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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1191020 | XP_013445507.1 | 96.386 | 83 | 3 | 0 | 1 | 83 | 314 | 396 | 1.43e-49 | 174 |
| 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 |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0781330 | Msa1191020 | 0.800059 | 1.721320e-48 | -8.615850e-47 |
| Msa1191020 | Msa1326450 | 0.873168 | 1.812191e-67 | -8.615850e-47 |
| Msa0867490 | Msa1191020 | 0.813591 | 2.368824e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1191020 | MtrunA17_Chr8g0360441 | 96.386 | 83 | 3 | 0 | 1 | 83 | 314 | 396 | 1.32e-53 | 174 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 40 sgRNAs with CRISPR-Local
Find 68 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCGTATACCAGCACGAATTC+AGG | 0.286283 | 8_1:+34709807 | Msa1191020:CDS |
| GAAGGTAGAACCTGAAAGTT+TGG | 0.314906 | 8_1:-34709917 | None:intergenic |
| GCACCGGCGTTTGGCGGTTA+TGG | 0.331523 | 8_1:+34709619 | Msa1191020:CDS |
| CTCCGACTCTCGCCATTGAT+TGG | 0.363072 | 8_1:+34709876 | Msa1191020:CDS |
| TGACTGTTCTTTCAGGTTCA+GGG | 0.367816 | 8_1:+34710017 | Msa1191020:intron |
| TTTATCAGTGTTCCAATCAA+TGG | 0.382593 | 8_1:-34709888 | None:intergenic |
| GGAAGCAGAGGACGGTTTAT+CGG | 0.389422 | 8_1:-34709854 | None:intergenic |
| AGTACACCGGCACCGGCGTT+TGG | 0.392086 | 8_1:+34709610 | Msa1191020:CDS |
| GGTAACAGTGGCCATGGTGC+TGG | 0.446213 | 8_1:+34709577 | Msa1191020:CDS |
| ACGAACTGAAGGATTGTAAC+TGG | 0.446835 | 8_1:-34709674 | None:intergenic |
| ACAGAAGCCTGATGGATCAT+TGG | 0.470560 | 8_1:-34709760 | None:intergenic |
| ACACCGGCACCGGCGTTTGG+CGG | 0.478717 | 8_1:+34709613 | Msa1191020:CDS |
| ATATTCGCCGTCGCCATTGA+AGG | 0.485547 | 8_1:-34709709 | None:intergenic |
| ACAATCCTTCAGTTCGTGCT+TGG | 0.487224 | 8_1:+34709680 | Msa1191020:CDS |
| CGTATACCAGCACGAATTCA+GGG | 0.492711 | 8_1:+34709808 | Msa1191020:CDS |
| TCTTTCGCCAATGATCCATC+AGG | 0.495748 | 8_1:+34709753 | Msa1191020:CDS |
| TCTTCACCCTGAATTCGTGC+TGG | 0.532864 | 8_1:-34709814 | None:intergenic |
| TGCTTGGATAGATCCTTCAA+TGG | 0.540229 | 8_1:+34709696 | Msa1191020:CDS |
| TGTGTTCAGTACACCGGCAC+CGG | 0.543423 | 8_1:+34709603 | Msa1191020:CDS |
| AGGATTGTAACTGGACTGAA+GGG | 0.547857 | 8_1:-34709665 | None:intergenic |
| CACCAGAGACAGAAGCCTGA+TGG | 0.548735 | 8_1:-34709768 | None:intergenic |
| GATTGCATAGAATGATGGCT+TGG | 0.567846 | 8_1:+34709518 | None:intergenic |
| GCGAGAGTCGGAGGAAGCAG+AGG | 0.568701 | 8_1:-34709866 | None:intergenic |
| AAGGATTGTAACTGGACTGA+AGG | 0.573483 | 8_1:-34709666 | None:intergenic |
| CAATCAATGGCGAGAGTCGG+AGG | 0.587240 | 8_1:-34709875 | None:intergenic |
| TCTATCCAAGCACGAACTGA+AGG | 0.592530 | 8_1:-34709685 | None:intergenic |
| TTCCAATCAATGGCGAGAGT+CGG | 0.602863 | 8_1:-34709878 | None:intergenic |
