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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1246890 | XP_013445680.1 | 94.484 | 417 | 14 | 4 | 1 | 409 | 1 | 416 | 0.0 | 751 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1246890 | sp|E9Q349|WDR25_MOUSE | 37.855 | 317 | 183 | 5 | 101 | 408 | 223 | 534 | 6.21e-76 | 248 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1246890 | A0A072TR58 | 94.484 | 417 | 14 | 4 | 1 | 409 | 1 | 416 | 0.0 | 751 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0063530 | Msa1246890 | 0.804332 | 2.272807e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1246890 | MtrunA17_Chr8g0361561 | 94.484 | 417 | 14 | 4 | 1 | 409 | 1 | 416 | 0.0 | 751 |
| Msa1246890 | MtrunA17_Chr8g0361541 | 96.226 | 106 | 4 | 0 | 283 | 388 | 2 | 107 | 1.19e-69 | 215 |
| Msa1246890 | MtrunA17_Chr1g0185891 | 32.484 | 314 | 195 | 5 | 103 | 409 | 281 | 584 | 2.72e-50 | 178 |
| Msa1246890 | MtrunA17_Chr4g0057141 | 32.903 | 310 | 191 | 5 | 103 | 405 | 342 | 641 | 6.62e-50 | 178 |
| Msa1246890 | MtrunA17_Chr7g0253861 | 26.710 | 307 | 204 | 9 | 111 | 409 | 51 | 344 | 4.44e-24 | 102 |
| Msa1246890 | MtrunA17_Chr1g0185501 | 26.367 | 311 | 197 | 11 | 104 | 403 | 16 | 305 | 4.14e-23 | 99.0 |
| Msa1246890 | MtrunA17_Chr4g0067151 | 26.282 | 312 | 201 | 10 | 101 | 398 | 13 | 309 | 5.30e-20 | 90.1 |
| Msa1246890 | MtrunA17_Chr8g0383711 | 23.000 | 300 | 182 | 10 | 150 | 409 | 8 | 298 | 4.48e-14 | 72.4 |
| Msa1246890 | MtrunA17_Chr3g0095501 | 23.824 | 319 | 221 | 10 | 97 | 408 | 252 | 555 | 1.45e-13 | 72.4 |
| Msa1246890 | MtrunA17_Chr1g0183051 | 23.214 | 336 | 225 | 11 | 85 | 408 | 189 | 503 | 1.98e-11 | 65.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1246890 | AT5G54520.1 | 55.459 | 458 | 154 | 6 | 1 | 409 | 1 | 457 | 0.0 | 511 |
| Msa1246890 | AT1G10580.1 | 33.437 | 323 | 198 | 5 | 94 | 409 | 261 | 573 | 6.33e-54 | 188 |
| Msa1246890 | AT4G02730.1 | 26.974 | 304 | 182 | 10 | 104 | 391 | 32 | 311 | 9.67e-25 | 104 |
| Msa1246890 | AT2G43770.1 | 26.144 | 306 | 207 | 9 | 111 | 409 | 49 | 342 | 3.63e-22 | 97.1 |
| Msa1246890 | AT3G49660.1 | 26.667 | 315 | 198 | 11 | 108 | 408 | 17 | 312 | 1.12e-21 | 95.1 |
| Msa1246890 | AT5G13480.3 | 29.534 | 193 | 115 | 7 | 109 | 290 | 231 | 413 | 3.84e-12 | 68.6 |
| Msa1246890 | AT5G13480.2 | 29.534 | 193 | 115 | 7 | 109 | 290 | 254 | 436 | 3.86e-12 | 68.6 |
| Msa1246890 | AT5G13480.4 | 29.534 | 193 | 115 | 7 | 109 | 290 | 231 | 413 | 4.07e-12 | 68.6 |
| Msa1246890 | AT5G13480.1 | 29.534 | 193 | 115 | 7 | 109 | 290 | 243 | 425 | 4.91e-12 | 68.2 |
