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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0791880 | RHN38877.1 | 85.294 | 34 | 5 | 0 | 14 | 47 | 2 | 35 | 4.89e-11 | 62.8 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0791880 | A0A396GJD0 | 85.294 | 34 | 5 | 0 | 14 | 47 | 2 | 35 | 2.34e-11 | 62.8 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0014710 | Msa0791880 | 0.808072 | 3.706294e-50 | -8.615850e-47 |
| Msa0731940 | Msa0791880 | 0.801925 | 7.152464e-49 | -8.615850e-47 |
| Msa0756460 | Msa0791880 | 0.800474 | 1.417111e-48 | -8.615850e-47 |
| Msa0760130 | Msa0791880 | 0.811169 | 8.007569e-51 | -8.615850e-47 |
| Msa0768290 | Msa0791880 | 0.818272 | 2.136886e-52 | -8.615850e-47 |
| Msa0791880 | Msa0844490 | 0.812658 | 3.794393e-51 | -8.615850e-47 |
| Msa0791880 | Msa0857640 | 0.837805 | 4.183920e-57 | -8.615850e-47 |
| Msa0791880 | Msa0897330 | 0.803687 | 3.094439e-49 | -8.615850e-47 |
| Msa0791880 | Msa0899450 | 0.810293 | 1.239062e-50 | -8.615850e-47 |
| Msa0791880 | Msa0927380 | 0.846749 | 1.786368e-59 | -8.615850e-47 |
| Msa0791880 | Msa0964900 | 0.808550 | 2.931514e-50 | -8.615850e-47 |
| Msa0791880 | Msa0969520 | 0.801586 | 8.396206e-49 | -8.615850e-47 |
| Msa0791880 | Msa0974080 | 0.809586 | 1.759046e-50 | -8.615850e-47 |
| Msa0791880 | Msa1000860 | 0.802291 | 6.014611e-49 | -8.615850e-47 |
| Msa0791880 | Msa1035660 | 0.811512 | 6.745552e-51 | -8.615850e-47 |
| Msa0791880 | Msa1075540 | 0.800837 | 1.195035e-48 | -8.615850e-47 |
| Msa0791880 | Msa1121490 | 0.810808 | 9.588617e-51 | -8.615850e-47 |
| Msa0791880 | Msa1137570 | 0.802614 | 5.161128e-49 | -8.615850e-47 |
| Msa0791880 | Msa1144750 | 0.803646 | 3.155711e-49 | -8.615850e-47 |
| Msa0791880 | Msa1238930 | 0.806407 | 8.348751e-50 | -8.615850e-47 |
| Msa0791880 | Msa1306850 | 0.816633 | 4.999868e-52 | -8.615850e-47 |
| Msa0791880 | Msa1312600 | 0.971220 | 8.027255e-133 | -8.615850e-47 |
| Msa0791880 | Msa1366810 | 0.818870 | 1.564073e-52 | -8.615850e-47 |
| Msa0791880 | Msa1372760 | 0.801123 | 1.044662e-48 | -8.615850e-47 |
| Msa0180500 | Msa0791880 | 0.816500 | 5.355667e-52 | -8.615850e-47 |
| Msa0395790 | Msa0791880 | 0.801960 | 7.035576e-49 | -8.615850e-47 |
| Msa0278110 | Msa0791880 | 0.838602 | 2.608616e-57 | -8.615850e-47 |
| Msa0342750 | Msa0791880 | 0.821032 | 5.009962e-53 | -8.615850e-47 |
| Msa0519000 | Msa0791880 | 0.801884 | 7.292435e-49 | -8.615850e-47 |
| Msa0523940 | Msa0791880 | 0.814489 | 1.501407e-51 | -8.615850e-47 |
PPI
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0791880 | MtrunA17_Chr8g0337861 | 85.294 | 34 | 5 | 0 | 14 | 47 | 2 | 35 | 4.50e-15 | 62.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 10 sgRNAs with CRISPR-Local
Find 28 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAAAGAAAGAATTTCTTTAT+TGG | 0.214013 | 5_3:+2956122 | None:intergenic |
| GCTGACAGCAGGCACCTTAA+TGG | 0.317250 | 5_3:+2955791 | None:intergenic |
| ATTTGAAGAGGTAATTCTTA+TGG | 0.332903 | 5_3:-2955922 | Msa0791880:intron |
| TAGAGTGAATAAATCCATTA+AGG | 0.355227 | 5_3:-2955805 | Msa0791880:CDS |
| CAGAATTTGAGGGAGGGGAG+TGG | 0.461437 | 5_3:-2955978 | Msa0791880:CDS |
| GCAAGCTTGTTGCTGACAGC+AGG | 0.508948 | 5_3:+2955780 | None:intergenic |
| CACACAAGGGAGACAGAGAA+AGG | 0.552098 | 5_3:+2956093 | None:intergenic |
| TGCTGTCAGCAACAAGCTTG+CGG | 0.563126 | 5_3:-2955778 | Msa0791880:CDS |
| TGAGAAGGAGAAATTTGAAG+AGG | 0.591853 | 5_3:-2955934 | Msa0791880:CDS |