| AGCACGAATTCAGGGTGAAG+AGG | 0.603117 | 8_1:+34709816 | Msa1191020:CDS |
| GATGGTGGTAACAGTGGCCA+TGG | 0.608651 | 8_1:+34709571 | Msa1191020:CDS |
| TGACCATAACCGCCAAACGC+CGG | 0.611880 | 8_1:-34709622 | None:intergenic |
| GATAGATCCTTCAATGGCGA+CGG | 0.613580 | 8_1:+34709702 | Msa1191020:CDS |
| GTTAATGCTAATACTGCAGA+TGG | 0.619281 | 8_1:+34709553 | Msa1191020:CDS |
| TTGGCGAAAGATAGTGATGA+TGG | 0.622368 | 8_1:-34709741 | None:intergenic |
| GAGTCGGAGGAAGCAGAGGA+CGG | 0.623160 | 8_1:-34709862 | None:intergenic |
| TGGATTTGTGTTCAGTACAC+CGG | 0.633611 | 8_1:+34709597 | Msa1191020:CDS |
| ACTGCAGATGGTGGTAACAG+TGG | 0.650408 | 8_1:+34709565 | Msa1191020:CDS |
| GGATTGTAACTGGACTGAAG+GGG | 0.704803 | 8_1:-34709664 | None:intergenic |
| TGAACACAAATCCAGCACCA+TGG | 0.705786 | 8_1:-34709588 | None:intergenic |
| AATGCTAATACTGCAGATGG+TGG | 0.705808 | 8_1:+34709556 | Msa1191020:CDS |
| CAGGGTGAAGAGGAACACGA+CGG | 0.776987 | 8_1:+34709826 | Msa1191020:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CAATTGAAATTTTAATAACT+GGG | - | chr8_1:34709947-34709966 | None:intergenic | 15.0% |
| !!! | TCAATTGAAATTTTAATAAC+TGG | - | chr8_1:34709948-34709967 | None:intergenic | 15.0% |
| !! | TAAAAATAATCCAAACTTTC+AGG | + | chr8_1:34709907-34709926 | Msa1191020:CDS | 20.0% |
| !!! | TTTTAATAACTGGGTATTGA+AGG | - | chr8_1:34709938-34709957 | None:intergenic | 25.0% |
| !!! | GATTGATTTTAAGCTACAAT+TGG | + | chr8_1:34710095-34710114 | Msa1191020:intron | 25.0% |
| ! | ATGTTTCAACTTCAATTCAA+TGG | + | chr8_1:34710155-34710174 | Msa1191020:intron | 25.0% |
| TTTATCAGTGTTCCAATCAA+TGG | - | chr8_1:34709891-34709910 | None:intergenic | 30.0% | |
| !!! | GTTGCAGATAGTCTTTTTTT+GGG | + | chr8_1:34710045-34710064 | Msa1191020:intron | 30.0% |
| GTTAATGCTAATACTGCAGA+TGG | + | chr8_1:34709553-34709572 | Msa1191020:CDS | 35.0% | |
| !!! | ATGGTCAGTTTTTTACTCAG+AGG | + | chr8_1:34709638-34709657 | Msa1191020:CDS | 35.0% |
| !!! | TGGTCAGTTTTTTACTCAGA+GGG | + | chr8_1:34709639-34709658 | Msa1191020:CDS | 35.0% |
| !!! | TGTGTTTTGACTGTTCTTTC+AGG | + | chr8_1:34710010-34710029 | Msa1191020:intron | 35.0% |
| !!! | CGTTGCAGATAGTCTTTTTT+TGG | + | chr8_1:34710044-34710063 | Msa1191020:intron | 35.0% |
| !!! | TTTTTTTGGGAGAGAGCTTT+TGG | + | chr8_1:34710058-34710077 | Msa1191020:intron | 35.0% |
| ATTGGAATTCAAAAGCAACC+TGG | + | chr8_1:34710113-34710132 | Msa1191020:intron | 35.0% | |
| TTGGAATTCAAAAGCAACCT+GGG | + | chr8_1:34710114-34710133 | Msa1191020:intron | 35.0% | |
| CTTATAGTTATATGCCGTGT+GGG | + | chr8_1:34710178-34710197 | Msa1191020:intron | 35.0% | |
| ! | AGATTTTCTTCATTCCCACA+CGG | - | chr8_1:34710195-34710214 | None:intergenic | 35.0% |
| AATGCTAATACTGCAGATGG+TGG | + | chr8_1:34709556-34709575 | Msa1191020:CDS | 40.0% | |