| Msa1246890 | AT5G64730.1 | 23.000 | 300 | 180 | 8 | 151 | 409 | 9 | 298 | 1.41e-11 | 65.5 |
Find 100 sgRNAs with CRISPR-Local
Find 672 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGGGCCATATCAAGCTAT+GGG | 0.566987 | 8_2:-39033472 | Msa1246890:CDS |
| AAATATAGGTAGTATCTCGG+AGG | 0.721969 | 8_2:-39034200 | Msa1246890:intron |
| AACAATGCTACAATGTTATG+GGG | 0.613093 | 8_2:+39034169 | None:intergenic |
| AACGTAACTACCTGGAAGAA+TGG | 0.455459 | 8_2:+39036281 | None:intergenic |
| AAGAATGGGAGAAGGGAGAT+AGG | 0.283299 | 8_2:+39036296 | None:intergenic |
| AAGCTATCTGCAACTCTGTC+TGG | 0.412532 | 8_2:-39034100 | Msa1246890:CDS |
| AAGCTATGGGATATCAGAAC+TGG | 0.476171 | 8_2:-39033459 | Msa1246890:CDS |
| AAGCTGAAATTGCACTTAAT+TGG | 0.089098 | 8_2:+39028282 | None:intergenic |
| AAGGGGTGAATTCTAATGCA+AGG | 0.619618 | 8_2:+39028420 | None:intergenic |
| AAGGTTGGTTGATGTTGAAA+AGG | 0.438941 | 8_2:-39033586 | Msa1246890:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AATTTGTGATTTCTGTAGCA+CGG | - | chr8_2:39028349-39028368 | Msa1246890:CDS | 30.0% | |
| TCACAAATTATTAGCGGTAT+CGG | - | chr8_2:39028443-39028462 | Msa1246890:CDS | 30.0% | |
| GCTATTATAAATAGAGGTGA+GGG | + | chr8_2:39028551-39028570 | None:intergenic | 30.0% | |
| TGCTATTATAAATAGAGGTG+AGG | + | chr8_2:39028552-39028571 | None:intergenic | 30.0% | |
| AACTTATGATAGTTGAGACT+TGG | + | chr8_2:39029124-39029143 | None:intergenic | 30.0% | |
| AACTATCATAAGTTGCCATT+GGG | - | chr8_2:39029130-39029149 | Msa1246890:intron | 30.0% | |
| TGGCTAATATGATTCATATG+TGG | - | chr8_2:39029179-39029198 | Msa1246890:intron | 30.0% | |
| GGCTAATATGATTCATATGT+GGG | - | chr8_2:39029180-39029199 | Msa1246890:intron | 30.0% | |
| TGATAATTGTGGTCAAATAC+CGG | + | chr8_2:39029281-39029300 | None:intergenic | 30.0% | |
| GAAAGGGATAATAATGAATC+AGG | + | chr8_2:39029365-39029384 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_2 | gene | 39027930 | 39036474 | 39027930 | ID=Msa1246890;Name=Msa1246890 |
| chr8_2 | mRNA | 39027930 | 39036474 | 39027930 | ID=Msa1246890-mRNA-1;Parent=Msa1246890;Name=Msa1246890-mRNA-1;_AED=0.07;_eAED=0.07;_QI=59|0.75|0.6|1|0.5|0.6|5|165|409 |
| chr8_2 | exon | 39027930 | 39028466 | 39027930 | ID=Msa1246890-mRNA-1:exon:12085;Parent=Msa1246890-mRNA-1 |
| chr8_2 | exon | 39033293 | 39033535 | 39033293 | ID=Msa1246890-mRNA-1:exon:12084;Parent=Msa1246890-mRNA-1 |
| chr8_2 | exon | 39033545 | 39033777 | 39033545 | ID=Msa1246890-mRNA-1:exon:12083;Parent=Msa1246890-mRNA-1 |
| chr8_2 | exon | 39034056 | 39034214 | 39034056 | ID=Msa1246890-mRNA-1:exon:12082;Parent=Msa1246890-mRNA-1 |
