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 |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0951540 | sp|Q9AV23|LSI3_ORYSJ | 60.714 | 56 | 21 | 1 | 101 | 155 | 277 | 332 | 1.05e-14 | 73.6 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0951540 | A0A072U8Q6 | 77.473 | 182 | 9 | 1 | 5 | 154 | 207 | 388 | 6.06e-91 | 279 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0951540 | Msa0952020 | 0.808286 | 3.336958e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0951540 | MtrunA17_Chr6g0467831 | 77.596 | 183 | 9 | 1 | 5 | 155 | 207 | 389 | 1.57e-93 | 281 |
| Msa0951540 | MtrunA17_Chr8g0352841 | 67.725 | 189 | 23 | 1 | 5 | 155 | 207 | 395 | 1.09e-84 | 256 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0951540 | AT1G02260.2 | 48.765 | 162 | 59 | 5 | 5 | 155 | 207 | 355 | 6.37e-34 | 124 |
| Msa0951540 | AT1G02260.1 | 48.765 | 162 | 59 | 5 | 5 | 155 | 207 | 355 | 6.37e-34 | 124 |
Find 26 sgRNAs with CRISPR-Local
Find 35 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATGAGAATTAACATCTTCTT+TGG | 0.285311 | 6_3:-42645037 | None:intergenic |
| TGTGTTTATATGATTACATT+AGG | 0.308469 | 6_3:+42645418 | Msa0951540:CDS |
| TATGTCGTGGACTGCAATTT+CGG | 0.400089 | 6_3:+42645471 | Msa0951540:CDS |
| TTGGCTGCAACTTCCGCAAT+CGG | 0.401989 | 6_3:-42645018 | None:intergenic |
| ATGTTGATTGCAATGCTTCT+TGG | 0.424623 | 6_3:+42645442 | Msa0951540:CDS |
| CGAGTGATAGTGAAATTGAT+AGG | 0.432770 | 6_3:+42645190 | Msa0951540:CDS |
| CACTATCACTCGAAACCAAT+CGG | 0.439865 | 6_3:-42645179 | None:intergenic |
| AATTTCGGCTGCATTAGCTT+TGG | 0.452114 | 6_3:+42645486 | Msa0951540:CDS |
| AGAAGTACCTTCTCTAAACT+TGG | 0.473633 | 6_3:-42645535 | None:intergenic |
| CTTAATGCTCAAGAGTTGAA+TGG | 0.478485 | 6_3:+42645099 | Msa0951540:CDS |
| TTCTTGATTTCAAAGATGCC+AGG | 0.478725 | 6_3:+42645512 | Msa0951540:CDS |
| TACCTTCTCTAAACTTGGCC+TGG | 0.479617 | 6_3:-42645530 | None:intergenic |
| TCATAATCTACGAAACCGAT+TGG | 0.523130 | 6_3:+42645164 | Msa0951540:CDS |
| TTTCGTAGATTATGAACTTG+AGG | 0.530794 | 6_3:-42645156 | None:intergenic |
| TTTGATCTCTTCGGAAGGAA+AGG | 0.533553 | 6_3:+42645354 | Msa0951540:CDS |
| GATGTAGATAGAACAATAGA+AGG | 0.539083 | 6_3:+42645325 | Msa0951540:intron |
| GAATAATGAGACATTGTAGC+TGG | 0.539645 | 6_3:-42645069 | None:intergenic |
| AATAGATAACTTACCCAGCA+TGG | 0.561845 | 6_3:-42644977 | None:intergenic |
| TTCTTGGTTTAAATATGTCG+TGG | 0.568745 | 6_3:+42645458 | Msa0951540:CDS |
| GAAATTGATAGGTTTCATGC+TGG | 0.574263 | 6_3:+42645201 | Msa0951540:CDS |
| ACATAGGACCCATCCATGCT+GGG | 0.581749 | 6_3:+42644964 | None:intergenic |
| TGCCAGGCCAAGTTTAGAGA+AGG | 0.593357 | 6_3:+42645528 | Msa0951540:CDS |
| AGATATCGAGGATCCGATTG+CGG | 0.601914 | 6_3:+42645005 | Msa0951540:CDS |
| ATCTATTCATAAAGATATCG+AGG | 0.627397 | 6_3:+42644993 | Msa0951540:CDS |
| CTGAGTGGAAGCGTAGACTG+TGG | 0.666710 | 6_3:+42645389 | Msa0951540:CDS |
| AGGACTGTTTAAGCGCTGAG+TGG | 0.679075 | 6_3:+42645374 | Msa0951540:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TGTGTTTATATGATTACATT+AGG | + | chr6_3:42645418-42645437 | Msa0951540:CDS | 20.0% |
| ! | ATCTATTCATAAAGATATCG+AGG | + | chr6_3:42644993-42645012 | Msa0951540:CDS | 25.0% |
| ! | ATGAGAATTAACATCTTCTT+TGG | - | chr6_3:42645040-42645059 | None:intergenic | 25.0% |
| TTTCGTAGATTATGAACTTG+AGG | - | chr6_3:42645159-42645178 | None:intergenic | 30.0% | |
| TAGAAATTCAACCAAAGGAA+GGG | + | chr6_3:42645242-42645261 | Msa0951540:intron | 30.0% | |
