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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0214880 | PNX77001.1 | 69.291 | 127 | 39 | 0 | 3 | 129 | 19 | 145 | 1.35e-56 | 183 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0214880 | sp|Q9LJX8|VPED_ARATH | 65.891 | 129 | 44 | 0 | 2 | 130 | 43 | 171 | 1.08e-55 | 182 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0214880 | A0A2K3LEP8 | 69.291 | 127 | 39 | 0 | 3 | 129 | 19 | 145 | 6.43e-57 | 183 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0214880 | Msa0214890 | 0.836265 | 1.035243e-56 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0214880 | MtrunA17_Chr3g0135491 | 64.062 | 128 | 46 | 0 | 3 | 130 | 47 | 174 | 1.32e-55 | 180 |
| Msa0214880 | MtrunA17_Chr7g0248651 | 66.406 | 128 | 43 | 0 | 3 | 130 | 45 | 172 | 9.57e-54 | 175 |
| Msa0214880 | MtrunA17_Chr7g0246051 | 66.142 | 127 | 43 | 0 | 4 | 130 | 45 | 171 | 2.30e-53 | 169 |
| Msa0214880 | MtrunA17_Chr7g0226421 | 64.062 | 128 | 46 | 0 | 3 | 130 | 32 | 159 | 5.68e-53 | 164 |
| Msa0214880 | MtrunA17_Chr1g0151801 | 60.465 | 129 | 51 | 0 | 2 | 130 | 55 | 183 | 5.29e-52 | 171 |
| Msa0214880 | MtrunA17_Chr4g0056561 | 57.031 | 128 | 55 | 0 | 3 | 130 | 57 | 184 | 1.90e-44 | 151 |
| Msa0214880 | MtrunA17_Chr1g0193781 | 32.824 | 131 | 85 | 3 | 1 | 129 | 29 | 158 | 2.10e-15 | 70.5 |
| Msa0214880 | MtrunA17_Chr2g0307771 | 33.071 | 127 | 82 | 3 | 1 | 125 | 39 | 164 | 4.98e-15 | 70.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0214880 | AT3G20210.1 | 65.891 | 129 | 44 | 0 | 2 | 130 | 43 | 171 | 1.10e-56 | 182 |
| Msa0214880 | AT2G25940.1 | 61.905 | 126 | 48 | 0 | 5 | 130 | 44 | 169 | 2.31e-53 | 174 |
| Msa0214880 | AT4G32940.1 | 63.281 | 128 | 47 | 0 | 3 | 130 | 57 | 184 | 2.28e-52 | 172 |
| Msa0214880 | AT1G62710.1 | 60.156 | 128 | 51 | 0 | 3 | 130 | 49 | 176 | 3.29e-48 | 161 |
| Msa0214880 | AT1G08750.3 | 33.058 | 121 | 78 | 3 | 6 | 124 | 28 | 147 | 1.71e-13 | 66.2 |
| Msa0214880 | AT1G08750.2 | 33.058 | 121 | 78 | 3 | 6 | 124 | 28 | 147 | 1.71e-13 | 66.2 |
| Msa0214880 | AT1G08750.1 | 33.058 | 121 | 78 | 3 | 6 | 124 | 28 | 147 | 1.71e-13 | 66.2 |
Find 27 sgRNAs with CRISPR-Local
Find 38 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAAAACATTATTATAATTAT+AGG | 0.250009 | 2_1:+59513295 | Msa0214880:CDS |
| CTTCAAGGCCACCTCTTCTA+AGG | 0.298524 | 2_1:-59513350 | None:intergenic |
| TATACTGGAAAAGACGTAAA+TGG | 0.329996 | 2_1:+59513629 | Msa0214880:CDS |
| AAATGGGCATTGCTTGTTGC+TGG | 0.391774 | 2_1:+59513270 | Msa0214880:CDS |
| TATGGTGCTGCAGGCGTTAT+CGG | 0.408484 | 2_1:+59513761 | Msa0214880:CDS |
| TAATATTAGGAGGAAAGAAA+TGG | 0.408901 | 2_1:+59513253 | Msa0214880:intron |
| TAAATGAAAACTATATCATT+TGG | 0.416677 | 2_1:-59513728 | None:intergenic |
| TTGATTATAATGTCAGGCCT+TGG | 0.440374 | 2_1:-59513426 | None:intergenic |
| TTCATTTACTATGCAGGCTA+TGG | 0.443464 | 2_1:+59513743 | Msa0214880:CDS |