| chr8_2 | exon | 39036193 | 39036474 | 39036193 | ID=Msa1246890-mRNA-1:exon:12081;Parent=Msa1246890-mRNA-1 |
| chr8_2 | five_prime_UTR | 39036416 | 39036474 | 39036416 | ID=Msa1246890-mRNA-1:five_prime_utr;Parent=Msa1246890-mRNA-1 |
| chr8_2 | CDS | 39036193 | 39036415 | 39036193 | ID=Msa1246890-mRNA-1:cds;Parent=Msa1246890-mRNA-1 |
| chr8_2 | CDS | 39034056 | 39034214 | 39034056 | ID=Msa1246890-mRNA-1:cds;Parent=Msa1246890-mRNA-1 |
| chr8_2 | CDS | 39033545 | 39033777 | 39033545 | ID=Msa1246890-mRNA-1:cds;Parent=Msa1246890-mRNA-1 |
| chr8_2 | CDS | 39033293 | 39033535 | 39033293 | ID=Msa1246890-mRNA-1:cds;Parent=Msa1246890-mRNA-1 |
| chr8_2 | CDS | 39028095 | 39028466 | 39028095 | ID=Msa1246890-mRNA-1:cds;Parent=Msa1246890-mRNA-1 |
| chr8_2 | three_prime_UTR | 39027930 | 39028094 | 39027930 | ID=Msa1246890-mRNA-1:three_prime_utr;Parent=Msa1246890-mRNA-1 |
| Gene Sequence |
>Msa1246890 ATGGATCTTCTGCGCAACGCTTATTCAAATTCATCAGATGAAGATGAACCCAAACGACTGAAATCATGTCAGACTCCTTCATCATACCCACCAAAACCCTATCTCCCTTCTCCCATTCTTCCAGGTAGTTACGTTTCCAAACGACAACGCGCATCTTCATCATCATCAATCTCTACTACAACTACCATTTCTTCATCACAATCGTCTTCTTTCACACTCTCTGGTAGTATCTCGGAGGCTGATATACCCCATAACATTGTAGCATTGTTGAAAAGTAAAGCAAAGGGTCATCAAAACCTGAACTCGGTACCTGACAAGCTATCTGCAACTCTGTCTGGACATACTAGAGCTGTCAATGCTATACATTGGTCATCAACTCATGCTCACCTCCTTGCATCTGCTGGGATGGACAATGTGGTTTTCATATGGAACGTATGGAGCAATGATAAGAAGAAAGCATGTGCGCTAAATTTCCACAATGCAGCAGTGAAAGATGTGAAATGGTCTCAACAAGGGCACTTCTTGCTTTCTTGTGGATATGATTGCACATCAAGGTTGGTTGATGTTGAAAAGGGGATGGAAACTCAAGTTTTCAAAGAAGATCAAATTGTTGGATTCCATCCAGACAATTCAAGTCTCTTTCTTTCTGGGGGATCAAAGGGCCATATCAAGCTATGGGATATCAGAACTGGCAAAGCTGTGCATAACTATAATCGAAATTTAGGTTCTATTCTAGATGTCGAGTTTACAACAAATGGGAAGCAATTCATGTCTTCAAGTGATGTATCTGGGAGCAATATCAGTGAGAATTCTATTATCGTTTGGGATGTGTCAAGACAGGTACCATTGTCTAATCAGGTTTATGTGGAAGCTTATACTTGTCCTTGCATTAGAATTCACCCCTTTGATCCAGTTTTTGTCGCGCAATCAAACGGGAATTATGTTGCTATCTTTAGTACCTACCCACCATACAGACTCAACAAATATAAGAGATATGAGAACCATGGGGTTTCTGGGTTCCCAATTAAGTGCAATTTCAGCTTAGATGGGAAGAAGCTTGCATCTGGCTCTTCAGATGGATCTATTTACCTTTATGATTATCAGTCATCCAAAGTTTTGAAGAAAATAAAGGCCTTTAACCAAGCATGCATGGACATTGCCTTCCACCCAGTTTTGCCTAATGTTATTGCTTCATGCTCATGGGATGGAAGTATTTTGGTATTTGAGTAG |
| Protein sequence |
>Msa1246890 MDLLRNAYSNSSDEDEPKRLKSCQTPSSYPPKPYLPSPILPGSYVSKRQRASSSSSISTTTTISSSQSSSFTLSGSISEADIPHNIVALLKSKAKGHQNLNSVPDKLSATLSGHTRAVNAIHWSSTHAHLLASAGMDNVVFIWNVWSNDKKKACALNFHNAAVKDVKWSQQGHFLLSCGYDCTSRLVDVEKGMETQVFKEDQIVGFHPDNSSLFLSGGSKGHIKLWDIRTGKAVHNYNRNLGSILDVEFTTNGKQFMSSSDVSGSNISENSIIVWDVSRQVPLSNQVYVEAYTCPCIRIHPFDPVFVAQSNGNYVAIFSTYPPYRLNKYKRYENHGVSGFPIKCNFSLDGKKLASGSSDGSIYLYDYQSSKVLKKIKAFNQACMDIAFHPVLPNVIASCSWDGSILVFE* |
