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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0863790 | XP_024640932.1 | 94.805 | 77 | 4 | 0 | 1 | 77 | 1 | 77 | 2.72e-43 | 144 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0863790 | G7K4G3 | 92.105 | 76 | 6 | 0 | 2 | 77 | 1 | 76 | 2.57e-41 | 139 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0743670 | Msa0863790 | 0.887495 | 1.356963e-72 | -8.615850e-47 |
| Msa0784610 | Msa0863790 | 0.802355 | 5.835573e-49 | -8.615850e-47 |
| Msa0824740 | Msa0863790 | 0.868098 | 8.401997e-66 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0863790 | MtrunA17_Chr5g0445581 | 92.105 | 76 | 6 | 0 | 2 | 77 | 1 | 76 | 4.95e-45 | 139 |
| Msa0863790 | MtrunA17_Chr2g0290831 | 41.538 | 65 | 38 | 0 | 2 | 66 | 1 | 65 | 6.72e-11 | 52.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0863790 | AT4G05030.2 | 44.444 | 72 | 39 | 1 | 4 | 75 | 3 | 73 | 1.93e-11 | 54.3 |
| Msa0863790 | AT4G05030.1 | 44.000 | 75 | 41 | 1 | 1 | 75 | 33 | 106 | 3.34e-11 | 54.7 |
Find 18 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGATAGAGTGGTGATTAA+AGG | 0.272964 | 5_4:+63829495 | Msa0863790:CDS |
| TATACATAGTTATTCATCAT+TGG | 0.378479 | 5_4:-63829595 | None:intergenic |
| AGGTGTTACAATGGTTACTT+TGG | 0.427464 | 5_4:+63829461 | Msa0863790:intron |
| ACCATCAGCAATGGTACATA+TGG | 0.447473 | 5_4:-63829060 | None:intergenic |
| CAAGGGTGACTGAACGTTTG+AGG | 0.485328 | 5_4:+63829535 | Msa0863790:CDS |
| TACAATGGTTACTTTGGAAA+GGG | 0.497733 | 5_4:+63829467 | Msa0863790:CDS |
| TTACAATGGTTACTTTGGAA+AGG | 0.504948 | 5_4:+63829466 | Msa0863790:CDS |
| AAGGGTGACTGAACGTTTGA+GGG | 0.506906 | 5_4:+63829536 | Msa0863790:CDS |
| ACTAACAAGTCTAGCATGCC+TGG | 0.525033 | 5_4:-63829568 | None:intergenic |
| AAAATGCAAGAAGAAGATAT+TGG | 0.540381 | 5_4:+63829037 | Msa0863790:CDS |
| ATGGTTACTTTGGAAAGGGA+AGG | 0.567959 | 5_4:+63829471 | Msa0863790:CDS |
| GAGAAGATGTTGATGCAGCA+AGG | 0.572875 | 5_4:+63829517 | Msa0863790:CDS |
| AAGGGAAGGAAAAGATAGAG+TGG | 0.595147 | 5_4:+63829485 | Msa0863790:CDS |
| AGAAGATGTTGATGCAGCAA+GGG | 0.596117 | 5_4:+63829518 | Msa0863790:CDS |
| GAATGATATAGGTGTTACAA+TGG | 0.641061 | 5_4:+63829452 | Msa0863790:intron |
| GCCATATGTACCATTGCTGA+TGG | 0.651621 | 5_4:+63829059 | Msa0863790:CDS |
| TCAACACATACCATCAGCAA+TGG | 0.657350 | 5_4:-63829069 | None:intergenic |
| GTTTGAGGGAGAAAGTGACC+AGG | 0.682645 | 5_4:+63829550 | Msa0863790:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATATATAACAAATATTACAT+TGG | + | chr5_4:63829158-63829177 | Msa0863790:intron | 10.0% |
| !!! | ATTTTTAACTTTTCAATATT+AGG | + | chr5_4:63829395-63829414 | Msa0863790:intron | 10.0% |
| !! | GAAAAAAGAAATATGTATTA+TGG | - | chr5_4:63829353-63829372 | None:intergenic | 15.0% |
| !! | AATGAAAAAATATGGTTAAG+AGG | + | chr5_4:63829237-63829256 | Msa0863790:intron | 20.0% |
| ! | AAAATGCAAGAAGAAGATAT+TGG | + | chr5_4:63829037-63829056 | Msa0863790:CDS | 25.0% |
| ! | ACCTTGTGAATGAAAAAATA+TGG | + | chr5_4:63829229-63829248 | Msa0863790:intron | 25.0% |
| !!! | ACCATATTTTTTCATTCACA+AGG | - | chr5_4:63829233-63829252 | None:intergenic | 25.0% |
| !! | AACTTTTCAATATTAGGAAC+TGG | + | chr5_4:63829401-63829420 | Msa0863790:intron | 25.0% |
