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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1256680 | XP_013445128.1 | 62.857 | 70 | 19 | 1 | 1 | 63 | 27 | 96 | 7.63e-22 | 93.6 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1256680 | A0A072TNS1 | 62.857 | 70 | 19 | 1 | 1 | 63 | 27 | 96 | 3.64e-22 | 93.6 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1256680 | TF | zf-HD |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1256680 | MtrunA17_Chr8g0357721 | 62.857 | 70 | 19 | 1 | 1 | 63 | 27 | 96 | 7.02e-26 | 93.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 12 sgRNAs with CRISPR-Local
Find 28 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTACTCTTGTTATGCCTTCA+AGG | 0.355876 | 8_2:-56868317 | Msa1256680:CDS |
| TCTACAAAATCCTCCCTTGA+AGG | 0.426909 | 8_2:+56868303 | None:intergenic |
| GGCATAACAAGAGTAGTTGC+AGG | 0.488394 | 8_2:+56868324 | None:intergenic |
| GGTGATGGTCGTGATGGTGC+TGG | 0.525730 | 8_2:-56868246 | Msa1256680:CDS |
| AGAAATGTTGAGCTTGTCAA+TGG | 0.552484 | 8_2:-56868267 | Msa1256680:CDS |
| TACTCTTGTTATGCCTTCAA+GGG | 0.564277 | 8_2:-56868316 | Msa1256680:CDS |
| TATAAGAATAAGCATACCCA+TGG | 0.570775 | 8_2:-56868079 | Msa1256680:intron |
| TCTTGTTATGCCTTCAAGGG+AGG | 0.586562 | 8_2:-56868313 | Msa1256680:CDS |
| GTCAATGGTGATGGTCGTGA+TGG | 0.604319 | 8_2:-56868252 | Msa1256680:CDS |
| GGTGGTACCTTCGGCTCCAG+AGG | 0.610035 | 8_2:+56868401 | None:intergenic |
| GTTGAGCTTGTCAATGGTGA+TGG | 0.625642 | 8_2:-56868261 | Msa1256680:CDS |
| GTGGTACCTTCGGCTCCAGA+GGG | 0.625955 | 8_2:+56868402 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AGCACATTTAAAAAAATCGG+TGG | + | chr8_2:56868005-56868024 | None:intergenic | 30.0% | |
| GGCAGCACATTTAAAAAAAT+CGG | + | chr8_2:56868008-56868027 | None:intergenic | 30.0% | |
| TATAAGAATAAGCATACCCA+TGG | - | chr8_2:56868306-56868325 | Msa1256680:CDS | 30.0% | |
| !!! | CATCATCTACTTTTTTCCAT+GGG | + | chr8_2:56868325-56868344 | None:intergenic | 30.0% |
| !!! | TCATCATCTACTTTTTTCCA+TGG | + | chr8_2:56868326-56868345 | None:intergenic | 30.0% |
| AAAAAAATCGGTGGTACCTT+CGG | + | chr8_2:56867996-56868015 | None:intergenic | 35.0% | |
| ! | GAAGTTTTTGTGACATTCAC+AGG | + | chr8_2:56868029-56868048 | None:intergenic | 35.0% |
| ! | TACTCTTGTTATGCCTTCAA+GGG | - | chr8_2:56868069-56868088 | Msa1256680:CDS | 35.0% |
| AGAAATGTTGAGCTTGTCAA+TGG | - | chr8_2:56868118-56868137 | Msa1256680:intron | 35.0% | |
| TGAACTCGAATAAGAGGTTT+AGG | - | chr8_2:56868172-56868191 | Msa1256680:intron | 35.0% | |
| ! | GAATGATGAGATTGTTTTCG+AGG | - | chr8_2:56868233-56868252 | Msa1256680:intron | 35.0% |
| ! | GATGATGATGATGATGACAA+TGG | - | chr8_2:56868347-56868366 | Msa1256680:CDS | 35.0% |
| ! | CTACTCTTGTTATGCCTTCA+AGG | - | chr8_2:56868068-56868087 | Msa1256680:CDS | 40.0% |
| TCTACAAAATCCTCCCTTGA+AGG | + | chr8_2:56868085-56868104 | None:intergenic | 40.0% | |
| GAACGTTGAACTCGAATAAG+AGG | - | chr8_2:56868166-56868185 | Msa1256680:intron | 40.0% | |
| AATCTTCTGCCTTTGCTCAT+GGG | + | chr8_2:56868208-56868227 | None:intergenic | 40.0% | |
| TAATCTTCTGCCTTTGCTCA+TGG | + | chr8_2:56868209-56868228 | None:intergenic | 40.0% | |
| !! | GGAGTTTTGTAACGAGATAG+CGG | - | chr8_2:56868254-56868273 | Msa1256680:CDS | 40.0% |
| GGCATAACAAGAGTAGTTGC+AGG | + | chr8_2:56868064-56868083 | None:intergenic | 45.0% | |
| ! | TCTTGTTATGCCTTCAAGGG+AGG | - | chr8_2:56868072-56868091 | Msa1256680:intron | 45.0% |
| GTTGAGCTTGTCAATGGTGA+TGG | - | chr8_2:56868124-56868143 | Msa1256680:intron | 45.0% | |
| CAAAGTTCACCCATGAGCAA+AGG | - | chr8_2:56868196-56868215 | Msa1256680:intron | 45.0% | |
| !!! | GGTGAAGCGTCGTGTTTTTA+AGG | - | chr8_2:56868275-56868294 | Msa1256680:CDS | 45.0% |
| !!! | TTTTTACCCTCTGGAGCCGA+AGG | - | chr8_2:56867977-56867996 | Msa1256680:CDS | 50.0% |
| !! | GTCAATGGTGATGGTCGTGA+TGG | - | chr8_2:56868133-56868152 | Msa1256680:intron | 50.0% |
| GTGGTACCTTCGGCTCCAGA+GGG | + | chr8_2:56867986-56868005 | None:intergenic | 60.0% | |
| ! | GGTGATGGTCGTGATGGTGC+TGG | - | chr8_2:56868139-56868158 | Msa1256680:intron | 60.0% |
| GGTGGTACCTTCGGCTCCAG+AGG | + | chr8_2:56867987-56868006 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_2 | gene | 56867977 | 56868430 | 56867977 | ID=Msa1256680;Name=Msa1256680 |
| chr8_2 | mRNA | 56867977 | 56868430 | 56867977 | ID=Msa1256680-mRNA-1;Parent=Msa1256680;Name=Msa1256680-mRNA-1;_AED=0.40;_eAED=0.46;_QI=0|0|0|1|0|0.5|2|0|102 |
| chr8_2 | exon | 56868238 | 56868430 | 56868238 | ID=Msa1256680-mRNA-1:exon:17526;Parent=Msa1256680-mRNA-1 |
| chr8_2 | exon | 56867977 | 56868089 | 56867977 | ID=Msa1256680-mRNA-1:exon:17525;Parent=Msa1256680-mRNA-1 |
| chr8_2 | CDS | 56868238 | 56868430 | 56868238 | ID=Msa1256680-mRNA-1:cds;Parent=Msa1256680-mRNA-1 |
| chr8_2 | CDS | 56867977 | 56868089 | 56867977 | ID=Msa1256680-mRNA-1:cds;Parent=Msa1256680-mRNA-1 |
| Gene Sequence |
| Protein sequence |
