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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0466220 | GAU44153.1 | 71.809 | 188 | 45 | 5 | 14 | 194 | 176 | 362 | 7.42e-73 | 234 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0466220 | sp|F4K6X0|CHR42_ARATH | 63.415 | 82 | 27 | 2 | 113 | 192 | 37 | 117 | 3.16e-26 | 100 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0466220 | A0A2Z6NPY8 | 71.809 | 188 | 45 | 5 | 14 | 194 | 176 | 362 | 3.54e-73 | 234 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0235890 | Msa0466220 | 0.803784 | 2.954273e-49 | -8.615850e-47 |
| Msa0371770 | Msa0466220 | 0.820643 | 6.153097e-53 | -8.615850e-47 |
| Msa0371810 | Msa0466220 | 0.867000 | 1.888977e-65 | -8.615850e-47 |
| Msa0466220 | Msa0466280 | 0.868818 | 4.922280e-66 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0466220 | MtrunA17_Chr3g0119011 | 72.519 | 131 | 30 | 5 | 67 | 194 | 1 | 128 | 9.93e-55 | 170 |
| Msa0466220 | MtrunA17_Chr3g0118991 | 94.915 | 59 | 3 | 0 | 136 | 194 | 1 | 59 | 6.79e-38 | 125 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0466220 | AT5G20935.1 | 63.415 | 82 | 27 | 2 | 113 | 192 | 37 | 117 | 3.21e-27 | 100 |
Find 37 sgRNAs with CRISPR-Local
Find 96 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTGTTGTTGAACTTTGATTT+TGG | 0.183450 | 3_3:+66818680 | None:intergenic |
| ACGTTTGTACAAGCCAAAAT+TGG | 0.210526 | 3_3:+66818491 | None:intergenic |
| TCATGATCTGATGAGTCTTT+TGG | 0.253488 | 3_3:+66818618 | None:intergenic |
| TGGAGCTTCAATGATAATAA+TGG | 0.263065 | 3_3:+66818551 | None:intergenic |
| GCTATACTCGGCCATATCTA+AGG | 0.274936 | 3_3:+66818154 | None:intergenic |
| AGCAAAGCAACTGAAATATT+TGG | 0.275483 | 3_3:+66818654 | None:intergenic |
| AAACGTTCAAAGTTGGATAA+AGG | 0.314200 | 3_3:-66818579 | Msa0466220:CDS |
| TCGGTTTATTGCCCCAATTT+TGG | 0.319384 | 3_3:-66818504 | Msa0466220:CDS |
| ATTGGAACTTATATTATTGA+TGG | 0.349289 | 3_3:-66818191 | Msa0466220:CDS |
| GGTCAAAACTGCAGCTAATT+CGG | 0.362866 | 3_3:-66818523 | Msa0466220:CDS |
| TTGGTGTCGACCTTCAAATA+TGG | 0.367295 | 3_3:+66818699 | None:intergenic |
| CGTTTGTACAAGCCAAAATT+GGG | 0.376043 | 3_3:+66818492 | None:intergenic |
| GGAGCTTCAATGATAATAAT+GGG | 0.378832 | 3_3:+66818552 | None:intergenic |
| ATATTTCAAGCCCTTAGATA+TGG | 0.418211 | 3_3:-66818165 | Msa0466220:CDS |
| AACGTTCAAAGTTGGATAAA+GGG | 0.431347 | 3_3:-66818578 | Msa0466220:CDS |
| TACCACCAAGCCATATTTGA+AGG | 0.463739 | 3_3:-66818709 | Msa0466220:CDS |
| TGGGCAGTGCGGCGCAGCAT+TGG | 0.466372 | 3_3:-66818209 | Msa0466220:CDS |
| TCGTCACTGAAGGGCGGCAT+AGG | 0.493892 | 3_3:-66818801 | Msa0466220:CDS |
| TATCATTGAAGCTCCAAAGA+TGG | 0.502814 | 3_3:-66818544 | Msa0466220:CDS |
