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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1047590 | RHN44047.1 | 92.857 | 56 | 2 | 1 | 22 | 75 | 38 | 93 | 1.23e-24 | 100 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1047590 | A0A396GZI3 | 92.857 | 56 | 2 | 1 | 22 | 75 | 38 | 93 | 5.88e-25 | 100 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1047550 | Msa1047590 | 0.880137 | 7.030215e-70 | -8.615850e-47 |
| Msa1047590 | Msa1047620 | 0.987319 | 7.858451e-170 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1047590 | MtrunA17_Chr7g0215071 | 92.857 | 56 | 2 | 1 | 22 | 75 | 38 | 93 | 1.13e-28 | 100 |
| Msa1047590 | MtrunA17_Chr7g0215041 | 81.818 | 33 | 6 | 0 | 43 | 75 | 6 | 38 | 4.35e-12 | 57.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 14 sgRNAs with CRISPR-Local
Find 22 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GAACTTGGCTTCGCAGATAT+TGG | 0.249033 | 7_2:+8599458 | Msa1047590:CDS |
| TAAGGCTTCCTTTGGTACTA+TGG | 0.280084 | 7_2:-8599513 | None:intergenic |
| TCAGAACAAGGAAAGCATTC+AGG | 0.305653 | 7_2:-8599317 | None:intergenic |
| CTGTTCAGTAAGGCTTCCTT+TGG | 0.359970 | 7_2:-8599521 | None:intergenic |
| CATTGTTTACAACATGCAAT+TGG | 0.384209 | 7_2:+8599278 | None:intergenic |
| GATGTTTGTTTGAACTCAAC+TGG | 0.402822 | 7_2:+8599566 | Msa1047590:CDS |
| CTCACTGATGCTGTTCAGTA+AGG | 0.464330 | 7_2:-8599531 | None:intergenic |
| CAGAACAAGGAAAGCATTCA+GGG | 0.471110 | 7_2:-8599316 | None:intergenic |
| AATCAGATAGTTACTGAACT+TGG | 0.471447 | 7_2:+8599443 | Msa1047590:intron |
| TCTGAATTTCCCTGTAATGC+AGG | 0.489093 | 7_2:+8599335 | Msa1047590:CDS |
| TAATGTGAGTTCAGTTGATG+AGG | 0.584091 | 7_2:+8599484 | Msa1047590:CDS |
| TCTCTCAAATACATCATGCA+TGG | 0.589271 | 7_2:-8599604 | None:intergenic |
| GGAGATTTCCATAGTACCAA+AGG | 0.614566 | 7_2:+8599505 | Msa1047590:CDS |
| TTACAGGGAAATTCAGAACA+AGG | 0.641725 | 7_2:-8599329 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CTTTTTTTACCTGCATTACA+GGG | - | chr7_2:8599347-8599366 | None:intergenic | 30.0% |
| !!! | ACTTTTTTTACCTGCATTAC+AGG | - | chr7_2:8599348-8599367 | None:intergenic | 30.0% |
| GTAATGCAGGTAAAAAAAGT+AGG | + | chr7_2:8599348-8599367 | Msa1047590:intron | 30.0% | |
| AATCAGATAGTTACTGAACT+TGG | + | chr7_2:8599443-8599462 | Msa1047590:intron | 30.0% | |
| TTACAGGGAAATTCAGAACA+AGG | - | chr7_2:8599332-8599351 | None:intergenic | 35.0% | |
| CCTAGGATAATGAAAACATC+AGG | - | chr7_2:8599384-8599403 | None:intergenic | 35.0% | |
| ! | CCTGATGTTTTCATTATCCT+AGG | + | chr7_2:8599381-8599400 | Msa1047590:intron | 35.0% |
| ATCATCCTTGGATTTAGCAA+AGG | + | chr7_2:8599407-8599426 | Msa1047590:intron | 35.0% | |
| ! | TAATGTGAGTTCAGTTGATG+AGG | + | chr7_2:8599484-8599503 | Msa1047590:CDS | 35.0% |
| GATGTTTGTTTGAACTCAAC+TGG | + | chr7_2:8599566-8599585 | Msa1047590:CDS | 35.0% | |
| !! | CAGAACAAGGAAAGCATTCA+GGG | - | chr7_2:8599319-8599338 | None:intergenic | 40.0% |
| !! | TCAGAACAAGGAAAGCATTC+AGG | - | chr7_2:8599320-8599339 | None:intergenic | 40.0% |
| TCTGAATTTCCCTGTAATGC+AGG | + | chr7_2:8599335-8599354 | Msa1047590:CDS | 40.0% | |
| TATCCTAGGACAATCATCCT+TGG | + | chr7_2:8599395-8599414 | Msa1047590:intron | 40.0% | |
| AATCCAAGGATGATTGTCCT+AGG | - | chr7_2:8599401-8599420 | None:intergenic | 40.0% | |
| ATCCTTGGATTTAGCAAAGG+TGG | + | chr7_2:8599410-8599429 | Msa1047590:intron | 40.0% | |
| TTCCACCTTTGCTAAATCCA+AGG | - | chr7_2:8599415-8599434 | None:intergenic | 40.0% | |
| GGAGATTTCCATAGTACCAA+AGG | + | chr7_2:8599505-8599524 | Msa1047590:CDS | 40.0% | |
| TAAGGCTTCCTTTGGTACTA+TGG | - | chr7_2:8599516-8599535 | None:intergenic | 40.0% | |
| GAACTTGGCTTCGCAGATAT+TGG | + | chr7_2:8599458-8599477 | Msa1047590:CDS | 45.0% | |
| CTGTTCAGTAAGGCTTCCTT+TGG | - | chr7_2:8599524-8599543 | None:intergenic | 45.0% | |
| CTCACTGATGCTGTTCAGTA+AGG | - | chr7_2:8599534-8599553 | None:intergenic | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_2 | gene | 8599291 | 8599613 | 8599291 | ID=Msa1047590;Name=Msa1047590 |
| chr7_2 | mRNA | 8599291 | 8599613 | 8599291 | ID=Msa1047590-mRNA-1;Parent=Msa1047590;Name=Msa1047590-mRNA-1;_AED=0.42;_eAED=0.46;_QI=0|0|0|0.5|1|1|2|0|76 |
| chr7_2 | exon | 8599291 | 8599356 | 8599291 | ID=Msa1047590-mRNA-1:exon:2278;Parent=Msa1047590-mRNA-1 |
| chr7_2 | exon | 8599449 | 8599613 | 8599449 | ID=Msa1047590-mRNA-1:exon:2279;Parent=Msa1047590-mRNA-1 |
| chr7_2 | CDS | 8599291 | 8599356 | 8599291 | ID=Msa1047590-mRNA-1:cds;Parent=Msa1047590-mRNA-1 |
| chr7_2 | CDS | 8599449 | 8599613 | 8599449 | ID=Msa1047590-mRNA-1:cds;Parent=Msa1047590-mRNA-1 |
| Gene Sequence |
| Protein sequence |
