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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0895650 | XP_013452731.1 | 96.477 | 369 | 11 | 2 | 1 | 368 | 1 | 368 | 0.0 | 727 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0895650 | sp|Q93WJ9|KAN1_ARATH | 53.171 | 205 | 70 | 9 | 182 | 368 | 201 | 397 | 1.42e-46 | 166 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0895650 | A0A072UAE1 | 96.477 | 369 | 11 | 2 | 1 | 368 | 1 | 368 | 0.0 | 727 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0178510 | Msa0895650 | 0.806511 | 7.938991e-50 | -8.615850e-47 |
| Msa0482180 | Msa0895650 | 0.803893 | 2.804446e-49 | -8.615850e-47 |
| Msa0530650 | Msa0895650 | 0.801171 | 1.021083e-48 | -8.615850e-47 |
| Msa0598160 | Msa0895650 | 0.805021 | 1.632463e-49 | -8.615850e-47 |
| Msa0637900 | Msa0895650 | 0.804381 | 2.220411e-49 | -8.615850e-47 |
| Msa0756530 | Msa0895650 | 0.803489 | 3.402638e-49 | -8.615850e-47 |
| Msa0805430 | Msa0895650 | 0.809376 | 1.950874e-50 | -8.615850e-47 |
| Msa0895650 | Msa0960980 | 0.810436 | 1.153936e-50 | -8.615850e-47 |
| Msa0895650 | Msa1021510 | 0.809887 | 1.514807e-50 | -8.615850e-47 |
| Msa0895650 | Msa1105500 | 0.803632 | 3.177784e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0895650 | MtrunA17_Chr6g0479431 | 96.477 | 369 | 11 | 2 | 1 | 368 | 1 | 368 | 0.0 | 727 |
| Msa0895650 | MtrunA17_Chr3g0109981 | 51.429 | 210 | 79 | 8 | 174 | 367 | 250 | 452 | 3.17e-49 | 172 |
| Msa0895650 | MtrunA17_Chr8g0366281 | 46.117 | 206 | 79 | 6 | 184 | 367 | 157 | 352 | 9.72e-42 | 149 |
| Msa0895650 | MtrunA17_Chr5g0410741 | 76.744 | 86 | 18 | 1 | 182 | 267 | 201 | 284 | 1.70e-36 | 136 |
| Msa0895650 | MtrunA17_Chr1g0154261 | 70.115 | 87 | 23 | 1 | 179 | 265 | 106 | 189 | 4.34e-34 | 127 |
| Msa0895650 | MtrunA17_Chr7g0243081 | 56.627 | 83 | 29 | 1 | 203 | 278 | 72 | 154 | 5.82e-23 | 98.6 |
| Msa0895650 | MtrunA17_Chr1g0162931 | 64.407 | 59 | 21 | 0 | 201 | 259 | 17 | 75 | 1.49e-21 | 93.2 |
| Msa0895650 | MtrunA17_Chr1g0210911 | 51.852 | 81 | 29 | 1 | 178 | 258 | 8 | 78 | 4.68e-21 | 92.8 |
| Msa0895650 | MtrunA17_Chr8g0379121 | 67.241 | 58 | 19 | 0 | 201 | 258 | 110 | 167 | 6.30e-20 | 90.5 |
| Msa0895650 | MtrunA17_Chr2g0320231 | 68.966 | 58 | 18 | 0 | 201 | 258 | 96 | 153 | 7.54e-20 | 89.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0895650 | AT5G16560.1 | 53.171 | 205 | 70 | 9 | 182 | 368 | 201 | 397 | 1.45e-47 | 166 |
| Msa0895650 | AT1G32240.1 | 45.673 | 208 | 70 | 6 | 185 | 368 | 198 | 386 | 2.35e-38 | 141 |
| Msa0895650 | AT5G42630.1 | 46.569 | 204 | 92 | 6 | 165 | 368 | 71 | 257 | 2.51e-38 | 139 |
| Msa0895650 | AT1G32240.2 | 84.337 | 83 | 11 | 2 | 185 | 267 | 198 | 278 | 4.43e-38 | 140 |
| Msa0895650 | AT5G42630.2 | 68.367 | 98 | 28 | 1 | 165 | 262 | 71 | 165 | 2.32e-36 | 132 |
| Msa0895650 | AT4G17695.1 | 45.143 | 175 | 64 | 5 | 95 | 267 | 85 | 229 | 1.27e-35 | 132 |
| Msa0895650 | AT4G04605.1 | 68.966 | 58 | 18 | 0 | 201 | 258 | 13 | 70 | 1.88e-21 | 92.0 |
