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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1192680 | XP_003629298.1 | 99.026 | 308 | 3 | 0 | 1 | 308 | 1 | 308 | 0.0 | 622 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1192680 | sp|A0A1P8B554|THLP1_ARATH | 62.403 | 258 | 83 | 6 | 1 | 245 | 1 | 257 | 7.35e-106 | 312 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0002110 | Msa1192680 | -0.806960 | 6.382817e-50 | -8.615850e-47 |
| Msa0002690 | Msa1192680 | -0.816627 | 5.016107e-52 | -8.615850e-47 |
| Msa0002700 | Msa1192680 | -0.807262 | 5.509187e-50 | -8.615850e-47 |
| Msa0003340 | Msa1192680 | -0.812656 | 3.798338e-51 | -8.615850e-47 |
| Msa0004180 | Msa1192680 | -0.840245 | 9.766757e-58 | -8.615850e-47 |
| Msa0007570 | Msa1192680 | -0.811234 | 7.753560e-51 | -8.615850e-47 |
| Msa0011060 | Msa1192680 | -0.801004 | 1.104821e-48 | -8.615850e-47 |
| Msa0011100 | Msa1192680 | -0.807013 | 6.219180e-50 | -8.615850e-47 |
| Msa0016380 | Msa1192680 | -0.833798 | 4.336080e-56 | -8.615850e-47 |
| Msa0017980 | Msa1192680 | -0.834715 | 2.553132e-56 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1192680 | MtrunA17_Chr8g0371771 | 99.026 | 308 | 3 | 0 | 1 | 308 | 1 | 308 | 0.0 | 622 |
| Msa1192680 | MtrunA17_Chr5g0405611 | 62.461 | 317 | 101 | 5 | 1 | 304 | 66 | 377 | 8.82e-141 | 402 |
| Msa1192680 | MtrunA17_Chr4g0037331 | 68.644 | 236 | 70 | 2 | 11 | 243 | 5 | 239 | 4.77e-116 | 338 |
| Msa1192680 | MtrunA17_Chr1g0156711 | 62.249 | 249 | 84 | 5 | 14 | 252 | 6 | 254 | 2.14e-100 | 297 |
| Msa1192680 | MtrunA17_Chr3g0142781 | 57.795 | 263 | 99 | 6 | 8 | 258 | 3 | 265 | 6.97e-97 | 288 |
| Msa1192680 | MtrunA17_Chr8g0352471 | 55.682 | 264 | 104 | 7 | 10 | 263 | 4 | 264 | 5.42e-93 | 278 |
| Msa1192680 | MtrunA17_Chr4g0037351 | 52.830 | 265 | 109 | 6 | 13 | 262 | 3 | 266 | 5.74e-88 | 266 |
| Msa1192680 | MtrunA17_Chr5g0405581 | 55.598 | 259 | 98 | 8 | 10 | 252 | 3 | 260 | 1.40e-87 | 264 |
| Msa1192680 | MtrunA17_Chr8g0371781 | 57.917 | 240 | 85 | 6 | 28 | 252 | 25 | 263 | 4.19e-87 | 263 |
| Msa1192680 | MtrunA17_Chr6g0482741 | 54.357 | 241 | 98 | 6 | 13 | 244 | 3 | 240 | 1.49e-86 | 259 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1192680 | AT4G38660.1 | 52.286 | 350 | 115 | 7 | 1 | 305 | 2 | 344 | 1.61e-113 | 332 |
| Msa1192680 | AT4G38660.2 | 55.000 | 320 | 94 | 6 | 31 | 305 | 8 | 322 | 1.15e-111 | 327 |
| Msa1192680 | AT4G24180.1 | 57.191 | 299 | 111 | 8 | 1 | 284 | 1 | 297 | 4.78e-109 | 320 |
