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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0084570 | AES62102.2 | 96.721 | 61 | 2 | 0 | 1 | 61 | 1 | 61 | 2.32e-29 | 108 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0084570 | G7I4Y9 | 96.721 | 61 | 2 | 0 | 1 | 61 | 1 | 61 | 1.11e-29 | 108 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0084570 | Msa0130640 | 0.926849 | 2.662639e-91 | -8.615850e-47 |
| Msa0084570 | Msa1081600 | 0.819808 | 9.563845e-53 | -8.615850e-47 |
| Msa0084570 | Msa1166370 | 0.822226 | 2.653190e-53 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0084570 | MtrunA17_Chr1g0198951 | 96.721 | 61 | 2 | 0 | 1 | 61 | 1 | 61 | 2.14e-33 | 108 |
| 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 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTAGGAGTAGCTTCTTTCT+TGG | 0.263984 | 1_2:-64097174 | None:intergenic |
| AGCTTTCTTTGAAGCTGATT+TGG | 0.275824 | 1_2:-64097219 | None:intergenic |
| TGACCCTTATCACTAGCTTT+AGG | 0.299140 | 1_2:-64097191 | None:intergenic |
| TCAAGATCTTAATAAGAAAA+AGG | 0.310643 | 1_2:+64097253 | Msa0084570:CDS |
| TACTCCTAAAGCTAGTGATA+AGG | 0.421532 | 1_2:+64097187 | Msa0084570:CDS |
| ACTCCTAAAGCTAGTGATAA+GGG | 0.443378 | 1_2:+64097188 | Msa0084570:CDS |
| AACAGGTTTATCAGCCTTCA+AGG | 0.447580 | 1_2:-64097129 | None:intergenic |
| GTGCAAAATGGCATCCTTGA+AGG | 0.478600 | 1_2:+64097115 | Msa0084570:exon |
| CTTGGTTGTCTACAGGGAAA+AGG | 0.487214 | 1_2:+64097398 | Msa0084570:intron |
| TATTGTATTCAATTCAATGT+TGG | 0.499529 | 1_2:-64097501 | None:intergenic |
| TATTCAATTCAATGTTGGTG+AGG | 0.563987 | 1_2:-64097496 | None:intergenic |
| TTGAAGGCTGATAAACCTGT+TGG | 0.591373 | 1_2:+64097131 | Msa0084570:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ACTTTTTTTTTAGTAAAGTA+AGG | - | chr1_2:64097456-64097475 | None:intergenic | 15.0% |
| !!! | TAAAGATATTTTGTGCAAAA+TGG | + | chr1_2:64097103-64097122 | Msa0084570:exon | 20.0% |
| !!! | TTTTTCTTATTAAGATCTTG+AGG | - | chr1_2:64097254-64097273 | None:intergenic | 20.0% |
| !! | TCAAGATCTTAATAAGAAAA+AGG | + | chr1_2:64097253-64097272 | Msa0084570:CDS | 20.0% |
| !!! | TTTTAATCTTGCTTATATGA+TGG | + | chr1_2:64097306-64097325 | Msa0084570:intron | 20.0% |
| !! | TAAGCACATATATAGTAATA+GGG | - | chr1_2:64097354-64097373 | None:intergenic | 20.0% |
| !!! | TTCAACTTTTTTTTTATCCT+TGG | + | chr1_2:64097380-64097399 | Msa0084570:intron | 20.0% |
| !! | TATTGTATTCAATTCAATGT+TGG | - | chr1_2:64097504-64097523 | None:intergenic | 20.0% |
| ! | GTAAGCACATATATAGTAAT+AGG | - | chr1_2:64097355-64097374 | None:intergenic | 25.0% |
| TAATCTTGCTTATATGATGG+TGG | + | chr1_2:64097309-64097328 | Msa0084570:intron | 30.0% | |