| Msa0895650 | AT2G38300.1 | 46.341 | 123 | 51 | 4 | 201 | 311 | 53 | 172 | 3.16e-21 | 94.0 |
| Msa0895650 | AT2G40260.1 | 50.000 | 100 | 31 | 3 | 201 | 300 | 81 | 161 | 3.96e-21 | 94.4 |
| Msa0895650 | AT2G02060.2 | 57.143 | 84 | 23 | 3 | 175 | 255 | 9 | 82 | 1.03e-20 | 90.9 |
Find 61 sgRNAs with CRISPR-Local
Find 660 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGCATATACAAGGTTTCT+TGG | 0.284802 | 6_1:+83790357 | None:intergenic |
| AAAGTAATAAGAGGAACATG+AGG | 0.570980 | 6_1:-83801980 | Msa0895650:CDS |
| AAGTAATAAGAGGAACATGA+GGG | 0.670806 | 6_1:-83801979 | Msa0895650:CDS |
| AATGATGCTATTACTCATGA+AGG | 0.469312 | 6_1:-83802437 | Msa0895650:CDS |
| AATTTGGAAATGGATTTGTG+AGG | 0.704670 | 6_1:-83802028 | Msa0895650:CDS |
| ACAACATCAACAACAGCAGA+AGG | 0.624077 | 6_1:-83802072 | Msa0895650:CDS |
| ACATGGACACAAGGTAGTTC+TGG | 0.378399 | 6_1:-83791409 | Msa0895650:CDS |
| AGAATTAGCCCATAGAATGT+TGG | 0.553625 | 6_1:+83799793 | None:intergenic |
| AGACATCCTTCAAAGACTCA+TGG | 0.552003 | 6_1:+83803002 | None:intergenic |
| AGACTGTTCGAATCCAAACT+TGG | 0.529409 | 6_1:-83790571 | Msa0895650:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TTTCAACCTGAAACAAACAA+AGG | + | chr6_1:83790750-83790769 | None:intergenic | 30.0% | |
| CAAATTGATGAAGAACTGTT+TGG | + | chr6_1:83790851-83790870 | None:intergenic | 30.0% | |
| AATGATGCTATTACTCATGA+AGG | - | chr6_1:83790926-83790945 | Msa0895650:intron | 30.0% | |
| GGATTGTTATCACTATAAAG+AGG | + | chr6_1:83791124-83791143 | None:intergenic | 30.0% | |
| CAGTTTGGAAATTCTGAATT+TGG | - | chr6_1:83791319-83791338 | Msa0895650:intron | 30.0% | |
| GGAAATTCTGAATTTGGAAA+TGG | - | chr6_1:83791325-83791344 | Msa0895650:intron | 30.0% | |
| CAAGACAACAAAGTAATAAG+AGG | - | chr6_1:83791374-83791393 | Msa0895650:CDS | 30.0% | |
| AAAGTAATAAGAGGAACATG+AGG | - | chr6_1:83791383-83791402 | Msa0895650:CDS | 30.0% | |
| AAGTAATAAGAGGAACATGA+GGG | - | chr6_1:83791384-83791403 | Msa0895650:CDS | 30.0% | |
| AGAGAAGAGATATACTTTCA+TGG | + | chr6_1:83791477-83791496 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_1 | gene | 83790263 | 83803122 | 83790263 | ID=Msa0895650;Name=Msa0895650 |
| chr6_1 | mRNA | 83790263 | 83803122 | 83790263 | ID=Msa0895650-mRNA-1;Parent=Msa0895650;Name=Msa0895650-mRNA-1;_AED=0.09;_eAED=0.09;_QI=185|1|1|1|0.71|0.5|8|255|368 |
| chr6_1 | exon | 83790263 | 83790479 | 83790263 | ID=Msa0895650-mRNA-1:exon:14159;Parent=Msa0895650-mRNA-1 |
| chr6_1 | exon | 83790513 | 83790637 | 83790513 | ID=Msa0895650-mRNA-1:exon:14158;Parent=Msa0895650-mRNA-1 |
| chr6_1 | exon | 83791342 | 83791438 | 83791342 | ID=Msa0895650-mRNA-1:exon:14157;Parent=Msa0895650-mRNA-1 |
| chr6_1 | exon | 83799785 | 83799905 | 83799785 | ID=Msa0895650-mRNA-1:exon:14156;Parent=Msa0895650-mRNA-1 |
| chr6_1 | exon | 83800556 | 83800601 | 83800556 | ID=Msa0895650-mRNA-1:exon:14155;Parent=Msa0895650-mRNA-1 |
| chr6_1 | exon | 83801474 | 83801550 | 83801474 | ID=Msa0895650-mRNA-1:exon:14154;Parent=Msa0895650-mRNA-1 |
