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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1287330 | KEH19588.1 | 83.333 | 120 | 15 | 1 | 13 | 127 | 16 | 135 | 5.29e-62 | 196 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1287330 | sp|P24941|CDK2_HUMAN | 32.031 | 128 | 77 | 2 | 4 | 125 | 37 | 160 | 1.36e-14 | 71.2 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1287330 | A0A072TRV9 | 83.333 | 120 | 15 | 1 | 13 | 127 | 16 | 135 | 2.53e-62 | 196 |
| Gene ID | Type | Classification |
|---|
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1287330 | MtrunA17_Chr8g0360761 | 89.831 | 59 | 6 | 0 | 13 | 71 | 16 | 74 | 1.05e-32 | 113 |
| Msa1287330 | MtrunA17_Chr2g0293491 | 28.125 | 128 | 83 | 3 | 4 | 125 | 37 | 161 | 4.67e-13 | 63.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 21 sgRNAs with CRISPR-Local
Find 96 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAGATTGACCCGACAATATT+GGG | 0.286282 | 8_3:-37246812 | None:intergenic |
| AAAGATTGACCCGACAATAT+TGG | 0.297856 | 8_3:-37246813 | None:intergenic |
| TCTGAAATCTAATAATATTC+TGG | 0.322462 | 8_3:+37247457 | Msa1287330:CDS |
| CTGTTATCTATTCAGATTGC+GGG | 0.392783 | 8_3:+37246987 | Msa1287330:intron |
| CATTTATTCATTAATAGAGT+AGG | 0.416373 | 8_3:-37247561 | None:intergenic |
| TTTCTGCGCGAAGCTCTCTC+TGG | 0.453710 | 8_3:+37247395 | Msa1287330:intron |
| TTAATAGAGTAGGGTGAAAG+AGG | 0.470772 | 8_3:-37247551 | None:intergenic |
| ATTTATTCATTAATAGAGTA+GGG | 0.477489 | 8_3:-37247560 | None:intergenic |
| TCGAAAACACGTCGCCAATC+CGG | 0.480236 | 8_3:+37247068 | Msa1287330:CDS |
| TTGGACCTCCCCAATATTGT+CGG | 0.500470 | 8_3:+37246803 | Msa1287330:CDS |
| ATTCAGATTGCGGGCAGTGA+TGG | 0.509163 | 8_3:+37246996 | Msa1287330:intron |
| TGGACCTCCCCAATATTGTC+GGG | 0.558796 | 8_3:+37246804 | Msa1287330:CDS |
| ATAGAGTAGGGTGAAAGAGG+AGG | 0.608366 | 8_3:-37247548 | None:intergenic |
| GCAGTGATGGAAACTGAGGA+TGG | 0.629963 | 8_3:+37247009 | Msa1287330:CDS |
| GACGCGATTTAAGATACTGT+GGG | 0.644333 | 8_3:-37246765 | None:intergenic |
| AGATTGACCCGACAATATTG+GGG | 0.646668 | 8_3:-37246811 | None:intergenic |
| AGACGCGATTTAAGATACTG+TGG | 0.654912 | 8_3:-37246766 | None:intergenic |
| CATATTCGCAAAATTCTACA+CGG | 0.662906 | 8_3:+37247431 | Msa1287330:CDS |
| GAAGCTATCTGACTTTAGTG+CGG | 0.690601 | 8_3:+37247511 | Msa1287330:CDS |
| TTGACCCGACAATATTGGGG+AGG | 0.695566 | 8_3:-37246808 | None:intergenic |