| ACCTCTTCTAAGGATTTGAT+AGG | 0.454530 | 2_1:-59513340 | None:intergenic |
| TGATTATAATGTCAGGCCTT+GGG | 0.458108 | 2_1:-59513425 | None:intergenic |
| TGGTAAACATCATAACAATT+CGG | 0.459313 | 2_1:-59513453 | None:intergenic |
| ATAGTACCTTAGGAACTTCA+TGG | 0.474073 | 2_1:-59513473 | None:intergenic |
| GGTTGATTGATTATAATGTC+AGG | 0.476484 | 2_1:-59513432 | None:intergenic |
| TGCTGCAGGCGTTATCGGTT+AGG | 0.478379 | 2_1:+59513766 | Msa0214880:CDS |
| GACAATAAAAGTGCTACTAT+AGG | 0.491102 | 2_1:+59513677 | Msa0214880:CDS |
| AATATTAGGAGGAAAGAAAT+GGG | 0.503487 | 2_1:+59513254 | Msa0214880:intron |
| AGTGCTACTATAGGAGGTAG+TGG | 0.534378 | 2_1:+59513686 | Msa0214880:CDS |
| TATGCAGGCTATGGTGCTGC+AGG | 0.539044 | 2_1:+59513752 | Msa0214880:CDS |
| TTCTAAGGATTTGATAGGCA+AGG | 0.550664 | 2_1:-59513335 | None:intergenic |
| TGTTTACCATGAAGTTCCTA+AGG | 0.560386 | 2_1:+59513467 | Msa0214880:CDS |
| AATAAAAGTGCTACTATAGG+AGG | 0.569588 | 2_1:+59513680 | Msa0214880:CDS |
| TATCAAATCCTTAGAAGAGG+TGG | 0.592696 | 2_1:+59513342 | Msa0214880:CDS |
| CAAATCATTCAGATTACCCA+AGG | 0.595050 | 2_1:+59513409 | Msa0214880:CDS |
| GCCTATCAAATCCTTAGAAG+AGG | 0.600530 | 2_1:+59513339 | Msa0214880:CDS |
| AGGCAAGGCAGATATCTGCT+TGG | 0.617856 | 2_1:-59513320 | None:intergenic |
| AGTGGTAAAGTGCTTAAGAG+TGG | 0.628138 | 2_1:+59513704 | Msa0214880:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | CAAAACATTATTATAATTAT+AGG | + | chr2_1:59513295-59513314 | Msa0214880:CDS | 10.0% |
| !! | TATCTAAATTAAATTCACAT+AGG | + | chr2_1:59513495-59513514 | Msa0214880:intron | 15.0% |
| !!! | AGGATTTTATAAAATTTTGT+AGG | + | chr2_1:59513604-59513623 | Msa0214880:intron | 15.0% |
| !! | TAAATGAAAACTATATCATT+TGG | - | chr2_1:59513731-59513750 | None:intergenic | 15.0% |
| !! | TAATTTAGATATAGTACCTT+AGG | - | chr2_1:59513486-59513505 | None:intergenic | 20.0% |
| !!! | AAAATTTTGTAGGATTATAC+TGG | + | chr2_1:59513614-59513633 | Msa0214880:intron | 20.0% |
| ! | ATTTCTTTCCTCCTAATATT+AGG | - | chr2_1:59513254-59513273 | None:intergenic | 25.0% |
| ! | TAATATTAGGAGGAAAGAAA+TGG | + | chr2_1:59513253-59513272 | Msa0214880:intron | 25.0% |
| ! | AATATTAGGAGGAAAGAAAT+GGG | + | chr2_1:59513254-59513273 | Msa0214880:intron | 25.0% |
| ! | TGGTAAACATCATAACAATT+CGG | - | chr2_1:59513456-59513475 | None:intergenic | 25.0% |
| !!! | AAATACTTTTGATCAAGTTG+AGG | + | chr2_1:59513584-59513603 | Msa0214880:intron | 25.0% |
| !! | ATAGTTTTCATTTACTATGC+AGG | + | chr2_1:59513737-59513756 | Msa0214880:CDS | 25.0% |
| TTAGGACACAAGTGAAAAAA+AGG | - | chr2_1:59513236-59513255 | None:intergenic | 30.0% | |
| TTCACTTGTGTCCTAATATT+AGG | + | chr2_1:59513240-59513259 | Msa0214880:intron | 30.0% | |
| ! | CAATGATGTTTTCATCTTCA+AGG | - | chr2_1:59513368-59513387 | None:intergenic | 30.0% |
| GGTTGATTGATTATAATGTC+AGG | - | chr2_1:59513435-59513454 | None:intergenic | 30.0% | |