| chr6_1 | exon | 83801904 | 83802622 | 83801904 | ID=Msa0895650-mRNA-1:exon:14153;Parent=Msa0895650-mRNA-1 |
| chr6_1 | exon | 83802978 | 83803122 | 83802978 | ID=Msa0895650-mRNA-1:exon:14152;Parent=Msa0895650-mRNA-1 |
| chr6_1 | five_prime_UTR | 83802978 | 83803122 | 83802978 | ID=Msa0895650-mRNA-1:five_prime_utr;Parent=Msa0895650-mRNA-1 |
| chr6_1 | five_prime_UTR | 83802583 | 83802622 | 83802583 | ID=Msa0895650-mRNA-1:five_prime_utr;Parent=Msa0895650-mRNA-1 |
| chr6_1 | CDS | 83801904 | 83802582 | 83801904 | ID=Msa0895650-mRNA-1:cds;Parent=Msa0895650-mRNA-1 |
| chr6_1 | CDS | 83801474 | 83801550 | 83801474 | ID=Msa0895650-mRNA-1:cds;Parent=Msa0895650-mRNA-1 |
| chr6_1 | CDS | 83800556 | 83800601 | 83800556 | ID=Msa0895650-mRNA-1:cds;Parent=Msa0895650-mRNA-1 |
| chr6_1 | CDS | 83799785 | 83799905 | 83799785 | ID=Msa0895650-mRNA-1:cds;Parent=Msa0895650-mRNA-1 |
| chr6_1 | CDS | 83791342 | 83791438 | 83791342 | ID=Msa0895650-mRNA-1:cds;Parent=Msa0895650-mRNA-1 |
| chr6_1 | CDS | 83790551 | 83790637 | 83790551 | ID=Msa0895650-mRNA-1:cds;Parent=Msa0895650-mRNA-1 |
| chr6_1 | three_prime_UTR | 83790513 | 83790550 | 83790513 | ID=Msa0895650-mRNA-1:three_prime_utr;Parent=Msa0895650-mRNA-1 |
| chr6_1 | three_prime_UTR | 83790263 | 83790479 | 83790263 | ID=Msa0895650-mRNA-1:three_prime_utr;Parent=Msa0895650-mRNA-1 |
| Gene Sequence |
>Msa0895650 ATGCCACAGAATCAGATTCCTGATCTTTCACTTCAAATTTCTCTACCAAACAGTTCTTCATCAATTTGCACAACAAATGAAGTTGATGATTTAGATTCATCTTTTGATATATGGAAAAATATCAATGATGCTATTACTCATGAAGGTTTCAAATCTCATAGTGATGGTTTTTCATCTTCAATAAGAAATAGTACTCTTCAAAAAACTGATACAGAACTTTCATTATCAAATTCCAAAACAAAAACAACTACTTTTTCTGAAGCTGAGAGTGTTTGGAAGAGAAAAAACTTTGTTAGATTAAGACCCTTCAATGGAATCCCTCTTTATAGTGATAACAATCCTTCTATAATAGAGAAAGATTCAAATTCTTCTCTATATCCTTCTTGTTCTGCTAGTTTTTCAACTTTTTCAAGGTTTAATGGAATAACTATAGAGAGTTTAAGACCTCAAAAGTTTCAATATATGAATCATCATCAACATCATCTTCTACAACATCAACAACAGCAGAAGGTGAATCAGTTTGGAAATTCTGAATTTGGAAATGGATTTGTGAGGTCAAGAATGATGATGCCAAGACAACAAAGTAATAAGAGGAACATGAGGGCTCCGAGAATGCGATGGACTAGTTCGCTTCATAATCGATTTGTTCACGCCGTTGAGCTTCTCGGCGGCCATGAAAGAGCTACTCCTAAATCAGTTTTGGAGCTAATGGATGTGAAAGATCTAACACTAGCTCATGTCAAGAGTCATTTACAGATGTATAGAACTGTTAAAAACACTGACAAGCCAGCAGCTTCTTCAGATGGAGATGAGAATTTCATGTCCCTAACACAACCTCATGATCAAAATAAGAACTATAATGCATCTCTAGATCATGATATTGGCTACACTTCCAACATTCTATGGGCTAATTCTTCTTCAAGTAATGGAACATGGACACAAGGTAGTTCTGGAAATCATTTTGAGGAACTTGGCACACAAGAAATCCTATCAACTCACCACATTGGAAAGCTTCCTCAGGGAAGCAAATATAAACAATCAAGAAGTTCCAAGGATCAAAACATAGACTGTTCGAATCCAAACTTGGAGTTCACCTTAGGGAGATAA |
| Protein sequence |
>Msa0895650 MPQNQIPDLSLQISLPNSSSSICTTNEVDDLDSSFDIWKNINDAITHEGFKSHSDGFSSSIRNSTLQKTDTELSLSNSKTKTTTFSEAESVWKRKNFVRLRPFNGIPLYSDNNPSIIEKDSNSSLYPSCSASFSTFSRFNGITIESLRPQKFQYMNHHQHHLLQHQQQQKVNQFGNSEFGNGFVRSRMMMPRQQSNKRNMRAPRMRWTSSLHNRFVHAVELLGGHERATPKSVLELMDVKDLTLAHVKSHLQMYRTVKNTDKPAASSDGDENFMSLTQPHDQNKNYNASLDHDIGYTSNILWANSSSSNGTWTQGSSGNHFEELGTQEILSTHHIGKLPQGSKYKQSRSSKDQNIDCSNPNLEFTLGR* |
