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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0457190 | XP_039687411.1 | 53.659 | 123 | 32 | 2 | 5 | 119 | 128 | 233 | 1.60e-30 | 120 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0457190 | A0A396IPT9 | 54.464 | 112 | 33 | 3 | 12 | 121 | 148 | 243 | 8.33e-25 | 105 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0118400 | Msa0457190 | 0.805874 | 1.081285e-49 | -8.615850e-47 |
| Msa0173990 | Msa0457190 | 0.803024 | 4.245388e-49 | -8.615850e-47 |
| Msa0457190 | Msa0843640 | 0.811353 | 7.304113e-51 | -8.615850e-47 |
| Msa0457190 | Msa0895790 | 0.805307 | 1.422210e-49 | -8.615850e-47 |
| Msa0457190 | Msa1034680 | 0.817295 | 3.550744e-52 | -8.615850e-47 |
| Msa0457190 | Msa1233560 | 0.807558 | 4.766821e-50 | -8.615850e-47 |
| Msa0457190 | Msa1313970 | 0.804233 | 2.383151e-49 | -8.615850e-47 |
| Msa0317510 | Msa0457190 | 0.802073 | 6.668540e-49 | -8.615850e-47 |
| Msa0331540 | Msa0457190 | 0.814544 | 1.459292e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0457190 | MtrunA17_Chr3g0104461 | 54.464 | 112 | 33 | 3 | 12 | 121 | 148 | 243 | 1.60e-28 | 105 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 33 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTCTCTTTGTTGGTTCATT+TGG | 0.249569 | 3_3:-51653187 | None:intergenic |
| AATTCTTAGTTACTTAATAA+TGG | 0.251226 | 3_3:+51653442 | Msa0457190:intron |
| ACATGGTTCACTGCAGAAAT+TGG | 0.275755 | 3_3:-51653358 | None:intergenic |
| ACATCAGATGGTACAAGGTT+AGG | 0.350707 | 3_3:-51653397 | None:intergenic |
| GCTCATGCTTGGAACTCTTA+AGG | 0.364028 | 3_3:-51652969 | None:intergenic |
| TCTATTGAACTTCCTTGTAT+TGG | 0.374726 | 3_3:-51653027 | None:intergenic |
| ATTGGTAGCTGTTGTGTAGT+TGG | 0.392402 | 3_3:-51653009 | None:intergenic |
| CTTATATTAGGGGAGGACTA+AGG | 0.394141 | 3_3:+51653147 | Msa0457190:intron |
| TCTGATATTGTGCTCATGCT+TGG | 0.412067 | 3_3:-51652980 | None:intergenic |
| AATTGGATTCACAGATGGTT+AGG | 0.415433 | 3_3:+51653528 | Msa0457190:CDS |
| ATACAAGGAAGTTCAATAGA+TGG | 0.436733 | 3_3:+51653030 | Msa0457190:CDS |
| GTCTATCGATGGCGATATGA+TGG | 0.455147 | 3_3:+51653315 | Msa0457190:CDS |
| AGGATTAGAGCAACAACAAC+CGG | 0.456376 | 3_3:+51653249 | Msa0457190:CDS |
| CAACCGGAAGTGGTTGTTGA+TGG | 0.459148 | 3_3:+51653265 | Msa0457190:CDS |
| ACTTTATGTAACACCTCTCT+TGG | 0.462763 | 3_3:+51653465 | Msa0457190:CDS |
| TCTCCATCAACAACCACTTC+CGG | 0.475172 | 3_3:-51653268 | None:intergenic |
| CATCAGATGGTACAAGGTTA+GGG | 0.477244 | 3_3:-51653396 | None:intergenic |
| GGTCAGTAGCTCTTGGTACA+TGG | 0.490067 | 3_3:-51653375 | None:intergenic |
| ACACCTCTCTTGGATATTGT+AGG | 0.500748 | 3_3:+51653475 | Msa0457190:CDS |
| TTATATTAGGGGAGGACTAA+GGG | 0.507678 | 3_3:+51653148 | Msa0457190:intron |
| AAGAAAATTGGATTCACAGA+TGG | 0.526419 | 3_3:+51653523 | Msa0457190:CDS |
