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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1358960 | XP_003597940.1 | 98.571 | 210 | 2 | 1 | 1 | 210 | 1 | 209 | 1.04e-151 | 429 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0038350 | Msa1358960 | -0.814776 | 1.297125e-51 | -8.615850e-47 |
| Msa0072000 | Msa1358960 | 0.825670 | 4.129699e-54 | -8.615850e-47 |
| Msa0094100 | Msa1358960 | 0.802618 | 5.150825e-49 | -8.615850e-47 |
| Msa0158020 | Msa1358960 | 0.817094 | 3.941844e-52 | -8.615850e-47 |
| Msa0179280 | Msa1358960 | 0.817843 | 2.672474e-52 | -8.615850e-47 |
| Msa0185640 | Msa1358960 | -0.846657 | 1.892556e-59 | -8.615850e-47 |
| Msa0190830 | Msa1358960 | 0.813375 | 2.642652e-51 | -8.615850e-47 |
| Msa0208630 | Msa1358960 | 0.800019 | 1.753394e-48 | -8.615850e-47 |
| Msa0215320 | Msa1358960 | -0.813106 | 3.027247e-51 | -8.615850e-47 |
| Msa0226890 | Msa1358960 | 0.837852 | 4.070136e-57 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1358960 | MtrunA17_Chr2g0333351 | 98.571 | 210 | 2 | 1 | 1 | 210 | 1 | 209 | 9.61e-156 | 429 |
| Msa1358960 | MtrunA17_Chr4g0003001 | 60.181 | 221 | 64 | 10 | 1 | 210 | 58 | 265 | 1.02e-80 | 241 |
| Msa1358960 | MtrunA17_Chr4g0064971 | 45.912 | 159 | 70 | 3 | 1 | 158 | 1 | 144 | 2.10e-34 | 122 |
| Msa1358960 | MtrunA17_Chr2g0304551 | 38.378 | 185 | 86 | 6 | 1 | 165 | 1 | 177 | 1.63e-29 | 109 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1358960 | AT1G15760.1 | 44.444 | 225 | 79 | 8 | 3 | 209 | 5 | 201 | 1.03e-57 | 181 |
| Msa1358960 | AT1G80520.1 | 47.489 | 219 | 77 | 8 | 1 | 209 | 1 | 191 | 9.86e-51 | 163 |
| Msa1358960 | AT2G12462.1 | 29.231 | 260 | 121 | 7 | 1 | 209 | 1 | 248 | 4.88e-26 | 101 |
Find 42 sgRNAs with CRISPR-Local
Find 46 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAATGTTTCTCACAAATGGA+AGG | 0.609404 | tig0016604:-15848 | Msa1358960:CDS |
| AAGATGGATGGAGATGATGG+TGG | 0.707845 | tig0016604:-15732 | Msa1358960:CDS |
| AATAATGATAATCATGATGA+TGG | 0.562055 | tig0016604:-15702 | Msa1358960:CDS |
| AATCCACCATTAGGCCTAGT+TGG | 0.510240 | tig0016604:+15936 | None:intergenic |
| AATTTGTAGCTGCAATCAAG+AGG | 0.614506 | tig0016604:-16028 | Msa1358960:CDS |
| ACAGTAGCTCCTGCTTTGTC+TGG | 0.454059 | tig0016604:-15807 | Msa1358960:CDS |
| ACTAGGCCTAATGGTGGATT+TGG | 0.285518 | tig0016604:-15933 | Msa1358960:CDS |
| AGTACTTAGCTAACTATGTT+AGG | 0.383843 | tig0016604:-15998 | Msa1358960:CDS |
