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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1088560 | AES88847.1 | 59.341 | 182 | 71 | 2 | 1 | 179 | 1 | 182 | 1.34e-60 | 196 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1088560 | G7JTS8 | 59.341 | 182 | 71 | 2 | 1 | 179 | 1 | 182 | 6.42e-61 | 196 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1088560 | TF | C2H2 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1088560 | MtrunA17_Chr4g0031161 | 59.341 | 182 | 71 | 2 | 1 | 179 | 1 | 182 | 1.24e-64 | 196 |
| Msa1088560 | MtrunA17_Chr1g0187701 | 51.667 | 180 | 58 | 6 | 2 | 179 | 4 | 156 | 2.90e-46 | 149 |
| Msa1088560 | MtrunA17_Chr1g0187511 | 34.104 | 173 | 73 | 5 | 13 | 179 | 8 | 145 | 4.89e-20 | 81.6 |
| Msa1088560 | MtrunA17_Chr1g0187541 | 33.136 | 169 | 78 | 5 | 13 | 179 | 11 | 146 | 7.18e-17 | 73.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 32 sgRNAs with CRISPR-Local
Find 40 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACATTACTATTGGAAAATT+TGG | 0.112651 | 7_3:-1797749 | None:intergenic |
| GAAAATGGGTTGTCATTAAT+TGG | 0.221537 | 7_3:-1797652 | None:intergenic |
| ACAACCTCTCATGTCATCTT+TGG | 0.248681 | 7_3:+1797898 | Msa1088560:CDS |
| GAGCGAAATGAGACTGAAAA+TGG | 0.269352 | 7_3:-1797667 | None:intergenic |
| CAAAATGTGCAGGCAAAATA+AGG | 0.288111 | 7_3:-1797608 | None:intergenic |
| CAACCTCTCATGTCATCTTT+GGG | 0.292269 | 7_3:+1797899 | Msa1088560:CDS |
| GAGGGAACTTATGGAAGTTT+TGG | 0.297913 | 7_3:+1797776 | Msa1088560:CDS |
| TGCAAGAATTGATTTGTTAT+TGG | 0.301298 | 7_3:-1797851 | None:intergenic |
| CCCTCCATCAACATTACTAT+TGG | 0.305799 | 7_3:-1797758 | None:intergenic |
| GTACTCTTTGAGAGTTAATC+TGG | 0.323940 | 7_3:-1797718 | None:intergenic |
| ATGTTGATGGAGGGAACTTA+TGG | 0.372547 | 7_3:+1797767 | Msa1088560:CDS |
| GGTAAAGACTTCTCGTGATA+AGG | 0.409305 | 7_3:-1797697 | None:intergenic |
| ATCGGTTGGAGACACCTCTA+TGG | 0.420654 | 7_3:-1797987 | None:intergenic |
| TAAGATATATATCGACCAAC+TGG | 0.437521 | 7_3:+1798015 | Msa1088560:CDS |
| ACAAACACATTGTTATCGAT+TGG | 0.463185 | 7_3:-1798043 | None:intergenic |
| TATCGATTGGTTTATCCAGT+TGG | 0.481056 | 7_3:-1798030 | None:intergenic |
| GGTTGTCATTAATTGGTAGT+TGG | 0.481188 | 7_3:-1797645 | None:intergenic |
| ATTGGTAGTTGGTGAAAACT+TGG | 0.517484 | 7_3:-1797634 | None:intergenic |
| AGCAACCACCACAACAACCT+TGG | 0.526275 | 7_3:+1797816 | Msa1088560:CDS |
| TCCAATAGTAATGTTGATGG+AGG | 0.540613 | 7_3:+1797757 | Msa1088560:CDS |
