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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1310530 | sp|P93331|NOD1_MEDTR | 44.595 | 74 | 39 | 2 | 1 | 73 | 1 | 73 | 7.39e-12 | 57.8 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1310530 | A0A072TMH1 | 74.324 | 74 | 18 | 1 | 1 | 73 | 1 | 74 | 3.38e-29 | 108 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0023610 | Msa1310530 | 0.809548 | 1.791828e-50 | -8.615850e-47 |
| Msa0153200 | Msa1310530 | 0.831450 | 1.657995e-55 | -8.615850e-47 |
| Msa1310530 | Msa1347360 | 0.940662 | 1.588439e-100 | -8.615850e-47 |
| Msa1310530 | Msa1359820 | 0.818162 | 2.263326e-52 | -8.615850e-47 |
| Msa1310530 | Msa1463140 | 0.815791 | 7.714322e-52 | -8.615850e-47 |
| Msa0999340 | Msa1310530 | 0.805399 | 1.360079e-49 | -8.615850e-47 |
| Msa1006250 | Msa1310530 | 0.818875 | 1.560119e-52 | -8.615850e-47 |
| Msa1182730 | Msa1310530 | 0.941394 | 4.489278e-101 | -8.615850e-47 |
| Msa0884920 | Msa1310530 | 0.850697 | 1.436012e-60 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1310530 | MtrunA17_Chr8g0337731 | 74.324 | 74 | 18 | 1 | 1 | 73 | 1 | 74 | 6.50e-33 | 108 |
| Msa1310530 | MtrunA17_Chr8g0337721 | 71.622 | 74 | 20 | 1 | 1 | 73 | 1 | 74 | 2.11e-30 | 101 |
| Msa1310530 | MtrunA17_Chr8g0337781 | 54.795 | 73 | 33 | 0 | 1 | 73 | 1 | 73 | 1.16e-23 | 84.7 |
| Msa1310530 | MtrunA17_Chr8g0337741 | 59.722 | 72 | 28 | 1 | 3 | 73 | 1 | 72 | 1.42e-22 | 82.0 |
| Msa1310530 | MtrunA17_Chr8g0337711 | 47.945 | 73 | 38 | 0 | 1 | 73 | 1 | 73 | 3.86e-20 | 75.9 |
| Msa1310530 | MtrunA17_Chr8g0337061 | 40.278 | 72 | 42 | 1 | 1 | 71 | 9 | 80 | 3.61e-13 | 58.5 |
| Msa1310530 | MtrunA17_Chr6g0458787 | 44.595 | 74 | 39 | 2 | 1 | 73 | 1 | 73 | 7.81e-13 | 57.4 |
| Msa1310530 | MtrunA17_Chr6g0458744 | 44.595 | 74 | 39 | 2 | 1 | 73 | 37 | 109 | 1.90e-12 | 57.4 |
| Msa1310530 | MtrunA17_Chr6g0458644 | 44.595 | 74 | 39 | 2 | 1 | 73 | 37 | 109 | 1.90e-12 | 57.4 |
| Msa1310530 | MtrunA17_Chr6g0458807 | 41.892 | 74 | 41 | 2 | 1 | 73 | 1 | 73 | 2.33e-12 | 56.2 |
| Msa1310530 | MtrunA17_Chr6g0458701 | 44.595 | 74 | 39 | 2 | 1 | 73 | 37 | 109 | 2.61e-12 | 57.0 |
| Msa1310530 | MtrunA17_Chr8g0337751 | 46.575 | 73 | 32 | 2 | 1 | 73 | 1 | 66 | 2.23e-11 | 53.5 |
| 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 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATGGAGATGAAAACACTTCT+TGG | 0.303033 | 8_4:-7125715 | Msa1310530:CDS |
| TGTGACTTTGTTTGCAAGAA+TGG | 0.416156 | 8_4:-7125154 | Msa1310530:CDS |
| GTGACTTTGTTTGCAAGAAT+GGG | 0.440082 | 8_4:-7125153 | Msa1310530:CDS |
| CACACACTTCACTTAGAGTT+GGG | 0.463643 | 8_4:+7125173 | None:intergenic |
| AAGAATGGGGACAGATTACC+AGG | 0.497095 | 8_4:-7125139 | Msa1310530:CDS |
| TTCTTTGCTAGTTCATGCGT+TGG | 0.502913 | 8_4:-7125196 | Msa1310530:CDS |
| TCACACACTTCACTTAGAGT+TGG | 0.517794 | 8_4:+7125172 | None:intergenic |
| GAAGCTGTGGTGCATATTGA+AGG | 0.581749 | 8_4:-7125238 | Msa1310530:CDS |
| GAGCAGCTAAGAGAATAAAG+AGG | 0.606301 | 8_4:+7125680 | None:intergenic |
| TGACTTTGTTTGCAAGAATG+GGG | 0.653532 | 8_4:-7125152 | Msa1310530:CDS |
| GTAAAATGCAGAAGAAGCTG+TGG | 0.696941 | 8_4:-7125251 | Msa1310530:intron |
| AATGGGGACAGATTACCAGG+TGG | 0.792109 | 8_4:-7125136 | Msa1310530:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTATATGCTTTTTTTGAACA+AGG | - | chr8_4:7125163-7125182 | Msa1310530:CDS | 20.0% |