| TATTCAATTCAATGTTGGTG+AGG | - | chr1_2:64097499-64097518 | None:intergenic | 30.0% | |
| TTTAGGAGTAGCTTCTTTCT+TGG | - | chr1_2:64097177-64097196 | None:intergenic | 35.0% | |
| TACTCCTAAAGCTAGTGATA+AGG | + | chr1_2:64097187-64097206 | Msa0084570:CDS | 35.0% | |
| ACTCCTAAAGCTAGTGATAA+GGG | + | chr1_2:64097188-64097207 | Msa0084570:CDS | 35.0% | |
| !! | AGCTTTCTTTGAAGCTGATT+TGG | - | chr1_2:64097222-64097241 | None:intergenic | 35.0% |
| ! | TTTTATCCTTGGTTGTCTAC+AGG | + | chr1_2:64097391-64097410 | Msa0084570:intron | 35.0% |
| TTTATCCTTGGTTGTCTACA+GGG | + | chr1_2:64097392-64097411 | Msa0084570:intron | 35.0% | |
| AACAGGTTTATCAGCCTTCA+AGG | - | chr1_2:64097132-64097151 | None:intergenic | 40.0% | |
| TTGAAGGCTGATAAACCTGT+TGG | + | chr1_2:64097131-64097150 | Msa0084570:CDS | 40.0% | |
| !! | TGACCCTTATCACTAGCTTT+AGG | - | chr1_2:64097194-64097213 | None:intergenic | 40.0% |
| GTGCAAAATGGCATCCTTGA+AGG | + | chr1_2:64097115-64097134 | Msa0084570:exon | 45.0% | |
| ! | CTGTTGGCACCCAACTTTTT+GGG | + | chr1_2:64097147-64097166 | Msa0084570:CDS | 45.0% |
| ! | CTTTTCCCTGTAGACAACCA+AGG | - | chr1_2:64097400-64097419 | None:intergenic | 45.0% |
| CTTGGTTGTCTACAGGGAAA+AGG | + | chr1_2:64097398-64097417 | Msa0084570:intron | 45.0% | |
| CCAAAAAGTTGGGTGCCAAC+AGG | - | chr1_2:64097149-64097168 | None:intergenic | 50.0% | |
| ! | CCTGTTGGCACCCAACTTTT+TGG | + | chr1_2:64097146-64097165 | Msa0084570:CDS | 50.0% |
| CTTGGCCTGCCCAAAAAGTT+GGG | - | chr1_2:64097159-64097178 | None:intergenic | 50.0% | |
| TCTTGGCCTGCCCAAAAAGT+TGG | - | chr1_2:64097160-64097179 | None:intergenic | 50.0% | |
| !! | TGGCACCCAACTTTTTGGGC+AGG | + | chr1_2:64097151-64097170 | Msa0084570:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 64097086 | 64097535 | 64097086 | ID=Msa0084570;Name=Msa0084570 |
| chr1_2 | mRNA | 64097086 | 64097535 | 64097086 | ID=Msa0084570-mRNA-1;Parent=Msa0084570;Name=Msa0084570-mRNA-1;_AED=0.00;_eAED=0.00;_QI=36|1|1|1|1|1|2|90|61 |
| chr1_2 | exon | 64097086 | 64097274 | 64097086 | ID=Msa0084570-mRNA-1:exon:21515;Parent=Msa0084570-mRNA-1 |
| chr1_2 | exon | 64097413 | 64097535 | 64097413 | ID=Msa0084570-mRNA-1:exon:21516;Parent=Msa0084570-mRNA-1 |
| chr1_2 | five_prime_UTR | 64097086 | 64097121 | 64097086 | ID=Msa0084570-mRNA-1:five_prime_utr;Parent=Msa0084570-mRNA-1 |
| chr1_2 | CDS | 64097122 | 64097274 | 64097122 | ID=Msa0084570-mRNA-1:cds;Parent=Msa0084570-mRNA-1 |
| chr1_2 | CDS | 64097413 | 64097445 | 64097413 | ID=Msa0084570-mRNA-1:cds;Parent=Msa0084570-mRNA-1 |
| chr1_2 | three_prime_UTR | 64097446 | 64097535 | 64097446 | ID=Msa0084570-mRNA-1:three_prime_utr;Parent=Msa0084570-mRNA-1 |
| Gene Sequence |
| Protein sequence |
