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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0578400 | XP_013446778.1 | 95.370 | 324 | 7 | 2 | 14 | 335 | 1 | 318 | 0.0 | 636 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0578400 | sp|Q680K2|GPPL1_ARATH | 72.664 | 289 | 74 | 1 | 46 | 334 | 32 | 315 | 9.35e-158 | 447 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0578400 | A0A072U4Q2 | 95.370 | 324 | 7 | 2 | 14 | 335 | 1 | 318 | 0.0 | 636 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000180 | Msa0578400 | 0.819887 | 9.170996e-53 | -8.615850e-47 |
| Msa0000220 | Msa0578400 | 0.871814 | 5.129749e-67 | -8.615850e-47 |
| Msa0000610 | Msa0578400 | 0.843205 | 1.616410e-58 | -8.615850e-47 |
| Msa0000800 | Msa0578400 | -0.829752 | 4.316668e-55 | -8.615850e-47 |
| Msa0001040 | Msa0578400 | 0.872118 | 4.064222e-67 | -8.615850e-47 |
| Msa0001420 | Msa0578400 | 0.842588 | 2.359915e-58 | -8.615850e-47 |
| Msa0001510 | Msa0578400 | 0.926817 | 2.782861e-91 | -8.615850e-47 |
| Msa0001540 | Msa0578400 | 0.877013 | 8.832669e-69 | -8.615850e-47 |
| Msa0001550 | Msa0578400 | 0.812177 | 4.833278e-51 | -8.615850e-47 |
| Msa0002060 | Msa0578400 | 0.809044 | 2.298010e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0578400 | MtrunA17_Chr8g0381911 | 95.370 | 324 | 7 | 2 | 14 | 335 | 1 | 318 | 0.0 | 636 |
| Msa0578400 | MtrunA17_Chr3g0116461 | 41.304 | 230 | 119 | 5 | 85 | 313 | 83 | 297 | 7.62e-52 | 174 |
| Msa0578400 | MtrunA17_Chr7g0271811 | 24.848 | 330 | 193 | 12 | 26 | 335 | 3 | 297 | 5.45e-12 | 67.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0578400 | AT4G39970.1 | 72.664 | 289 | 74 | 1 | 46 | 334 | 32 | 315 | 9.50e-159 | 447 |
| Msa0578400 | AT3G48420.1 | 39.700 | 267 | 141 | 6 | 52 | 313 | 42 | 293 | 2.73e-54 | 181 |
| Msa0578400 | AT1G56500.2 | 29.032 | 248 | 135 | 9 | 84 | 324 | 76 | 289 | 1.07e-16 | 81.6 |
| Msa0578400 | AT1G56500.1 | 29.032 | 248 | 135 | 9 | 84 | 324 | 76 | 289 | 1.68e-16 | 81.3 |
| Msa0578400 | AT2G38740.1 | 26.809 | 235 | 139 | 8 | 70 | 302 | 10 | 213 | 5.09e-12 | 65.5 |
Find 81 sgRNAs with CRISPR-Local
Find 283 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGAAAGTAACTTAATTGT+TGG | 0.318877 | 4_1:+82948279 | None:intergenic |
| AAAGTGATGATGAAGATGAA+TGG | 0.585437 | 4_1:-82948411 | Msa0578400:CDS |
| AAAGTTTGAGGTTTATCACA+AGG | 0.626874 | 4_1:-82944012 | Msa0578400:three_prime_UTR |
| AAATAATCGTACAGCATCTC+TGG | 0.438342 | 4_1:+82945907 | None:intergenic |
| AACGAAAACAGTGTCTGGTT+TGG | 0.405544 | 4_1:+82948304 | None:intergenic |
| AACTCCTCCTACTAGTGATG+AGG | 0.626635 | 4_1:-82947814 | Msa0578400:CDS |
| AAGCAGTCACATATATTGAC+GGG | 0.575556 | 4_1:+82945406 | None:intergenic |