| AGAGCAACAACAACCGGAAG+TGG | 0.548014 | 3_3:+51653255 | Msa0457190:CDS |
| TTGATGGAGAGCCTCTCAAT+CGG | 0.553773 | 3_3:+51653281 | Msa0457190:CDS |
| ACTTCTTGATTCCGATTGAG+AGG | 0.556878 | 3_3:-51653292 | None:intergenic |
| ACACAACAGCTACCAATACA+AGG | 0.563142 | 3_3:+51653015 | Msa0457190:CDS |
| GATGGCGGAAAATGCATATG+TGG | 0.577962 | 3_3:+51653333 | Msa0457190:CDS |
| AGGTTAGGGTCAGTAGCTCT+TGG | 0.584981 | 3_3:-51653382 | None:intergenic |
| GTGGGTTATAAGAAGACAGA+AGG | 0.595620 | 3_3:+51653229 | Msa0457190:CDS |
| TTTCCTACAATATCCAAGAG+AGG | 0.608430 | 3_3:-51653478 | None:intergenic |
| AACAAAAGGACGTCTCAATG+TGG | 0.616922 | 3_3:+51653210 | Msa0457190:CDS |
| ACAAAAGGACGTCTCAATGT+GGG | 0.624102 | 3_3:+51653211 | Msa0457190:CDS |
| AATCAAGAAGTGTCTATCGA+TGG | 0.632856 | 3_3:+51653304 | Msa0457190:CDS |
| TATCGATGGCGATATGATGG+CGG | 0.684469 | 3_3:+51653318 | Msa0457190:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTATGTGTTTTCTTATATTA+GGG | + | chr3_3:51653136-51653155 | Msa0457190:intron | 15.0% |
| !! | AATTCTTAGTTACTTAATAA+TGG | + | chr3_3:51653442-51653461 | Msa0457190:intron | 15.0% |
| !!! | GTTATGTGTTTTCTTATATT+AGG | + | chr3_3:51653135-51653154 | Msa0457190:intron | 20.0% |
| !!! | TATGTGTTTTCTTATATTAG+GGG | + | chr3_3:51653137-51653156 | Msa0457190:intron | 20.0% |
| ! | AATAGATGGATCTAAAAAGA+AGG | + | chr3_3:51653044-51653063 | Msa0457190:CDS | 25.0% |
| ! | GAAAAAAGTGACAAGAAAAT+TGG | + | chr3_3:51653511-51653530 | Msa0457190:CDS | 25.0% |
| TCTATTGAACTTCCTTGTAT+TGG | - | chr3_3:51653030-51653049 | None:intergenic | 30.0% | |
| ATACAAGGAAGTTCAATAGA+TGG | + | chr3_3:51653030-51653049 | Msa0457190:CDS | 30.0% | |
| !! | TTTCTCTTTGTTGGTTCATT+TGG | - | chr3_3:51653190-51653209 | None:intergenic | 30.0% |
| !!! | CCTTTTGTTTTTCTCTTTGT+TGG | - | chr3_3:51653199-51653218 | None:intergenic | 30.0% |
| CCAACAAAGAGAAAAACAAA+AGG | + | chr3_3:51653196-51653215 | Msa0457190:CDS | 30.0% | |
| AAGAAAATTGGATTCACAGA+TGG | + | chr3_3:51653523-51653542 | Msa0457190:CDS | 30.0% | |
| ! | GTGTTTTCTTATATTAGGGG+AGG | + | chr3_3:51653140-51653159 | Msa0457190:intron | 35.0% |
| TTATATTAGGGGAGGACTAA+GGG | + | chr3_3:51653148-51653167 | Msa0457190:intron | 35.0% | |
| !! | AATCAAGAAGTGTCTATCGA+TGG | + | chr3_3:51653304-51653323 | Msa0457190:CDS | 35.0% |
| ACTTTATGTAACACCTCTCT+TGG | + | chr3_3:51653465-51653484 | Msa0457190:CDS | 35.0% | |
| TTTCCTACAATATCCAAGAG+AGG | - | chr3_3:51653481-51653500 | None:intergenic | 35.0% | |
| TCTGATATTGTGCTCATGCT+TGG | - | chr3_3:51652983-51653002 | None:intergenic | 40.0% | |
| ! | ATTGGTAGCTGTTGTGTAGT+TGG | - | chr3_3:51653012-51653031 | None:intergenic | 40.0% |
| ACACAACAGCTACCAATACA+AGG | + | chr3_3:51653015-51653034 | Msa0457190:CDS | 40.0% | |
| CTTATATTAGGGGAGGACTA+AGG | + | chr3_3:51653147-51653166 | Msa0457190:intron | 40.0% | |