| CTTGGTGGTAGAGCAAGAAA+TGG | 0.514075 | 3_3:+66818722 | None:intergenic |
| CTTAATCAGCTAGCTATACT+CGG | 0.522059 | 3_3:+66818142 | None:intergenic |
| TCAATCCTATCATATGAATG+AGG | 0.535136 | 3_3:+66818912 | None:intergenic |
| CAATCCTATCATATGAATGA+GGG | 0.550534 | 3_3:+66818913 | None:intergenic |
| GACCTTCAAATATGGCTTGG+TGG | 0.555798 | 3_3:+66818707 | None:intergenic |
| ATATTTCAGTTGCTTTGCTG+AGG | 0.568408 | 3_3:-66818650 | Msa0466220:CDS |
| TGAAGAGAAATCGTCACTGA+AGG | 0.571836 | 3_3:-66818811 | Msa0466220:CDS |
| CTATACTCGGCCATATCTAA+GGG | 0.573177 | 3_3:+66818155 | None:intergenic |
| GTCGACCTTCAAATATGGCT+TGG | 0.586091 | 3_3:+66818704 | None:intergenic |
| GAAGAGAAATCGTCACTGAA+GGG | 0.609977 | 3_3:-66818810 | Msa0466220:CDS |
| TATAGCTTTAGCAGCTAGCG+TGG | 0.624314 | 3_3:+66818773 | None:intergenic |
| TTGTACAAACGTGGTGATGT+TGG | 0.626789 | 3_3:-66818480 | Msa0466220:CDS |
| ATCCTATCATATGAATGAGG+GGG | 0.635069 | 3_3:+66818915 | None:intergenic |
| AATCCTATCATATGAATGAG+GGG | 0.646986 | 3_3:+66818914 | None:intergenic |
| GAGAAATCGTCACTGAAGGG+CGG | 0.670159 | 3_3:-66818807 | Msa0466220:CDS |
| ACAAACGTGGTGATGTTGGA+AGG | 0.684402 | 3_3:-66818476 | Msa0466220:intron |
| AAGAAGATGTGTGGGCAGTG+CGG | 0.684625 | 3_3:-66818220 | Msa0466220:CDS |
| GTTTGTACAAGCCAAAATTG+GGG | 0.698986 | 3_3:+66818493 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTGTCTAAAGATTAATTAAT+TGG | + | chr3_3:66818734-66818753 | None:intergenic | 15.0% |
| !! | TTGTCTAAAGATTAATTAAT+TGG | + | chr3_3:66818734-66818753 | None:intergenic | 15.0% |
| !! | GCATAATCAAATGAATAAAA+TGG | - | chr3_3:66818785-66818804 | Msa0466220:CDS | 20.0% |
| !! | ATTGGAACTTATATTATTGA+TGG | - | chr3_3:66818890-66818909 | Msa0466220:CDS | 20.0% |
| !! | GCATAATCAAATGAATAAAA+TGG | - | chr3_3:66818785-66818804 | Msa0466220:CDS | 20.0% |
| !! | ATTGGAACTTATATTATTGA+TGG | - | chr3_3:66818890-66818909 | Msa0466220:CDS | 20.0% |
| ! | TGATGAAAAATTAAGAGATG+AGG | + | chr3_3:66818638-66818657 | None:intergenic | 25.0% |
| ! | TGATGAAAAATTAAGAGATG+AGG | + | chr3_3:66818638-66818657 | None:intergenic | 25.0% |
| AATCCTATCATATGAATGAG+GGG | + | chr3_3:66818170-66818189 | None:intergenic | 30.0% | |
| CAATCCTATCATATGAATGA+GGG | + | chr3_3:66818171-66818190 | None:intergenic | 30.0% | |
| TCAATCCTATCATATGAATG+AGG | + | chr3_3:66818172-66818191 | None:intergenic | 30.0% | |
| !! | CTGTTGTTGAACTTTGATTT+TGG | + | chr3_3:66818404-66818423 | None:intergenic | 30.0% |
| AGCAAAGCAACTGAAATATT+TGG | + | chr3_3:66818430-66818449 | None:intergenic | 30.0% | |
| AAACGTTCAAAGTTGGATAA+AGG | - | chr3_3:66818502-66818521 | Msa0466220:CDS | 30.0% | |
