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 |
|---|
| 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 |
|---|---|---|---|---|
| Msa0009610 | Msa0024160 | 0.830084 | 3.584672e-55 | -8.615850e-47 |
| Msa0009610 | Msa0059510 | 0.811622 | 6.385173e-51 | -8.615850e-47 |
| Msa0009610 | Msa0059530 | 0.803016 | 4.262241e-49 | -8.615850e-47 |
| Msa0009610 | Msa0142230 | 0.809344 | 1.981918e-50 | -8.615850e-47 |
| Msa0009610 | Msa0203070 | 0.807373 | 5.216731e-50 | -8.615850e-47 |
| Msa0009610 | Msa0389030 | 0.803437 | 3.487723e-49 | -8.615850e-47 |
| Msa0009610 | Msa0533430 | 0.805949 | 1.042718e-49 | -8.615850e-47 |
| Msa0009610 | Msa0629880 | 0.816822 | 4.536778e-52 | -8.615850e-47 |
| Msa0009610 | Msa0818010 | 0.811630 | 6.359098e-51 | -8.615850e-47 |
| Msa0009610 | Msa1198090 | 0.855012 | 8.394085e-62 | -8.615850e-47 |
| Msa0009610 | Msa1232130 | 0.802666 | 5.034140e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0009610 | MtrunA17_Chr1g0158661 | 81.818 | 77 | 14 | 0 | 1 | 77 | 1 | 77 | 4.24e-38 | 133 |
| Msa0009610 | MtrunA17_Chr1g0158631 | 72.619 | 84 | 19 | 1 | 1 | 80 | 1 | 84 | 6.99e-36 | 127 |
| Msa0009610 | MtrunA17_Chr1g0157791 | 52.174 | 69 | 24 | 3 | 13 | 72 | 3 | 71 | 2.84e-14 | 65.9 |
| Msa0009610 | MtrunA17_Chr1g0158121 | 77.778 | 36 | 8 | 0 | 37 | 72 | 37 | 72 | 5.01e-14 | 62.4 |
| Msa0009610 | MtrunA17_Chr1g0158541 | 51.667 | 60 | 24 | 2 | 16 | 70 | 17 | 76 | 1.98e-13 | 63.5 |
| Msa0009610 | MtrunA17_Chr1g0158191 | 47.368 | 76 | 29 | 3 | 16 | 80 | 4 | 79 | 2.12e-13 | 63.5 |
| Msa0009610 | MtrunA17_Chr1g0158301 | 53.333 | 60 | 23 | 2 | 16 | 70 | 19 | 78 | 2.45e-13 | 63.2 |
| Msa0009610 | MtrunA17_Chr1g0158041 | 65.909 | 44 | 14 | 1 | 30 | 72 | 26 | 69 | 4.72e-13 | 62.4 |
| Msa0009610 | MtrunA17_Chr6g0467711 | 46.835 | 79 | 25 | 4 | 17 | 79 | 15 | 92 | 7.31e-13 | 62.0 |
| Msa0009610 | MtrunA17_Chr1g0158761 | 43.662 | 71 | 34 | 2 | 16 | 80 | 9 | 79 | 1.18e-12 | 61.2 |
| Msa0009610 | MtrunA17_Chr1g0158151 | 72.222 | 36 | 10 | 0 | 37 | 72 | 34 | 69 | 4.28e-12 | 59.7 |
| Msa0009610 | MtrunA17_Chr1g0157881 | 59.574 | 47 | 15 | 1 | 37 | 79 | 58 | 104 | 5.49e-12 | 59.3 |
| Msa0009610 | MtrunA17_Chr1g0158061 | 65.116 | 43 | 12 | 1 | 37 | 79 | 33 | 72 | 8.87e-12 | 58.5 |
| Msa0009610 | MtrunA17_Chr1g0158461 | 45.946 | 74 | 24 | 2 | 13 | 73 | 19 | 89 | 1.32e-11 | 58.2 |
| Msa0009610 | MtrunA17_Chr1g0158331 | 59.574 | 47 | 15 | 1 | 37 | 79 | 51 | 97 | 2.87e-11 | 57.4 |
| Msa0009610 | MtrunA17_Chr1g0158731 | 46.154 | 65 | 26 | 1 | 17 | 72 | 12 | 76 | 3.00e-11 | 57.0 |
| Msa0009610 | MtrunA17_Chr1g0157991 | 69.444 | 36 | 11 | 0 | 37 | 72 | 36 | 71 | 7.41e-11 | 56.2 |
| Msa0009610 | MtrunA17_Chr3g0088331 | 57.143 | 42 | 18 | 0 | 37 | 78 | 44 | 85 | 9.05e-11 | 55.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 11 sgRNAs with CRISPR-Local
Find 52 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TATCACAACTCTTGCATATC+TGG | 0.189605 | 1_1:+14167567 | None:intergenic |
| ATGGTTTCAACCTCTAACTT+TGG | 0.331944 | 1_1:-14167598 | Msa0009610:CDS |
