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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1428880 | XP_003617791.1 | 99.340 | 303 | 2 | 0 | 1 | 303 | 1 | 303 | 0.0 | 601 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1428880 | sp|Q6AYB3|ISY1_RAT | 48.344 | 302 | 135 | 7 | 1 | 300 | 1 | 283 | 1.83e-79 | 245 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0007440 | Msa1428880 | 0.810672 | 1.026224e-50 | -8.615850e-47 |
| Msa0010490 | Msa1428880 | 0.813419 | 2.583899e-51 | -8.615850e-47 |
| Msa0011960 | Msa1428880 | 0.807339 | 5.305563e-50 | -8.615850e-47 |
| Msa0020390 | Msa1428880 | 0.800268 | 1.560766e-48 | -8.615850e-47 |
| Msa0025730 | Msa1428880 | 0.811557 | 6.596078e-51 | -8.615850e-47 |
| Msa0029260 | Msa1428880 | 0.827055 | 1.932829e-54 | -8.615850e-47 |
| Msa0029630 | Msa1428880 | 0.807142 | 5.840354e-50 | -8.615850e-47 |
| Msa0030300 | Msa1428880 | 0.808956 | 2.400094e-50 | -8.615850e-47 |
| Msa0033110 | Msa1428880 | 0.848673 | 5.275281e-60 | -8.615850e-47 |
| Msa0033260 | Msa1428880 | 0.844244 | 8.522358e-59 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1428880 | MtrunA17_Chr5g0446311 | 99.340 | 303 | 2 | 0 | 1 | 303 | 1 | 303 | 0.0 | 601 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1428880 | AT3G18790.1 | 76.238 | 303 | 69 | 2 | 1 | 303 | 1 | 300 | 1.91e-149 | 421 |
Find 100 sgRNAs with CRISPR-Local
Find 228 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACCTCAACGAAGCCGACAAA+TGG | 0.465609 | tig0026416:-16298 | Msa1428880:CDS |
| AGAAAAGGACGGCGTTCTTT+AGG | 0.280108 | tig0026416:+16338 | None:intergenic |
| AGAAGACGGATTTGTTGAAT+CGG | 0.512072 | tig0026416:-15590 | Msa1428880:CDS |
| AGAGGTTGGATGAGAAAGAA+AGG | 0.431855 | tig0026416:-15677 | Msa1428880:CDS |
| AGCCGCCAGAGTTGAGGAAA+CGG | 0.430737 | tig0026416:-15980 | Msa1428880:CDS |
| AGGAAGAGAGGATGAAGGAG+AGG | 0.452014 | tig0026416:-15710 | Msa1428880:CDS |
| AGGAAGCTAGGAAGGCTGTG+AGG | 0.701271 | tig0026416:-15803 | Msa1428880:CDS |
| AGGAGAATTGTTGAGCTTGG+AGG | 0.570345 | tig0026416:-16146 | Msa1428880:CDS |
| AGGAGAGGGAGATGAGGGAG+AGG | 0.482030 | tig0026416:-15695 | Msa1428880:CDS |
| AGGAGTGGGAGAGGTTGGAT+AGG | 0.498229 | tig0026416:-15833 | Msa1428880:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TAATTTCGTCGTTGAGATCA+CGG | + | tig0026416:15739-15758 | None:intergenic | 35.0% | |
| TCATTCGTGAAAAATCGCAT+TGG | - | tig0026416:15765-15784 | Msa1428880:CDS | 35.0% | |
