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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1302260 | XP_012573466.1 | 80.357 | 56 | 11 | 0 | 1 | 56 | 1 | 56 | 1.00e-22 | 94.4 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1302260 | A0A1S3EET3 | 80.357 | 56 | 11 | 0 | 1 | 56 | 1 | 56 | 4.78e-23 | 94.4 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1262590 | Msa1302260 | 0.813662 | 2.285453e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1302260 | MtrunA17_Chr2g0286471 | 63.158 | 57 | 20 | 1 | 1 | 56 | 1 | 57 | 3.05e-14 | 62.4 |
| Msa1302260 | MtrunA17_Chr2g0286481 | 65.854 | 41 | 14 | 0 | 16 | 56 | 17 | 57 | 6.31e-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 38 sgRNAs with CRISPR-Local
Find 40 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTGAAAGGGAAACTGATTT+TGG | 0.126186 | 8_3:+64823791 | None:intergenic |
| ATCAGTTTCCCTTTCAATTA+AGG | 0.135610 | 8_3:-64823786 | Msa1302260:CDS |
| TAGCGAAAAGCTTGTTTGTT+AGG | 0.311442 | 8_3:+64824084 | None:intergenic |
| TACTAAACCCTTCTTCCTTT+CGG | 0.350116 | 8_3:+64824178 | None:intergenic |
| AGAGAGAAAGAGAGAGAAAA+TGG | 0.356429 | 8_3:+64824000 | None:intergenic |
| TCAGTTTCCCTTTCAATTAA+GGG | 0.363477 | 8_3:-64823785 | Msa1302260:CDS |
| CATCCATTACATTGCAGTCT+AGG | 0.375528 | 8_3:-64823751 | Msa1302260:CDS |
| GAAGAGAGTGTGTGTGTTGT+TGG | 0.396118 | 8_3:+64824034 | None:intergenic |
| CTCAGCATTCAAACAATCTC+TGG | 0.432166 | 8_3:-64823918 | Msa1302260:intron |
| GTTTGTTAGGTGTGTATAGT+TGG | 0.443283 | 8_3:+64824097 | None:intergenic |
| GGCATTCCCCTTAATTGAAA+GGG | 0.445874 | 8_3:+64823778 | None:intergenic |
| AGGGAGTAAAAGAGTTTAGA+GGG | 0.456763 | 8_3:+64823685 | None:intergenic |
| ATCCATTACATTGCAGTCTA+GGG | 0.489304 | 8_3:-64823750 | Msa1302260:CDS |
| TACCCTAGACTGCAATGTAA+TGG | 0.496902 | 8_3:+64823748 | None:intergenic |
| CACACCAACCGAAAGGAAGA+AGG | 0.503555 | 8_3:-64824186 | Msa1302260:five_prime_UTR |
| AAACCCTTCTTCCTTTCGGT+TGG | 0.508383 | 8_3:+64824182 | None:intergenic |
| AGGCATTCCCCTTAATTGAA+AGG | 0.514759 | 8_3:+64823777 | None:intergenic |
| AAGAGTTTAGAGGGTTTCAG+AGG | 0.517082 | 8_3:+64823694 | None:intergenic |
| CAGTTTCCCTTTCAATTAAG+GGG | 0.519673 | 8_3:-64823784 | Msa1302260:CDS |
| TACACAATGGCATCCATCAC+AGG | 0.524640 | 8_3:-64823956 | Msa1302260:exon |
| GAATGCTGAGACGGAGAATG+AGG | 0.525070 | 8_3:+64823931 | None:intergenic |
| CTGCAATGTAATGGATGGAA+AGG | 0.533896 | 8_3:+64823757 | None:intergenic |
| CTAGACTGCAATGTAATGGA+TGG | 0.538900 | 8_3:+64823752 | None:intergenic |
| AGAGAGAGAAAATGGACGGA+GGG | 0.548825 | 8_3:+64824008 | None:intergenic |
| GAATGAGTAATAACAAGTGT+GGG | 0.563297 | 8_3:+64824056 | None:intergenic |
| AGATTGTTTGAATGCTGAGA+CGG | 0.570818 | 8_3:+64823922 | None:intergenic |
