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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0396290 | AES68797.1 | 84.507 | 71 | 11 | 0 | 1 | 71 | 1 | 71 | 5.25e-33 | 118 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0396290 | G7IVW3 | 84.507 | 71 | 11 | 0 | 1 | 71 | 1 | 71 | 2.51e-33 | 118 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0396240 | Msa0396290 | 0.810337 | 1.212078e-50 | -8.615850e-47 |
| Msa0396290 | Msa0396300 | 0.812407 | 4.306048e-51 | -8.615850e-47 |
| Msa0396290 | Msa1121700 | 0.804480 | 2.116641e-49 | -8.615850e-47 |
| Msa0396290 | Msa1122150 | 0.809953 | 1.466667e-50 | -8.615850e-47 |
| Msa0396290 | Msa1342380 | 0.801982 | 6.962062e-49 | -8.615850e-47 |
| Msa0349340 | Msa0396290 | 0.818788 | 1.632263e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0396290 | MtrunA17_Chr3g0082801 | 84.507 | 71 | 11 | 0 | 1 | 71 | 4 | 74 | 4.86e-37 | 118 |
| Msa0396290 | MtrunA17_Chr3g0082851 | 68.254 | 63 | 16 | 3 | 1 | 63 | 1 | 59 | 4.20e-20 | 75.5 |
| Msa0396290 | MtrunA17_Chr3g0082821 | 53.226 | 62 | 24 | 3 | 1 | 61 | 1 | 58 | 4.65e-13 | 57.8 |
| Msa0396290 | MtrunA17_Chr3g0082831 | 50.820 | 61 | 24 | 3 | 1 | 61 | 1 | 55 | 2.47e-11 | 53.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 33 sgRNAs with CRISPR-Local
Find 46 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTTTGCCATTCTTATGATTC+TGG | 0.176754 | 3_2:+14175513 | None:intergenic |
| CTCCGATATAAGATATATTA+TGG | 0.196890 | 3_2:-14175894 | Msa0396290:exon |
| TGCCGTTGCTTCTACTTTCA+TGG | 0.219220 | 3_2:+14175817 | None:intergenic |
| CTTAGTACTAAGTTAATTCT+AGG | 0.225492 | 3_2:-14175354 | Msa0396290:three_prime_UTR |
| GAGGAGGCACAGCATAGTTA+TGG | 0.405206 | 3_2:+14175568 | None:intergenic |
| CATTCTGTTGGTGTTAATGA+TGG | 0.424860 | 3_2:-14175600 | Msa0396290:CDS |
| GTACTAAGTTAATTCTAGGT+TGG | 0.428778 | 3_2:-14175350 | Msa0396290:three_prime_UTR |
| AGCCATAATATATCTTATAT+CGG | 0.440517 | 3_2:+14175892 | None:intergenic |
| AGGAGGCACAGCATAGTTAT+GGG | 0.448878 | 3_2:+14175569 | None:intergenic |
| CATGCTTCTTTGTGAGGAAG+AGG | 0.456230 | 3_2:+14175770 | None:intergenic |
| CTGATTGGTGCAGGAGGAGG+AGG | 0.483631 | 3_2:+14175552 | None:intergenic |
| AACAACTTGAACACTATACT+TGG | 0.506730 | 3_2:+14175948 | None:intergenic |
| CAACTGATTGGTGCAGGAGG+AGG | 0.506888 | 3_2:+14175549 | None:intergenic |
| CAACGGCAAGGGTACCATCA+TGG | 0.520766 | 3_2:-14175802 | Msa0396290:CDS |
| AAGAATCAACTGATTGGTGC+AGG | 0.527694 | 3_2:+14175543 | None:intergenic |
| TAAAAGTGTTATGTTAAACC+TGG | 0.528314 | 3_2:-14175864 | Msa0396290:CDS |
| TAGTACTAAGTCATAGTACT+TGG | 0.544103 | 3_2:+14175367 | None:intergenic |
| TACTTACATGCTTCTTTGTG+AGG | 0.549537 | 3_2:+14175764 | None:intergenic |
| AGAATGGCAAACAAGTATGT+TGG | 0.557736 | 3_2:-14175502 | Msa0396290:three_prime_UTR |
| GAGCACCAGAATCATAAGAA+TGG | 0.560588 | 3_2:-14175518 | Msa0396290:three_prime_UTR |
| ATGTTTAGTACAAAATATAA+CGG | 0.563114 | 3_2:+14175322 | None:intergenic |
| GGACGCCTACTTCATTCTGT+TGG | 0.568175 | 3_2:-14175612 | Msa0396290:CDS |