| TGGATTTGTGTTCAGTACAC+CGG | + | chr8_1:34709597-34709616 | Msa1191020:CDS | 40.0% | |
| !!! | GGTCAGTTTTTTACTCAGAG+GGG | + | chr8_1:34709640-34709659 | Msa1191020:CDS | 40.0% |
| AGGATTGTAACTGGACTGAA+GGG | - | chr8_1:34709668-34709687 | None:intergenic | 40.0% | |
| AAGGATTGTAACTGGACTGA+AGG | - | chr8_1:34709669-34709688 | None:intergenic | 40.0% | |
| ACGAACTGAAGGATTGTAAC+TGG | - | chr8_1:34709677-34709696 | None:intergenic | 40.0% | |
| TGCTTGGATAGATCCTTCAA+TGG | + | chr8_1:34709696-34709715 | Msa1191020:CDS | 40.0% | |
| TTGGCGAAAGATAGTGATGA+TGG | - | chr8_1:34709744-34709763 | None:intergenic | 40.0% | |
| GAAGGTAGAACCTGAAAGTT+TGG | - | chr8_1:34709920-34709939 | None:intergenic | 40.0% | |
| !! | TTGACTGTTCTTTCAGGTTC+AGG | + | chr8_1:34710016-34710035 | Msa1191020:intron | 40.0% |
| !! | TGACTGTTCTTTCAGGTTCA+GGG | + | chr8_1:34710017-34710036 | Msa1191020:intron | 40.0% |
| AATTCAAAAGCAACCTGGGT+GGG | + | chr8_1:34710118-34710137 | Msa1191020:intron | 40.0% | |
| GCTTATAGTTATATGCCGTG+TGG | + | chr8_1:34710177-34710196 | Msa1191020:intron | 40.0% | |
| GTGTGGGAATGAAGAAAATC+TGG | + | chr8_1:34710194-34710213 | Msa1191020:intron | 40.0% | |
| TGAACACAAATCCAGCACCA+TGG | - | chr8_1:34709591-34709610 | None:intergenic | 45.0% | |
| GGATTGTAACTGGACTGAAG+GGG | - | chr8_1:34709667-34709686 | None:intergenic | 45.0% | |
| ACAATCCTTCAGTTCGTGCT+TGG | + | chr8_1:34709680-34709699 | Msa1191020:CDS | 45.0% | |
| TCTATCCAAGCACGAACTGA+AGG | - | chr8_1:34709688-34709707 | None:intergenic | 45.0% | |
| GATAGATCCTTCAATGGCGA+CGG | + | chr8_1:34709702-34709721 | Msa1191020:CDS | 45.0% | |
| TCTTTCGCCAATGATCCATC+AGG | + | chr8_1:34709753-34709772 | Msa1191020:CDS | 45.0% | |
| ! | ACAGAAGCCTGATGGATCAT+TGG | - | chr8_1:34709763-34709782 | None:intergenic | 45.0% |
| TCGTATACCAGCACGAATTC+AGG | + | chr8_1:34709807-34709826 | Msa1191020:CDS | 45.0% | |
| CGTATACCAGCACGAATTCA+GGG | + | chr8_1:34709808-34709827 | Msa1191020:CDS | 45.0% | |
| TTCCAATCAATGGCGAGAGT+CGG | - | chr8_1:34709881-34709900 | None:intergenic | 45.0% | |
| GAATTCAAAAGCAACCTGGG+TGG | + | chr8_1:34710117-34710136 | Msa1191020:intron | 45.0% | |
| TGAAAAATCCAAACCCACCC+AGG | - | chr8_1:34710134-34710153 | None:intergenic | 45.0% | |
| ! | ACTGCAGATGGTGGTAACAG+TGG | + | chr8_1:34709565-34709584 | Msa1191020:CDS | 50.0% |
| ATATTCGCCGTCGCCATTGA+AGG | - | chr8_1:34709712-34709731 | None:intergenic | 50.0% | |
| ATCCATCAGGCTTCTGTCTC+TGG | + | chr8_1:34709766-34709785 | Msa1191020:intron | 50.0% | |
| TCTTCACCCTGAATTCGTGC+TGG | - | chr8_1:34709817-34709836 | None:intergenic | 50.0% | |
| AGCACGAATTCAGGGTGAAG+AGG | + | chr8_1:34709816-34709835 | Msa1191020:CDS | 50.0% | |
| GGAAGCAGAGGACGGTTTAT+CGG | - | chr8_1:34709857-34709876 | None:intergenic | 50.0% | |