| AGAAAGAGAGAGAAAATGGA+CGG | 0.586764 | 8_3:+64824004 | None:intergenic |
| GGAGAATGAGGTTCCTGTGA+TGG | 0.592118 | 8_3:+64823943 | None:intergenic |
| GGAATGAGTAATAACAAGTG+TGG | 0.595734 | 8_3:+64824055 | None:intergenic |
| GGGTTAGAGAATCTAGCACC+AGG | 0.601875 | 8_3:+64823812 | None:intergenic |
| AACACTGCACACCAACCGAA+AGG | 0.615132 | 8_3:-64824193 | Msa1302260:five_prime_UTR |
| CGATCTTCGAAAGTAACGAA+GGG | 0.620036 | 8_3:-64824124 | Msa1302260:five_prime_UTR |
| ATTCACATCTAACAGGTACC+TGG | 0.634844 | 8_3:-64823830 | Msa1302260:intron |
| ACACCAACCGAAAGGAAGAA+GGG | 0.635678 | 8_3:-64824185 | Msa1302260:five_prime_UTR |
| ACGATCTTCGAAAGTAACGA+AGG | 0.640576 | 8_3:-64824125 | Msa1302260:five_prime_UTR |
| AAGAGAGAGAAAATGGACGG+AGG | 0.654416 | 8_3:+64824007 | None:intergenic |
| GCACATGTAACTTGAAAGCG+AGG | 0.680439 | 8_3:+64823725 | None:intergenic |
| CTATCTCTCTCTCTACACAA+TGG | 0.684680 | 8_3:-64823969 | Msa1302260:exon |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ACAAACAATTCTATTCATTA+TGG | - | chr8_3:64824008-64824027 | Msa1302260:five_prime_UTR | 20.0% |
| !!! | ATTCATTATGGTTTAATTTG+TGG | - | chr8_3:64824020-64824039 | Msa1302260:five_prime_UTR | 20.0% |
| GAATGAGTAATAACAAGTGT+GGG | + | chr8_3:64823848-64823867 | None:intergenic | 30.0% | |
| TATGCTAATTCACATCTAAC+AGG | - | chr8_3:64824064-64824083 | Msa1302260:five_prime_UTR | 30.0% | |
| !! | TTGAAAGGGAAACTGATTTT+GGG | + | chr8_3:64824112-64824131 | None:intergenic | 30.0% |
| !! | ATTGAAAGGGAAACTGATTT+TGG | + | chr8_3:64824113-64824132 | None:intergenic | 30.0% |
| ATCAGTTTCCCTTTCAATTA+AGG | - | chr8_3:64824115-64824134 | Msa1302260:five_prime_UTR | 30.0% | |
| TCAGTTTCCCTTTCAATTAA+GGG | - | chr8_3:64824116-64824135 | Msa1302260:five_prime_UTR | 30.0% | |
| TACTAAACCCTTCTTCCTTT+CGG | + | chr8_3:64823726-64823745 | None:intergenic | 35.0% | |
| ! | GTTTGTTAGGTGTGTATAGT+TGG | + | chr8_3:64823807-64823826 | None:intergenic | 35.0% |
| ! | TAGCGAAAAGCTTGTTTGTT+AGG | + | chr8_3:64823820-64823839 | None:intergenic | 35.0% |
| GGAATGAGTAATAACAAGTG+TGG | + | chr8_3:64823849-64823868 | None:intergenic | 35.0% | |
| AGAAAGAGAGAGAAAATGGA+CGG | + | chr8_3:64823900-64823919 | None:intergenic | 35.0% | |
| AGAGAGAAAGAGAGAGAAAA+TGG | + | chr8_3:64823904-64823923 | None:intergenic | 35.0% | |
| AGATTGTTTGAATGCTGAGA+CGG | + | chr8_3:64823982-64824001 | None:intergenic | 35.0% | |
| CAGTTTCCCTTTCAATTAAG+GGG | - | chr8_3:64824117-64824136 | Msa1302260:five_prime_UTR | 35.0% | |
| ATCCATTACATTGCAGTCTA+GGG | - | chr8_3:64824151-64824170 | Msa1302260:five_prime_UTR | 35.0% | |
| ACGATCTTCGAAAGTAACGA+AGG | - | chr8_3:64823776-64823795 | Msa1302260:CDS | 40.0% | |
| CGATCTTCGAAAGTAACGAA+GGG | - | chr8_3:64823777-64823796 | Msa1302260:CDS | 40.0% | |