| AACGTTCAAAGTTGGATAAA+GGG | - | chr3_3:66818503-66818522 | Msa0466220:CDS | 30.0% | |
| GGAGCTTCAATGATAATAAT+GGG | + | chr3_3:66818532-66818551 | None:intergenic | 30.0% | |
| TGGAGCTTCAATGATAATAA+TGG | + | chr3_3:66818533-66818552 | None:intergenic | 30.0% | |
| AAAAAAGCAAGAAGATGTGT+GGG | - | chr3_3:66818853-66818872 | Msa0466220:CDS | 30.0% | |
| ATATTTCAAGCCCTTAGATA+TGG | - | chr3_3:66818916-66818935 | Msa0466220:CDS | 30.0% | |
| AATCCTATCATATGAATGAG+GGG | + | chr3_3:66818170-66818189 | None:intergenic | 30.0% | |
| CAATCCTATCATATGAATGA+GGG | + | chr3_3:66818171-66818190 | None:intergenic | 30.0% | |
| TCAATCCTATCATATGAATG+AGG | + | chr3_3:66818172-66818191 | None:intergenic | 30.0% | |
| !! | CTGTTGTTGAACTTTGATTT+TGG | + | chr3_3:66818404-66818423 | None:intergenic | 30.0% |
| AGCAAAGCAACTGAAATATT+TGG | + | chr3_3:66818430-66818449 | None:intergenic | 30.0% | |
| AAACGTTCAAAGTTGGATAA+AGG | - | chr3_3:66818502-66818521 | Msa0466220:CDS | 30.0% | |
| AACGTTCAAAGTTGGATAAA+GGG | - | chr3_3:66818503-66818522 | Msa0466220:CDS | 30.0% | |
| GGAGCTTCAATGATAATAAT+GGG | + | chr3_3:66818532-66818551 | None:intergenic | 30.0% | |
| TGGAGCTTCAATGATAATAA+TGG | + | chr3_3:66818533-66818552 | None:intergenic | 30.0% | |
| AAAAAAGCAAGAAGATGTGT+GGG | - | chr3_3:66818853-66818872 | Msa0466220:CDS | 30.0% | |
| ATATTTCAAGCCCTTAGATA+TGG | - | chr3_3:66818916-66818935 | Msa0466220:CDS | 30.0% | |
| ATCCTATCATATGAATGAGG+GGG | + | chr3_3:66818169-66818188 | None:intergenic | 35.0% | |
| ! | ATATTTCAGTTGCTTTGCTG+AGG | - | chr3_3:66818431-66818450 | Msa0466220:intron | 35.0% |
| ! | TCATGATCTGATGAGTCTTT+TGG | + | chr3_3:66818466-66818485 | None:intergenic | 35.0% |
| GCAAGAAAAACGTTCAAAGT+TGG | - | chr3_3:66818495-66818514 | Msa0466220:CDS | 35.0% | |
| TATCATTGAAGCTCCAAAGA+TGG | - | chr3_3:66818537-66818556 | Msa0466220:CDS | 35.0% | |
| GTTTGTACAAGCCAAAATTG+GGG | + | chr3_3:66818591-66818610 | None:intergenic | 35.0% | |
| CGTTTGTACAAGCCAAAATT+GGG | + | chr3_3:66818592-66818611 | None:intergenic | 35.0% | |
| ACGTTTGTACAAGCCAAAAT+TGG | + | chr3_3:66818593-66818612 | None:intergenic | 35.0% | |
| !!! | AATTTTGGCTTGTACAAACG+TGG | - | chr3_3:66818592-66818611 | Msa0466220:CDS | 35.0% |
| ! | CAAATTTTACACACACTAGC+AGG | - | chr3_3:66818672-66818691 | Msa0466220:CDS | 35.0% |
| CAAAAAAGCAAGAAGATGTG+TGG | - | chr3_3:66818852-66818871 | Msa0466220:CDS | 35.0% | |
| ATCCTATCATATGAATGAGG+GGG | + | chr3_3:66818169-66818188 | None:intergenic | 35.0% | |
| ! | ATATTTCAGTTGCTTTGCTG+AGG | - | chr3_3:66818431-66818450 | Msa0466220:intron | 35.0% |
| ! | TCATGATCTGATGAGTCTTT+TGG | + | chr3_3:66818466-66818485 | None:intergenic | 35.0% |
| GCAAGAAAAACGTTCAAAGT+TGG | - | chr3_3:66818495-66818514 | Msa0466220:CDS | 35.0% | |
