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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0449930 | RDY14692.1 | 90.722 | 97 | 9 | 0 | 1 | 97 | 4 | 100 | 7.75e-56 | 178 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0449930 | sp|Q49L15|PSBK_EUCGG | 91.667 | 60 | 5 | 0 | 1 | 60 | 1 | 60 | 1.80e-32 | 110 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0449930 | A0A371II05 | 90.722 | 97 | 9 | 0 | 1 | 97 | 4 | 100 | 3.70e-56 | 178 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0035090 | Msa0449930 | 0.816455 | 5.481382e-52 | -8.615850e-47 |
| Msa0040190 | Msa0449930 | 0.824284 | 8.775684e-54 | -8.615850e-47 |
| Msa0087880 | Msa0449930 | 0.819337 | 1.224860e-52 | -8.615850e-47 |
| Msa0092750 | Msa0449930 | 0.814612 | 1.410155e-51 | -8.615850e-47 |
| Msa0095140 | Msa0449930 | 0.839229 | 1.795636e-57 | -8.615850e-47 |
| Msa0095200 | Msa0449930 | 0.841747 | 3.940043e-58 | -8.615850e-47 |
| Msa0095240 | Msa0449930 | 0.834864 | 2.342050e-56 | -8.615850e-47 |
| Msa0095270 | Msa0449930 | 0.834890 | 2.307152e-56 | -8.615850e-47 |
| Msa0123940 | Msa0449930 | 0.801762 | 7.726314e-49 | -8.615850e-47 |
| Msa0133880 | Msa0449930 | 0.804489 | 2.108285e-49 | -8.615850e-47 |
| Msa0134550 | Msa0449930 | 0.825468 | 4.612381e-54 | -8.615850e-47 |
| Msa0156780 | Msa0449930 | 0.844712 | 6.380197e-59 | -8.615850e-47 |
| Msa0175900 | Msa0449930 | 0.805377 | 1.375011e-49 | -8.615850e-47 |
| Msa0221860 | Msa0449930 | 0.854016 | 1.629996e-61 | -8.615850e-47 |
| Msa0231310 | Msa0449930 | 0.804224 | 2.393308e-49 | -8.615850e-47 |
| Msa0365150 | Msa0449930 | 0.802527 | 5.378724e-49 | -8.615850e-47 |
| Msa0398610 | Msa0449930 | 0.801195 | 1.009692e-48 | -8.615850e-47 |
| Msa0398620 | Msa0449930 | 0.866115 | 3.610324e-65 | -8.615850e-47 |
| Msa0426860 | Msa0449930 | 0.808951 | 2.406166e-50 | -8.615850e-47 |
| Msa0426890 | Msa0449930 | 0.811754 | 5.977337e-51 | -8.615850e-47 |
| Msa0427050 | Msa0449930 | 0.809677 | 1.681285e-50 | -8.615850e-47 |
| Msa0449900 | Msa0449930 | 0.850895 | 1.262853e-60 | -8.615850e-47 |
| Msa0449930 | Msa0475830 | 0.811206 | 7.863012e-51 | -8.615850e-47 |
| Msa0449930 | Msa0539900 | 0.806265 | 8.944249e-50 | -8.615850e-47 |
| Msa0449930 | Msa0545910 | 0.822069 | 2.885568e-53 | -8.615850e-47 |
| Msa0449930 | Msa0568490 | 0.801046 | 1.083195e-48 | -8.615850e-47 |
| Msa0449930 | Msa0568810 | 0.801907 | 7.213731e-49 | -8.615850e-47 |
| Msa0449930 | Msa0582570 | 0.823639 | 1.243229e-53 | -8.615850e-47 |
| Msa0449930 | Msa0582580 | 0.834811 | 2.414628e-56 | -8.615850e-47 |
| Msa0449930 | Msa0582620 | 0.804034 | 2.622395e-49 | -8.615850e-47 |
| Msa0449930 | Msa0582710 | 0.801447 | 8.966513e-49 | -8.615850e-47 |
| Msa0449930 | Msa0582740 | 0.810535 | 1.098576e-50 | -8.615850e-47 |
| Msa0449930 | Msa0582830 | 0.821581 | 3.742837e-53 | -8.615850e-47 |
| Msa0449930 | Msa0582900 | 0.802421 | 5.654306e-49 | -8.615850e-47 |
| Msa0449930 | Msa0587060 | 0.812558 | 3.990984e-51 | -8.615850e-47 |
| Msa0449930 | Msa0591370 | 0.829662 | 4.541025e-55 | -8.615850e-47 |