| GCGGGCAGTGATGGAAACTG+AGG | 0.730017 | 8_3:+37247005 | Msa1287330:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATAGCACATATAAAGATTAT+AGG | + | chr8_3:37246628-37246647 | Msa1287330:intron | 20.0% |
| !! | TAAAATCAATAAATGTGACA+AGG | - | chr8_3:37246889-37246908 | None:intergenic | 20.0% |
| !! | AATAGAAACGCAATAAATTA+TGG | - | chr8_3:37247212-37247231 | None:intergenic | 20.0% |
| !! | TTATATATTAGATGCAAACA+AGG | + | chr8_3:37247331-37247350 | Msa1287330:intron | 20.0% |
| !!! | TCTGAAATCTAATAATATTC+TGG | + | chr8_3:37247457-37247476 | Msa1287330:CDS | 20.0% |
| !! | ATAGCACATATAAAGATTAT+AGG | + | chr8_3:37246628-37246647 | Msa1287330:intron | 20.0% |
| !! | TAAAATCAATAAATGTGACA+AGG | - | chr8_3:37246889-37246908 | None:intergenic | 20.0% |
| !! | AATAGAAACGCAATAAATTA+TGG | - | chr8_3:37247212-37247231 | None:intergenic | 20.0% |
| !! | TTATATATTAGATGCAAACA+AGG | + | chr8_3:37247331-37247350 | Msa1287330:intron | 20.0% |
| !!! | TCTGAAATCTAATAATATTC+TGG | + | chr8_3:37247457-37247476 | Msa1287330:CDS | 20.0% |
| ! | AATTCCTGAATGATGAAATT+TGG | - | chr8_3:37246475-37246494 | None:intergenic | 25.0% |
| !! | TTTGGAATGTTTAAAAACTC+CGG | - | chr8_3:37247090-37247109 | None:intergenic | 25.0% |
| !! | AGTTTTTAAACATTCCAAAC+TGG | + | chr8_3:37247091-37247110 | Msa1287330:CDS | 25.0% |
| !!! | TATCTTTGTTTTCAACATCA+TGG | + | chr8_3:37247184-37247203 | Msa1287330:intron | 25.0% |
| ! | ATATCTTATAGTGCAAGAAA+AGG | + | chr8_3:37247234-37247253 | Msa1287330:intron | 25.0% |
| ! | AATTCCTGAATGATGAAATT+TGG | - | chr8_3:37246475-37246494 | None:intergenic | 25.0% |
| !! | TTTGGAATGTTTAAAAACTC+CGG | - | chr8_3:37247090-37247109 | None:intergenic | 25.0% |
| !! | AGTTTTTAAACATTCCAAAC+TGG | + | chr8_3:37247091-37247110 | Msa1287330:CDS | 25.0% |
| !!! | TATCTTTGTTTTCAACATCA+TGG | + | chr8_3:37247184-37247203 | Msa1287330:intron | 25.0% |
| ! | ATATCTTATAGTGCAAGAAA+AGG | + | chr8_3:37247234-37247253 | Msa1287330:intron | 25.0% |
| AGAACAGAGAATAAGTCTAT+AGG | - | chr8_3:37246540-37246559 | None:intergenic | 30.0% | |
| TCTGTTATCTATTCAGATTG+CGG | + | chr8_3:37246986-37247005 | Msa1287330:intron | 30.0% | |
| AATGTTTAAAAACTCCGGAT+TGG | - | chr8_3:37247085-37247104 | None:intergenic | 30.0% | |
| !!! | GACTTACTTTTTTTCCAGTT+TGG | - | chr8_3:37247108-37247127 | None:intergenic | 30.0% |
| CATATTCGCAAAATTCTACA+CGG | + | chr8_3:37247431-37247450 | Msa1287330:CDS | 30.0% | |
| AGAACAGAGAATAAGTCTAT+AGG | - | chr8_3:37246540-37246559 | None:intergenic | 30.0% | |
| TCTGTTATCTATTCAGATTG+CGG | + | chr8_3:37246986-37247005 | Msa1287330:intron | 30.0% | |