| TATCATTGAAGCTCCAAAGA+TGG | - | chr3_3:66818537-66818556 | Msa0466220:CDS | 35.0% | |
| GTTTGTACAAGCCAAAATTG+GGG | + | chr3_3:66818591-66818610 | None:intergenic | 35.0% | |
| CGTTTGTACAAGCCAAAATT+GGG | + | chr3_3:66818592-66818611 | None:intergenic | 35.0% | |
| ACGTTTGTACAAGCCAAAAT+TGG | + | chr3_3:66818593-66818612 | None:intergenic | 35.0% | |
| !!! | AATTTTGGCTTGTACAAACG+TGG | - | chr3_3:66818592-66818611 | Msa0466220:CDS | 35.0% |
| ! | CAAATTTTACACACACTAGC+AGG | - | chr3_3:66818672-66818691 | Msa0466220:CDS | 35.0% |
| CAAAAAAGCAAGAAGATGTG+TGG | - | chr3_3:66818852-66818871 | Msa0466220:CDS | 35.0% | |
| ATATGAATGAGGGGGAAAGA+AGG | + | chr3_3:66818161-66818180 | None:intergenic | 40.0% | |
| TTCCCCCTCATTCATATGAT+AGG | - | chr3_3:66818164-66818183 | Msa0466220:CDS | 40.0% | |
| TGAAGAGAAATCGTCACTGA+AGG | - | chr3_3:66818270-66818289 | Msa0466220:intron | 40.0% | |
| GAAGAGAAATCGTCACTGAA+GGG | - | chr3_3:66818271-66818290 | Msa0466220:intron | 40.0% | |
| TACCACCAAGCCATATTTGA+AGG | - | chr3_3:66818372-66818391 | Msa0466220:intron | 40.0% | |
| !! | TTGGTGTCGACCTTCAAATA+TGG | + | chr3_3:66818385-66818404 | None:intergenic | 40.0% |
| GGTCAAAACTGCAGCTAATT+CGG | - | chr3_3:66818558-66818577 | Msa0466220:CDS | 40.0% | |
| ! | TCGGTTTATTGCCCCAATTT+TGG | - | chr3_3:66818577-66818596 | Msa0466220:CDS | 40.0% |
| ! | TTGTACAAACGTGGTGATGT+TGG | - | chr3_3:66818601-66818620 | Msa0466220:CDS | 40.0% |
| GCAGGAGCAACTAATTGATT+TGG | - | chr3_3:66818690-66818709 | Msa0466220:CDS | 40.0% | |
| CTATACTCGGCCATATCTAA+GGG | + | chr3_3:66818929-66818948 | None:intergenic | 40.0% | |
| ATATGAATGAGGGGGAAAGA+AGG | + | chr3_3:66818161-66818180 | None:intergenic | 40.0% | |
| TTCCCCCTCATTCATATGAT+AGG | - | chr3_3:66818164-66818183 | Msa0466220:CDS | 40.0% | |
| TGAAGAGAAATCGTCACTGA+AGG | - | chr3_3:66818270-66818289 | Msa0466220:intron | 40.0% | |
| GAAGAGAAATCGTCACTGAA+GGG | - | chr3_3:66818271-66818290 | Msa0466220:intron | 40.0% | |
| TACCACCAAGCCATATTTGA+AGG | - | chr3_3:66818372-66818391 | Msa0466220:intron | 40.0% | |
| !! | TTGGTGTCGACCTTCAAATA+TGG | + | chr3_3:66818385-66818404 | None:intergenic | 40.0% |
| GGTCAAAACTGCAGCTAATT+CGG | - | chr3_3:66818558-66818577 | Msa0466220:CDS | 40.0% | |
| ! | TCGGTTTATTGCCCCAATTT+TGG | - | chr3_3:66818577-66818596 | Msa0466220:CDS | 40.0% |
| ! | TTGTACAAACGTGGTGATGT+TGG | - | chr3_3:66818601-66818620 | Msa0466220:CDS | 40.0% |
| GCAGGAGCAACTAATTGATT+TGG | - | chr3_3:66818690-66818709 | Msa0466220:CDS | 40.0% | |
| CTATACTCGGCCATATCTAA+GGG | + | chr3_3:66818929-66818948 | None:intergenic | 40.0% | |