| AATATATGTGACTGCTTCCC+AGG | 0.410556 | 4_1:-82945400 | Msa0578400:intron |
| AATTCTATATCCCAGTTGAG+TGG | 0.615799 | 4_1:+82948054 | None:intergenic |
| AATTTCAAAACTCCTGGTCT+AGG | 0.433116 | 4_1:+82945941 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TGATGAAGATGAATGGTAAA+TGG | - | chr4_1:82943874-82943893 | Msa0578400:three_prime_UTR | 30.0% | |
| TTCTGTTCTGATAGTACATT+CGG | + | chr4_1:82944676-82944695 | None:intergenic | 30.0% | |
| GTAGTAATTTAGTACTTAGG+AGG | - | chr4_1:82944701-82944720 | Msa0578400:intron | 30.0% | |
| CCTCTAAATAAATAGTAACC+AGG | + | chr4_1:82944811-82944830 | None:intergenic | 30.0% | |
| CCTGGTTACTATTTATTTAG+AGG | - | chr4_1:82944808-82944827 | Msa0578400:intron | 30.0% | |
| TTTATTTAGAGGGGAAAACT+TGG | - | chr4_1:82944819-82944838 | Msa0578400:intron | 30.0% | |
| TTCCTACTGTATAGTTGAAA+GGG | + | chr4_1:82944862-82944881 | None:intergenic | 30.0% | |
| ATTCCTACTGTATAGTTGAA+AGG | + | chr4_1:82944863-82944882 | None:intergenic | 30.0% | |
| CTCAAATTCATTCTTCAATG+TGG | + | chr4_1:82945096-82945115 | None:intergenic | 30.0% | |
| TTTGCAAATCATACCTTTCT+CGG | - | chr4_1:82945256-82945275 | Msa0578400:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 82943804 | 82948496 | 82943804 | ID=Msa0578400;Name=Msa0578400 |
| chr4_1 | mRNA | 82943804 | 82948496 | 82943804 | ID=Msa0578400-mRNA-1;Parent=Msa0578400;Name=Msa0578400-mRNA-1;_AED=0.12;_eAED=0.12;_QI=57|1|1|1|1|1|11|305|335 |
| chr4_1 | exon | 82943804 | 82944157 | 82943804 | ID=Msa0578400-mRNA-1:exon:30163;Parent=Msa0578400-mRNA-1 |
| chr4_1 | exon | 82944247 | 82944293 | 82944247 | ID=Msa0578400-mRNA-1:exon:30162;Parent=Msa0578400-mRNA-1 |
| chr4_1 | exon | 82944407 | 82944466 | 82944407 | ID=Msa0578400-mRNA-1:exon:30161;Parent=Msa0578400-mRNA-1 |
| chr4_1 | exon | 82945242 | 82945301 | 82945242 | ID=Msa0578400-mRNA-1:exon:30160;Parent=Msa0578400-mRNA-1 |
| chr4_1 | exon | 82945401 | 82945456 | 82945401 | ID=Msa0578400-mRNA-1:exon:30159;Parent=Msa0578400-mRNA-1 |
| chr4_1 | exon | 82945577 | 82945610 | 82945577 | ID=Msa0578400-mRNA-1:exon:30158;Parent=Msa0578400-mRNA-1 |
| chr4_1 | exon | 82945701 | 82945775 | 82945701 | ID=Msa0578400-mRNA-1:exon:30157;Parent=Msa0578400-mRNA-1 |
| chr4_1 | exon | 82945919 | 82945969 | 82945919 | ID=Msa0578400-mRNA-1:exon:30156;Parent=Msa0578400-mRNA-1 |
| chr4_1 | exon | 82946078 | 82946122 | 82946078 | ID=Msa0578400-mRNA-1:exon:30155;Parent=Msa0578400-mRNA-1 |
| chr4_1 | exon | 82947785 | 82947878 | 82947785 | ID=Msa0578400-mRNA-1:exon:30154;Parent=Msa0578400-mRNA-1 |
| chr4_1 | exon | 82948003 | 82948496 | 82948003 | ID=Msa0578400-mRNA-1:exon:30153;Parent=Msa0578400-mRNA-1 |
| chr4_1 | five_prime_UTR | 82948440 | 82948496 | 82948440 | ID=Msa0578400-mRNA-1:five_prime_utr;Parent=Msa0578400-mRNA-1 |