| AATGTTTAAAAACTCCGGAT+TGG | - | chr8_3:37247085-37247104 | None:intergenic | 30.0% | |
| !!! | GACTTACTTTTTTTCCAGTT+TGG | - | chr8_3:37247108-37247127 | None:intergenic | 30.0% |
| CATATTCGCAAAATTCTACA+CGG | + | chr8_3:37247431-37247450 | Msa1287330:CDS | 30.0% | |
| AGCTCCAAATTTCATCATTC+AGG | + | chr8_3:37246468-37246487 | Msa1287330:intron | 35.0% | |
| !! | GTTTTTGTGGTTTTCTGGAA+TGG | - | chr8_3:37246736-37246755 | None:intergenic | 35.0% |
| !!! | CCATTGTTTTTGTGGTTTTC+TGG | - | chr8_3:37246741-37246760 | None:intergenic | 35.0% |
| CCAGAAAACCACAAAAACAA+TGG | + | chr8_3:37246738-37246757 | Msa1287330:intron | 35.0% | |
| !!! | TGGGAAATCCATTGTTTTTG+TGG | - | chr8_3:37246749-37246768 | None:intergenic | 35.0% |
| AAGATTGACCCGACAATATT+GGG | - | chr8_3:37246815-37246834 | None:intergenic | 35.0% | |
| AAAGATTGACCCGACAATAT+TGG | - | chr8_3:37246816-37246835 | None:intergenic | 35.0% | |
| CTGTTATCTATTCAGATTGC+GGG | + | chr8_3:37246987-37247006 | Msa1287330:intron | 35.0% | |
| ! | CGTGTAGAATTTTGCGAATA+TGG | - | chr8_3:37247433-37247452 | None:intergenic | 35.0% |
| TTAATAGAGTAGGGTGAAAG+AGG | - | chr8_3:37247554-37247573 | None:intergenic | 35.0% | |
| AGCTCCAAATTTCATCATTC+AGG | + | chr8_3:37246468-37246487 | Msa1287330:intron | 35.0% | |
| !! | GTTTTTGTGGTTTTCTGGAA+TGG | - | chr8_3:37246736-37246755 | None:intergenic | 35.0% |
| !!! | CCATTGTTTTTGTGGTTTTC+TGG | - | chr8_3:37246741-37246760 | None:intergenic | 35.0% |
| CCAGAAAACCACAAAAACAA+TGG | + | chr8_3:37246738-37246757 | Msa1287330:intron | 35.0% | |
| !!! | TGGGAAATCCATTGTTTTTG+TGG | - | chr8_3:37246749-37246768 | None:intergenic | 35.0% |
| AAGATTGACCCGACAATATT+GGG | - | chr8_3:37246815-37246834 | None:intergenic | 35.0% | |
| AAAGATTGACCCGACAATAT+TGG | - | chr8_3:37246816-37246835 | None:intergenic | 35.0% | |
| CTGTTATCTATTCAGATTGC+GGG | + | chr8_3:37246987-37247006 | Msa1287330:intron | 35.0% | |
| ! | CGTGTAGAATTTTGCGAATA+TGG | - | chr8_3:37247433-37247452 | None:intergenic | 35.0% |
| TTAATAGAGTAGGGTGAAAG+AGG | - | chr8_3:37247554-37247573 | None:intergenic | 35.0% | |
| TATAGGCTGATAACTGCAGA+AGG | + | chr8_3:37246645-37246664 | Msa1287330:intron | 40.0% | |
| ACGTCCTCTTCGCTAAAAAT+CGG | - | chr8_3:37246696-37246715 | None:intergenic | 40.0% | |
| ! | GACGCGATTTAAGATACTGT+GGG | - | chr8_3:37246768-37246787 | None:intergenic | 40.0% |
| ! | AGACGCGATTTAAGATACTG+TGG | - | chr8_3:37246769-37246788 | None:intergenic | 40.0% |