| !! | TATAGCTTTAGCAGCTAGCG+TGG | + | chr3_3:66818311-66818330 | None:intergenic | 45.0% |
| ! | CTTGGTGGTAGAGCAAGAAA+TGG | + | chr3_3:66818362-66818381 | None:intergenic | 45.0% |
| ! | GACCTTCAAATATGGCTTGG+TGG | + | chr3_3:66818377-66818396 | None:intergenic | 45.0% |
| GTCGACCTTCAAATATGGCT+TGG | + | chr3_3:66818380-66818399 | None:intergenic | 45.0% | |
| !! | GCTGCAGTTTTGACCATCTT+TGG | + | chr3_3:66818553-66818572 | None:intergenic | 45.0% |
| ! | ACAAACGTGGTGATGTTGGA+AGG | - | chr3_3:66818605-66818624 | Msa0466220:CDS | 45.0% |
| GCTATACTCGGCCATATCTA+AGG | + | chr3_3:66818930-66818949 | None:intergenic | 45.0% | |
| !! | TATAGCTTTAGCAGCTAGCG+TGG | + | chr3_3:66818311-66818330 | None:intergenic | 45.0% |
| ! | CTTGGTGGTAGAGCAAGAAA+TGG | + | chr3_3:66818362-66818381 | None:intergenic | 45.0% |
| ! | GACCTTCAAATATGGCTTGG+TGG | + | chr3_3:66818377-66818396 | None:intergenic | 45.0% |
| GTCGACCTTCAAATATGGCT+TGG | + | chr3_3:66818380-66818399 | None:intergenic | 45.0% | |
| !! | GCTGCAGTTTTGACCATCTT+TGG | + | chr3_3:66818553-66818572 | None:intergenic | 45.0% |
| ! | ACAAACGTGGTGATGTTGGA+AGG | - | chr3_3:66818605-66818624 | Msa0466220:CDS | 45.0% |
| GCTATACTCGGCCATATCTA+AGG | + | chr3_3:66818930-66818949 | None:intergenic | 45.0% | |
| GAGAAATCGTCACTGAAGGG+CGG | - | chr3_3:66818274-66818293 | Msa0466220:intron | 50.0% | |
| AAGAAGATGTGTGGGCAGTG+CGG | - | chr3_3:66818861-66818880 | Msa0466220:CDS | 50.0% | |
| GAGAAATCGTCACTGAAGGG+CGG | - | chr3_3:66818274-66818293 | Msa0466220:intron | 50.0% | |
| AAGAAGATGTGTGGGCAGTG+CGG | - | chr3_3:66818861-66818880 | Msa0466220:CDS | 50.0% | |
| TCGTCACTGAAGGGCGGCAT+AGG | - | chr3_3:66818280-66818299 | Msa0466220:intron | 60.0% | |
| TCGTCACTGAAGGGCGGCAT+AGG | - | chr3_3:66818280-66818299 | Msa0466220:intron | 60.0% | |
| TGGGCAGTGCGGCGCAGCAT+TGG | - | chr3_3:66818872-66818891 | Msa0466220:CDS | 70.0% | |
| TGGGCAGTGCGGCGCAGCAT+TGG | - | chr3_3:66818872-66818891 | Msa0466220:CDS | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 66818151 | 66818952 | 66818151 | ID=Msa0466220;Name=Msa0466220 |
| chr3_3 | mRNA | 66818151 | 66818952 | 66818151 | ID=Msa0466220-mRNA-1;Parent=Msa0466220;Name=Msa0466220-mRNA-1;_AED=0.19;_eAED=0.19;_QI=0|1|0|1|1|1|2|0|194 |
| chr3_3 | exon | 66818477 | 66818952 | 66818477 | ID=Msa0466220-mRNA-1:exon:15269;Parent=Msa0466220-mRNA-1 |
| chr3_3 | exon | 66818151 | 66818259 | 66818151 | ID=Msa0466220-mRNA-1:exon:15268;Parent=Msa0466220-mRNA-1 |
| chr3_3 | CDS | 66818477 | 66818952 | 66818477 | ID=Msa0466220-mRNA-1:cds;Parent=Msa0466220-mRNA-1 |
| chr3_3 | CDS | 66818151 | 66818259 | 66818151 | ID=Msa0466220-mRNA-1:cds;Parent=Msa0466220-mRNA-1 |
| Gene Sequence |
| Protein sequence |
