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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1244050 | KEH19246.1 | 87.912 | 182 | 14 | 1 | 1 | 182 | 1 | 174 | 3.17e-112 | 327 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1244050 | A0A072TPV3 | 87.912 | 182 | 14 | 1 | 1 | 182 | 1 | 174 | 1.51e-112 | 327 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1244050 | TF | LOB |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1244050 | MtrunA17_Chr8g0358731 | 87.912 | 182 | 14 | 1 | 1 | 182 | 1 | 174 | 2.91e-116 | 327 |
| Msa1244050 | MtrunA17_Chr8g0337271 | 34.872 | 195 | 100 | 6 | 1 | 168 | 1 | 195 | 4.63e-29 | 106 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 41 sgRNAs with CRISPR-Local
Find 43 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACTATTCGCCAGTACATTTA+TGG | 0.169458 | 8_2:+31565297 | Msa1244050:CDS |
| CAAAGTGCTCTTAGAAGTTT+AGG | 0.233419 | 8_2:+31565118 | Msa1244050:CDS |
| TCGGATCTTGCATATTCATT+TGG | 0.326460 | 8_2:-31565641 | None:intergenic |
| TAGTTACAAGATGGCCTTCA+TGG | 0.374458 | 8_2:+31565369 | Msa1244050:CDS |
| ACGCCAAGATGGTCGTCAAT+TGG | 0.390051 | 8_2:+31565237 | Msa1244050:CDS |
| TGCTGCACCTTGTCTGTCAT+AGG | 0.406280 | 8_2:-31565179 | None:intergenic |
| TGCAATAATGATTGTGAATA+CGG | 0.437294 | 8_2:+31565061 | Msa1244050:CDS |
| CTTGTAACTACGAGACATGA+TGG | 0.480223 | 8_2:-31565356 | None:intergenic |
| AATGATGACTTGCTTACCCT+TGG | 0.482188 | 8_2:-31565573 | None:intergenic |
| CATCTTGTAAATTTCCATGA+AGG | 0.485976 | 8_2:-31565383 | None:intergenic |
| GATCTTGCATATTCATTTGG+AGG | 0.493998 | 8_2:-31565638 | None:intergenic |
| TCTCCAATTGACGACCATCT+TGG | 0.509670 | 8_2:-31565240 | None:intergenic |
| TCTCCACTTTCACTAGCGGT+TGG | 0.512325 | 8_2:-31565415 | None:intergenic |
| ATCTAACATCATGAGTATGA+TGG | 0.517001 | 8_2:+31565144 | Msa1244050:CDS |
| GGTATACAGCAATGCATCCA+AGG | 0.519872 | 8_2:+31565556 | Msa1244050:intron |
| AGATGGTCGTCAATTGGAGA+TGG | 0.520285 | 8_2:+31565243 | Msa1244050:CDS |
| ACTAACCACAATCTACTCTT+CGG | 0.522583 | 8_2:-31565660 | None:intergenic |
| TGAAAATCTTCATTTCTATG+TGG | 0.529192 | 8_2:-31565097 | None:intergenic |
| ATCTTGCATATTCATTTGGA+GGG | 0.532675 | 8_2:-31565637 | None:intergenic |
| ACAAAAGGCCATAAATGTAC+TGG | 0.537910 | 8_2:-31565305 | None:intergenic |
| CGAAGGAAACAAACATGCTA+GGG | 0.537931 | 8_2:+31565006 | Msa1244050:CDS |
| ATTCCAACCGCTAGTGAAAG+TGG | 0.538453 | 8_2:+31565412 | Msa1244050:CDS |
| CTTAGCATAATACCTACAAA+AGG | 0.549427 | 8_2:-31565320 | None:intergenic |
| TTGTAACTACGAGACATGAT+GGG | 0.552157 | 8_2:-31565355 | None:intergenic |
| ACGAAGGAAACAAACATGCT+AGG | 0.563976 | 8_2:+31565005 | Msa1244050:CDS |
| TTCTGAAGAAAGTGATGACA+TGG | 0.568922 | 8_2:+31565607 | Msa1244050:CDS |
| GCATGGCAACGACGCCAAGA+TGG | 0.574695 | 8_2:+31565226 | Msa1244050:CDS |
