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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0104800 | A0A072VEP6 | 93.013 | 229 | 15 | 1 | 1 | 229 | 1 | 228 | 3.21e-141 | 407 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0002230 | Msa0104800 | 0.810463 | 1.138498e-50 | -8.615850e-47 |
| Msa0003400 | Msa0104800 | 0.815941 | 7.141894e-52 | -8.615850e-47 |
| Msa0003630 | Msa0104800 | 0.826287 | 2.946775e-54 | -8.615850e-47 |
| Msa0003890 | Msa0104800 | 0.811261 | 7.647611e-51 | -8.615850e-47 |
| Msa0004840 | Msa0104800 | 0.854632 | 1.081876e-61 | -8.615850e-47 |
| Msa0005270 | Msa0104800 | 0.898210 | 6.633529e-77 | -8.615850e-47 |
| Msa0006110 | Msa0104800 | 0.850910 | 1.250822e-60 | -8.615850e-47 |
| Msa0007440 | Msa0104800 | 0.803496 | 3.390370e-49 | -8.615850e-47 |
| Msa0007990 | Msa0104800 | 0.810368 | 1.193419e-50 | -8.615850e-47 |
| Msa0009790 | Msa0104800 | 0.813773 | 2.160173e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0104800 | MtrunA17_Chr1g0159571 | 93.013 | 229 | 15 | 1 | 1 | 229 | 1 | 228 | 6.18e-145 | 407 |
| Msa0104800 | MtrunA17_Chr3g0125561 | 38.208 | 212 | 99 | 8 | 1 | 199 | 31 | 223 | 1.18e-23 | 97.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0104800 | AT1G76980.1 | 43.103 | 174 | 78 | 7 | 49 | 204 | 28 | 198 | 8.61e-28 | 108 |
| Msa0104800 | AT1G76980.2 | 43.103 | 174 | 78 | 7 | 49 | 204 | 28 | 198 | 1.63e-27 | 107 |
| Msa0104800 | AT1G21390.1 | 38.342 | 193 | 88 | 6 | 33 | 199 | 5 | 192 | 7.55e-26 | 103 |
Find 51 sgRNAs with CRISPR-Local
Find 212 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGGTGGAGAACACATACC+AGG | 0.623685 | 1_3:+12969908 | None:intergenic |
| AACCACTACAACACATTGAA+AGG | 0.548137 | 1_3:+12970222 | None:intergenic |
| AAGAAATTGTGGGTTGGTAA+TGG | 0.479830 | 1_3:+12970029 | None:intergenic |
| AAGAAGAAACTGGGGAGTAG+TGG | 0.594902 | 1_3:-12969458 | Msa0104800:CDS |
| AAGAAGAATATTGACAGTGG+AGG | 0.610321 | 1_3:-12969635 | Msa0104800:CDS |
| AAGACACAAGCCATTGAAAG+AGG | 0.538043 | 1_3:-12969833 | Msa0104800:CDS |
| AAGAGGTCAAAGAGAGTTAA+TGG | 0.266398 | 1_3:-12969816 | Msa0104800:CDS |
| AATTAGGGCTAGTAGAAATA+TGG | 0.334807 | 1_3:-12969660 | Msa0104800:CDS |
| ACATGAATACAAAGCTTTGA+AGG | 0.444237 | 1_3:+12965687 | None:intergenic |
| ACTCCTGCTGCTACAACTAC+TGG | 0.490793 | 1_3:+12969352 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GAAACTGGAAAAGAAATTGT+GGG | + | chr1_3:12965927-12965946 | None:intergenic | 30.0% | |
| AGAAACTGGAAAAGAAATTG+TGG | + | chr1_3:12965928-12965947 | None:intergenic | 30.0% | |
| TGTATTCTATCATCAGAAAC+TGG | + | chr1_3:12965942-12965961 | None:intergenic | 30.0% | |