| CGTCTCTATGCTCAAAAACT+TGG | + | chr8_3:37246784-37246803 | Msa1287330:CDS | 40.0% | |
| AGATTGACCCGACAATATTG+GGG | - | chr8_3:37246814-37246833 | None:intergenic | 40.0% | |
| GAAAAATCTGCAAGGACAAG+AGG | - | chr8_3:37247379-37247398 | None:intergenic | 40.0% | |
| GAAGCTATCTGACTTTAGTG+CGG | + | chr8_3:37247511-37247530 | Msa1287330:CDS | 40.0% | |
| TATAGGCTGATAACTGCAGA+AGG | + | chr8_3:37246645-37246664 | Msa1287330:intron | 40.0% | |
| ACGTCCTCTTCGCTAAAAAT+CGG | - | chr8_3:37246696-37246715 | None:intergenic | 40.0% | |
| ! | GACGCGATTTAAGATACTGT+GGG | - | chr8_3:37246768-37246787 | None:intergenic | 40.0% |
| ! | AGACGCGATTTAAGATACTG+TGG | - | chr8_3:37246769-37246788 | None:intergenic | 40.0% |
| CGTCTCTATGCTCAAAAACT+TGG | + | chr8_3:37246784-37246803 | Msa1287330:CDS | 40.0% | |
| AGATTGACCCGACAATATTG+GGG | - | chr8_3:37246814-37246833 | None:intergenic | 40.0% | |
| GAAAAATCTGCAAGGACAAG+AGG | - | chr8_3:37247379-37247398 | None:intergenic | 40.0% | |
| GAAGCTATCTGACTTTAGTG+CGG | + | chr8_3:37247511-37247530 | Msa1287330:CDS | 40.0% | |
| TGATAACTGCAGAAGGTGGA+AGG | + | chr8_3:37246652-37246671 | Msa1287330:intron | 45.0% | |
| !!! | CAAGCCGATTTTTAGCGAAG+AGG | + | chr8_3:37246689-37246708 | Msa1287330:intron | 45.0% |
| CGAAGAGGACGTAACTATCA+TGG | + | chr8_3:37246704-37246723 | Msa1287330:intron | 45.0% | |
| TTGGACCTCCCCAATATTGT+CGG | + | chr8_3:37246803-37246822 | Msa1287330:CDS | 45.0% | |
| CTGCAAGGACAAGAGGAAAA+TGG | - | chr8_3:37247372-37247391 | None:intergenic | 45.0% | |
| TTCGCGCAGAAAAATCTGCA+AGG | - | chr8_3:37247387-37247406 | None:intergenic | 45.0% | |
| ATAGAGTAGGGTGAAAGAGG+AGG | - | chr8_3:37247551-37247570 | None:intergenic | 45.0% | |
| TGATAACTGCAGAAGGTGGA+AGG | + | chr8_3:37246652-37246671 | Msa1287330:intron | 45.0% | |
| !!! | CAAGCCGATTTTTAGCGAAG+AGG | + | chr8_3:37246689-37246708 | Msa1287330:intron | 45.0% |
| CGAAGAGGACGTAACTATCA+TGG | + | chr8_3:37246704-37246723 | Msa1287330:intron | 45.0% | |
| TTGGACCTCCCCAATATTGT+CGG | + | chr8_3:37246803-37246822 | Msa1287330:CDS | 45.0% | |
| CTGCAAGGACAAGAGGAAAA+TGG | - | chr8_3:37247372-37247391 | None:intergenic | 45.0% | |
| TTCGCGCAGAAAAATCTGCA+AGG | - | chr8_3:37247387-37247406 | None:intergenic | 45.0% | |
| ATAGAGTAGGGTGAAAGAGG+AGG | - | chr8_3:37247551-37247570 | None:intergenic | 45.0% | |
| AGGCTGATAACTGCAGAAGG+TGG | + | chr8_3:37246648-37246667 | Msa1287330:intron | 50.0% | |
| TGGACCTCCCCAATATTGTC+GGG | + | chr8_3:37246804-37246823 | Msa1287330:CDS | 50.0% | |