| GATGTAGATAGAACAATAGA+AGG | + | chr6_3:42645325-42645344 | Msa0951540:intron | 30.0% | |
| TTCTTGGTTTAAATATGTCG+TGG | + | chr6_3:42645458-42645477 | Msa0951540:CDS | 30.0% | |
| GAATAATGAGACATTGTAGC+TGG | - | chr6_3:42645072-42645091 | None:intergenic | 35.0% | |
| CTTAATGCTCAAGAGTTGAA+TGG | + | chr6_3:42645099-42645118 | Msa0951540:CDS | 35.0% | |
| TCATAATCTACGAAACCGAT+TGG | + | chr6_3:42645164-42645183 | Msa0951540:CDS | 35.0% | |
| ! | CGAGTGATAGTGAAATTGAT+AGG | + | chr6_3:42645190-42645209 | Msa0951540:CDS | 35.0% |
| GAAATTGATAGGTTTCATGC+TGG | + | chr6_3:42645201-42645220 | Msa0951540:CDS | 35.0% | |
| TCTGCTAGAAATTCAACCAA+AGG | + | chr6_3:42645237-42645256 | Msa0951540:intron | 35.0% | |
| CTAGAAATTCAACCAAAGGA+AGG | + | chr6_3:42645241-42645260 | Msa0951540:intron | 35.0% | |
| TCATTATTAGTCCCTTCCTT+TGG | - | chr6_3:42645256-42645275 | None:intergenic | 35.0% | |
| !!! | AGGACATGTTTTGATCTCTT+CGG | + | chr6_3:42645345-42645364 | Msa0951540:CDS | 35.0% |
| ! | ATGTTGATTGCAATGCTTCT+TGG | + | chr6_3:42645442-42645461 | Msa0951540:CDS | 35.0% |
| TTCTTGATTTCAAAGATGCC+AGG | + | chr6_3:42645512-42645531 | Msa0951540:CDS | 35.0% | |
| !! | AGAAGTACCTTCTCTAAACT+TGG | - | chr6_3:42645538-42645557 | None:intergenic | 35.0% |
| CACTATCACTCGAAACCAAT+CGG | - | chr6_3:42645182-42645201 | None:intergenic | 40.0% | |
| GGAAGGGACTAATAATGACT+TGG | + | chr6_3:42645258-42645277 | Msa0951540:intron | 40.0% | |
| ! | TGACTTGGCATCTCAAACAA+AGG | + | chr6_3:42645273-42645292 | Msa0951540:intron | 40.0% |
| ! | ACATCGACAACAGTTTTCGA+CGG | - | chr6_3:42645310-42645329 | None:intergenic | 40.0% |
| !!! | CATGTTTTGATCTCTTCGGA+AGG | + | chr6_3:42645349-42645368 | Msa0951540:CDS | 40.0% |
| TTTGATCTCTTCGGAAGGAA+AGG | + | chr6_3:42645354-42645373 | Msa0951540:CDS | 40.0% | |
| ! | TATGTCGTGGACTGCAATTT+CGG | + | chr6_3:42645471-42645490 | Msa0951540:CDS | 40.0% |
| ! | AATTTCGGCTGCATTAGCTT+TGG | + | chr6_3:42645486-42645505 | Msa0951540:CDS | 40.0% |
| AGATATCGAGGATCCGATTG+CGG | + | chr6_3:42645005-42645024 | Msa0951540:CDS | 45.0% | |
| CTTGGCATCTCAAACAAAGG+AGG | + | chr6_3:42645276-42645295 | Msa0951540:intron | 45.0% | |
| ! | CATCGACAACAGTTTTCGAC+GGG | - | chr6_3:42645309-42645328 | None:intergenic | 45.0% |
| TACCTTCTCTAAACTTGGCC+TGG | - | chr6_3:42645533-42645552 | None:intergenic | 45.0% | |
| TTGGCTGCAACTTCCGCAAT+CGG | - | chr6_3:42645021-42645040 | None:intergenic | 50.0% | |
| !! | AGGACTGTTTAAGCGCTGAG+TGG | + | chr6_3:42645374-42645393 | Msa0951540:CDS | 50.0% |
| TGCCAGGCCAAGTTTAGAGA+AGG | + | chr6_3:42645528-42645547 | Msa0951540:CDS | 50.0% | |
| ! | CTGAGTGGAAGCGTAGACTG+TGG | + | chr6_3:42645389-42645408 | Msa0951540:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_3 | gene | 42644979 | 42645570 | 42644979 | ID=Msa0951540;Name=Msa0951540 |
| chr6_3 | mRNA | 42644979 | 42645570 | 42644979 | ID=Msa0951540-mRNA-1;Parent=Msa0951540;Name=Msa0951540-mRNA-1;_AED=0.47;_eAED=0.47;_QI=0|0|0|1|1|1|2|0|160 |
| chr6_3 | exon | 42644979 | 42645222 | 42644979 | ID=Msa0951540-mRNA-1:exon:9940;Parent=Msa0951540-mRNA-1 |
| chr6_3 | exon | 42645332 | 42645570 | 42645332 | ID=Msa0951540-mRNA-1:exon:9941;Parent=Msa0951540-mRNA-1 |
| chr6_3 | CDS | 42644979 | 42645222 | 42644979 | ID=Msa0951540-mRNA-1:cds;Parent=Msa0951540-mRNA-1 |
| chr6_3 | CDS | 42645332 | 42645570 | 42645332 | ID=Msa0951540-mRNA-1:cds;Parent=Msa0951540-mRNA-1 |
| Gene Sequence |
| Protein sequence |
