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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0202490 | XP_003595233.1 | 100.000 | 413 | 0 | 0 | 1 | 413 | 1 | 413 | 0.0 | 850 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0202490 | sp|Q40468|IF415_TOBAC | 94.915 | 413 | 21 | 0 | 1 | 413 | 1 | 413 | 0.0 | 813 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0017730 | Msa0202490 | 0.820143 | 8.013547e-53 | -8.615850e-47 |
| Msa0023480 | Msa0202490 | 0.810350 | 1.204202e-50 | -8.615850e-47 |
| Msa0029630 | Msa0202490 | 0.813061 | 3.096491e-51 | -8.615850e-47 |
| Msa0036540 | Msa0202490 | 0.833651 | 4.718726e-56 | -8.615850e-47 |
| Msa0072420 | Msa0202490 | 0.834509 | 2.877292e-56 | -8.615850e-47 |
| Msa0080730 | Msa0202490 | 0.852565 | 4.245864e-61 | -8.615850e-47 |
| Msa0093010 | Msa0202490 | 0.851397 | 9.116918e-61 | -8.615850e-47 |
| Msa0093850 | Msa0202490 | 0.812900 | 3.358984e-51 | -8.615850e-47 |
| Msa0106710 | Msa0202490 | 0.801958 | 7.042857e-49 | -8.615850e-47 |
| Msa0119900 | Msa0202490 | 0.840284 | 9.536863e-58 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0202490 | MtrunA17_Chr2g0299681 | 100.000 | 413 | 0 | 0 | 1 | 413 | 1 | 413 | 0.0 | 850 |
| Msa0202490 | MtrunA17_Chr4g0070981 | 93.462 | 413 | 27 | 0 | 1 | 413 | 1 | 413 | 0.0 | 803 |
| Msa0202490 | MtrunA17_Chr2g0329931 | 92.978 | 413 | 29 | 0 | 1 | 413 | 1 | 413 | 0.0 | 800 |
| Msa0202490 | MtrunA17_Chr8g0342861 | 92.736 | 413 | 30 | 0 | 1 | 413 | 1 | 413 | 0.0 | 797 |
| Msa0202490 | MtrunA17_Chr2g0297261 | 65.952 | 373 | 127 | 0 | 41 | 413 | 34 | 406 | 0.0 | 523 |
| Msa0202490 | MtrunA17_Chr1g0169331 | 60.660 | 394 | 118 | 5 | 56 | 413 | 6 | 398 | 6.03e-162 | 461 |
| Msa0202490 | MtrunA17_Chr8g0342851 | 63.006 | 346 | 96 | 4 | 71 | 413 | 3 | 319 | 1.80e-143 | 411 |
| Msa0202490 | MtrunA17_Chr7g0247191 | 40.872 | 367 | 215 | 2 | 40 | 406 | 149 | 513 | 1.05e-90 | 283 |
| Msa0202490 | MtrunA17_Chr7g0247181 | 40.054 | 367 | 218 | 2 | 40 | 406 | 139 | 503 | 6.67e-89 | 278 |
| Msa0202490 | MtrunA17_Chr7g0247221 | 40.054 | 367 | 218 | 2 | 40 | 406 | 142 | 506 | 8.49e-89 | 278 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0202490 | AT3G13920.1 | 91.546 | 414 | 32 | 2 | 1 | 413 | 1 | 412 | 0.0 | 782 |
| Msa0202490 | AT1G54270.1 | 91.304 | 414 | 33 | 2 | 1 | 413 | 1 | 412 | 0.0 | 781 |
| Msa0202490 | AT1G72730.1 | 88.164 | 414 | 48 | 1 | 1 | 413 | 1 | 414 | 0.0 | 765 |
| Msa0202490 | AT3G13920.4 | 90.338 | 414 | 32 | 3 | 1 | 413 | 1 | 407 | 0.0 | 765 |
| Msa0202490 | AT1G54270.2 | 90.097 | 414 | 33 | 3 | 1 | 413 | 1 | 407 | 0.0 | 763 |
| Msa0202490 | AT3G13920.3 | 93.490 | 384 | 25 | 0 | 30 | 413 | 19 | 402 | 0.0 | 749 |