| AAGAGATATCTTCCTTTGAG+AGG | 0.575332 | 8_2:+31565269 | Msa1244050:CDS |
| TTCTCAGTCAAGGTCGAGCA+TGG | 0.575982 | 8_2:+31565209 | Msa1244050:CDS |
| ATGGAAATTTACAAGATGAA+CGG | 0.585442 | 8_2:+31565388 | Msa1244050:CDS |
| CATGTCTCGTAGTTACAAGA+TGG | 0.593567 | 8_2:+31565360 | Msa1244050:CDS |
| GATGGTCGTCAATTGGAGAT+GGG | 0.600387 | 8_2:+31565244 | Msa1244050:CDS |
| GGATTCTCCACTTTCACTAG+CGG | 0.605182 | 8_2:-31565419 | None:intergenic |
| CTACGAGACATGATGGGGAA+TGG | 0.605683 | 8_2:-31565349 | None:intergenic |
| GAATAGTGCTTTCCTCTCAA+AGG | 0.618448 | 8_2:-31565281 | None:intergenic |
| GCAAACTCGATTCTCAGTCA+AGG | 0.622555 | 8_2:+31565199 | Msa1244050:CDS |
| CTAGTGAAAGTGGAGAATCC+AGG | 0.632875 | 8_2:+31565422 | Msa1244050:CDS |
| GTATACAGCAATGCATCCAA+GGG | 0.652464 | 8_2:+31565557 | Msa1244050:intron |
| GTATATCCATACATGAACGA+AGG | 0.669151 | 8_2:+31564989 | None:intergenic |
| TGTAACTACGAGACATGATG+GGG | 0.692794 | 8_2:-31565354 | None:intergenic |
| GTGAAAACCTATGACAGACA+AGG | 0.712723 | 8_2:+31565172 | Msa1244050:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ACACTCTTTATATCAAATTT+TGG | + | chr8_2:31565535-31565554 | Msa1244050:intron | 20.0% |
| ! | TGCAATAATGATTGTGAATA+CGG | + | chr8_2:31565061-31565080 | Msa1244050:CDS | 25.0% |
| ! | TGAAAATCTTCATTTCTATG+TGG | - | chr8_2:31565100-31565119 | None:intergenic | 25.0% |
| ! | ATGGAAATTTACAAGATGAA+CGG | + | chr8_2:31565388-31565407 | Msa1244050:CDS | 25.0% |
| !! | TGATATAAAGAGTGTGTTAT+AGG | - | chr8_2:31565530-31565549 | None:intergenic | 25.0% |
| ATCTAACATCATGAGTATGA+TGG | + | chr8_2:31565144-31565163 | Msa1244050:CDS | 30.0% | |
| CTTAGCATAATACCTACAAA+AGG | - | chr8_2:31565323-31565342 | None:intergenic | 30.0% | |
| CATCTTGTAAATTTCCATGA+AGG | - | chr8_2:31565386-31565405 | None:intergenic | 30.0% | |
| AGTACAATATAGAGATTACC+TGG | - | chr8_2:31565443-31565462 | None:intergenic | 30.0% | |
| ATCTTGCATATTCATTTGGA+GGG | - | chr8_2:31565640-31565659 | None:intergenic | 30.0% | |
| ! | CAAAGTGCTCTTAGAAGTTT+AGG | + | chr8_2:31565118-31565137 | Msa1244050:CDS | 35.0% |
| AAGAGATATCTTCCTTTGAG+AGG | + | chr8_2:31565269-31565288 | Msa1244050:CDS | 35.0% | |
| ACTATTCGCCAGTACATTTA+TGG | + | chr8_2:31565297-31565316 | Msa1244050:CDS | 35.0% | |
| ACAAAAGGCCATAAATGTAC+TGG | - | chr8_2:31565308-31565327 | None:intergenic | 35.0% | |
| ! | GTACATTTATGGCCTTTTGT+AGG | + | chr8_2:31565308-31565327 | Msa1244050:CDS | 35.0% |
| TTGTAACTACGAGACATGAT+GGG | - | chr8_2:31565358-31565377 | None:intergenic | 35.0% | |
| ! | TTCTGAAGAAAGTGATGACA+TGG | + | chr8_2:31565607-31565626 | Msa1244050:CDS | 35.0% |
| GATCTTGCATATTCATTTGG+AGG | - | chr8_2:31565641-31565660 | None:intergenic | 35.0% | |
| TCGGATCTTGCATATTCATT+TGG | - | chr8_2:31565644-31565663 | None:intergenic | 35.0% | |
| ACGAAGGAAACAAACATGCT+AGG | + | chr8_2:31565005-31565024 | Msa1244050:CDS | 40.0% | |