| AAATCATGTGCAAAATGAGA+AGG | 0.599565 | 5_3:-2955949 | Msa0791880:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTCTATAGTTATCTTTTTT+TGG | - | chr5_3:2955868-2955887 | Msa0791880:intron | 15.0% |
| !! | CAAAGAAAGAATTTCTTTAT+TGG | + | chr5_3:2955765-2955784 | None:intergenic | 20.0% |
| !!! | TATAGTTATCTTTTTTTGGT+AGG | - | chr5_3:2955872-2955891 | Msa0791880:intron | 20.0% |
| !!! | TATTTCTTTTTCAGAATTTG+AGG | - | chr5_3:2955895-2955914 | Msa0791880:intron | 20.0% |
| !!! | ATTTCTTTTTCAGAATTTGA+GGG | - | chr5_3:2955896-2955915 | Msa0791880:intron | 20.0% |
| !!! | GTTATTTTCTGTTACTTTAA+AGG | - | chr5_3:2955999-2956018 | Msa0791880:intron | 20.0% |
| ! | ACATAATTGAATTCACACAA+GGG | + | chr5_3:2955807-2955826 | None:intergenic | 25.0% |
| ! | ATTCAATTATGTCCTTGATT+TGG | - | chr5_3:2955815-2955834 | Msa0791880:intron | 25.0% |
| ! | ATTTGAAGAGGTAATTCTTA+TGG | - | chr5_3:2955962-2955981 | Msa0791880:CDS | 25.0% |
| ! | TAGAGTGAATAAATCCATTA+AGG | - | chr5_3:2956079-2956098 | Msa0791880:intron | 25.0% |
| GACATAATTGAATTCACACA+AGG | + | chr5_3:2955808-2955827 | None:intergenic | 30.0% | |
| AAATGAAATCCACCAAATCA+AGG | + | chr5_3:2955830-2955849 | None:intergenic | 30.0% | |
| !! | ATTTGGTGGATTTCATTTCT+TGG | - | chr5_3:2955832-2955851 | Msa0791880:intron | 30.0% |
| AAATCATGTGCAAAATGAGA+AGG | - | chr5_3:2955935-2955954 | Msa0791880:CDS | 30.0% | |
| !! | CAATTATGTCCTTGATTTGG+TGG | - | chr5_3:2955818-2955837 | Msa0791880:intron | 35.0% |
| !! | CATTTCTTGGTTTGTGACTA+TGG | - | chr5_3:2955845-2955864 | Msa0791880:intron | 35.0% |
| !!! | TCTTTTTCAGAATTTGAGGG+AGG | - | chr5_3:2955899-2955918 | Msa0791880:intron | 35.0% |
| !!! | CTTTTTCAGAATTTGAGGGA+GGG | - | chr5_3:2955900-2955919 | Msa0791880:intron | 35.0% |
| !! | TTTTTCAGAATTTGAGGGAG+GGG | - | chr5_3:2955901-2955920 | Msa0791880:intron | 35.0% |
| ! | CTCATTTTGCACATGATTTG+AGG | + | chr5_3:2955934-2955953 | None:intergenic | 35.0% |
| TGAGAAGGAGAAATTTGAAG+AGG | - | chr5_3:2955950-2955969 | Msa0791880:CDS | 35.0% | |
| TAACTTGACGTGTTCTTGAC+AGG | - | chr5_3:2956051-2956070 | Msa0791880:intron | 40.0% | |
| !! | TTATAAATATCATATTATTA+CGG | + | chr5_3:2956034-2956053 | None:intergenic | 5.0% |
| CACACAAGGGAGACAGAGAA+AGG | + | chr5_3:2955794-2955813 | None:intergenic | 50.0% | |
| TGCTGTCAGCAACAAGCTTG+CGG | - | chr5_3:2956106-2956125 | Msa0791880:CDS | 50.0% | |
| CAGAATTTGAGGGAGGGGAG+TGG | - | chr5_3:2955906-2955925 | Msa0791880:intron | 55.0% | |
| GCTGACAGCAGGCACCTTAA+TGG | + | chr5_3:2956096-2956115 | None:intergenic | 55.0% | |
| !! | GCAAGCTTGTTGCTGACAGC+AGG | + | chr5_3:2956107-2956126 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_3 | gene | 2955758 | 2956148 | 2955758 | ID=Msa0791880;Name=Msa0791880 |
| chr5_3 | mRNA | 2955758 | 2956148 | 2955758 | ID=Msa0791880-mRNA-1;Parent=Msa0791880;Name=Msa0791880-mRNA-1;_AED=0.59;_eAED=0.59;_QI=0|0|0|0.33|0|0|3|0|70 |
| chr5_3 | exon | 2956098 | 2956148 | 2956098 | ID=Msa0791880-mRNA-1:exon:1261;Parent=Msa0791880-mRNA-1 |
| chr5_3 | exon | 2955923 | 2956012 | 2955923 | ID=Msa0791880-mRNA-1:exon:1260;Parent=Msa0791880-mRNA-1 |
| chr5_3 | exon | 2955758 | 2955829 | 2955758 | ID=Msa0791880-mRNA-1:exon:1259;Parent=Msa0791880-mRNA-1 |
| chr5_3 | CDS | 2956098 | 2956148 | 2956098 | ID=Msa0791880-mRNA-1:cds;Parent=Msa0791880-mRNA-1 |
| chr5_3 | CDS | 2955923 | 2956012 | 2955923 | ID=Msa0791880-mRNA-1:cds;Parent=Msa0791880-mRNA-1 |
| chr5_3 | CDS | 2955758 | 2955829 | 2955758 | ID=Msa0791880-mRNA-1:cds;Parent=Msa0791880-mRNA-1 |
| Gene Sequence |
| Protein sequence |
