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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0104310 | XP_013466331.1 | 86.667 | 45 | 6 | 0 | 1 | 45 | 132 | 176 | 1.96e-16 | 85.1 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0104310 | A0A072VF38 | 86.667 | 45 | 6 | 0 | 1 | 45 | 132 | 176 | 9.36e-17 | 85.1 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0059490 | Msa0104310 | 0.906240 | 1.832422e-80 | -8.615850e-47 |
| Msa0104310 | Msa0155090 | 0.904685 | 9.480787e-80 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0104310 | MtrunA17_Chr1g0158511 | 86.667 | 45 | 6 | 0 | 1 | 45 | 132 | 176 | 1.80e-20 | 85.1 |
| Msa0104310 | MtrunA17_Chr1g0158471 | 82.222 | 45 | 8 | 0 | 1 | 45 | 132 | 176 | 3.32e-18 | 78.6 |
| Msa0104310 | MtrunA17_Chr6g0467661 | 83.784 | 37 | 6 | 0 | 9 | 45 | 127 | 163 | 1.61e-14 | 68.2 |
| Msa0104310 | MtrunA17_Chr6g0467681 | 83.784 | 37 | 6 | 0 | 9 | 45 | 127 | 163 | 1.61e-14 | 68.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 22 sgRNAs with CRISPR-Local
Find 35 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACTGTGCTTGTTCTTGTATT+TGG | 0.207845 | 1_3:-11909071 | Msa0104310:CDS |
| TCAAATGCTGCCATATAAAT+TGG | 0.251703 | 1_3:+11909439 | None:intergenic |
| TTTCCGGTAGAATCTTATAA+TGG | 0.255392 | 1_3:-11909343 | Msa0104310:intron |
| GATTTCTTGTCCAATTTATA+TGG | 0.258801 | 1_3:-11909449 | Msa0104310:CDS |
| CTACCGGAAAATAACGAATA+AGG | 0.258983 | 1_3:+11909356 | None:intergenic |
| TAAAACTCGTTGAGACAATT+TGG | 0.292094 | 1_3:+11909381 | None:intergenic |
| TACCGGAAAATAACGAATAA+GGG | 0.363168 | 1_3:+11909357 | None:intergenic |
| TTCCGGTAGAATCTTATAAT+GGG | 0.375651 | 1_3:-11909342 | Msa0104310:intron |
| GGCAGCATTTGAGGACGATA+TGG | 0.387227 | 1_3:-11909428 | Msa0104310:CDS |
| AATTTATATGGCAGCATTTG+AGG | 0.412347 | 1_3:-11909437 | Msa0104310:CDS |
| GCTGCTCATCTCCATACATT+TGG | 0.414735 | 1_3:+11909479 | None:intergenic |
| TAATTTGTAGGTGCAATCAT+TGG | 0.424052 | 1_3:-11909098 | Msa0104310:intron |
| CAACCATGATAATGAGATTG+AGG | 0.430486 | 1_3:+11909303 | None:intergenic |
| CTCAATCTCATTATCATGGT+TGG | 0.430712 | 1_3:-11909302 | Msa0104310:CDS |
| CAAAAGGACTACCAAATGTA+TGG | 0.442461 | 1_3:-11909490 | None:intergenic |
| ACAATTTGGTGCAGAATACA+AGG | 0.496774 | 1_3:+11909395 | None:intergenic |
| AAACCTCAATCTCATTATCA+TGG | 0.529545 | 1_3:-11909306 | Msa0104310:CDS |
| ATAGGGCTTTAAAGCCAACT+AGG | 0.530383 | 1_3:-11908971 | Msa0104310:three_prime_UTR |
| TCTGCATAAGAGAACCTAGT+TGG | 0.547736 | 1_3:+11908957 | None:intergenic |
| AATGTATGGAGATGAGCAGC+AGG | 0.577317 | 1_3:-11909476 | Msa0104310:CDS |
| ACCGGAAAATAACGAATAAG+GGG | 0.603388 | 1_3:+11909358 | None:intergenic |
| TGAATGTATCTCACCTGCAG+AGG | 0.618845 | 1_3:+11909219 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATGTTGAATTATTAATTTGT+AGG | - | chr1_3:11909322-11909341 | Msa0104310:CDS | 15.0% |
| !!! | AAGAATTGAAAACTTTTTGA+AGG | - | chr1_3:11909435-11909454 | Msa0104310:CDS | 20.0% |
| !!! | AAAACTTTTTGAAGGATTAT+AGG | - | chr1_3:11909443-11909462 | Msa0104310:CDS | 20.0% |
| !!! | AAACTTTTTGAAGGATTATA+GGG | - | chr1_3:11909444-11909463 | Msa0104310:CDS | 20.0% |
| ! | GATTTCTTGTCCAATTTATA+TGG | - | chr1_3:11908983-11909002 | Msa0104310:three_prime_UTR | 25.0% |
| !!! | TTGGAAACAAATTTTGACAA+AGG | - | chr1_3:11909149-11909168 | Msa0104310:intron | 25.0% |
| ! | TTCACTTCAATACTTTCATT+TGG | - | chr1_3:11909232-11909251 | Msa0104310:intron | 25.0% |
| !!! | ACTTTCATTTGGTTTGATTT+TGG | - | chr1_3:11909243-11909262 | Msa0104310:CDS | 25.0% |