| CGAAGGAAACAAACATGCTA+GGG | + | chr8_2:31565006-31565025 | Msa1244050:CDS | 40.0% | |
| GTGAAAACCTATGACAGACA+AGG | + | chr8_2:31565172-31565191 | Msa1244050:CDS | 40.0% | |
| GAATAGTGCTTTCCTCTCAA+AGG | - | chr8_2:31565284-31565303 | None:intergenic | 40.0% | |
| TGTAACTACGAGACATGATG+GGG | - | chr8_2:31565357-31565376 | None:intergenic | 40.0% | |
| CTTGTAACTACGAGACATGA+TGG | - | chr8_2:31565359-31565378 | None:intergenic | 40.0% | |
| CATGTCTCGTAGTTACAAGA+TGG | + | chr8_2:31565360-31565379 | Msa1244050:CDS | 40.0% | |
| TAGTTACAAGATGGCCTTCA+TGG | + | chr8_2:31565369-31565388 | Msa1244050:CDS | 40.0% | |
| GTATACAGCAATGCATCCAA+GGG | + | chr8_2:31565557-31565576 | Msa1244050:intron | 40.0% | |
| !! | AATGATGACTTGCTTACCCT+TGG | - | chr8_2:31565576-31565595 | None:intergenic | 40.0% |
| GCAAACTCGATTCTCAGTCA+AGG | + | chr8_2:31565199-31565218 | Msa1244050:CDS | 45.0% | |
| TCTCCAATTGACGACCATCT+TGG | - | chr8_2:31565243-31565262 | None:intergenic | 45.0% | |
| AGATGGTCGTCAATTGGAGA+TGG | + | chr8_2:31565243-31565262 | Msa1244050:CDS | 45.0% | |
| GATGGTCGTCAATTGGAGAT+GGG | + | chr8_2:31565244-31565263 | Msa1244050:CDS | 45.0% | |
| ATTCCAACCGCTAGTGAAAG+TGG | + | chr8_2:31565412-31565431 | Msa1244050:CDS | 45.0% | |
| GGATTCTCCACTTTCACTAG+CGG | - | chr8_2:31565422-31565441 | None:intergenic | 45.0% | |
| CTAGTGAAAGTGGAGAATCC+AGG | + | chr8_2:31565422-31565441 | Msa1244050:CDS | 45.0% | |
| GGTATACAGCAATGCATCCA+AGG | + | chr8_2:31565556-31565575 | Msa1244050:intron | 45.0% | |
| TGCTGCACCTTGTCTGTCAT+AGG | - | chr8_2:31565182-31565201 | None:intergenic | 50.0% | |
| TTCTCAGTCAAGGTCGAGCA+TGG | + | chr8_2:31565209-31565228 | Msa1244050:CDS | 50.0% | |
| ACGCCAAGATGGTCGTCAAT+TGG | + | chr8_2:31565237-31565256 | Msa1244050:CDS | 50.0% | |
| ! | CTACGAGACATGATGGGGAA+TGG | - | chr8_2:31565352-31565371 | None:intergenic | 50.0% |
| TCTCCACTTTCACTAGCGGT+TGG | - | chr8_2:31565418-31565437 | None:intergenic | 50.0% | |
| GCATGGCAACGACGCCAAGA+TGG | + | chr8_2:31565226-31565245 | Msa1244050:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_2 | gene | 31565001 | 31565670 | 31565001 | ID=Msa1244050;Name=Msa1244050 |
| chr8_2 | mRNA | 31565001 | 31565670 | 31565001 | ID=Msa1244050-mRNA-1;Parent=Msa1244050;Name=Msa1244050-mRNA-1;_AED=0.04;_eAED=0.04;_QI=0|0|0|1|1|1|2|0|182 |
| chr8_2 | exon | 31565001 | 31565443 | 31565001 | ID=Msa1244050-mRNA-1:exon:10380;Parent=Msa1244050-mRNA-1 |
| chr8_2 | exon | 31565565 | 31565670 | 31565565 | ID=Msa1244050-mRNA-1:exon:10381;Parent=Msa1244050-mRNA-1 |
| chr8_2 | CDS | 31565001 | 31565443 | 31565001 | ID=Msa1244050-mRNA-1:cds;Parent=Msa1244050-mRNA-1 |
| chr8_2 | CDS | 31565565 | 31565670 | 31565565 | ID=Msa1244050-mRNA-1:cds;Parent=Msa1244050-mRNA-1 |
| Gene Sequence |
| Protein sequence |