| chr4_1 | CDS | 82948003 | 82948439 | 82948003 | ID=Msa0578400-mRNA-1:cds;Parent=Msa0578400-mRNA-1 |
| chr4_1 | CDS | 82947785 | 82947878 | 82947785 | ID=Msa0578400-mRNA-1:cds;Parent=Msa0578400-mRNA-1 |
| chr4_1 | CDS | 82946078 | 82946122 | 82946078 | ID=Msa0578400-mRNA-1:cds;Parent=Msa0578400-mRNA-1 |
| chr4_1 | CDS | 82945919 | 82945969 | 82945919 | ID=Msa0578400-mRNA-1:cds;Parent=Msa0578400-mRNA-1 |
| chr4_1 | CDS | 82945701 | 82945775 | 82945701 | ID=Msa0578400-mRNA-1:cds;Parent=Msa0578400-mRNA-1 |
| chr4_1 | CDS | 82945577 | 82945610 | 82945577 | ID=Msa0578400-mRNA-1:cds;Parent=Msa0578400-mRNA-1 |
| chr4_1 | CDS | 82945401 | 82945456 | 82945401 | ID=Msa0578400-mRNA-1:cds;Parent=Msa0578400-mRNA-1 |
| chr4_1 | CDS | 82945242 | 82945301 | 82945242 | ID=Msa0578400-mRNA-1:cds;Parent=Msa0578400-mRNA-1 |
| chr4_1 | CDS | 82944407 | 82944466 | 82944407 | ID=Msa0578400-mRNA-1:cds;Parent=Msa0578400-mRNA-1 |
| chr4_1 | CDS | 82944247 | 82944293 | 82944247 | ID=Msa0578400-mRNA-1:cds;Parent=Msa0578400-mRNA-1 |
| chr4_1 | CDS | 82944109 | 82944157 | 82944109 | ID=Msa0578400-mRNA-1:cds;Parent=Msa0578400-mRNA-1 |
| chr4_1 | three_prime_UTR | 82943804 | 82944108 | 82943804 | ID=Msa0578400-mRNA-1:three_prime_utr;Parent=Msa0578400-mRNA-1 |
| Gene Sequence |
>Msa0578400 ATGAATAAAGTGATGATGAAGATGAATGGTAAATGGTTGATGAACATGACCATGGCTTCTACTCTCACTCACACACTCTCTCTCACTCCCTCCACTTCCCATTCCTATCTCTCCCAAACCAGACACTGTTTTCGTTATCCAACAATTAAGTTACTTTCTTTCAACAACAATAACCGTAATAACCACCGCGTCTTCTTTAAAGTCTCAGCTTCATCTTCATCTTCATCTTCATCTTCATCTTCGTTTCAAGCTCTTATATTTGACTGTGACGGCGTCATCTTGGAATCTGAGCACTTACATCGTCAGGCTTATAATGATGCATTTCTTCACTTCAATGTTCGTTCTCCATCTTCTTCTCCTCAACCACTCAACTGGGATATAGAATTCTATGATCAACTTCAGAACCAAATTGGTGGTGGCAAACCCAAAATGCGATGGTACTTTAAGGAACATGGGTGGCCTTCATCAACGTTATTCGAAACTCCTCCTACTAGTGATGAGGAACGAGCCAAGTTGATTGACACTCTTCAGGATTGGAAGACAGAGAGATACAAAGATATAATCAAGTCTGGCTCTGTAAAACCTAGACCAGGAGTTTTGAAATTGATGGATGAAGCCAGAGATGCTGGGAAAAAGCTAGCTGTTTGCTCTGCTGCAACTAAAAGTTCAGTTATTCTTTGTCTTGAAAACCTTATTGGAATTGAGCGCTTTCAAAGCCTTGATTGCTTCCTTGCTGGTGATGATGTGAAGGAAAAGAAGCCCGACCCGTCAATATATGTGACTGCTTCCCAGAAGTTGGGTGTATCAGAGAAAAATTGCTTGGTGGTAGAGGATAGTGTTATTGGTTTACAGGCAGCAACACAAGCAGGGATGTCTTGTGTGGTTACCTACACATCTTCCACCGCTGAGCAGGATTTCAAAGAAGCCATAGCAATCTACCCTGACTTGAGTAACGTAAGCTTGAAAGATTTGGAGTTGCTACTTCAAGATGTTGTAGCTGCTAAATAG |
| Protein sequence |
>Msa0578400 MNKVMMKMNGKWLMNMTMASTLTHTLSLTPSTSHSYLSQTRHCFRYPTIKLLSFNNNNRNNHRVFFKVSASSSSSSSSSSSFQALIFDCDGVILESEHLHRQAYNDAFLHFNVRSPSSSPQPLNWDIEFYDQLQNQIGGGKPKMRWYFKEHGWPSSTLFETPPTSDEERAKLIDTLQDWKTERYKDIIKSGSVKPRPGVLKLMDEARDAGKKLAVCSAATKSSVILCLENLIGIERFQSLDCFLAGDDVKEKKPDPSIYVTASQKLGVSEKNCLVVEDSVIGLQAATQAGMSCVVTYTSSTAEQDFKEAIAIYPDLSNVSLKDLELLLQDVVAAK* |