| GTACTGTTACCACAGTGGTC+TGG | 0.396707 | 1_1:+14167436 | None:intergenic |
| TCTGAATGGATTAGTTATGT+TGG | 0.397719 | 1_1:+14167471 | None:intergenic |
| TACTGTTACCACAGTGGTCT+GGG | 0.470002 | 1_1:+14167437 | None:intergenic |
| CAGGAAGAAGAACAAGTTTG+TGG | 0.492234 | 1_1:+14167505 | None:intergenic |
| ATCACAACTCTTGCATATCT+GGG | 0.496177 | 1_1:+14167568 | None:intergenic |
| CAAACTTGTTCTTCTTCCTG+TGG | 0.522063 | 1_1:-14167502 | Msa0009610:CDS |
| TGGTAACAGTACGTACGAGT+TGG | 0.621121 | 1_1:-14167425 | Msa0009610:CDS |
| CGTACGTACTGTTACCACAG+TGG | 0.756220 | 1_1:+14167431 | None:intergenic |
| AAACATGACCCAGACCACTG+TGG | 0.761857 | 1_1:-14167445 | Msa0009610:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TATTTAAAATTTTAAAAATT+TGG | - | chr1_1:14167235-14167254 | Msa0009610:intron | 0.0% |
| !!! | TATTTAAAATTTTAAAAATT+TGG | - | chr1_1:14167235-14167254 | Msa0009610:intron | 0.0% |
| !!! | TTAAATTTTCATATTGTAAT+TGG | + | chr1_1:14167279-14167298 | None:intergenic | 10.0% |
| !!! | AAAAGATTTTCTAAAAATTT+AGG | + | chr1_1:14167390-14167409 | None:intergenic | 10.0% |
| !!! | TAATTAGCATTTTAATTTTT+AGG | - | chr1_1:14167572-14167591 | Msa0009610:CDS | 10.0% |
| !!! | TTAAATTTTCATATTGTAAT+TGG | + | chr1_1:14167279-14167298 | None:intergenic | 10.0% |
| !!! | AAAAGATTTTCTAAAAATTT+AGG | + | chr1_1:14167390-14167409 | None:intergenic | 10.0% |
| !!! | TAATTAGCATTTTAATTTTT+AGG | - | chr1_1:14167572-14167591 | Msa0009610:CDS | 10.0% |
| !! | TAGAAGATATTTAAAAATAC+TGG | - | chr1_1:14167153-14167172 | Msa0009610:intron | 15.0% |
| !!! | TTTTTTCGAAATAAAAAAAC+TGG | - | chr1_1:14167208-14167227 | Msa0009610:intron | 15.0% |
| !! | ATTATTAAAATCTTAACTTC+AGG | - | chr1_1:14167345-14167364 | Msa0009610:intron | 15.0% |
| !! | AATTAAAATGCTAATTACAT+AGG | + | chr1_1:14167569-14167588 | None:intergenic | 15.0% |
| !! | TAGAAGATATTTAAAAATAC+TGG | - | chr1_1:14167153-14167172 | Msa0009610:intron | 15.0% |
| !!! | TTTTTTCGAAATAAAAAAAC+TGG | - | chr1_1:14167208-14167227 | Msa0009610:intron | 15.0% |
| !! | ATTATTAAAATCTTAACTTC+AGG | - | chr1_1:14167345-14167364 | Msa0009610:intron | 15.0% |
| !! | AATTAAAATGCTAATTACAT+AGG | + | chr1_1:14167569-14167588 | None:intergenic | 15.0% |
| !!! | AGAAGTTTTAGATGAGAATT+TGG | + | chr1_1:14167544-14167563 | None:intergenic | 25.0% |
| !!! | AGAAGTTTTAGATGAGAATT+TGG | + | chr1_1:14167544-14167563 | None:intergenic | 25.0% |
| ! | TATGTTGGAAATTTTTCCAC+AGG | + | chr1_1:14166740-14166759 | None:intergenic | 30.0% |
| !! | TCTGAATGGATTAGTTATGT+TGG | + | chr1_1:14166755-14166774 | None:intergenic | 30.0% |
| ATGAATCTGTATGATTCAAG+TGG | - | chr1_1:14167434-14167453 | Msa0009610:CDS | 30.0% | |
| ! | TATGTTGGAAATTTTTCCAC+AGG | + | chr1_1:14166740-14166759 | None:intergenic | 30.0% |
| !! | TCTGAATGGATTAGTTATGT+TGG | + | chr1_1:14166755-14166774 | None:intergenic | 30.0% |
| ATGAATCTGTATGATTCAAG+TGG | - | chr1_1:14167434-14167453 | Msa0009610:CDS | 30.0% | |
| ATGGTTTCAACCTCTAACTT+TGG | - | chr1_1:14166625-14166644 | Msa0009610:CDS | 35.0% | |
| ATCACAACTCTTGCATATCT+GGG | + | chr1_1:14166658-14166677 | None:intergenic | 35.0% | |
