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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0153850 | XP_013466815.1 | 93.590 | 78 | 5 | 0 | 1 | 78 | 1 | 78 | 1.47e-41 | 149 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0153850 | A0A072VH10 | 93.590 | 78 | 5 | 0 | 1 | 78 | 1 | 78 | 7.02e-42 | 149 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0107390 | Msa0153850 | 0.863013 | 3.368861e-64 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0153850 | MtrunA17_Chr1g0163601 | 93.590 | 78 | 5 | 0 | 1 | 78 | 1 | 78 | 1.35e-45 | 149 |
| Msa0153850 | MtrunA17_Chr1g0163611 | 88.462 | 78 | 9 | 0 | 1 | 78 | 1 | 78 | 2.38e-42 | 140 |
| Msa0153850 | MtrunA17_Chr1g0163621 | 85.897 | 78 | 10 | 1 | 1 | 78 | 16 | 92 | 2.05e-31 | 112 |
| Msa0153850 | MtrunA17_Chr1g0170931 | 85.965 | 57 | 8 | 0 | 22 | 78 | 5 | 61 | 2.86e-30 | 103 |
| Msa0153850 | MtrunA17_Chr7g0218131 | 48.052 | 77 | 36 | 2 | 3 | 78 | 5 | 78 | 2.51e-14 | 65.9 |
| Msa0153850 | MtrunA17_Chr7g0218211 | 45.455 | 77 | 38 | 2 | 3 | 78 | 4 | 77 | 1.39e-13 | 63.9 |
| Msa0153850 | MtrunA17_Chr7g0218261 | 45.455 | 77 | 38 | 2 | 3 | 78 | 4 | 77 | 2.59e-13 | 63.2 |
| Msa0153850 | MtrunA17_Chr1g0200491 | 47.297 | 74 | 34 | 3 | 5 | 75 | 7 | 78 | 3.33e-11 | 57.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 5 sgRNAs with CRISPR-Local
Find 74 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CACAATTCAGGGTGTTGATT+TGG | 0.275738 | 1_4:+17760225 | None:intergenic |
| GGATAAAATATACACAATTC+AGG | 0.323222 | 1_4:+17760213 | None:intergenic |
| ACAGCAGCATTTAGTATTGC+AGG | 0.368682 | 1_4:+17760336 | None:intergenic |
| GATAAAATATACACAATTCA+GGG | 0.523101 | 1_4:+17760214 | None:intergenic |
| AAATAATCTTGCTACTAATG+AGG | 0.564642 | 1_4:-17760418 | Msa0153850:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAAATTTTAAATAAATTTAA+CGG | + | chr1_4:17760338-17760357 | None:intergenic | 0.0% |
| !!! | AAAATTTTAAATAAATTTAA+CGG | + | chr1_4:17760338-17760357 | None:intergenic | 0.0% |
| !!! | TTCTCTAAAATAATTTTAGA+GGG | + | chr1_4:17759624-17759643 | None:intergenic | 15.0% |
| !!! | TTTCTCTAAAATAATTTTAG+AGG | + | chr1_4:17759625-17759644 | None:intergenic | 15.0% |
| !!! | TAAGTTGAATATAAAATCAA+AGG | - | chr1_4:17759694-17759713 | Msa0153850:intron | 15.0% |
| !!! | TCTATCTTTTGTAAATAATT+CGG | + | chr1_4:17759742-17759761 | None:intergenic | 15.0% |
| !! | TATTAATGACTTTAATCTTT+AGG | + | chr1_4:17759774-17759793 | None:intergenic | 15.0% |
| !!! | TTCTCTAAAATAATTTTAGA+GGG | + | chr1_4:17759624-17759643 | None:intergenic | 15.0% |
| !!! | TTTCTCTAAAATAATTTTAG+AGG | + | chr1_4:17759625-17759644 | None:intergenic | 15.0% |
| !!! | TAAGTTGAATATAAAATCAA+AGG | - | chr1_4:17759694-17759713 | Msa0153850:intron | 15.0% |
| !!! | TCTATCTTTTGTAAATAATT+CGG | + | chr1_4:17759742-17759761 | None:intergenic | 15.0% |
| !! | TATTAATGACTTTAATCTTT+AGG | + | chr1_4:17759774-17759793 | None:intergenic | 15.0% |
| !! | TTAATGATTATTTAATTCGT+TGG | + | chr1_4:17760095-17760114 | None:intergenic | 15.0% |
| !!! | ACTTTTGTACATAATTATTT+TGG | + | chr1_4:17760139-17760158 | None:intergenic | 15.0% |
