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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0095200 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0095200 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0095200 | 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 |
|---|---|---|---|---|
| Msa0017120 | Msa0095200 | 0.802274 | 6.065073e-49 | -8.615850e-47 |
| Msa0035090 | Msa0095200 | 0.814973 | 1.172831e-51 | -8.615850e-47 |
| Msa0039200 | Msa0095200 | 0.800282 | 1.550792e-48 | -8.615850e-47 |
| Msa0040190 | Msa0095200 | 0.808727 | 2.687046e-50 | -8.615850e-47 |
| Msa0086820 | Msa0095200 | 0.800671 | 1.291795e-48 | -8.615850e-47 |
| Msa0094420 | Msa0095200 | 0.803725 | 3.038758e-49 | -8.615850e-47 |
| Msa0095140 | Msa0095200 | 0.826709 | 2.337533e-54 | -8.615850e-47 |
| Msa0095200 | Msa0095240 | 0.813590 | 2.370454e-51 | -8.615850e-47 |
| Msa0095200 | Msa0095270 | 0.831195 | 1.916025e-55 | -8.615850e-47 |
| Msa0095200 | Msa0133670 | 0.801397 | 9.177960e-49 | -8.615850e-47 |
| Msa0095200 | Msa0133880 | 0.804335 | 2.269524e-49 | -8.615850e-47 |
| Msa0095200 | Msa0134550 | 0.810921 | 9.062541e-51 | -8.615850e-47 |
| Msa0095200 | Msa0141670 | 0.806220 | 9.145853e-50 | -8.615850e-47 |
| Msa0095200 | Msa0175900 | 0.806704 | 7.227384e-50 | -8.615850e-47 |
| Msa0095200 | Msa0222070 | 0.815904 | 7.278700e-52 | -8.615850e-47 |
| Msa0095200 | Msa0222120 | 0.812317 | 4.506324e-51 | -8.615850e-47 |
| Msa0095200 | Msa0224960 | 0.811880 | 5.610960e-51 | -8.615850e-47 |
| Msa0095200 | Msa0225010 | 0.806458 | 8.145539e-50 | -8.615850e-47 |
| Msa0095200 | Msa0227290 | 0.823189 | 1.583509e-53 | -8.615850e-47 |
| Msa0095200 | Msa0263620 | 0.813723 | 2.214994e-51 | -8.615850e-47 |
| Msa0095200 | Msa0268180 | 0.892657 | 1.296865e-74 | -8.615850e-47 |
| Msa0095200 | Msa0268340 | 0.808014 | 3.812393e-50 | -8.615850e-47 |
| Msa0095200 | Msa0268380 | 0.861784 | 8.042062e-64 | -8.615850e-47 |
| Msa0095200 | Msa0268420 | 0.904664 | 9.689660e-80 | -8.615850e-47 |
| Msa0095200 | Msa0268460 | 0.802169 | 6.372721e-49 | -8.615850e-47 |
| Msa0095200 | Msa0268540 | 0.882380 | 1.093458e-70 | -8.615850e-47 |
| Msa0095200 | Msa0268650 | 0.887111 | 1.901626e-72 | -8.615850e-47 |
| Msa0095200 | Msa0268730 | 0.855071 | 8.067173e-62 | -8.615850e-47 |
| Msa0095200 | Msa0268760 | 0.801392 | 9.200511e-49 | -8.615850e-47 |
| Msa0095200 | Msa0268850 | 0.866183 | 3.435990e-65 | -8.615850e-47 |
| Msa0095200 | Msa0268900 | 0.808211 | 3.462129e-50 | -8.615850e-47 |
| Msa0095200 | Msa0268930 | 0.852727 | 3.817406e-61 | -8.615850e-47 |
| Msa0095200 | Msa0269060 | 0.878924 | 1.893690e-69 | -8.615850e-47 |
| Msa0095200 | Msa0269100 | 0.805040 | 1.617430e-49 | -8.615850e-47 |
| Msa0095200 | Msa0306130 | 0.829640 | 4.598049e-55 | -8.615850e-47 |
| Msa0095200 | Msa0344200 | 0.825559 | 4.387505e-54 | -8.615850e-47 |
| Msa0095200 | Msa0344290 | 0.806955 | 6.396364e-50 | -8.615850e-47 |
| Msa0095200 | Msa0417630 | 0.813929 | 1.995421e-51 | -8.615850e-47 |
| Msa0095200 | Msa0427050 | 0.815700 | 8.084369e-52 | -8.615850e-47 |
| Msa0095200 | Msa0449930 | 0.841747 | 3.940043e-58 | -8.615850e-47 |
| Msa0095200 | Msa0464500 | 0.806118 | 9.607026e-50 | -8.615850e-47 |
| Msa0095200 | Msa0547050 | 0.801027 | 1.092941e-48 | -8.615850e-47 |
| Msa0095200 | Msa0558890 | 0.803212 | 3.882761e-49 | -8.615850e-47 |
| Msa0095200 | Msa0582530 | 0.871173 | 8.363540e-67 | -8.615850e-47 |
| Msa0095200 | Msa0582620 | 0.849899 | 2.404490e-60 | -8.615850e-47 |