| Msa1192680 | AT4G24180.2 | 57.576 | 297 | 108 | 9 | 1 | 284 | 1 | 292 | 2.17e-108 | 318 |
| Msa1192680 | AT4G24180.6 | 62.403 | 258 | 83 | 6 | 1 | 245 | 1 | 257 | 7.47e-107 | 312 |
| Msa1192680 | AT4G24180.5 | 62.891 | 256 | 80 | 7 | 1 | 245 | 1 | 252 | 4.96e-106 | 310 |
| Msa1192680 | AT4G24180.3 | 60.166 | 241 | 83 | 5 | 1 | 228 | 1 | 241 | 2.30e-96 | 288 |
| Msa1192680 | AT4G24180.4 | 60.669 | 239 | 80 | 6 | 1 | 228 | 1 | 236 | 1.51e-95 | 285 |
| Msa1192680 | AT1G20030.2 | 60.417 | 240 | 83 | 4 | 28 | 255 | 17 | 256 | 7.74e-93 | 278 |
| Msa1192680 | AT1G20030.1 | 61.441 | 236 | 79 | 4 | 32 | 255 | 4 | 239 | 9.17e-93 | 278 |
Find 108 sgRNAs with CRISPR-Local
Find 298 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACCAGACCTCGGAACAAC+CGG | 0.464546 | 8_1:+38620056 | Msa1192680:CDS |
| AAACCGGTTGTTCCGAGGTC+TGG | 0.386392 | 8_1:-38620059 | None:intergenic |
| AAATGGTTGGCTTATTCTTG+TGG | 0.566106 | 8_1:-38621643 | None:intergenic |
| AAATTCGACGATTCTGGCCA+CGG | 0.552629 | 8_1:+38620161 | Msa1192680:CDS |
| AACATTTCCGAATAAACCGA+AGG | 0.568030 | 8_1:-38620518 | None:intergenic |
| AACCGGAGACTGTGGTTCCG+GGG | 0.604183 | 8_1:+38620193 | Msa1192680:CDS |
| AACTCTCTTTAGGAGTGAAT+TGG | 0.379146 | 8_1:-38619621 | None:intergenic |
| AAGATCCTCTCCACATCCAG+TGG | 0.606360 | 8_1:-38620372 | None:intergenic |
| AATAGCGCGTGTGGTGCCTT+TGG | 0.406914 | 8_1:+38620443 | Msa1192680:CDS |
| AATCTACCTGACCAACCGGC+TGG | 0.593577 | 8_1:-38620119 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CTACCTATACTATAATTGGT+TGG | + | chr8_1:38619689-38619708 | Msa1192680:five_prime_UTR | 30.0% | |
| ACAAATGTGATCACACAATA+TGG | + | chr8_1:38620018-38620037 | Msa1192680:CDS | 30.0% | |
| TTAACCAACAACCTTTGATA+GGG | - | chr8_1:38620768-38620787 | None:intergenic | 30.0% | |
| TTTAACCAACAACCTTTGAT+AGG | - | chr8_1:38620769-38620788 | None:intergenic | 30.0% | |
| GTTGGTTAAACAAGTTGTTA+AGG | + | chr8_1:38620779-38620798 | Msa1192680:intron | 30.0% | |
| CTTACAACTATCAAAATCCA+AGG | + | chr8_1:38620917-38620936 | Msa1192680:intron | 30.0% | |
| GAATGTTGTGATGAAAGATT+AGG | + | chr8_1:38621108-38621127 | Msa1192680:intron | 30.0% | |
| AGAAATTGAGTGTATGTCAT+TGG | + | chr8_1:38621221-38621240 | Msa1192680:intron | 30.0% | |
| ATAGACATGGAAGTTGAAAA+TGG | - | chr8_1:38621663-38621682 | None:intergenic | 30.0% | |
| GATCAAACAACATAAGTAGT+TGG | + | chr8_1:38621800-38621819 | Msa1192680:three_prime_UTR | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_1 | gene | 38619576 | 38621905 | 38619576 | ID=Msa1192680;Name=Msa1192680 |