| ACCAAAAACTACAATCATCA+TGG | - | chr1_3:12965996-12966015 | Msa0104800:intron | 30.0% | |
| TCAAAGAGAGTTAATGGAAA+TGG | - | chr1_3:12966133-12966152 | Msa0104800:intron | 30.0% | |
| AAAAACACACGAAAAAGAGA+AGG | - | chr1_3:12966260-12966279 | Msa0104800:intron | 30.0% | |
| ACGAAAAAGAGAAGGAATTA+GGG | - | chr1_3:12966268-12966287 | Msa0104800:intron | 30.0% | |
| GATAAGAAGAATATTGACAG+TGG | - | chr1_3:12966305-12966324 | Msa0104800:intron | 30.0% | |
| TTAGATGATCCCAAAGAAAT+TGG | + | chr1_3:12966356-12966375 | None:intergenic | 30.0% | |
| CATTGCTTTAACATTGTAGT+AGG | - | chr1_3:12967246-12967265 | Msa0104800:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_3 | gene | 12965664 | 12970301 | 12965664 | ID=Msa0104800;Name=Msa0104800 |
| chr1_3 | mRNA | 12965664 | 12970301 | 12965664 | ID=Msa0104800-mRNA-1;Parent=Msa0104800;Name=Msa0104800-mRNA-1;_AED=0.24;_eAED=0.24;_QI=230|0|0.5|0.5|1|1|2|0|292 |
| chr1_3 | exon | 12965664 | 12965814 | 12965664 | ID=Msa0104800-mRNA-1:exon:5068;Parent=Msa0104800-mRNA-1 |
| chr1_3 | exon | 12969344 | 12970301 | 12969344 | ID=Msa0104800-mRNA-1:exon:5067;Parent=Msa0104800-mRNA-1 |
| chr1_3 | five_prime_UTR | 12970072 | 12970301 | 12970072 | ID=Msa0104800-mRNA-1:five_prime_utr;Parent=Msa0104800-mRNA-1 |
| chr1_3 | CDS | 12969344 | 12970071 | 12969344 | ID=Msa0104800-mRNA-1:cds;Parent=Msa0104800-mRNA-1 |
| chr1_3 | CDS | 12965664 | 12965814 | 12965664 | ID=Msa0104800-mRNA-1:cds;Parent=Msa0104800-mRNA-1 |
| Gene Sequence |
>Msa0104800 ATGCTTGATCCACGAAGATACCATTACCAACCCACAATTTCTTTTCCAGTTTCTGATGATAGAATACAACAAAAAACTCATACCAACAATAACAATAGTGTTACCAAAAACTACAATCATCATGGTCATGTTGAAGATGAACCTGGTATGTGTTCTCCACCTTTATGGACAACAAAGAGTAAAAGCAACAACTATAGAAGTCTTTCACCTGAATCAAAGACACAAGCCATTGAAAGAGGTCAAAGAGAGTTAATGGAAATGGTTAAGAACATGCCAGAATCAAGCTATGAACTTACTTTGAAAGATCTTGTTGAGGAACATCATGTTGAAGAAAATAACAAGGTAAAAGAGAGAAATTTGAGCAACAAAAACACACGAAAAAGAGAAGGAATTAGGGCTAGTAGAAATATGGATAAGAAGAATATTGACAGTGGAGGGCTTTATTTGAAAATGATTTTTCCAATTTCTTTGGGATCATCTAAGAAACATGATAAGAAGAAAGAGTTATTGGTTAGTAATAAAAGTAGTAGTAATTCAAAGGTTTCACCAAGAGCATCTGTTTCTGATGGATCTGTTAGTAAGGATTGGTGGAAGAAGAAACTGGGGAGTAGTGGTTCAGAATGTGGAGGTGATCAAAGTGATCATAGTGGTGTATCTAGCATGAGTGGTAGCATCAAAAGATATGGTAGTAGCAGAACCAGTAGTTGTAGCAGCAGGAGTAATAGCAGGAAAAAATGTACTACTGATCGTGGAGATATCATGGATTGTGACGTTCCTTTGGAAAAAGACAAAACTGATCAGATGATCTTTAGAGCGTTGACCATTGACTTGATCCTTCAAAGCTTTGTATTCATGTCAGAGCTTGGCTACATAACTTGA |
| Protein sequence |
>Msa0104800 MLDPRRYHYQPTISFPVSDDRIQQKTHTNNNNSVTKNYNHHGHVEDEPGMCSPPLWTTKSKSNNYRSLSPESKTQAIERGQRELMEMVKNMPESSYELTLKDLVEEHHVEENNKVKERNLSNKNTRKREGIRASRNMDKKNIDSGGLYLKMIFPISLGSSKKHDKKKELLVSNKSSSNSKVSPRASVSDGSVSKDWWKKKLGSSGSECGGDQSDHSGVSSMSGSIKRYGSSRTSSCSSRSNSRKKCTTDRGDIMDCDVPLEKDKTDQMIFRALTIDLILQSFVFMSELGYIT* |