| GCTCTGAAGAATCAACTGAT+TGG | 0.569246 | 3_2:+14175537 | None:intergenic |
| TAACACCAACAGAATGAAGT+AGG | 0.577968 | 3_2:+14175607 | None:intergenic |
| GTCCATGAAAGTAGAAGCAA+CGG | 0.580256 | 3_2:-14175819 | Msa0396290:CDS |
| GAATCATAAACAGAAAAGCC+AGG | 0.588758 | 3_2:+14175846 | None:intergenic |
| TGAAAGTAGAAGCAACGGCA+AGG | 0.589324 | 3_2:-14175814 | Msa0396290:CDS |
| ATGTTGGCAAAGAATAAACA+TGG | 0.605178 | 3_2:-14175486 | Msa0396290:three_prime_UTR |
| GAAAGTAGAAGCAACGGCAA+GGG | 0.621106 | 3_2:-14175813 | Msa0396290:CDS |
| AATCAACTGATTGGTGCAGG+AGG | 0.632665 | 3_2:+14175546 | None:intergenic |
| TTGGAAAAGGAAAAGGGAGA+CGG | 0.660028 | 3_2:-14176014 | None:intergenic |
| ACAGCATAGTTATGGGAGCG+TGG | 0.670795 | 3_2:+14175576 | None:intergenic |
| TGTTGGCAAAGAATAAACAT+GGG | 0.690833 | 3_2:-14175485 | Msa0396290:three_prime_UTR |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAAATATATATATAGTGGT+TGG | + | chr3_2:14175889-14175908 | None:intergenic | 15.0% |
| !! | ATGTTTAGTACAAAATATAA+CGG | + | chr3_2:14175978-14175997 | None:intergenic | 15.0% |
| !! | AGCCATAATATATCTTATAT+CGG | + | chr3_2:14175408-14175427 | None:intergenic | 20.0% |
| !!! | ATTATTAAACAAGTTTTGCT+AGG | + | chr3_2:14175852-14175871 | None:intergenic | 20.0% |
| ! | ATTGAACCTTAAAAAGTAGT+AGG | + | chr3_2:14175311-14175330 | None:intergenic | 25.0% |
| ! | CTCCGATATAAGATATATTA+TGG | - | chr3_2:14175403-14175422 | Msa0396290:three_prime_UTR | 25.0% |
| !!! | TAAAAGTGTTATGTTAAACC+TGG | - | chr3_2:14175433-14175452 | Msa0396290:three_prime_UTR | 25.0% |
| !! | TTTTCCATTAAAATTGTGCA+TGG | - | chr3_2:14175606-14175625 | Msa0396290:CDS | 25.0% |
| !! | TTAACCATGCACAATTTTAA+TGG | + | chr3_2:14175613-14175632 | None:intergenic | 25.0% |
| ! | CTTAGTACTAAGTTAATTCT+AGG | - | chr3_2:14175943-14175962 | Msa0396290:five_prime_UTR | 25.0% |
| AACAACTTGAACACTATACT+TGG | + | chr3_2:14175352-14175371 | None:intergenic | 30.0% | |
| ! | GCATGTAAGTAACTTTTTGT+AGG | - | chr3_2:14175545-14175564 | Msa0396290:exon | 30.0% |
| ATATTGTTGCCATGTTTGTT+TGG | - | chr3_2:14175649-14175668 | Msa0396290:intron | 30.0% | |
| TATTGTTGCCATGTTTGTTT+GGG | - | chr3_2:14175650-14175669 | Msa0396290:intron | 30.0% | |
| ATGTTGGCAAAGAATAAACA+TGG | - | chr3_2:14175811-14175830 | Msa0396290:CDS | 30.0% | |
| TGTTGGCAAAGAATAAACAT+GGG | - | chr3_2:14175812-14175831 | Msa0396290:CDS | 30.0% | |
| TAGTACTAAGTCATAGTACT+TGG | + | chr3_2:14175933-14175952 | None:intergenic | 30.0% | |
| GTACTAAGTTAATTCTAGGT+TGG | - | chr3_2:14175947-14175966 | Msa0396290:five_prime_UTR | 30.0% | |
| GAATCATAAACAGAAAAGCC+AGG | + | chr3_2:14175454-14175473 | None:intergenic | 35.0% | |
| ! | AGAGGCTTAATTTTCCATGA+TGG | + | chr3_2:14175512-14175531 | None:intergenic | 35.0% |
| TACTTACATGCTTCTTTGTG+AGG | + | chr3_2:14175536-14175555 | None:intergenic | 35.0% | |
| CAAACATGGCAACAATATGA+AGG | + | chr3_2:14175647-14175666 | None:intergenic | 35.0% | |
| TTGAGATTCCCAAACAAACA+TGG | + | chr3_2:14175661-14175680 | None:intergenic | 35.0% | |
| TTGTTTGGGAATCTCAAAGA+TGG | - | chr3_2:14175664-14175683 | Msa0396290:intron | 35.0% | |
