 | CDS | 59212 | 59382 | 59212 | ID=Msa1346340-mRNA-1:cds;Parent=Msa1346340-mRNA-1 |
| tig0008587 | CDS | 59033 | 59136 | 59033 | ID=Msa1346340-mRNA-1:cds;Parent=Msa1346340-mRNA-1 |
| tig0008587 | CDS | 58635 | 58702 | 58635 | ID=Msa1346340-mRNA-1:cds;Parent=Msa1346340-mRNA-1 |
| tig0008587 | CDS | 57571 | 57737 | 57571 | ID=Msa1346340-mRNA-1:cds;Parent=Msa1346340-mRNA-1 |
| tig0008587 | CDS | 56922 | 56991 | 56922 | ID=Msa1346340-mRNA-1:cds;Parent=Msa1346340-mRNA-1 |
| tig0008587 | CDS | 56111 | 56265 | 56111 | ID=Msa1346340-mRNA-1:cds;Parent=Msa1346340-mRNA-1 |
| tig0008587 | CDS | 54606 | 54711 | 54606 | ID=Msa1346340-mRNA-1:cds;Parent=Msa1346340-mRNA-1 |
| tig0008587 | CDS | 53370 | 53457 | 53370 | ID=Msa1346340-mRNA-1:cds;Parent=Msa1346340-mRNA-1 |
| tig0008587 | CDS | 53130 | 53273 | 53130 | ID=Msa1346340-mRNA-1:cds;Parent=Msa1346340-mRNA-1 |
| tig0008587 | CDS | 52807 | 53037 | 52807 | ID=Msa1346340-mRNA-1:cds;Parent=Msa1346340-mRNA-1 |
| tig0008587 | three_prime_UTR | 52497 | 52806 | 52497 | ID=Msa1346340-mRNA-1:three_prime_utr;Parent=Msa1346340-mRNA-1 |
| Gene Sequence |
>Msa1346340 ATGTCTACACTTCTTCTACCCACACCCCCCCTCTACCGCCGCAACACCTTATCATCATCATCATCATCATCATCGCTTCAATTTCACTCTCGCTTCTCTTTTTCTTCCTTTCACTCTCTTCCCCAAACTCATTCAAGAAGAAGACGCATTTCCCTTCGCGCTTTTGATTCTTCCTCCGACACCAAAATCGAAGAAAAAGTGATTCAAGAAGGTGAAAAAGTTAGAATTGCTGATGAAGATTATCCCAGTGGAGAATTTGAATTCGAACCTATTACTGGTTGGAGGAATTTCGTCGTTAAGGTTAAGATGCTCATTGCGTATCCATGGGAACGTGTTCGTAAAGGTAGTGTTCTTAAAATGACGCTTCGTGGCCAGATATCTGATCAAGTGAAGAGTAGATTCTCTCCGGGACTTTCTCTACCTCAAATATGCGAGAATTTTTTGAAAGCAGCCTATGATCCTCGAATTTCTGGGGTCTATCTCCATATTGATAGTTTAAACTGTGGGTGGGGTAAAGTAGAAGAAATTCGAAGGCACATCTTGAATTTCAAAAAATCAGGAAAATTTGTCGTGGCTTATCTCCCTACATGCCAAGAAAAAGAATATTACCTCGCGTCTGCATGTGAAGAGATATATGCCCCTCCAAGTGCTTACTTTTCTTTGTTTGGATTGAGTGTTCAAGCCTCATTCCTCAGAGGCGTTTTAGATAAAATAGGAGTTGAACCGCAAGTGGAAAGGATTGGCAAGTACAAAAGTGCAGGAGATCAATTAGCTCGAACAACCATGTCTGATGAAAATTGTGAGATGTTGACTGCATTACTAGATAATATCTATACAAACTGGCTGGATAAAGTCTCTTCTGCCAAAGGAAAAGGAAGAGAAGATATTGAGAACTTTATAAATGAAGGTGTTTATCAAGTTGATAAGCTGAAAGAAGAGGGCCTTATATCAAATTTAATGTATGATGATGAGGTTACTGACATGTTGAAGGAGAGACTTGGAGTGAAAACAGATAAAAAACTGCCAACGGTCGATTACGGGAAATACTCCCGGGTTAGGAAATGGACACTTGGAATTTCAGGTGGCAAAGAACTGATAGCCATCATCCGGGCCTCAGGGAGCATTAGTCGAGTTAAGGGTCAGTTAAGTGTCTCTAGCTCAGGCATCACTGCGGAGGAGTTCATTGAGAAGATTCGCACTGTCAGAGAGTCAAAAAAATTTAAGGCTGCTATTATCAGAATTGACAGTCCTGGAGGTGACGCTCTTGCCTCTGATTTGATGTGGAGAGAAATTCGGCTTTTAGCTGCTTCAAAACCAGTCATTGCTTCAATGGCTGATGTGGCAGCAAGTGGAGGATACTACATGGCAATGGGAACTGATGCTATTGTTGCAGAAAGTCTTACGTTAACTGGTTCAATTGGAGTGGTCACAGGAAAATTTAACCTAGCGAAACTGTATGAGAAGATTGGCTTTAATAAAGAAATCATATCAAGGGGAAGATATGCTGAGCTCGTTAGTGCTGATCAGCGTTCTTTTAGGCCAGATGAAGCAGAGCTATTTGCCAAATCTGCACAGAATGCATATAAACAATTTCGAGACAAGGCAGCTTTATCCAGATCTATGACTGTGGACAAGATGGAGGAGGTAGCACAGGGTAGAGTTTGGACTGGTAAAGATGCAGCATCACATGGTTTGGTTGATGCTATTGGTGGCCTTTCCCGAGCTATTGCCATAGCAAAATTGAAGGCCAATATACCTCAGGACGAACAGGTAACTGTTGTGGAGATATCCAGATCTAGTCCCTCTCTACCTGAGATTTTATTAGGCGCACGGAGTTCCCTAACCGGAGTTGAAAGCACGTTGAAGGAACTGCTACAGGGGTTGACATTTTCTGATGGAGTTCAAGCTAGGATGGATGGAATCATTTTTCGTTCATTGGAAGGATATCCCAACGACAACCCCATTTTGTCAATTATAAAAGATTACCTCAGTTCCCTGTAG |
| Protein sequence |
>Msa1346340 MSTLLLPTPPLYRRNTLSSSSSSSSLQFHSRFSFSSFHSLPQTHSRRRRISLRAFDSSSDTKIEEKVIQEGEKVRIADEDYPSGEFEFEPITGWRNFVVKVKMLIAYPWERVRKGSVLKMTLRGQISDQVKSRFSPGLSLPQICENFLKAAYDPRISGVYLHIDSLNCGWGKVEEIRRHILNFKKSGKFVVAYLPTCQEKEYYLASACEEIYAPPSAYFSLFGLSVQASFLRGVLDKIGVEPQVERIGKYKSAGDQLARTTMSDENCEMLTALLDNIYTNWLDKVSSAKGKGREDIENFINEGVYQVDKLKEEGLISNLMYDDEVTDMLKERLGVKTDKKLPTVDYGKYSRVRKWTLGISGGKELIAIIRASGSISRVKGQLSVSSSGITAEEFIEKIRTVRESKKFKAAIIRIDSPGGDALASDLMWREIRLLAASKPVIASMADVAASGGYYMAMGTDAIVAESLTLTGSIGVVTGKFNLAKLYEKIGFNKEIISRGRYAELVSADQRSFRPDEAELFAKSAQNAYKQFRDKAALSRSMTVDKMEEVAQGRVWTGKDAASHGLVDAIGGLSRAIAIAKLKANIPQDEQVTVVEISRSSPSLPEILLGARSSLTGVESTLKELLQGLTFSDGVQARMDGIIFRSLEGYPNDNPILSIIKDYLSSL* |