| ! | AATATTAGGAACTGGTAATA+CGG | + | chr5_4:63829409-63829428 | Msa0863790:intron | 25.0% |
| ! | TAATCGTTTGTGAATGATAT+AGG | + | chr5_4:63829441-63829460 | Msa0863790:intron | 25.0% |
| ! | GAATGATATAGGTGTTACAA+TGG | + | chr5_4:63829452-63829471 | Msa0863790:intron | 30.0% |
| ! | TTACAATGGTTACTTTGGAA+AGG | + | chr5_4:63829466-63829485 | Msa0863790:CDS | 30.0% |
| ! | TACAATGGTTACTTTGGAAA+GGG | + | chr5_4:63829467-63829486 | Msa0863790:CDS | 30.0% |
| AAAGATAGAGTGGTGATTAA+AGG | + | chr5_4:63829495-63829514 | Msa0863790:CDS | 30.0% | |
| GCAACTTGATTGATCTTTAG+TGG | - | chr5_4:63829270-63829289 | None:intergenic | 35.0% | |
| ! | AGGTGTTACAATGGTTACTT+TGG | + | chr5_4:63829461-63829480 | Msa0863790:intron | 35.0% |
| ! | TCTTCTTGCATTTTGCACAG+TGG | - | chr5_4:63829031-63829050 | None:intergenic | 40.0% |
| ACCATCAGCAATGGTACATA+TGG | - | chr5_4:63829063-63829082 | None:intergenic | 40.0% | |
| TCAACACATACCATCAGCAA+TGG | - | chr5_4:63829072-63829091 | None:intergenic | 40.0% | |
| TACATTGGTCCAAGTAGAAC+TGG | + | chr5_4:63829173-63829192 | Msa0863790:intron | 40.0% | |
| GAGGATGACTAATCTTCATC+AGG | - | chr5_4:63829292-63829311 | None:intergenic | 40.0% | |
| ! | ATGGTTACTTTGGAAAGGGA+AGG | + | chr5_4:63829471-63829490 | Msa0863790:CDS | 40.0% |
| AAGGGAAGGAAAAGATAGAG+TGG | + | chr5_4:63829485-63829504 | Msa0863790:CDS | 40.0% | |
| AGAAGATGTTGATGCAGCAA+GGG | + | chr5_4:63829518-63829537 | Msa0863790:CDS | 40.0% | |
| ! | TTGCATTTTGCACAGTGGAG+GGG | - | chr5_4:63829026-63829045 | None:intergenic | 45.0% |
| ! | CTTGCATTTTGCACAGTGGA+GGG | - | chr5_4:63829027-63829046 | None:intergenic | 45.0% |
| ! | TCTTGCATTTTGCACAGTGG+AGG | - | chr5_4:63829028-63829047 | None:intergenic | 45.0% |
| GCCATATGTACCATTGCTGA+TGG | + | chr5_4:63829059-63829078 | Msa0863790:CDS | 45.0% | |
| GATTCGAGTCCAGTTCTACT+TGG | - | chr5_4:63829185-63829204 | None:intergenic | 45.0% | |
| GGACTCGAATCGCTTAAACA+AGG | + | chr5_4:63829194-63829213 | Msa0863790:intron | 45.0% | |
| TGAGCATCTTCGATTTCTCG+AGG | - | chr5_4:63829311-63829330 | None:intergenic | 45.0% | |
| GAGAAGATGTTGATGCAGCA+AGG | + | chr5_4:63829517-63829536 | Msa0863790:CDS | 45.0% | |
| AAGGGTGACTGAACGTTTGA+GGG | + | chr5_4:63829536-63829555 | Msa0863790:CDS | 45.0% | |
| ACTAACAAGTCTAGCATGCC+TGG | - | chr5_4:63829571-63829590 | None:intergenic | 45.0% | |
| CAAGGGTGACTGAACGTTTG+AGG | + | chr5_4:63829535-63829554 | Msa0863790:CDS | 50.0% | |
| GTTTGAGGGAGAAAGTGACC+AGG | + | chr5_4:63829550-63829569 | Msa0863790:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_4 | gene | 63828993 | 63829608 | 63828993 | ID=Msa0863790;Name=Msa0863790 |
| chr5_4 | mRNA | 63828993 | 63829608 | 63828993 | ID=Msa0863790-mRNA-1;Parent=Msa0863790;Name=Msa0863790-mRNA-1;_AED=0.03;_eAED=0.03;_QI=0|0|0|1|1|1|2|0|77 |
| chr5_4 | exon | 63828993 | 63829080 | 63828993 | ID=Msa0863790-mRNA-1:exon:20061;Parent=Msa0863790-mRNA-1 |
| chr5_4 | exon | 63829463 | 63829608 | 63829463 | ID=Msa0863790-mRNA-1:exon:20062;Parent=Msa0863790-mRNA-1 |
| chr5_4 | CDS | 63828993 | 63829080 | 63828993 | ID=Msa0863790-mRNA-1:cds;Parent=Msa0863790-mRNA-1 |
| chr5_4 | CDS | 63829463 | 63829608 | 63829463 | ID=Msa0863790-mRNA-1:cds;Parent=Msa0863790-mRNA-1 |
| Gene Sequence |
| Protein sequence |