| TAACACCAACAGAATGAAGT+AGG | + | chr3_2:14175693-14175712 | None:intergenic | 35.0% | |
| !! | CATTCTGTTGGTGTTAATGA+TGG | - | chr3_2:14175697-14175716 | Msa0396290:intron | 35.0% |
| GTTTGCCATTCTTATGATTC+TGG | + | chr3_2:14175787-14175806 | None:intergenic | 35.0% | |
| AGAATGGCAAACAAGTATGT+TGG | - | chr3_2:14175795-14175814 | Msa0396290:CDS | 35.0% | |
| !!! | ACGGTGCCTACTACTTTTTA+AGG | - | chr3_2:14175302-14175321 | Msa0396290:three_prime_UTR | 40.0% |
| GTCCATGAAAGTAGAAGCAA+CGG | - | chr3_2:14175478-14175497 | Msa0396290:three_prime_UTR | 40.0% | |
| AAGAATCAACTGATTGGTGC+AGG | + | chr3_2:14175757-14175776 | None:intergenic | 40.0% | |
| !! | GCTCTGAAGAATCAACTGAT+TGG | + | chr3_2:14175763-14175782 | None:intergenic | 40.0% |
| GAGCACCAGAATCATAAGAA+TGG | - | chr3_2:14175779-14175798 | Msa0396290:CDS | 40.0% | |
| TGCCGTTGCTTCTACTTTCA+TGG | + | chr3_2:14175483-14175502 | None:intergenic | 45.0% | |
| TGAAAGTAGAAGCAACGGCA+AGG | - | chr3_2:14175483-14175502 | Msa0396290:three_prime_UTR | 45.0% | |
| GAAAGTAGAAGCAACGGCAA+GGG | - | chr3_2:14175484-14175503 | Msa0396290:three_prime_UTR | 45.0% | |
| CATGCTTCTTTGTGAGGAAG+AGG | + | chr3_2:14175530-14175549 | None:intergenic | 45.0% | |
| ! | AGGAGGCACAGCATAGTTAT+GGG | + | chr3_2:14175731-14175750 | None:intergenic | 45.0% |
| AATCAACTGATTGGTGCAGG+AGG | + | chr3_2:14175754-14175773 | None:intergenic | 45.0% | |
| !! | AAATAAAAATATATATATAG+TGG | + | chr3_2:14175893-14175912 | None:intergenic | 5.0% |
| GGACGCCTACTTCATTCTGT+TGG | - | chr3_2:14175685-14175704 | Msa0396290:intron | 50.0% | |
| ACAGCATAGTTATGGGAGCG+TGG | + | chr3_2:14175724-14175743 | None:intergenic | 50.0% | |
| ! | GAGGAGGCACAGCATAGTTA+TGG | + | chr3_2:14175732-14175751 | None:intergenic | 50.0% |
| !! | CAACGGCAAGGGTACCATCA+TGG | - | chr3_2:14175495-14175514 | Msa0396290:three_prime_UTR | 55.0% |
| CAACTGATTGGTGCAGGAGG+AGG | + | chr3_2:14175751-14175770 | None:intergenic | 55.0% | |
| CTGATTGGTGCAGGAGGAGG+AGG | + | chr3_2:14175748-14175767 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_2 | gene | 14175295 | 14176024 | 14175295 | ID=Msa0396290;Name=Msa0396290 |
| chr3_2 | mRNA | 14175295 | 14176024 | 14175295 | ID=Msa0396290-mRNA-1;Parent=Msa0396290;Name=Msa0396290-mRNA-1;_AED=0.40;_eAED=0.40;_QI=127|1|1|1|1|1|2|253|71 |
| chr3_2 | exon | 14175295 | 14175636 | 14175295 | ID=Msa0396290-mRNA-1:exon:3276;Parent=Msa0396290-mRNA-1 |
| chr3_2 | exon | 14175771 | 14176024 | 14175771 | ID=Msa0396290-mRNA-1:exon:3275;Parent=Msa0396290-mRNA-1 |
| chr3_2 | five_prime_UTR | 14175898 | 14176024 | 14175898 | ID=Msa0396290-mRNA-1:five_prime_utr;Parent=Msa0396290-mRNA-1 |
| chr3_2 | CDS | 14175771 | 14175897 | 14175771 | ID=Msa0396290-mRNA-1:cds;Parent=Msa0396290-mRNA-1 |
| chr3_2 | CDS | 14175548 | 14175636 | 14175548 | ID=Msa0396290-mRNA-1:cds;Parent=Msa0396290-mRNA-1 |
| chr3_2 | three_prime_UTR | 14175295 | 14175547 | 14175295 | ID=Msa0396290-mRNA-1:three_prime_utr;Parent=Msa0396290-mRNA-1 |
| Gene Sequence |
| Protein sequence |