| !!! | TTCTCTAAAATAATTTTAGA+GGG | + | chr1_4:17759624-17759643 | None:intergenic | 15.0% |
| !!! | TTTCTCTAAAATAATTTTAG+AGG | + | chr1_4:17759625-17759644 | None:intergenic | 15.0% |
| !!! | TAAGTTGAATATAAAATCAA+AGG | - | chr1_4:17759694-17759713 | Msa0153850:intron | 15.0% |
| !!! | TCTATCTTTTGTAAATAATT+CGG | + | chr1_4:17759742-17759761 | None:intergenic | 15.0% |
| !! | TATTAATGACTTTAATCTTT+AGG | + | chr1_4:17759774-17759793 | None:intergenic | 15.0% |
| !!! | TTCTCTAAAATAATTTTAGA+GGG | + | chr1_4:17759624-17759643 | None:intergenic | 15.0% |
| !!! | TTTCTCTAAAATAATTTTAG+AGG | + | chr1_4:17759625-17759644 | None:intergenic | 15.0% |
| !!! | TAAGTTGAATATAAAATCAA+AGG | - | chr1_4:17759694-17759713 | Msa0153850:intron | 15.0% |
| !!! | TCTATCTTTTGTAAATAATT+CGG | + | chr1_4:17759742-17759761 | None:intergenic | 15.0% |
| !! | TATTAATGACTTTAATCTTT+AGG | + | chr1_4:17759774-17759793 | None:intergenic | 15.0% |
| !! | TTAATGATTATTTAATTCGT+TGG | + | chr1_4:17760095-17760114 | None:intergenic | 15.0% |
| !!! | ACTTTTGTACATAATTATTT+TGG | + | chr1_4:17760139-17760158 | None:intergenic | 15.0% |
| !!! | AAGATTATTTTGCTTAGTAT+TGG | + | chr1_4:17759385-17759404 | None:intergenic | 20.0% |
| !!! | CATTGTTATTATGTTTTAGT+AGG | - | chr1_4:17759448-17759467 | Msa0153850:intron | 20.0% |
| !! | GATAAAATATACACAATTCA+GGG | + | chr1_4:17759602-17759621 | None:intergenic | 20.0% |
| !! | TGTATATAATTTAGAAAGAG+TGG | + | chr1_4:17760163-17760182 | None:intergenic | 20.0% |
| !!! | AAGATTATTTTGCTTAGTAT+TGG | + | chr1_4:17759385-17759404 | None:intergenic | 20.0% |
| !!! | CATTGTTATTATGTTTTAGT+AGG | - | chr1_4:17759448-17759467 | Msa0153850:intron | 20.0% |
| !! | GATAAAATATACACAATTCA+GGG | + | chr1_4:17759602-17759621 | None:intergenic | 20.0% |
| !! | TGTATATAATTTAGAAAGAG+TGG | + | chr1_4:17760163-17760182 | None:intergenic | 20.0% |
| ! | AAATAATCTTGCTACTAATG+AGG | - | chr1_4:17759395-17759414 | Msa0153850:intron | 25.0% |
| ! | GGATAAAATATACACAATTC+AGG | + | chr1_4:17759603-17759622 | None:intergenic | 25.0% |
| ! | AATCAATAGTGAATCAGTTA+TGG | - | chr1_4:17760113-17760132 | Msa0153850:intron | 25.0% |
| !! | GTCTTTTGTGTAGAATATTA+TGG | - | chr1_4:17760273-17760292 | Msa0153850:CDS | 25.0% |
| ! | AAATAATCTTGCTACTAATG+AGG | - | chr1_4:17759395-17759414 | Msa0153850:intron | 25.0% |
| ! | GGATAAAATATACACAATTC+AGG | + | chr1_4:17759603-17759622 | None:intergenic | 25.0% |
| ! | AATCAATAGTGAATCAGTTA+TGG | - | chr1_4:17760113-17760132 | Msa0153850:intron | 25.0% |
| !! | GTCTTTTGTGTAGAATATTA+TGG | - | chr1_4:17760273-17760292 | Msa0153850:CDS | 25.0% |
| CAAGCTCAAAAAAAAAAGGA+TGG | + | chr1_4:17760192-17760211 | None:intergenic | 30.0% | |
| CAAGCTCAAAAAAAAAAGGA+TGG | + | chr1_4:17760192-17760211 | None:intergenic | 30.0% | |
| !!! | CCTTTTTTTTTTGAGCTTGC+CGG | - | chr1_4:17760193-17760212 | Msa0153850:intron | 35.0% |
| ATGTCATTCACTTAGTGGAA+GGG | + | chr1_4:17760219-17760238 | None:intergenic | 35.0% | |
| AATATTCTCCCCACTTTCAA+GGG | + | chr1_4:17760245-17760264 | None:intergenic | 35.0% | |
| !!! | CCTTTTTTTTTTGAGCTTGC+CGG | - | chr1_4:17760193-17760212 | Msa0153850:intron | 35.0% |