| CATTCGTGAAAAATCGCATT+GGG | - | tig0026416:15766-15785 | Msa1428880:CDS | 35.0% | |
| TTCTGCGAAAATGACTGATT+TGG | - | tig0026416:15832-15851 | Msa1428880:CDS | 35.0% | |
| GTTATAGGGATGATGAAGAT+GGG | - | tig0026416:16026-16045 | Msa1428880:CDS | 35.0% | |
| TTCTCAATCTCTTTCTCATC+CGG | + | tig0026416:16310-16329 | None:intergenic | 35.0% | |
| TGAGAAAGAGATTGAGAAGA+TGG | - | tig0026416:16312-16331 | Msa1428880:CDS | 35.0% | |
| TAATTTCGTCGTTGAGATCA+CGG | + | tig0026416:15739-15758 | None:intergenic | 35.0% | |
| TCATTCGTGAAAAATCGCAT+TGG | - | tig0026416:15765-15784 | Msa1428880:CDS | 35.0% | |
| CATTCGTGAAAAATCGCATT+GGG | - | tig0026416:15766-15785 | Msa1428880:CDS | 35.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0026416 | gene | 15524 | 16435 | 15524 | ID=Msa1428880;Name=Msa1428880 |
| tig0026416 | mRNA | 15524 | 16435 | 15524 | ID=Msa1428880-mRNA-1;Parent=Msa1428880;Name=Msa1428880-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|303 |
| tig0026416 | exon | 15524 | 16435 | 15524 | ID=Msa1428880-mRNA-1:exon:6221;Parent=Msa1428880-mRNA-1 |
| tig0026416 | CDS | 15524 | 16435 | 15524 | ID=Msa1428880-mRNA-1:cds;Parent=Msa1428880-mRNA-1 |
| Gene Sequence |
>Msa1428880 ATGGCTCGTAACGAAGAAAAAGCACAATCGATGCTGAATCGATTCATCACCATGAAAGCTGAAGAAAAGAAGAAACCTAAAGAACGCCGTCCTTTTCTCGCTTCCGAATGCCGTGACCTCAACGAAGCCGACAAATGGCGTCAGCAAATCATGCGCGAAATCGGCCGCAAAGTCGCCGAGATTCAGAACGAAGGTCTCGGCGAACACCGTCTCCGTGATCTCAACGACGAAATTAACAAACTCATTCGTGAAAAATCGCATTGGGAGAGGAGAATTGTTGAGCTTGGAGGACCGAATTATGCGAGGCATTCTGCGAAAATGACTGATTTGGATGGGAATATTGTTGATGTTCCTAACCCTAGTGGAAGGGGGCCGGGGTATAGATATTTTGGTGCGGCGAAGAAATTGCCGGGGGTTAGGGAGCTTTTTGAGAAGCCGCCAGAGTTGAGGAAACGGAGGACGAGATATGATATTTATAAGAGGATTAATGCTGCTTATTATGGTTATAGGGATGATGAAGATGGGATATTGGAGCGGGTTGAGGCACCGGCTGAGGAATGTATGAGGCGGGAGGCGGTTGAGGAGTGGGAGAGGTTGGATAGGATAAGGAAGGAAGCTAGGAAGGCTGTGAGGAGTGGGGAGGTTGTTGAGGTTACTGCGGCTACGAGGGAGATACTTCATGAGGAGGAAGAGGATGTGGTGGAGGAAGAGAGGATGAAGGAGAGGGAGATGAGGGAGAGGTTGGATGAGAAAGAAAGGGAATTTGTTGTGCATGTGCCATTGCCGGATGAGAAAGAGATTGAGAAGATGGTGTTGCAGAAGAAGAAGACGGATTTGTTGAATCGGTATGTCAGTGATGAGCTTATGGAGGAGCAGACTGAAGCTAAGGATTTGCTTAACATTCATCGCTAG |
| Protein sequence |
>Msa1428880 MARNEEKAQSMLNRFITMKAEEKKKPKERRPFLASECRDLNEADKWRQQIMREIGRKVAEIQNEGLGEHRLRDLNDEINKLIREKSHWERRIVELGGPNYARHSAKMTDLDGNIVDVPNPSGRGPGYRYFGAAKKLPGVRELFEKPPELRKRRTRYDIYKRINAAYYGYRDDEDGILERVEAPAEECMRREAVEEWERLDRIRKEARKAVRSGEVVEVTAATREILHEEEEDVVEEERMKEREMRERLDEKEREFVVHVPLPDEKEIEKMVLQKKKTDLLNRYVSDELMEEQTEAKDLLNIHR* |
