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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0647100 | GAU45728.1 | 55.063 | 158 | 40 | 1 | 1 | 127 | 1 | 158 | 1.68e-49 | 167 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0647100 | sp|Q9SZL8|FRS5_ARATH | 39.796 | 98 | 55 | 2 | 28 | 122 | 96 | 192 | 8.26e-13 | 67.0 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0647100 | A0A2Z6NMW1 | 55.063 | 158 | 40 | 1 | 1 | 127 | 1 | 158 | 8.01e-50 | 167 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0647100 | TF | FAR1 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0647100 | MtrunA17_Chr3g0082121 | 50.633 | 158 | 47 | 1 | 1 | 127 | 8 | 165 | 1.11e-42 | 148 |
| Msa0647100 | MtrunA17_Chr5g0401121 | 45.652 | 138 | 48 | 1 | 1 | 111 | 25 | 162 | 4.37e-33 | 114 |
| Msa0647100 | MtrunA17_Chr6g0458391 | 45.283 | 106 | 57 | 1 | 22 | 127 | 242 | 346 | 1.04e-23 | 95.1 |
| Msa0647100 | MtrunA17_Chr6g0458391 | 38.000 | 100 | 60 | 2 | 29 | 128 | 115 | 212 | 5.59e-12 | 61.6 |
| Msa0647100 | MtrunA17_Chr1g0203721 | 44.872 | 78 | 42 | 1 | 28 | 105 | 86 | 162 | 5.62e-17 | 75.9 |
| Msa0647100 | MtrunA17_Chr2g0324011 | 43.137 | 102 | 54 | 3 | 28 | 128 | 33 | 131 | 1.30e-14 | 68.9 |
| Msa0647100 | MtrunA17_Chr5g0448761 | 38.776 | 98 | 57 | 1 | 28 | 122 | 83 | 180 | 3.86e-14 | 67.8 |
| Msa0647100 | MtrunA17_Chr7g0258861 | 42.157 | 102 | 56 | 3 | 28 | 128 | 33 | 132 | 3.68e-13 | 64.3 |
| Msa0647100 | MtrunA17_Chr7g0238821 | 41.111 | 90 | 49 | 3 | 28 | 116 | 20 | 106 | 1.56e-12 | 59.7 |
| Msa0647100 | MtrunA17_Chr4g0033611 | 38.554 | 83 | 49 | 2 | 27 | 109 | 98 | 178 | 1.16e-11 | 59.7 |
| Msa0647100 | MtrunA17_Chr1g0164591 | 60.000 | 45 | 18 | 0 | 83 | 127 | 1 | 45 | 4.95e-11 | 58.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0647100 | AT4G38180.1 | 39.796 | 98 | 55 | 2 | 28 | 122 | 96 | 192 | 8.40e-14 | 67.0 |
| Msa0647100 | AT3G59470.3 | 37.805 | 82 | 49 | 2 | 28 | 109 | 93 | 172 | 9.40e-11 | 57.8 |
| Msa0647100 | AT3G59470.1 | 37.805 | 82 | 49 | 2 | 28 | 109 | 93 | 172 | 9.40e-11 | 57.8 |
Find 20 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCTATTCTTGTTTCCGTTGT+AGG | 0.205822 | 4_3:+53056632 | None:intergenic |
| TTTATATCTATCAAATAAAA+TGG | 0.266061 | 4_3:+53056984 | None:intergenic |
| ATTTCACTTGATTGGAAGAT+TGG | 0.326711 | 4_3:-53056590 | Msa0647100:CDS |
| ATATGTGTATTTCACTTGAT+TGG | 0.363054 | 4_3:-53056598 | Msa0647100:CDS |
| CCAACACAATTTAAAATGCT+TGG | 0.382664 | 4_3:+53056468 | None:intergenic |
| TTCCCCACATCTTCGACTAA+TGG | 0.383969 | 4_3:+53056916 | None:intergenic |
| CAACACAATTTAAAATGCTT+GGG | 0.412800 | 4_3:+53056469 | None:intergenic |
| CCTACAACGGAAACAAGAAT+AGG | 0.443278 | 4_3:-53056632 | Msa0647100:CDS |
| CTACAACGGAAACAAGAATA+GGG | 0.509595 | 4_3:-53056631 | Msa0647100:CDS |
| ATGGAATTCTGACTTCAAGA+AGG | 0.531340 | 4_3:-53056715 | Msa0647100:CDS |
| TGAAGATAGTGATTATGCTC+AGG | 0.551435 | 4_3:+53056542 | None:intergenic |
| TTGGAAGATTGGAAAATACA+AGG | 0.564151 | 4_3:-53056579 | Msa0647100:CDS |
| ATTCCATTAGTCGAAGATGT+GGG | 0.567129 | 4_3:-53056919 | Msa0647100:CDS |
| AATTCCATTAGTCGAAGATG+TGG | 0.582105 | 4_3:-53056920 | Msa0647100:CDS |
| AAGGTTTGTATGCTTCAAAG+AGG | 0.605949 | 4_3:-53056696 | Msa0647100:CDS |
| AGGTTTGTATGCTTCAAAGA+GGG | 0.614319 | 4_3:-53056695 | Msa0647100:CDS |
| TTCCATTAGTCGAAGATGTG+GGG | 0.636835 | 4_3:-53056918 | Msa0647100:CDS |
| CTTTACTAAAGAGCCTACAA+CGG | 0.637512 | 4_3:-53056645 | Msa0647100:CDS |
| ATCATGTGAACAAACTCTTG+CGG | 0.666069 | 4_3:+53056518 | None:intergenic |