| Msa0202490 | AT3G13920.5 | 91.858 | 393 | 29 | 2 | 1 | 392 | 5 | 395 | 0.0 | 743 |
| Msa0202490 | AT3G13920.2 | 91.858 | 393 | 29 | 2 | 1 | 392 | 1 | 391 | 0.0 | 743 |
| Msa0202490 | AT3G19760.1 | 65.416 | 373 | 129 | 0 | 41 | 413 | 36 | 408 | 0.0 | 518 |
| Msa0202490 | AT1G51380.1 | 59.621 | 369 | 149 | 0 | 41 | 409 | 23 | 391 | 9.92e-166 | 471 |
Find 135 sgRNAs with CRISPR-Local
Find 264 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACAGAAATACAACAAAT+GGG | 0.412064 | 2_1:-24933824 | None:intergenic |
| AAACACGGGAAGATCCAGAA+CGG | 0.712720 | 2_1:-24933476 | None:intergenic |
| AAACAGAAATACAACAAATG+GGG | 0.652592 | 2_1:-24933823 | None:intergenic |
| AAACTGCTTGATACCCTCCA+AGG | 0.661421 | 2_1:-24933247 | None:intergenic |
| AACAGGCTCAGTCTGGAACA+GGG | 0.652293 | 2_1:+24932017 | Msa0202490:CDS |
| AACTCCGCGGCTTAGATCTG+AGG | 0.597093 | 2_1:+24930030 | Msa0202490:five_prime_UTR |
| AACTCCTCAGATCTAAGCCG+CGG | 0.638779 | 2_1:-24930034 | None:intergenic |
| AACTTCCCTCTAAGTAATGA+TGG | 0.477500 | 2_1:-24933758 | None:intergenic |
| AAGACTGCAACCTTCTGCTC+TGG | 0.409029 | 2_1:+24932040 | Msa0202490:CDS |
| AAGAGAACGGTTGGTTATTA+GGG | 0.325330 | 2_1:-24930064 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AAGGAAAACATGTTAACCAA+AGG | - | chr2_1:24930995-24931014 | None:intergenic | 30.0% | |
| TTACTAAAGCATGCTTAGTT+TGG | - | chr2_1:24931032-24931051 | None:intergenic | 30.0% | |
| ATAAAAACAAAGCTATGACG+GGG | - | chr2_1:24931169-24931188 | None:intergenic | 30.0% | |
| AATAGGAAGCAAAACAAAAC+GGG | - | chr2_1:24931593-24931612 | None:intergenic | 30.0% | |
| AAGAAACAACCGTGATAAAT+AGG | - | chr2_1:24931610-24931629 | None:intergenic | 30.0% | |
| ACAGAAACAAGAACAATCTT+GGG | - | chr2_1:24931702-24931721 | None:intergenic | 30.0% | |
| TACAGAAACAAGAACAATCT+TGG | - | chr2_1:24931703-24931722 | None:intergenic | 30.0% | |
| AAAGTCATACAACATTAGCA+AGG | - | chr2_1:24931819-24931838 | None:intergenic | 30.0% | |
| GGAATAGTTCCATTTATCAA+GGG | + | chr2_1:24931980-24931999 | Msa0202490:CDS | 30.0% | |
| TTGTGTAGTAAGGATAAAAG+TGG | + | chr2_1:24932561-24932580 | Msa0202490:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 24929936 | 24934405 | 24929936 | ID=Msa0202490;Name=Msa0202490 |
| chr2_1 | mRNA | 24929936 | 24934405 | 24929936 | ID=Msa0202490-mRNA-1;Parent=Msa0202490;Name=Msa0202490-mRNA-1;_AED=0.05;_eAED=0.05;_QI=207|1|1|1|0.75|0.8|5|662|413 |
| chr2_1 | exon | 24929936 | 24930140 | 24929936 | ID=Msa0202490-mRNA-1:exon:9536;Parent=Msa0202490-mRNA-1 |
| chr2_1 | exon | 24931086 | 24931155 | 24931086 | ID=Msa0202490-mRNA-1:exon:9537;Parent=Msa0202490-mRNA-1 |
| chr2_1 | exon | 24931300 | 24931406 | 24931300 | ID=Msa0202490-mRNA-1:exon:9538;Parent=Msa0202490-mRNA-1 |