| AACTTGGCTGCAAAATGTGC+AGG | 0.547777 | 7_3:-1797618 | None:intergenic |
| ATGTGCAGGCAAAATAAGGC+TGG | 0.570360 | 7_3:-1797604 | None:intergenic |
| CCAATAGTAATGTTGATGGA+GGG | 0.570777 | 7_3:+1797758 | Msa1088560:CDS |
| AGGCAAAATAAGGCTGGTTG+AGG | 0.574955 | 7_3:-1797598 | None:intergenic |
| TAGAGAAAATGCTGCCATAG+AGG | 0.582088 | 7_3:+1797973 | Msa1088560:CDS |
| AGCGAAATGAGACTGAAAAT+GGG | 0.587414 | 7_3:-1797666 | None:intergenic |
| GACATCAACCAAGGTTGTTG+TGG | 0.605926 | 7_3:-1797824 | None:intergenic |
| AACCTCTCATGTCATCTTTG+GGG | 0.617848 | 7_3:+1797900 | Msa1088560:CDS |
| AATTGGTGGAGCTACAAATG+AGG | 0.628180 | 7_3:-1797948 | None:intergenic |
| ATCAACCAAGGTTGTTGTGG+TGG | 0.645799 | 7_3:-1797821 | None:intergenic |
| ATTGGTTGAGACATCAACCA+AGG | 0.645904 | 7_3:-1797833 | None:intergenic |
| TTCCCCAAAGATGACATGAG+AGG | 0.655028 | 7_3:-1797902 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | GATATATATCTTAGTTTTAT+CGG | - | chr7_3:1798008-1798027 | None:intergenic | 15.0% |
| !! | AACATTACTATTGGAAAATT+TGG | - | chr7_3:1797752-1797771 | None:intergenic | 20.0% |
| !! | TTTTCCAATAGTAATGTTGA+TGG | + | chr7_3:1797754-1797773 | Msa1088560:CDS | 25.0% |
| !!! | TGCAAGAATTGATTTGTTAT+TGG | - | chr7_3:1797854-1797873 | None:intergenic | 25.0% |
| !!! | TATATCTTAGTTTTATCGGT+TGG | - | chr7_3:1798004-1798023 | None:intergenic | 25.0% |
| !! | GAAAATGGGTTGTCATTAAT+TGG | - | chr7_3:1797655-1797674 | None:intergenic | 30.0% |
| TAAGATATATATCGACCAAC+TGG | + | chr7_3:1798015-1798034 | Msa1088560:CDS | 30.0% | |
| ACAAACACATTGTTATCGAT+TGG | - | chr7_3:1798046-1798065 | None:intergenic | 30.0% | |
| CAAAATGTGCAGGCAAAATA+AGG | - | chr7_3:1797611-1797630 | None:intergenic | 35.0% | |
| !! | ATTGGTAGTTGGTGAAAACT+TGG | - | chr7_3:1797637-1797656 | None:intergenic | 35.0% |
| ! | GGTTGTCATTAATTGGTAGT+TGG | - | chr7_3:1797648-1797667 | None:intergenic | 35.0% |
| AGCGAAATGAGACTGAAAAT+GGG | - | chr7_3:1797669-1797688 | None:intergenic | 35.0% | |
| ! | GTACTCTTTGAGAGTTAATC+TGG | - | chr7_3:1797721-1797740 | None:intergenic | 35.0% |
| ! | TCCAATAGTAATGTTGATGG+AGG | + | chr7_3:1797757-1797776 | Msa1088560:CDS | 35.0% |
| ! | CCAATAGTAATGTTGATGGA+GGG | + | chr7_3:1797758-1797777 | Msa1088560:CDS | 35.0% |
| !! | GCATTTTCTCTAGAAATTGG+TGG | - | chr7_3:1797965-1797984 | None:intergenic | 35.0% |
| !! | GCAGCATTTTCTCTAGAAAT+TGG | - | chr7_3:1797968-1797987 | None:intergenic | 35.0% |
| !! | TATCGATTGGTTTATCCAGT+TGG | - | chr7_3:1798033-1798052 | None:intergenic | 35.0% |