| TATACTGGAAAAGACGTAAA+TGG | + | chr2_1:59513629-59513648 | Msa0214880:CDS | 30.0% | |
| ! | TAGCACTTTTATTGTCTCTA+AGG | - | chr2_1:59513673-59513692 | None:intergenic | 30.0% |
| !! | GACAATAAAAGTGCTACTAT+AGG | + | chr2_1:59513677-59513696 | Msa0214880:CDS | 30.0% |
| !! | AATAAAAGTGCTACTATAGG+AGG | + | chr2_1:59513680-59513699 | Msa0214880:CDS | 30.0% |
| ACTTGTGTCCTAATATTAGG+AGG | + | chr2_1:59513243-59513262 | Msa0214880:intron | 35.0% | |
| ! | TTCTAAGGATTTGATAGGCA+AGG | - | chr2_1:59513338-59513357 | None:intergenic | 35.0% |
| ! | ACCTCTTCTAAGGATTTGAT+AGG | - | chr2_1:59513343-59513362 | None:intergenic | 35.0% |
| TATCAAATCCTTAGAAGAGG+TGG | + | chr2_1:59513342-59513361 | Msa0214880:CDS | 35.0% | |
| CAAATCATTCAGATTACCCA+AGG | + | chr2_1:59513409-59513428 | Msa0214880:CDS | 35.0% | |
| TGATTATAATGTCAGGCCTT+GGG | - | chr2_1:59513428-59513447 | None:intergenic | 35.0% | |
| TTGATTATAATGTCAGGCCT+TGG | - | chr2_1:59513429-59513448 | None:intergenic | 35.0% | |
| TGTTTACCATGAAGTTCCTA+AGG | + | chr2_1:59513467-59513486 | Msa0214880:CDS | 35.0% | |
| ATAGTACCTTAGGAACTTCA+TGG | - | chr2_1:59513476-59513495 | None:intergenic | 35.0% | |
| TTCATTTACTATGCAGGCTA+TGG | + | chr2_1:59513743-59513762 | Msa0214880:CDS | 35.0% | |
| GCCTATCAAATCCTTAGAAG+AGG | + | chr2_1:59513339-59513358 | Msa0214880:CDS | 40.0% | |
| ! | AGTGGTAAAGTGCTTAAGAG+TGG | + | chr2_1:59513704-59513723 | Msa0214880:CDS | 40.0% |
| ! | AAATGGGCATTGCTTGTTGC+TGG | + | chr2_1:59513270-59513289 | Msa0214880:CDS | 45.0% |
| ! | AGTGCTACTATAGGAGGTAG+TGG | + | chr2_1:59513686-59513705 | Msa0214880:CDS | 45.0% |
| AGGCAAGGCAGATATCTGCT+TGG | - | chr2_1:59513323-59513342 | None:intergenic | 50.0% | |
| CTTCAAGGCCACCTCTTCTA+AGG | - | chr2_1:59513353-59513372 | None:intergenic | 50.0% | |
| !! | TATGGTGCTGCAGGCGTTAT+CGG | + | chr2_1:59513761-59513780 | Msa0214880:CDS | 50.0% |
| !! | TATGCAGGCTATGGTGCTGC+AGG | + | chr2_1:59513752-59513771 | Msa0214880:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 59513218 | 59513787 | 59513218 | ID=Msa0214880;Name=Msa0214880 |
| chr2_1 | mRNA | 59513218 | 59513787 | 59513218 | ID=Msa0214880-mRNA-1;Parent=Msa0214880;Name=Msa0214880-mRNA-1;_AED=0.38;_eAED=0.38;_QI=0|0|0|0.66|0.5|0.66|3|0|130 |
| chr2_1 | exon | 59513218 | 59513221 | 59513218 | ID=Msa0214880-mRNA-1:exon:16420;Parent=Msa0214880-mRNA-1 |
| chr2_1 | exon | 59513262 | 59513488 | 59513262 | ID=Msa0214880-mRNA-1:exon:16421;Parent=Msa0214880-mRNA-1 |
| chr2_1 | exon | 59513626 | 59513787 | 59513626 | ID=Msa0214880-mRNA-1:exon:16422;Parent=Msa0214880-mRNA-1 |
| chr2_1 | CDS | 59513218 | 59513221 | 59513218 | ID=Msa0214880-mRNA-1:cds;Parent=Msa0214880-mRNA-1 |
| chr2_1 | CDS | 59513262 | 59513488 | 59513262 | ID=Msa0214880-mRNA-1:cds;Parent=Msa0214880-mRNA-1 |
| chr2_1 | CDS | 59513626 | 59513787 | 59513626 | ID=Msa0214880-mRNA-1:cds;Parent=Msa0214880-mRNA-1 |
| Gene Sequence |
| Protein sequence |