| chr2_1 | exon | 24931948 | 24932378 | 24931948 | ID=Msa0202490-mRNA-1:exon:9539;Parent=Msa0202490-mRNA-1 |
| chr2_1 | exon | 24933108 | 24934405 | 24933108 | ID=Msa0202490-mRNA-1:exon:9540;Parent=Msa0202490-mRNA-1 |
| chr2_1 | five_prime_UTR | 24929936 | 24930140 | 24929936 | ID=Msa0202490-mRNA-1:five_prime_utr;Parent=Msa0202490-mRNA-1 |
| chr2_1 | five_prime_UTR | 24931086 | 24931087 | 24931086 | ID=Msa0202490-mRNA-1:five_prime_utr;Parent=Msa0202490-mRNA-1 |
| chr2_1 | CDS | 24931088 | 24931155 | 24931088 | ID=Msa0202490-mRNA-1:cds;Parent=Msa0202490-mRNA-1 |
| chr2_1 | CDS | 24931300 | 24931406 | 24931300 | ID=Msa0202490-mRNA-1:cds;Parent=Msa0202490-mRNA-1 |
| chr2_1 | CDS | 24931948 | 24932378 | 24931948 | ID=Msa0202490-mRNA-1:cds;Parent=Msa0202490-mRNA-1 |
| chr2_1 | CDS | 24933108 | 24933743 | 24933108 | ID=Msa0202490-mRNA-1:cds;Parent=Msa0202490-mRNA-1 |
| chr2_1 | three_prime_UTR | 24933744 | 24934405 | 24933744 | ID=Msa0202490-mRNA-1:three_prime_utr;Parent=Msa0202490-mRNA-1 |
| Gene Sequence |
>Msa0202490 ATGGCAGGCGTTGCACCAGAGGGTTCACAGTTTGATGCTAAGCAGTTTGATTCAAAAATGAATGAGTTACTCACAACTGATGCACAGGACTTCTTCACATCTTATGATGAGGTCTATGATAGTTTTGATGCTATGGGCTTGCAAGAGAATCTTCTCAGAGGCATTTACGCATATGGTTTTGAGAAGCCATCAGCTATTCAGCAACGGGGAATAGTTCCATTTATCAAGGGTCTTGATGTTATACAACAGGCTCAGTCTGGAACAGGGAAGACTGCAACCTTCTGCTCTGGGATTTTGCAGCAACTTGACTACAGTGTGACCGAATGCCAAGCCTTGGTCTTGGCACCTACTCGTGAGCTTGCTCAGCAGATTGAGAAGGTCATGCGTGCACTTGGAGATTATCTAGGTGTGAAGGTGCATGCTTGTGTCGGAGGAACCAGTGTTCGTGAAGATCAGCGCATTCTATCAAGCGGTGTTCATGTTGTTGTTGGTACCCCTGGACGTGTATTTGACATGCTGCGCAGACAGTCGCTTCGACCAGATTACATCAAAATGTTCGTATTGGACGAGGCTGATGAGATGCTTTCTCGTGGTTTTAAAGATCAGATCTATGATATATTCCAGCTGTTGCCGTCTAAGATTCAAGTCGGAGTTTTCTCTGCTACAATGCCTCCTGAGGCACTTGAGATCACAAGGAAGTTCATGAACAAACCTGTGAGGATTCTTGTGAAGCGTGATGAGCTCACCTTGGAGGGTATCAAGCAGTTTTATGTCAACGTTGATAAGGAGGAATGGAAGCTCGACACACTCTGTGATCTTTATGAGACTTTGGCTATCACCCAGAGTGTCATTTTTGTTAACACCAGACGAAAGGTTGACTGGCTGACTGACAAAATGAGAAGCCGTGACCACACTGTCTCAGCAACACACGGAGACATGGACCAAAATACTAGGGACATTATCATGCGTGAATTCCGTTCTGGATCTTCCCGTGTTTTGATAACTACCGATCTTCTGGCTCGTGGTATTGATGTTCAGCAAGTGTCTTTGGTTATAAATTATGATCTCCCAACACAGCCTGAGAACTATCTCCATCGTATTGGTCGTAGTGGAAGGTTTGGAAGGAAAGGTGTTGCTATTAACTTCGTCACAACTGATGACGAAAGAATGCTGAGTGACATCCAGAAGTTCTACAATGTGTTGATTGAGGAGCTGCCTTCCAATGTTGCTGAACTTCTGTGA |
| Protein sequence |
>Msa0202490 MAGVAPEGSQFDAKQFDSKMNELLTTDAQDFFTSYDEVYDSFDAMGLQENLLRGIYAYGFEKPSAIQQRGIVPFIKGLDVIQQAQSGTGKTATFCSGILQQLDYSVTECQALVLAPTRELAQQIEKVMRALGDYLGVKVHACVGGTSVREDQRILSSGVHVVVGTPGRVFDMLRRQSLRPDYIKMFVLDEADEMLSRGFKDQIYDIFQLLPSKIQVGVFSATMPPEALEITRKFMNKPVRILVKRDELTLEGIKQFYVNVDKEEWKLDTLCDLYETLAITQSVIFVNTRRKVDWLTDKMRSRDHTVSATHGDMDQNTRDIIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTQPENYLHRIGRSGRFGRKGVAINFVTTDDERMLSDIQKFYNVLIEELPSNVAELL* |