| ATGTCATTCACTTAGTGGAA+GGG | + | chr1_4:17760219-17760238 | None:intergenic | 35.0% | |
| AATATTCTCCCCACTTTCAA+GGG | + | chr1_4:17760245-17760264 | None:intergenic | 35.0% | |
| ACAGCAGCATTTAGTATTGC+AGG | + | chr1_4:17759480-17759499 | None:intergenic | 40.0% | |
| !! | CACAATTCAGGGTGTTGATT+TGG | + | chr1_4:17759591-17759610 | None:intergenic | 40.0% |
| ATTGACGTCTCTTCTTCTCT+TGG | + | chr1_4:17760005-17760024 | None:intergenic | 40.0% | |
| CCGGCAAGCTCAAAAAAAAA+AGG | + | chr1_4:17760196-17760215 | None:intergenic | 40.0% | |
| CATGTCATTCACTTAGTGGA+AGG | + | chr1_4:17760220-17760239 | None:intergenic | 40.0% | |
| GAATATTCTCCCCACTTTCA+AGG | + | chr1_4:17760246-17760265 | None:intergenic | 40.0% | |
| ACAGCAGCATTTAGTATTGC+AGG | + | chr1_4:17759480-17759499 | None:intergenic | 40.0% | |
| !! | CACAATTCAGGGTGTTGATT+TGG | + | chr1_4:17759591-17759610 | None:intergenic | 40.0% |
| ATTGACGTCTCTTCTTCTCT+TGG | + | chr1_4:17760005-17760024 | None:intergenic | 40.0% | |
| CCGGCAAGCTCAAAAAAAAA+AGG | + | chr1_4:17760196-17760215 | None:intergenic | 40.0% | |
| CATGTCATTCACTTAGTGGA+AGG | + | chr1_4:17760220-17760239 | None:intergenic | 40.0% | |
| GAATATTCTCCCCACTTTCA+AGG | + | chr1_4:17760246-17760265 | None:intergenic | 40.0% | |
| GGCACATGTCATTCACTTAG+TGG | + | chr1_4:17760224-17760243 | None:intergenic | 45.0% | |
| ATGACATGTGCCCTTGAAAG+TGG | - | chr1_4:17760232-17760251 | Msa0153850:CDS | 45.0% | |
| TGACATGTGCCCTTGAAAGT+GGG | - | chr1_4:17760233-17760252 | Msa0153850:CDS | 45.0% | |
| GGCACATGTCATTCACTTAG+TGG | + | chr1_4:17760224-17760243 | None:intergenic | 45.0% | |
| ATGACATGTGCCCTTGAAAG+TGG | - | chr1_4:17760232-17760251 | Msa0153850:CDS | 45.0% | |
| TGACATGTGCCCTTGAAAGT+GGG | - | chr1_4:17760233-17760252 | Msa0153850:CDS | 45.0% | |
| !! | AATTAATGATTAAATAAAAT+AGG | + | chr1_4:17760401-17760420 | None:intergenic | 5.0% |
| !! | AATTAATGATTAAATAAAAT+AGG | + | chr1_4:17760401-17760420 | None:intergenic | 5.0% |
| CATTCACTTAGTGGAAGGGC+CGG | + | chr1_4:17760215-17760234 | None:intergenic | 50.0% | |
| GACATGTGCCCTTGAAAGTG+GGG | - | chr1_4:17760234-17760253 | Msa0153850:CDS | 50.0% | |
| CATTCACTTAGTGGAAGGGC+CGG | + | chr1_4:17760215-17760234 | None:intergenic | 50.0% | |
| GACATGTGCCCTTGAAAGTG+GGG | - | chr1_4:17760234-17760253 | Msa0153850:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_4 | gene | 17759375 | 17760460 | 17759375 | ID=Msa0153850;Name=Msa0153850 |
| chr1_4 | mRNA | 17759375 | 17760460 | 17759375 | ID=Msa0153850-mRNA-1;Parent=Msa0153850;Name=Msa0153850-mRNA-1;_AED=0.44;_eAED=0.44;_QI=0|0|0|0.5|0|1|2|0|82 |
| chr1_4 | exon | 17760228 | 17760460 | 17760228 | ID=Msa0153850-mRNA-1:exon:6688;Parent=Msa0153850-mRNA-1 |
| chr1_4 | exon | 17759375 | 17759390 | 17759375 | ID=Msa0153850-mRNA-1:exon:6687;Parent=Msa0153850-mRNA-1 |
| chr1_4 | CDS | 17760228 | 17760460 | 17760228 | ID=Msa0153850-mRNA-1:cds;Parent=Msa0153850-mRNA-1 |
| chr1_4 | CDS | 17759375 | 17759390 | 17759375 | ID=Msa0153850-mRNA-1:cds;Parent=Msa0153850-mRNA-1 |
| Gene Sequence |
| Protein sequence |