| Msa0449930 | Msa0601710 | 0.808185 | 3.506453e-50 | -8.615850e-47 |
| Msa0449930 | Msa0624890 | 0.815112 | 1.092317e-51 | -8.615850e-47 |
| Msa0449930 | Msa0657820 | 0.801386 | 9.227545e-49 | -8.615850e-47 |
| Msa0449930 | Msa0668630 | 0.845540 | 3.811267e-59 | -8.615850e-47 |
| Msa0449930 | Msa0681040 | 0.813622 | 2.332079e-51 | -8.615850e-47 |
| Msa0449930 | Msa0727020 | 0.819866 | 9.275534e-53 | -8.615850e-47 |
| Msa0449930 | Msa0727040 | 0.817403 | 3.357722e-52 | -8.615850e-47 |
| Msa0449930 | Msa0766880 | 0.827812 | 1.272521e-54 | -8.615850e-47 |
| Msa0449930 | Msa0771940 | 0.808163 | 3.544724e-50 | -8.615850e-47 |
| Msa0449930 | Msa0804930 | 0.803101 | 4.094198e-49 | -8.615850e-47 |
| Msa0449930 | Msa0924820 | 0.842930 | 1.913749e-58 | -8.615850e-47 |
| Msa0449930 | Msa0924860 | 0.808988 | 2.362219e-50 | -8.615850e-47 |
| Msa0449930 | Msa0924970 | 0.844577 | 6.936575e-59 | -8.615850e-47 |
| Msa0449930 | Msa0925020 | 0.832283 | 1.032587e-55 | -8.615850e-47 |
| Msa0449930 | Msa0930990 | 0.827796 | 1.283780e-54 | -8.615850e-47 |
| Msa0449930 | Msa0931090 | 0.812756 | 3.612910e-51 | -8.615850e-47 |
| Msa0449930 | Msa0931280 | 0.803054 | 4.187084e-49 | -8.615850e-47 |
| Msa0449930 | Msa0983670 | 0.844275 | 8.361892e-59 | -8.615850e-47 |
| Msa0449930 | Msa1086020 | 0.850358 | 1.787847e-60 | -8.615850e-47 |
| Msa0449930 | Msa1086060 | 0.839899 | 1.202208e-57 | -8.615850e-47 |
| Msa0449930 | Msa1086160 | 0.860205 | 2.429016e-63 | -8.615850e-47 |
| Msa0449930 | Msa1086170 | 0.819713 | 1.005380e-52 | -8.615850e-47 |
| Msa0449930 | Msa1086260 | 0.846624 | 1.932123e-59 | -8.615850e-47 |
| Msa0449930 | Msa1086290 | 0.806574 | 7.700544e-50 | -8.615850e-47 |
| Msa0449930 | Msa1086330 | 0.824717 | 6.939379e-54 | -8.615850e-47 |
| Msa0449930 | Msa1086340 | 0.810385 | 1.183358e-50 | -8.615850e-47 |
| Msa0449930 | Msa1086370 | 0.816300 | 5.935997e-52 | -8.615850e-47 |
| Msa0449930 | Msa1086440 | 0.828578 | 8.314983e-55 | -8.615850e-47 |
| Msa0449930 | Msa1086480 | 0.810798 | 9.634171e-51 | -8.615850e-47 |
| Msa0449930 | Msa1086520 | 0.822889 | 1.860825e-53 | -8.615850e-47 |
| Msa0449930 | Msa1086630 | 0.835459 | 1.657220e-56 | -8.615850e-47 |
| Msa0449930 | Msa1086690 | 0.823096 | 1.664929e-53 | -8.615850e-47 |
| Msa0449930 | Msa1086830 | 0.838092 | 3.530839e-57 | -8.615850e-47 |
| Msa0449930 | Msa1086870 | 0.822222 | 2.658914e-53 | -8.615850e-47 |
| Msa0449930 | Msa1124440 | 0.804729 | 1.878700e-49 | -8.615850e-47 |
| Msa0449930 | Msa1199690 | 0.807620 | 4.625428e-50 | -8.615850e-47 |
| Msa0449930 | Msa1252040 | 0.803950 | 2.728733e-49 | -8.615850e-47 |
| Msa0449930 | Msa1279240 | 0.806801 | 6.894233e-50 | -8.615850e-47 |
| Msa0449930 | Msa1298740 | 0.809850 | 1.543112e-50 | -8.615850e-47 |
| Msa0449930 | Msa1354850 | 0.855943 | 4.492360e-62 | -8.615850e-47 |
| Msa0449930 | Msa1354890 | 0.803297 | 3.729068e-49 | -8.615850e-47 |
| Msa0449930 | Msa1355020 | 0.850246 | 1.922647e-60 | -8.615850e-47 |
| Msa0449930 | Msa1355060 | 0.813122 | 3.003286e-51 | -8.615850e-47 |
| Msa0449930 | Msa1380540 | 0.811782 | 5.894206e-51 | -8.615850e-47 |