| !!! | TAAGCAAATTTTCATCTTTA+AGG | - | chr8_4:7125268-7125287 | Msa1310530:intron | 20.0% |
| !!! | TAAGCAAATTTTCATCTTTA+AGG | + | chr8_4:7125268-7125287 | None:intergenic | 20.0% |
| !! | AATTTGCTTATAAATGAGAC+CGG | + | chr8_4:7125358-7125377 | None:intergenic | 25.0% |
| !! | AATTTGCTTATAAATGAGAC+CGG | - | chr8_4:7125358-7125377 | Msa1310530:intron | 25.0% |
| !!! | TTTTTTTGAACAAGGCTTGT+AGG | - | chr8_4:7125171-7125190 | Msa1310530:CDS | 30.0% |
| ! | GAACTTTAGAAGAGAAAAGA+AGG | + | chr8_4:7125220-7125239 | None:intergenic | 30.0% |
| CATTGAATAAACGATGTTTG+TGG | - | chr8_4:7125293-7125312 | Msa1310530:intron | 30.0% | |
| ATGGAGATGAAAACACTTCT+TGG | - | chr8_4:7125099-7125118 | Msa1310530:CDS | 35.0% | |
| ! | TGTGACTTTGTTTGCAAGAA+TGG | - | chr8_4:7125660-7125679 | Msa1310530:intron | 35.0% |
| ! | GTGACTTTGTTTGCAAGAAT+GGG | - | chr8_4:7125661-7125680 | Msa1310530:intron | 35.0% |
| ! | TGACTTTGTTTGCAAGAATG+GGG | - | chr8_4:7125662-7125681 | Msa1310530:intron | 35.0% |
| GAGCAGCTAAGAGAATAAAG+AGG | + | chr8_4:7125137-7125156 | None:intergenic | 40.0% | |
| TTGCTTATAAATGAGACCGG+AGG | + | chr8_4:7125361-7125380 | None:intergenic | 40.0% | |
| CATTGAATGAACGATGTCTG+TGG | + | chr8_4:7125323-7125342 | None:intergenic | 40.0% | |
| TTGCTTATAAATGAGACCGG+AGG | - | chr8_4:7125361-7125380 | Msa1310530:intron | 40.0% | |
| TGCTTATAAATGAGACCGGA+GGG | - | chr8_4:7125362-7125381 | Msa1310530:intron | 40.0% | |
| AATCAGAATCATATCCCCTC+CGG | + | chr8_4:7125380-7125399 | None:intergenic | 40.0% | |
| GTAAAATGCAGAAGAAGCTG+TGG | - | chr8_4:7125563-7125582 | Msa1310530:intron | 40.0% | |
| TTCTTTGCTAGTTCATGCGT+TGG | - | chr8_4:7125618-7125637 | Msa1310530:intron | 40.0% | |
| CACACACTTCACTTAGAGTT+GGG | + | chr8_4:7125644-7125663 | None:intergenic | 40.0% | |
| TCACACACTTCACTTAGAGT+TGG | + | chr8_4:7125645-7125664 | None:intergenic | 40.0% | |
| GTTCTTTCGAGATACTCCTC+CGG | - | chr8_4:7125236-7125255 | Msa1310530:CDS | 45.0% | |
| GCTTATAAATGAGACCGGAG+GGG | - | chr8_4:7125363-7125382 | Msa1310530:intron | 45.0% | |
| GAAGCTGTGGTGCATATTGA+AGG | - | chr8_4:7125576-7125595 | Msa1310530:intron | 45.0% | |
| AAGAATGGGGACAGATTACC+AGG | - | chr8_4:7125675-7125694 | Msa1310530:intron | 45.0% | |
| !! | TCATTTTTGCAGGAACCACC+TGG | + | chr8_4:7125696-7125715 | None:intergenic | 45.0% |
| AGGTGGTTCCTGCAAAAATG+AGG | - | chr8_4:7125695-7125714 | Msa1310530:CDS | 45.0% | |
| !! | CATGCACTCCTCATTTTTGC+AGG | + | chr8_4:7125706-7125725 | None:intergenic | 45.0% |
| !!! | TAATATTTTCAATTATTAAA+AGG | + | chr8_4:7125426-7125445 | None:intergenic | 5.0% |
| AATGGGGACAGATTACCAGG+TGG | - | chr8_4:7125678-7125697 | Msa1310530:intron | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_4 | gene | 7125099 | 7125737 | 7125099 | ID=Msa1310530;Name=Msa1310530 |
| chr8_4 | mRNA | 7125099 | 7125737 | 7125099 | ID=Msa1310530-mRNA-1;Parent=Msa1310530;Name=Msa1310530-mRNA-1;_AED=0.46;_eAED=0.46;_QI=0|0|0|1|1|1|2|0|73 |
| chr8_4 | exon | 7125680 | 7125737 | 7125680 | ID=Msa1310530-mRNA-1:exon:2514;Parent=Msa1310530-mRNA-1 |
| chr8_4 | exon | 7125099 | 7125262 | 7125099 | ID=Msa1310530-mRNA-1:exon:2513;Parent=Msa1310530-mRNA-1 |
| chr8_4 | CDS | 7125680 | 7125737 | 7125680 | ID=Msa1310530-mRNA-1:cds;Parent=Msa1310530-mRNA-1 |
| chr8_4 | CDS | 7125099 | 7125262 | 7125099 | ID=Msa1310530-mRNA-1:cds;Parent=Msa1310530-mRNA-1 |
| Gene Sequence |
| Protein sequence |