| TTGACCCGACAATATTGGGG+AGG | - | chr8_3:37246811-37246830 | None:intergenic | 50.0% | |
| ATTCAGATTGCGGGCAGTGA+TGG | + | chr8_3:37246996-37247015 | Msa1287330:intron | 50.0% | |
| ! | GCAGTGATGGAAACTGAGGA+TGG | + | chr8_3:37247009-37247028 | Msa1287330:CDS | 50.0% |
| TCGAAAACACGTCGCCAATC+CGG | + | chr8_3:37247068-37247087 | Msa1287330:CDS | 50.0% | |
| AGGCTGATAACTGCAGAAGG+TGG | + | chr8_3:37246648-37246667 | Msa1287330:intron | 50.0% | |
| TGGACCTCCCCAATATTGTC+GGG | + | chr8_3:37246804-37246823 | Msa1287330:CDS | 50.0% | |
| TTGACCCGACAATATTGGGG+AGG | - | chr8_3:37246811-37246830 | None:intergenic | 50.0% | |
| ATTCAGATTGCGGGCAGTGA+TGG | + | chr8_3:37246996-37247015 | Msa1287330:intron | 50.0% | |
| ! | GCAGTGATGGAAACTGAGGA+TGG | + | chr8_3:37247009-37247028 | Msa1287330:CDS | 50.0% |
| TCGAAAACACGTCGCCAATC+CGG | + | chr8_3:37247068-37247087 | Msa1287330:CDS | 50.0% | |
| TTTCTGCGCGAAGCTCTCTC+TGG | + | chr8_3:37247395-37247414 | Msa1287330:intron | 55.0% | |
| TTTCTGCGCGAAGCTCTCTC+TGG | + | chr8_3:37247395-37247414 | Msa1287330:intron | 55.0% | |
| ! | GCGGGCAGTGATGGAAACTG+AGG | + | chr8_3:37247005-37247024 | Msa1287330:CDS | 60.0% |
| ! | GCGGGCAGTGATGGAAACTG+AGG | + | chr8_3:37247005-37247024 | Msa1287330:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_3 | gene | 37246443 | 37247580 | 37246443 | ID=Msa1287330;Name=Msa1287330 |
| chr8_3 | mRNA | 37246443 | 37247580 | 37246443 | ID=Msa1287330-mRNA-1;Parent=Msa1287330;Name=Msa1287330-mRNA-1;_AED=0.26;_eAED=0.30;_QI=0|0|0|0.75|0|0.25|4|0|128 |
| chr8_3 | exon | 37246443 | 37246453 | 37246443 | ID=Msa1287330-mRNA-1:exon:10772;Parent=Msa1287330-mRNA-1 |
| chr8_3 | exon | 37246742 | 37246825 | 37246742 | ID=Msa1287330-mRNA-1:exon:10773;Parent=Msa1287330-mRNA-1 |
| chr8_3 | exon | 37247002 | 37247120 | 37247002 | ID=Msa1287330-mRNA-1:exon:10774;Parent=Msa1287330-mRNA-1 |
| chr8_3 | exon | 37247408 | 37247580 | 37247408 | ID=Msa1287330-mRNA-1:exon:10775;Parent=Msa1287330-mRNA-1 |
| chr8_3 | CDS | 37246443 | 37246453 | 37246443 | ID=Msa1287330-mRNA-1:cds;Parent=Msa1287330-mRNA-1 |
| chr8_3 | CDS | 37246742 | 37246825 | 37246742 | ID=Msa1287330-mRNA-1:cds;Parent=Msa1287330-mRNA-1 |
| chr8_3 | CDS | 37247002 | 37247120 | 37247002 | ID=Msa1287330-mRNA-1:cds;Parent=Msa1287330-mRNA-1 |
| chr8_3 | CDS | 37247408 | 37247580 | 37247408 | ID=Msa1287330-mRNA-1:cds;Parent=Msa1287330-mRNA-1 |
| Gene Sequence |
| Protein sequence |