| GTTGAGGATGAAAAACATGG+CGG | - | chr7_3:1797585-1797604 | None:intergenic | 40.0% | |
| CTGGTTGAGGATGAAAAACA+TGG | - | chr7_3:1797588-1797607 | None:intergenic | 40.0% | |
| GAGCGAAATGAGACTGAAAA+TGG | - | chr7_3:1797670-1797689 | None:intergenic | 40.0% | |
| GGTAAAGACTTCTCGTGATA+AGG | - | chr7_3:1797700-1797719 | None:intergenic | 40.0% | |
| CCCTCCATCAACATTACTAT+TGG | - | chr7_3:1797761-1797780 | None:intergenic | 40.0% | |
| ! | ATGTTGATGGAGGGAACTTA+TGG | + | chr7_3:1797767-1797786 | Msa1088560:CDS | 40.0% |
| ! | GAGGGAACTTATGGAAGTTT+TGG | + | chr7_3:1797776-1797795 | Msa1088560:CDS | 40.0% |
| !! | GGAACTTATGGAAGTTTTGG+TGG | + | chr7_3:1797779-1797798 | Msa1088560:CDS | 40.0% |
| ATTGGTTGAGACATCAACCA+AGG | - | chr7_3:1797836-1797855 | None:intergenic | 40.0% | |
| ACAACCTCTCATGTCATCTT+TGG | + | chr7_3:1797898-1797917 | Msa1088560:CDS | 40.0% | |
| CAACCTCTCATGTCATCTTT+GGG | + | chr7_3:1797899-1797918 | Msa1088560:CDS | 40.0% | |
| AACCTCTCATGTCATCTTTG+GGG | + | chr7_3:1797900-1797919 | Msa1088560:CDS | 40.0% | |
| AATTGGTGGAGCTACAAATG+AGG | - | chr7_3:1797951-1797970 | None:intergenic | 40.0% | |
| TAGAGAAAATGCTGCCATAG+AGG | + | chr7_3:1797973-1797992 | Msa1088560:CDS | 40.0% | |
| ! | AGGCAAAATAAGGCTGGTTG+AGG | - | chr7_3:1797601-1797620 | None:intergenic | 45.0% |
| ATGTGCAGGCAAAATAAGGC+TGG | - | chr7_3:1797607-1797626 | None:intergenic | 45.0% | |
| AACTTGGCTGCAAAATGTGC+AGG | - | chr7_3:1797621-1797640 | None:intergenic | 45.0% | |
| ATCAACCAAGGTTGTTGTGG+TGG | - | chr7_3:1797824-1797843 | None:intergenic | 45.0% | |
| GACATCAACCAAGGTTGTTG+TGG | - | chr7_3:1797827-1797846 | None:intergenic | 45.0% | |
| TTCCCCAAAGATGACATGAG+AGG | - | chr7_3:1797905-1797924 | None:intergenic | 45.0% | |
| AGCAACCACCACAACAACCT+TGG | + | chr7_3:1797816-1797835 | Msa1088560:CDS | 50.0% | |
| ATCGGTTGGAGACACCTCTA+TGG | - | chr7_3:1797990-1798009 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_3 | gene | 1797578 | 1798117 | 1797578 | ID=Msa1088560;Name=Msa1088560 |
| chr7_3 | mRNA | 1797578 | 1798117 | 1797578 | ID=Msa1088560-mRNA-1;Parent=Msa1088560;Name=Msa1088560-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|179 |
| chr7_3 | exon | 1797578 | 1798117 | 1797578 | ID=Msa1088560-mRNA-1:exon:695;Parent=Msa1088560-mRNA-1 |
| chr7_3 | CDS | 1797578 | 1798117 | 1797578 | ID=Msa1088560-mRNA-1:cds;Parent=Msa1088560-mRNA-1 |
| Gene Sequence |
| Protein sequence |