| TATCACAACTCTTGCATATC+TGG | + | chr1_1:14166659-14166678 | None:intergenic | 35.0% | |
| !! | GTTTGTGGATAAGTTTTGTG+TGG | + | chr1_1:14166706-14166725 | None:intergenic | 35.0% |
| !!! | GGGTCATGTTTTAATCTGAA+TGG | + | chr1_1:14166769-14166788 | None:intergenic | 35.0% |
| ATGGTTTCAACCTCTAACTT+TGG | - | chr1_1:14166625-14166644 | Msa0009610:CDS | 35.0% | |
| ATCACAACTCTTGCATATCT+GGG | + | chr1_1:14166658-14166677 | None:intergenic | 35.0% | |
| TATCACAACTCTTGCATATC+TGG | + | chr1_1:14166659-14166678 | None:intergenic | 35.0% | |
| !! | GTTTGTGGATAAGTTTTGTG+TGG | + | chr1_1:14166706-14166725 | None:intergenic | 35.0% |
| !!! | GGGTCATGTTTTAATCTGAA+TGG | + | chr1_1:14166769-14166788 | None:intergenic | 35.0% |
| ! | GGGTTTTTCTCCAAAGTTAG+AGG | + | chr1_1:14166638-14166657 | None:intergenic | 40.0% |
| CAGGAAGAAGAACAAGTTTG+TGG | + | chr1_1:14166721-14166740 | None:intergenic | 40.0% | |
| ! | CAAACTTGTTCTTCTTCCTG+TGG | - | chr1_1:14166721-14166740 | Msa0009610:intron | 40.0% |
| ! | GGGTTTTTCTCCAAAGTTAG+AGG | + | chr1_1:14166638-14166657 | None:intergenic | 40.0% |
| CAGGAAGAAGAACAAGTTTG+TGG | + | chr1_1:14166721-14166740 | None:intergenic | 40.0% | |
| ! | CAAACTTGTTCTTCTTCCTG+TGG | - | chr1_1:14166721-14166740 | Msa0009610:intron | 40.0% |
| TACTGTTACCACAGTGGTCT+GGG | + | chr1_1:14166789-14166808 | None:intergenic | 45.0% | |
| TGGTAACAGTACGTACGAGT+TGG | - | chr1_1:14166798-14166817 | Msa0009610:intron | 45.0% | |
| TACTGTTACCACAGTGGTCT+GGG | + | chr1_1:14166789-14166808 | None:intergenic | 45.0% | |
| TGGTAACAGTACGTACGAGT+TGG | - | chr1_1:14166798-14166817 | Msa0009610:intron | 45.0% | |
| !!! | TAAAAAATTAGAAAAAATTT+TGG | - | chr1_1:14167115-14167134 | Msa0009610:intron | 5.0% |
| !!! | TAAAAAATTAGAAAAAATTT+TGG | - | chr1_1:14167115-14167134 | Msa0009610:intron | 5.0% |
| AAACATGACCCAGACCACTG+TGG | - | chr1_1:14166778-14166797 | Msa0009610:intron | 50.0% | |
| GTACTGTTACCACAGTGGTC+TGG | + | chr1_1:14166790-14166809 | None:intergenic | 50.0% | |
| CGTACGTACTGTTACCACAG+TGG | + | chr1_1:14166795-14166814 | None:intergenic | 50.0% | |
| AAACATGACCCAGACCACTG+TGG | - | chr1_1:14166778-14166797 | Msa0009610:intron | 50.0% | |
| GTACTGTTACCACAGTGGTC+TGG | + | chr1_1:14166790-14166809 | None:intergenic | 50.0% | |
| CGTACGTACTGTTACCACAG+TGG | + | chr1_1:14166795-14166814 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_1 | gene | 14166625 | 14167620 | 14166625 | ID=Msa0009610;Name=Msa0009610 |
| chr1_1 | mRNA | 14166625 | 14167620 | 14166625 | ID=Msa0009610-mRNA-1;Parent=Msa0009610;Name=Msa0009610-mRNA-1;_AED=0.49;_eAED=0.49;_QI=0|0|0|0.5|0|0|2|0|80 |
| chr1_1 | exon | 14167405 | 14167620 | 14167405 | ID=Msa0009610-mRNA-1:exon:5294;Parent=Msa0009610-mRNA-1 |
| chr1_1 | exon | 14166625 | 14166651 | 14166625 | ID=Msa0009610-mRNA-1:exon:5293;Parent=Msa0009610-mRNA-1 |
| chr1_1 | CDS | 14167405 | 14167620 | 14167405 | ID=Msa0009610-mRNA-1:cds;Parent=Msa0009610-mRNA-1 |
| chr1_1 | CDS | 14166625 | 14166651 | 14166625 | ID=Msa0009610-mRNA-1:cds;Parent=Msa0009610-mRNA-1 |
| Gene Sequence |
| Protein sequence |