| !!! | CTTTCATTTGGTTTGATTTT+GGG | - | chr1_3:11909244-11909263 | Msa0104310:CDS | 25.0% |
| !!! | TTTCATTTGGTTTGATTTTG+GGG | - | chr1_3:11909245-11909264 | Msa0104310:CDS | 25.0% |
| !!! | TATGTAGCTGTGATTTTTTA+AGG | - | chr1_3:11909299-11909318 | Msa0104310:CDS | 25.0% |
| TCAAATGCTGCCATATAAAT+TGG | + | chr1_3:11908996-11909015 | None:intergenic | 30.0% | |
| AATTTATATGGCAGCATTTG+AGG | - | chr1_3:11908995-11909014 | Msa0104310:three_prime_UTR | 30.0% | |
| TAAAACTCGTTGAGACAATT+TGG | + | chr1_3:11909054-11909073 | None:intergenic | 30.0% | |
| TACCGGAAAATAACGAATAA+GGG | + | chr1_3:11909078-11909097 | None:intergenic | 30.0% | |
| TTTCCGGTAGAATCTTATAA+TGG | - | chr1_3:11909089-11909108 | Msa0104310:CDS | 30.0% | |
| TTCCGGTAGAATCTTATAAT+GGG | - | chr1_3:11909090-11909109 | Msa0104310:CDS | 30.0% | |
| AAACCTCAATCTCATTATCA+TGG | - | chr1_3:11909126-11909145 | Msa0104310:intron | 30.0% | |
| !! | AAGATTATTTTATCCTCTGC+AGG | - | chr1_3:11909200-11909219 | Msa0104310:intron | 30.0% |
| ! | TAATTTGTAGGTGCAATCAT+TGG | - | chr1_3:11909334-11909353 | Msa0104310:CDS | 30.0% |
| !! | ACAATTTGGTGCAGAATACA+AGG | + | chr1_3:11909040-11909059 | None:intergenic | 35.0% |
| !! | ACCCCTTATTCGTTATTTTC+CGG | - | chr1_3:11909073-11909092 | Msa0104310:CDS | 35.0% |
| ACCGGAAAATAACGAATAAG+GGG | + | chr1_3:11909077-11909096 | None:intergenic | 35.0% | |
| CTACCGGAAAATAACGAATA+AGG | + | chr1_3:11909079-11909098 | None:intergenic | 35.0% | |
| AGCCCATTATAAGATTCTAC+CGG | + | chr1_3:11909095-11909114 | None:intergenic | 35.0% | |
| ! | CAACCATGATAATGAGATTG+AGG | + | chr1_3:11909132-11909151 | None:intergenic | 35.0% |
| CTCAATCTCATTATCATGGT+TGG | - | chr1_3:11909130-11909149 | Msa0104310:intron | 35.0% | |
| !!! | ATTTGGTTTGATTTTGGGGT+TGG | - | chr1_3:11909249-11909268 | Msa0104310:CDS | 35.0% |
| ACTGTGCTTGTTCTTGTATT+TGG | - | chr1_3:11909361-11909380 | Msa0104310:CDS | 35.0% | |
| !! | ATAGGGCTTTAAAGCCAACT+AGG | - | chr1_3:11909461-11909480 | Msa0104310:CDS | 40.0% |
| TCTGCATAAGAGAACCTAGT+TGG | + | chr1_3:11909478-11909497 | None:intergenic | 40.0% | |
| GCTGCTCATCTCCATACATT+TGG | + | chr1_3:11908956-11908975 | None:intergenic | 45.0% | |
| AATGTATGGAGATGAGCAGC+AGG | - | chr1_3:11908956-11908975 | Msa0104310:three_prime_UTR | 45.0% | |
| TGAATGTATCTCACCTGCAG+AGG | + | chr1_3:11909216-11909235 | None:intergenic | 45.0% | |
| GGCAGCATTTGAGGACGATA+TGG | - | chr1_3:11909004-11909023 | Msa0104310:three_prime_UTR | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_3 | gene | 11908948 | 11909506 | 11908948 | ID=Msa0104310;Name=Msa0104310 |
| chr1_3 | mRNA | 11908948 | 11909506 | 11908948 | ID=Msa0104310-mRNA-1;Parent=Msa0104310;Name=Msa0104310-mRNA-1;_AED=0.34;_eAED=0.34;_QI=0|0.5|0.33|1|0.5|0|3|88|114 |
| chr1_3 | exon | 11908948 | 11909110 | 11908948 | ID=Msa0104310-mRNA-1:exon:4878;Parent=Msa0104310-mRNA-1 |
| chr1_3 | exon | 11909233 | 11909355 | 11909233 | ID=Msa0104310-mRNA-1:exon:4877;Parent=Msa0104310-mRNA-1 |
| chr1_3 | exon | 11909360 | 11909506 | 11909360 | ID=Msa0104310-mRNA-1:exon:4876;Parent=Msa0104310-mRNA-1 |
| chr1_3 | CDS | 11909360 | 11909506 | 11909360 | ID=Msa0104310-mRNA-1:cds;Parent=Msa0104310-mRNA-1 |
| chr1_3 | CDS | 11909233 | 11909355 | 11909233 | ID=Msa0104310-mRNA-1:cds;Parent=Msa0104310-mRNA-1 |
| chr1_3 | CDS | 11909036 | 11909110 | 11909036 | ID=Msa0104310-mRNA-1:cds;Parent=Msa0104310-mRNA-1 |
| chr1_3 | three_prime_UTR | 11908948 | 11909035 | 11908948 | ID=Msa0104310-mRNA-1:three_prime_utr;Parent=Msa0104310-mRNA-1 |
| Gene Sequence |
| Protein sequence |