| chr8_1 | mRNA | 38619576 | 38621905 | 38619576 | ID=Msa1192680-mRNA-1;Parent=Msa1192680;Name=Msa1192680-mRNA-1;_AED=0.04;_eAED=0.04;_QI=147|1|1|1|1|1|3|177|308 |
| chr8_1 | exon | 38619576 | 38619795 | 38619576 | ID=Msa1192680-mRNA-1:exon:12622;Parent=Msa1192680-mRNA-1 |
| chr8_1 | exon | 38619982 | 38620654 | 38619982 | ID=Msa1192680-mRNA-1:exon:12623;Parent=Msa1192680-mRNA-1 |
| chr8_1 | exon | 38621548 | 38621905 | 38621548 | ID=Msa1192680-mRNA-1:exon:12624;Parent=Msa1192680-mRNA-1 |
| chr8_1 | five_prime_UTR | 38619576 | 38619722 | 38619576 | ID=Msa1192680-mRNA-1:five_prime_utr;Parent=Msa1192680-mRNA-1 |
| chr8_1 | CDS | 38619723 | 38619795 | 38619723 | ID=Msa1192680-mRNA-1:cds;Parent=Msa1192680-mRNA-1 |
| chr8_1 | CDS | 38619982 | 38620654 | 38619982 | ID=Msa1192680-mRNA-1:cds;Parent=Msa1192680-mRNA-1 |
| chr8_1 | CDS | 38621548 | 38621728 | 38621548 | ID=Msa1192680-mRNA-1:cds;Parent=Msa1192680-mRNA-1 |
| chr8_1 | three_prime_UTR | 38621729 | 38621905 | 38621729 | ID=Msa1192680-mRNA-1:three_prime_utr;Parent=Msa1192680-mRNA-1 |
| Gene Sequence |
>Msa1192680 ATGTCTATGTTCTCATATCACAAACATTCTTCTAACCGTTTCTTCATTTTCCTACTTATCCTAGCTTTCAAAGGAGTAACAATTTCAGCAACAACATTCACGTTCGTGAACAAATGTGATCACACAATATGGCCAGGAATTCTAGGAAAACCAGACCTCGGAACAACCGGTTTTGAACTCAAAAAAGGAAACACACAAACCTTCCAAGCACCAGCCGGTTGGTCAGGTAGATTCTGGGCAAGAACCGGTTGCAAATTCGACGATTCTGGCCACGGAACCTGCTCAACCGGAGACTGTGGTTCCGGGGAAATTAACTGCAACGGAAACGGCGCAACACCACCGGCAACATTAGCAGAATTCACTCTAGGAAATAGTTCGCCAGATTACTACGATGTTAGTCTTGTAGACGGTTACAATCTTCCGGTGATGGTTGAAACTAGTGGCGGTTCAGGTTCATGTCAGCCCACTGGATGTGGAGAGGATCTTAACCGGAGGTGTCCATCGGAGCTGAGAGTGGACGGTGGTGACGCGTGTAATAGCGCGTGTGGTGCCTTTGGGACACCGGAGTATTGTTGTAGTGGCGCGTTTGGTTCGCCATCGAGTTGTTCGCCTTCGGTTTATTCGGAAATGTTTAAATCCGCTTGTCCAAAATCTTATAGCTATGCGTATGATGATGCTACGAGTACTTTTACTTGTACTGCTGCGGATGATTATACTATCACATTTTGTCCTTCTTCTTCTCCAAGTTTGAAATCTTTAATGGAGTCAAAGCCAGGATCATCAGTAGAACAAGCTGCAGTAGCTACTAAATCTTGGATAGCAAATTTGGCCACAGGAGCTTCCACAAGAATAAGCCAACCATTTTCAACTTCCATGTCTATATTTTTTGTTGCTATCACTTTCATATTTTCATATTTAGTCAATTAG |
| Protein sequence |
>Msa1192680 MSMFSYHKHSSNRFFIFLLILAFKGVTISATTFTFVNKCDHTIWPGILGKPDLGTTGFELKKGNTQTFQAPAGWSGRFWARTGCKFDDSGHGTCSTGDCGSGEINCNGNGATPPATLAEFTLGNSSPDYYDVSLVDGYNLPVMVETSGGSGSCQPTGCGEDLNRRCPSELRVDGGDACNSACGAFGTPEYCCSGAFGSPSSCSPSVYSEMFKSACPKSYSYAYDDATSTFTCTAADDYTITFCPSSSPSLKSLMESKPGSSVEQAAVATKSWIANLATGASTRISQPFSTSMSIFFVAITFIFSYLVN* |