| AACAAAAGGACGTCTCAATG+TGG | + | chr3_3:51653210-51653229 | Msa0457190:CDS | 40.0% | |
| ACAAAAGGACGTCTCAATGT+GGG | + | chr3_3:51653211-51653230 | Msa0457190:CDS | 40.0% | |
| ! | GTGGGTTATAAGAAGACAGA+AGG | + | chr3_3:51653229-51653248 | Msa0457190:CDS | 40.0% |
| AGGATTAGAGCAACAACAAC+CGG | + | chr3_3:51653249-51653268 | Msa0457190:CDS | 40.0% | |
| ACTTCTTGATTCCGATTGAG+AGG | - | chr3_3:51653295-51653314 | None:intergenic | 40.0% | |
| ACATGGTTCACTGCAGAAAT+TGG | - | chr3_3:51653361-51653380 | None:intergenic | 40.0% | |
| CATCAGATGGTACAAGGTTA+GGG | - | chr3_3:51653399-51653418 | None:intergenic | 40.0% | |
| ACATCAGATGGTACAAGGTT+AGG | - | chr3_3:51653400-51653419 | None:intergenic | 40.0% | |
| AACTCACATCAGATGGTACA+AGG | - | chr3_3:51653405-51653424 | None:intergenic | 40.0% | |
| GAAGACAAACTCACATCAGA+TGG | - | chr3_3:51653412-51653431 | None:intergenic | 40.0% | |
| ACACCTCTCTTGGATATTGT+AGG | + | chr3_3:51653475-51653494 | Msa0457190:CDS | 40.0% | |
| GCTCATGCTTGGAACTCTTA+AGG | - | chr3_3:51652972-51652991 | None:intergenic | 45.0% | |
| TCTCCATCAACAACCACTTC+CGG | - | chr3_3:51653271-51653290 | None:intergenic | 45.0% | |
| TTGATGGAGAGCCTCTCAAT+CGG | + | chr3_3:51653281-51653300 | Msa0457190:CDS | 45.0% | |
| GTCTATCGATGGCGATATGA+TGG | + | chr3_3:51653315-51653334 | Msa0457190:CDS | 45.0% | |
| TATCGATGGCGATATGATGG+CGG | + | chr3_3:51653318-51653337 | Msa0457190:CDS | 45.0% | |
| !! | GATGGCGGAAAATGCATATG+TGG | + | chr3_3:51653333-51653352 | Msa0457190:CDS | 45.0% |
| AGAGCAACAACAACCGGAAG+TGG | + | chr3_3:51653255-51653274 | Msa0457190:CDS | 50.0% | |
| CAACCGGAAGTGGTTGTTGA+TGG | + | chr3_3:51653265-51653284 | Msa0457190:CDS | 50.0% | |
| GGTCAGTAGCTCTTGGTACA+TGG | - | chr3_3:51653378-51653397 | None:intergenic | 50.0% | |
| AGGTTAGGGTCAGTAGCTCT+TGG | - | chr3_3:51653385-51653404 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 51652955 | 51653549 | 51652955 | ID=Msa0457190;Name=Msa0457190 |
| chr3_3 | mRNA | 51652955 | 51653549 | 51652955 | ID=Msa0457190-mRNA-1;Parent=Msa0457190;Name=Msa0457190-mRNA-1;_AED=0.84;_eAED=1.00;_QI=0|0|0|0.33|1|1|3|0|152 |
| chr3_3 | exon | 51652955 | 51653065 | 51652955 | ID=Msa0457190-mRNA-1:exon:9933;Parent=Msa0457190-mRNA-1 |
| chr3_3 | exon | 51653157 | 51653405 | 51653157 | ID=Msa0457190-mRNA-1:exon:9934;Parent=Msa0457190-mRNA-1 |
| chr3_3 | exon | 51653451 | 51653549 | 51653451 | ID=Msa0457190-mRNA-1:exon:9935;Parent=Msa0457190-mRNA-1 |
| chr3_3 | CDS | 51652955 | 51653065 | 51652955 | ID=Msa0457190-mRNA-1:cds;Parent=Msa0457190-mRNA-1 |
| chr3_3 | CDS | 51653157 | 51653405 | 51653157 | ID=Msa0457190-mRNA-1:cds;Parent=Msa0457190-mRNA-1 |
| chr3_3 | CDS | 51653451 | 51653549 | 51653451 | ID=Msa0457190-mRNA-1:cds;Parent=Msa0457190-mRNA-1 |
| Gene Sequence |
| Protein sequence |