| Msa0449930 | Msa1385940 | 0.822474 | 2.323580e-53 | -8.615850e-47 |
| Msa0449930 | Msa1394090 | 0.835621 | 1.508683e-56 | -8.615850e-47 |
| Msa0449930 | Msa1394100 | 0.836834 | 7.415393e-57 | -8.615850e-47 |
| Msa0449930 | Msa1394280 | 0.826952 | 2.044664e-54 | -8.615850e-47 |
| Msa0449930 | Msa1415120 | 0.827603 | 1.428087e-54 | -8.615850e-47 |
| Msa0253410 | Msa0449930 | 0.800158 | 1.643500e-48 | -8.615850e-47 |
| Msa0268180 | Msa0449930 | 0.841860 | 3.677583e-58 | -8.615850e-47 |
| Msa0268220 | Msa0449930 | 0.810423 | 1.161096e-50 | -8.615850e-47 |
| Msa0268340 | Msa0449930 | 0.823905 | 1.076628e-53 | -8.615850e-47 |
| Msa0268420 | Msa0449930 | 0.820871 | 5.455259e-53 | -8.615850e-47 |
| Msa0268460 | Msa0449930 | 0.826447 | 2.699798e-54 | -8.615850e-47 |
| Msa0268500 | Msa0449930 | 0.829328 | 5.473703e-55 | -8.615850e-47 |
| Msa0268540 | Msa0449930 | 0.808667 | 2.766668e-50 | -8.615850e-47 |
| Msa0268650 | Msa0449930 | 0.821751 | 3.418249e-53 | -8.615850e-47 |
| Msa0268730 | Msa0449930 | 0.817110 | 3.908658e-52 | -8.615850e-47 |
| Msa0268760 | Msa0449930 | 0.810891 | 9.199653e-51 | -8.615850e-47 |
| Msa0268850 | Msa0449930 | 0.807413 | 5.116376e-50 | -8.615850e-47 |
| Msa0268900 | Msa0449930 | 0.814673 | 1.366528e-51 | -8.615850e-47 |
| Msa0269060 | Msa0449930 | 0.827999 | 1.146750e-54 | -8.615850e-47 |
| Msa0269100 | Msa0449930 | 0.829161 | 6.008026e-55 | -8.615850e-47 |
| Msa0344250 | Msa0449930 | 0.819134 | 1.362100e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0449930 | MtrunA17_Chr4g0015681 | 96.667 | 60 | 2 | 0 | 1 | 60 | 1 | 60 | 7.64e-35 | 113 |
| Msa0449930 | MtrunA17_CPg0492901 | 96.667 | 60 | 2 | 0 | 1 | 60 | 1 | 60 | 7.64e-35 | 113 |
| Msa0449930 | MtrunA17_Chr4g0016771 | 96.667 | 60 | 2 | 0 | 1 | 60 | 1 | 60 | 7.64e-35 | 113 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0449930 | ATCG00070.1 | 76.667 | 60 | 14 | 0 | 1 | 60 | 1 | 60 | 3.76e-26 | 92.0 |
| Msa0449930 | ATCG00080.1 | 97.222 | 36 | 1 | 0 | 62 | 97 | 1 | 36 | 2.92e-19 | 73.9 |
Find 6 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TATGCTTAATATCTTTAGCT+TGG | 0.440922 | 3_3:+34895915 | None:intergenic |
| ACTGGCATAAAATCTACAAT+TGG | 0.453871 | 3_3:-34896018 | None:intergenic |
| AATGATCCAGGACGTAATCC+TGG | 0.474800 | 3_3:+34896566 | Msa0449930:CDS |
| GGATTCCTATCTAATGATCC+AGG | 0.536202 | 3_3:+34896554 | Msa0449930:CDS |
| TCACGTCCAGGATTACGTCC+TGG | 0.548081 | 3_3:-34896572 | None:intergenic |
| TACGTCCTGGATCATTAGAT+AGG | 0.581605 | 3_3:-34896559 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATTTCAAAAAAAAAAAACTT+AGG | - | chr3_3:34896363-34896382 | None:intergenic | 10.0% |
| !!! | ATTCCAAATATTAACATTTT+TGG | + | chr3_3:34896205-34896224 | Msa0449930:intron | 15.0% |
| !! | TATCCAAAAATGTTAATATT+TGG | - | chr3_3:34896211-34896230 | None:intergenic | 15.0% |
| !!! | CGTTTTTTTTTTAATTATCT+TGG | + | chr3_3:34896458-34896477 | Msa0449930:intron | 15.0% |
| !! | GAAAAAACTACTTGAATAAA+GGG | - | chr3_3:34895962-34895981 | None:intergenic | 20.0% |