| ATAATCATGATGATGGTTAT+TGG | 0.406535 | tig0016604:-15695 | Msa1358960:CDS |
| ATGCCAACTAGGCCTAATGG+TGG | 0.656564 | tig0016604:-15939 | Msa1358960:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GAGAATTTCTAATCTGTGTT+TGG | + | tig0016604:15786-15805 | None:intergenic | 30.0% | |
| AGTACTTAGCTAACTATGTT+AGG | - | tig0016604:15882-15901 | Msa1358960:CDS | 30.0% | |
| GAGAAAATGTTTCTCACAAA+TGG | - | tig0016604:16028-16047 | Msa1358960:CDS | 30.0% | |
| AAATGTTTCTCACAAATGGA+AGG | - | tig0016604:16032-16051 | Msa1358960:CDS | 30.0% | |
| TGTTGTGTATCATTTCCAAA+AGG | - | tig0016604:16120-16139 | Msa1358960:CDS | 30.0% | |
| CCATACTCATATACAAGAGA+TGG | + | tig0016604:15677-15696 | None:intergenic | 35.0% | |
| CCATCTCTTGTATATGAGTA+TGG | - | tig0016604:15674-15693 | Msa1358960:CDS | 35.0% | |
| CATGAGTTTCTACAAAGCAT+GGG | - | tig0016604:15749-15768 | Msa1358960:CDS | 35.0% | |
| TTCTAATCTGTGTTTGGCTA+TGG | + | tig0016604:15780-15799 | None:intergenic | 35.0% | |
| AATTTGTAGCTGCAATCAAG+AGG | - | tig0016604:15852-15871 | Msa1358960:CDS | 35.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0016604 | gene | 15635 | 16267 | 15635 | ID=Msa1358960;Name=Msa1358960 |
| tig0016604 | mRNA | 15635 | 16267 | 15635 | ID=Msa1358960-mRNA-1;Parent=Msa1358960;Name=Msa1358960-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|210 |
| tig0016604 | exon | 15635 | 16267 | 15635 | ID=Msa1358960-mRNA-1:exon:11154;Parent=Msa1358960-mRNA-1 |
| tig0016604 | CDS | 15635 | 16267 | 15635 | ID=Msa1358960-mRNA-1:cds;Parent=Msa1358960-mRNA-1 |
| Gene Sequence |
>Msa1358960 ATGGATTGGTTTTCATGGCTATCAAAAACCAACCTTGAGCCATCTCTTGTATATGAGTATGGCCTTGTCTTTGCACAAAATGAGCTTGAAGAAGAAGACATGTTTTACTTCAACCATGAGTTTCTACAAAGCATGGGAATCTCCATAGCCAAACACAGATTAGAAATTCTCAAGCTTGCTAAAAAAGACAAGAGAAAAAGTCCACACACAGTTGCAAAATTTGTAGCTGCAATCAAGAGGACAAAGAAGTACTTAGCTAACTATGTTAGGACTTTGACTCATACTGAAGAATCAGCACTTATGGTGATGCCAACTAGGCCTAATGGTGGATTTGGGAGAAGATGGAAGAGTGCTATAATGAAGAGGAACACACAATTTGTGGTGGCTAAGCAAGAGAAAATGTTTCTCACAAATGGAAGGTCTTCTTCCATGCCAAAAACAGTAGCTCCTGCTTTGTCTGGTGATCTTGATGGTTTTTCTAGTCCTGTTGTGTATCATTTCCAAAAGGAGCAAAAGATGGATGGAGATGATGGTGGTGATGGTAATAATGATAATCATGATGATGGTTATTGGTCTGCTGCTGTTGAAGAGATTAAGTGGGATACCATGTTTAAGGATCTAAAGCCAAACTAA |
| Protein sequence |
>Msa1358960 MDWFSWLSKTNLEPSLVYEYGLVFAQNELEEEDMFYFNHEFLQSMGISIAKHRLEILKLAKKDKRKSPHTVAKFVAAIKRTKKYLANYVRTLTHTEESALMVMPTRPNGGFGRRWKSAIMKRNTQFVVAKQEKMFLTNGRSSSMPKTVAPALSGDLDGFSSPVVYHFQKEQKMDGDDGGDGNNDNHDDGYWSAAVEEIKWDTMFKDLKPN* |