| ! | AAAAGCAACCTGGGTGGGTT+TGG | + | chr8_1:34710123-34710142 | Msa1191020:intron | 50.0% |
| ! | GATGGTGGTAACAGTGGCCA+TGG | + | chr8_1:34709571-34709590 | Msa1191020:CDS | 55.0% |
| TGTGTTCAGTACACCGGCAC+CGG | + | chr8_1:34709603-34709622 | Msa1191020:CDS | 55.0% | |
| TGACCATAACCGCCAAACGC+CGG | - | chr8_1:34709625-34709644 | None:intergenic | 55.0% | |
| CACCAGAGACAGAAGCCTGA+TGG | - | chr8_1:34709771-34709790 | None:intergenic | 55.0% | |
| CATCAGGCTTCTGTCTCTGG+TGG | + | chr8_1:34709769-34709788 | Msa1191020:intron | 55.0% | |
| !! | GTCTCTGGTGGTGGATTCTC+AGG | + | chr8_1:34709781-34709800 | Msa1191020:intron | 55.0% |
| CAGGGTGAAGAGGAACACGA+CGG | + | chr8_1:34709826-34709845 | Msa1191020:CDS | 55.0% | |
| CAATCAATGGCGAGAGTCGG+AGG | - | chr8_1:34709878-34709897 | None:intergenic | 55.0% | |
| CTCCGACTCTCGCCATTGAT+TGG | + | chr8_1:34709876-34709895 | Msa1191020:CDS | 55.0% | |
| GGTAACAGTGGCCATGGTGC+TGG | + | chr8_1:34709577-34709596 | Msa1191020:CDS | 60.0% | |
| CAGGCTTCTGTCTCTGGTGG+TGG | + | chr8_1:34709772-34709791 | Msa1191020:intron | 60.0% | |
| GAGTCGGAGGAAGCAGAGGA+CGG | - | chr8_1:34709865-34709884 | None:intergenic | 60.0% | |
| !! | AGTACACCGGCACCGGCGTT+TGG | + | chr8_1:34709610-34709629 | Msa1191020:CDS | 65.0% |
| TAACCGCCAAACGCCGGTGC+CGG | - | chr8_1:34709619-34709638 | None:intergenic | 65.0% | |
| ! | GCACCGGCGTTTGGCGGTTA+TGG | + | chr8_1:34709619-34709638 | Msa1191020:CDS | 65.0% |
| GCGAGAGTCGGAGGAAGCAG+AGG | - | chr8_1:34709869-34709888 | None:intergenic | 65.0% | |
| !! | ACACCGGCACCGGCGTTTGG+CGG | + | chr8_1:34709613-34709632 | Msa1191020:CDS | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_1 | gene | 34709532 | 34710254 | 34709532 | ID=Msa1191020;Name=Msa1191020 |
| chr8_1 | mRNA | 34709532 | 34710254 | 34709532 | ID=Msa1191020-mRNA-1;Parent=Msa1191020;Name=Msa1191020-mRNA-1;_AED=0.43;_eAED=0.43;_QI=0|0.33|0|1|0|0|4|0|129 |
| chr8_1 | exon | 34709532 | 34709780 | 34709532 | ID=Msa1191020-mRNA-1:exon:11562;Parent=Msa1191020-mRNA-1 |
| chr8_1 | exon | 34709803 | 34709928 | 34709803 | ID=Msa1191020-mRNA-1:exon:11563;Parent=Msa1191020-mRNA-1 |
| chr8_1 | exon | 34710032 | 34710038 | 34710032 | ID=Msa1191020-mRNA-1:exon:11564;Parent=Msa1191020-mRNA-1 |
| chr8_1 | exon | 34710250 | 34710254 | 34710250 | ID=Msa1191020-mRNA-1:exon:11565;Parent=Msa1191020-mRNA-1 |
| chr8_1 | CDS | 34709532 | 34709780 | 34709532 | ID=Msa1191020-mRNA-1:cds;Parent=Msa1191020-mRNA-1 |
| chr8_1 | CDS | 34709803 | 34709928 | 34709803 | ID=Msa1191020-mRNA-1:cds;Parent=Msa1191020-mRNA-1 |
| chr8_1 | CDS | 34710032 | 34710038 | 34710032 | ID=Msa1191020-mRNA-1:cds;Parent=Msa1191020-mRNA-1 |
| chr8_1 | CDS | 34710250 | 34710254 | 34710250 | ID=Msa1191020-mRNA-1:cds;Parent=Msa1191020-mRNA-1 |
| Gene Sequence |
| Protein sequence |