| !! | AGAAAAAACTACTTGAATAA+AGG | - | chr3_3:34895963-34895982 | None:intergenic | 20.0% |
| !!! | TTATTCAAGTAGTTTTTTCT+TGG | + | chr3_3:34895963-34895982 | Msa0449930:CDS | 20.0% |
| !!! | AATGTTAATATTTGGAATCA+AGG | - | chr3_3:34896203-34896222 | None:intergenic | 20.0% |
| !! | TGAAAATTCTATTATTCGAT+TGG | + | chr3_3:34896249-34896268 | Msa0449930:intron | 20.0% |
| !!! | TGTGGATATGAAAAATTTTT+TGG | + | chr3_3:34896301-34896320 | Msa0449930:intron | 20.0% |
| !! | TCTTATAAACTTAGTATCAA+AGG | + | chr3_3:34896392-34896411 | Msa0449930:intron | 20.0% |
| !!! | TTTTTCTCTTAGCTTTTGTT+TGG | + | chr3_3:34896055-34896074 | Msa0449930:CDS | 25.0% |
| !!! | TTTGTTTCTCTTTTCATCTT+CGG | + | chr3_3:34896533-34896552 | Msa0449930:CDS | 25.0% |
| ! | AATTGGATTCAAAAAAGCGT+AGG | - | chr3_3:34896004-34896023 | None:intergenic | 30.0% |
| ACTGGCATAAAATCTACAAT+TGG | - | chr3_3:34896021-34896040 | None:intergenic | 30.0% | |
| !! | AAAAAGAGTAAGGGTATTAC+TGG | - | chr3_3:34896039-34896058 | None:intergenic | 30.0% |
| GCTAAGAGAAAAAAGAGTAA+GGG | - | chr3_3:34896048-34896067 | None:intergenic | 30.0% | |
| AGCTAAGAGAAAAAAGAGTA+AGG | - | chr3_3:34896049-34896068 | None:intergenic | 30.0% | |
| ACAATCAAGATCCTAGGTAT+TGG | - | chr3_3:34896284-34896303 | None:intergenic | 35.0% | |
| AATACCTAGGATCTTGATTG+TGG | + | chr3_3:34896283-34896302 | Msa0449930:intron | 35.0% | |
| ATATCCACAATCAAGATCCT+AGG | - | chr3_3:34896290-34896309 | None:intergenic | 35.0% | |
| GAGAATCTATTCTCTTTCTC+TGG | + | chr3_3:34896435-34896454 | Msa0449930:intron | 35.0% | |
| ! | TTCAAAAAAGCGTAGGCTTC+AGG | - | chr3_3:34895997-34896016 | None:intergenic | 40.0% |
| !! | ATCAAGATCCTAGGTATTGG+TGG | - | chr3_3:34896281-34896300 | None:intergenic | 40.0% |
| GGATTCCTATCTAATGATCC+AGG | + | chr3_3:34896554-34896573 | Msa0449930:CDS | 40.0% | |
| TACGTCCTGGATCATTAGAT+AGG | - | chr3_3:34896562-34896581 | None:intergenic | 40.0% | |
| !! | AAGATCCTAGGTATTGGTGG+TGG | - | chr3_3:34896278-34896297 | None:intergenic | 45.0% |
| AATGATCCAGGACGTAATCC+TGG | + | chr3_3:34896566-34896585 | Msa0449930:CDS | 45.0% | |
| !!! | AATAAATTCTTAATTTTTTT+CGG | - | chr3_3:34896126-34896145 | None:intergenic | 5.0% |
| GGAGTCCACCACCAATACCT+AGG | + | chr3_3:34896270-34896289 | Msa0449930:intron | 55.0% | |
| TCACGTCCAGGATTACGTCC+TGG | - | chr3_3:34896575-34896594 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 34895916 | 34896601 | 34895916 | ID=Msa0449930;Name=Msa0449930 |
| chr3_3 | mRNA | 34895916 | 34896601 | 34895916 | ID=Msa0449930-mRNA-1;Parent=Msa0449930;Name=Msa0449930-mRNA-1;_AED=0.08;_eAED=0.08;_QI=0|0|0|1|0|0|2|0|97 |
| chr3_3 | exon | 34895916 | 34896090 | 34895916 | ID=Msa0449930-mRNA-1:exon:6227;Parent=Msa0449930-mRNA-1 |
| chr3_3 | exon | 34896483 | 34896601 | 34896483 | ID=Msa0449930-mRNA-1:exon:6228;Parent=Msa0449930-mRNA-1 |
| chr3_3 | CDS | 34895916 | 34896090 | 34895916 | ID=Msa0449930-mRNA-1:cds;Parent=Msa0449930-mRNA-1 |
| chr3_3 | CDS | 34896483 | 34896601 | 34896483 | ID=Msa0449930-mRNA-1:cds;Parent=Msa0449930-mRNA-1 |
| Gene Sequence |
| Protein sequence |