| GAAGATTGGAAAATACAAGG+TGG | 0.676206 | 4_3:-53056576 | Msa0647100:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTATATCTATCAAATAAAA+TGG | + | chr4_3:53056489-53056508 | None:intergenic | 10.0% |
| ! | TTATATACCACTGTTAGAAA+TGG | - | chr4_3:53056634-53056653 | Msa0647100:CDS | 25.0% |
| ! | TAACGAATACATCAAGAAAT+CGG | - | chr4_3:53056691-53056710 | Msa0647100:CDS | 25.0% |
| ! | GGAAATAAAAGCAAAAAAGA+TGG | - | chr4_3:53056736-53056755 | Msa0647100:CDS | 25.0% |
| ! | ATATGTGTATTTCACTTGAT+TGG | - | chr4_3:53056872-53056891 | Msa0647100:intron | 25.0% |
| !!! | CATGTTTTTTGACACAGAAA+AGG | + | chr4_3:53056519-53056538 | None:intergenic | 30.0% |
| CAATATCCAAAAAGATACTG+TGG | - | chr4_3:53056586-53056605 | Msa0647100:CDS | 30.0% | |
| TCAAATTCCATTTCTAACAG+TGG | + | chr4_3:53056644-53056663 | None:intergenic | 30.0% | |
| !!! | AAATCGGATTTAGTTTTCGT+CGG | - | chr4_3:53056707-53056726 | Msa0647100:CDS | 30.0% |
| ATTTCACTTGATTGGAAGAT+TGG | - | chr4_3:53056880-53056899 | Msa0647100:CDS | 30.0% | |
| TTGGAAGATTGGAAAATACA+AGG | - | chr4_3:53056891-53056910 | Msa0647100:CDS | 30.0% | |
| AATTCCATTAGTCGAAGATG+TGG | - | chr4_3:53056550-53056569 | Msa0647100:CDS | 35.0% | |
| ATTCCATTAGTCGAAGATGT+GGG | - | chr4_3:53056551-53056570 | Msa0647100:CDS | 35.0% | |
| ! | CATGTTCCACAGTATCTTTT+TGG | + | chr4_3:53056595-53056614 | None:intergenic | 35.0% |
| CAAAAAGATACTGTGGAACA+TGG | - | chr4_3:53056593-53056612 | Msa0647100:CDS | 35.0% | |
| !!! | AATCGGATTTAGTTTTCGTC+GGG | - | chr4_3:53056708-53056727 | Msa0647100:CDS | 35.0% |
| !!! | TTTAGTTTTCGTCGGGAATA+TGG | - | chr4_3:53056715-53056734 | Msa0647100:CDS | 35.0% |
| ATGGAATTCTGACTTCAAGA+AGG | - | chr4_3:53056755-53056774 | Msa0647100:CDS | 35.0% | |
| AAGGTTTGTATGCTTCAAAG+AGG | - | chr4_3:53056774-53056793 | Msa0647100:intron | 35.0% | |
| AGGTTTGTATGCTTCAAAGA+GGG | - | chr4_3:53056775-53056794 | Msa0647100:intron | 35.0% | |
| CTTTACTAAAGAGCCTACAA+CGG | - | chr4_3:53056825-53056844 | Msa0647100:intron | 35.0% | |
| CTACAACGGAAACAAGAATA+GGG | - | chr4_3:53056839-53056858 | Msa0647100:intron | 35.0% | |
| GAAGATTGGAAAATACAAGG+TGG | - | chr4_3:53056894-53056913 | Msa0647100:CDS | 35.0% | |
| TGAAGATAGTGATTATGCTC+AGG | + | chr4_3:53056931-53056950 | None:intergenic | 35.0% | |
| ATCATGTGAACAAACTCTTG+CGG | + | chr4_3:53056955-53056974 | None:intergenic | 35.0% | |
| TTCCATTAGTCGAAGATGTG+GGG | - | chr4_3:53056552-53056571 | Msa0647100:CDS | 40.0% | |
| ! | CCTATTCTTGTTTCCGTTGT+AGG | + | chr4_3:53056841-53056860 | None:intergenic | 40.0% |
| CCTACAACGGAAACAAGAAT+AGG | - | chr4_3:53056838-53056857 | Msa0647100:intron | 40.0% | |
| TTCCCCACATCTTCGACTAA+TGG | + | chr4_3:53056557-53056576 | None:intergenic | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 53056481 | 53057011 | 53056481 | ID=Msa0647100;Name=Msa0647100 |
| chr4_3 | mRNA | 53056481 | 53057011 | 53056481 | ID=Msa0647100-mRNA-1;Parent=Msa0647100;Name=Msa0647100-mRNA-1;_AED=0.42;_eAED=0.45;_QI=55|0|0|1|0|0|2|0|128 |
| chr4_3 | exon | 53056878 | 53057011 | 53056878 | ID=Msa0647100-mRNA-1:exon:13184;Parent=Msa0647100-mRNA-1 |
| chr4_3 | exon | 53056481 | 53056785 | 53056481 | ID=Msa0647100-mRNA-1:exon:13183;Parent=Msa0647100-mRNA-1 |
| chr4_3 | five_prime_UTR | 53056957 | 53057011 | 53056957 | ID=Msa0647100-mRNA-1:five_prime_utr;Parent=Msa0647100-mRNA-1 |
| chr4_3 | CDS | 53056878 | 53056956 | 53056878 | ID=Msa0647100-mRNA-1:cds;Parent=Msa0647100-mRNA-1 |
| chr4_3 | CDS | 53056481 | 53056785 | 53056481 | ID=Msa0647100-mRNA-1:cds;Parent=Msa0647100-mRNA-1 |
| Gene Sequence |
| Protein sequence |