| CTATCTCTCTCTCTACACAA+TGG | - | chr8_3:64823932-64823951 | Msa1302260:CDS | 40.0% | |
| CTCAGCATTCAAACAATCTC+TGG | - | chr8_3:64823983-64824002 | Msa1302260:five_prime_UTR | 40.0% | |
| ATTCACATCTAACAGGTACC+TGG | - | chr8_3:64824071-64824090 | Msa1302260:five_prime_UTR | 40.0% | |
| GGCATTCCCCTTAATTGAAA+GGG | + | chr8_3:64824126-64824145 | None:intergenic | 40.0% | |
| AGGCATTCCCCTTAATTGAA+AGG | + | chr8_3:64824127-64824146 | None:intergenic | 40.0% | |
| !! | CTGCAATGTAATGGATGGAA+AGG | + | chr8_3:64824147-64824166 | None:intergenic | 40.0% |
| ! | CTAGACTGCAATGTAATGGA+TGG | + | chr8_3:64824152-64824171 | None:intergenic | 40.0% |
| CATCCATTACATTGCAGTCT+AGG | - | chr8_3:64824150-64824169 | Msa1302260:five_prime_UTR | 40.0% | |
| TACCCTAGACTGCAATGTAA+TGG | + | chr8_3:64824156-64824175 | None:intergenic | 40.0% | |
| ACACCAACCGAAAGGAAGAA+GGG | - | chr8_3:64823716-64823735 | Msa1302260:CDS | 45.0% | |
| AAACCCTTCTTCCTTTCGGT+TGG | + | chr8_3:64823722-64823741 | None:intergenic | 45.0% | |
| ! | GAAGAGAGTGTGTGTGTTGT+TGG | + | chr8_3:64823870-64823889 | None:intergenic | 45.0% |
| AGAGAGAGAAAATGGACGGA+GGG | + | chr8_3:64823896-64823915 | None:intergenic | 45.0% | |
| AAGAGAGAGAAAATGGACGG+AGG | + | chr8_3:64823897-64823916 | None:intergenic | 45.0% | |
| TACACAATGGCATCCATCAC+AGG | - | chr8_3:64823945-64823964 | Msa1302260:CDS | 45.0% | |
| GCACATGTAACTTGAAAGCG+AGG | + | chr8_3:64824179-64824198 | None:intergenic | 45.0% | |
| AACACTGCACACCAACCGAA+AGG | - | chr8_3:64823708-64823727 | Msa1302260:CDS | 50.0% | |
| CACACCAACCGAAAGGAAGA+AGG | - | chr8_3:64823715-64823734 | Msa1302260:CDS | 50.0% | |
| GGAGAATGAGGTTCCTGTGA+TGG | + | chr8_3:64823961-64823980 | None:intergenic | 50.0% | |
| GAATGCTGAGACGGAGAATG+AGG | + | chr8_3:64823973-64823992 | None:intergenic | 50.0% | |
| GGGTTAGAGAATCTAGCACC+AGG | + | chr8_3:64824092-64824111 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_3 | gene | 64823700 | 64824223 | 64823700 | ID=Msa1302260;Name=Msa1302260 |
| chr8_3 | mRNA | 64823700 | 64824223 | 64823700 | ID=Msa1302260-mRNA-1;Parent=Msa1302260;Name=Msa1302260-mRNA-1;_AED=0.03;_eAED=0.03;_QI=251|1|0.5|1|1|1|2|0|63 |
| chr8_3 | exon | 64823700 | 64823837 | 64823700 | ID=Msa1302260-mRNA-1:exon:19584;Parent=Msa1302260-mRNA-1 |
| chr8_3 | exon | 64823919 | 64824223 | 64823919 | ID=Msa1302260-mRNA-1:exon:19583;Parent=Msa1302260-mRNA-1 |
| chr8_3 | five_prime_UTR | 64823973 | 64824223 | 64823973 | ID=Msa1302260-mRNA-1:five_prime_utr;Parent=Msa1302260-mRNA-1 |
| chr8_3 | CDS | 64823919 | 64823972 | 64823919 | ID=Msa1302260-mRNA-1:cds;Parent=Msa1302260-mRNA-1 |
| chr8_3 | CDS | 64823700 | 64823837 | 64823700 | ID=Msa1302260-mRNA-1:cds;Parent=Msa1302260-mRNA-1 |
| Gene Sequence |
| Protein sequence |