| Msa0095200 | Msa0582710 | 0.882238 | 1.231441e-70 | -8.615850e-47 |
| Msa0095200 | Msa0582740 | 0.855526 | 5.945118e-62 | -8.615850e-47 |
| Msa0095200 | Msa0582830 | 0.877599 | 5.523714e-69 | -8.615850e-47 |
| Msa0095200 | Msa0582900 | 0.857613 | 1.448520e-62 | -8.615850e-47 |
| Msa0095200 | Msa0591370 | 0.803787 | 2.950759e-49 | -8.615850e-47 |
| Msa0095200 | Msa0601780 | 0.809460 | 1.871779e-50 | -8.615850e-47 |
| Msa0095200 | Msa0619060 | 0.801769 | 7.700872e-49 | -8.615850e-47 |
| Msa0095200 | Msa0640880 | 0.802603 | 5.187891e-49 | -8.615850e-47 |
| Msa0095200 | Msa0662850 | 0.809599 | 1.747017e-50 | -8.615850e-47 |
| Msa0095200 | Msa0681890 | 0.801152 | 1.030262e-48 | -8.615850e-47 |
| Msa0095200 | Msa0727020 | 0.819994 | 8.668402e-53 | -8.615850e-47 |
| Msa0095200 | Msa0739570 | 0.809513 | 1.823054e-50 | -8.615850e-47 |
| Msa0095200 | Msa0766880 | 0.818052 | 2.397409e-52 | -8.615850e-47 |
| Msa0095200 | Msa0772210 | 0.826510 | 2.608378e-54 | -8.615850e-47 |
| Msa0095200 | Msa0782330 | 0.819387 | 1.192985e-52 | -8.615850e-47 |
| Msa0095200 | Msa0796450 | 0.802478 | 5.504364e-49 | -8.615850e-47 |
| Msa0095200 | Msa0804930 | 0.809146 | 2.185309e-50 | -8.615850e-47 |
| Msa0095200 | Msa0855490 | 0.803943 | 2.737971e-49 | -8.615850e-47 |
| Msa0095200 | Msa0860270 | 0.823177 | 1.593780e-53 | -8.615850e-47 |
| Msa0095200 | Msa0924860 | 0.847362 | 1.213637e-59 | -8.615850e-47 |
| Msa0095200 | Msa0931090 | 0.888549 | 5.349514e-73 | -8.615850e-47 |
| Msa0095200 | Msa0931150 | 0.885876 | 5.571182e-72 | -8.615850e-47 |
| Msa0095200 | Msa0931200 | 0.803331 | 3.669193e-49 | -8.615850e-47 |
| Msa0095200 | Msa0931280 | 0.844674 | 6.531998e-59 | -8.615850e-47 |
| Msa0095200 | Msa0983670 | 0.800325 | 1.519961e-48 | -8.615850e-47 |
| Msa0095200 | Msa0992570 | 0.830743 | 2.473147e-55 | -8.615850e-47 |
| Msa0095200 | Msa0992590 | 0.806262 | 8.957742e-50 | -8.615850e-47 |
| Msa0095200 | Msa1002040 | 0.802289 | 6.022265e-49 | -8.615850e-47 |
| Msa0095200 | Msa1024580 | 0.818152 | 2.275850e-52 | -8.615850e-47 |
| Msa0095200 | Msa1030280 | 0.824459 | 7.980453e-54 | -8.615850e-47 |
| Msa0095200 | Msa1079610 | 0.805816 | 1.112259e-49 | -8.615850e-47 |
| Msa0095200 | Msa1086020 | 0.822724 | 2.032976e-53 | -8.615850e-47 |
| Msa0095200 | Msa1086060 | 0.868932 | 4.519546e-66 | -8.615850e-47 |
| Msa0095200 | Msa1086160 | 0.852517 | 4.382490e-61 | -8.615850e-47 |
| Msa0095200 | Msa1086170 | 0.875224 | 3.648146e-68 | -8.615850e-47 |
| Msa0095200 | Msa1086260 | 0.812637 | 3.834821e-51 | -8.615850e-47 |
| Msa0095200 | Msa1086290 | 0.860713 | 1.705114e-63 | -8.615850e-47 |
| Msa0095200 | Msa1086340 | 0.805238 | 1.470170e-49 | -8.615850e-47 |
| Msa0095200 | Msa1086370 | 0.859147 | 5.057327e-63 | -8.615850e-47 |
| Msa0095200 | Msa1086440 | 0.849464 | 3.179458e-60 | -8.615850e-47 |
| Msa0095200 | Msa1086480 | 0.835684 | 1.453941e-56 | -8.615850e-47 |
| Msa0095200 | Msa1086630 | 0.809118 | 2.215548e-50 | -8.615850e-47 |
| Msa0095200 | Msa1086690 | 0.805275 | 1.443991e-49 | -8.615850e-47 |
| Msa0095200 | Msa1086830 | 0.806070 | 9.833802e-50 | -8.615850e-47 |
| Msa0095200 | Msa1086870 | 0.836363 | 9.775613e-57 | -8.615850e-47 |
| Msa0095200 | Msa1090230 | 0.805742 | 1.152771e-49 | -8.615850e-47 |
| Msa0095200 | Msa1091690 | 0.844099 | 9.323970e-59 | -8.615850e-47 |
| Msa0095200 | Msa1123340 | 0.804889 | 1.739225e-49 | -8.615850e-47 |
| Msa0095200 | Msa1143140 | 0.837631 | 4.637324e-57 | -8.615850e-47 |
| Msa0095200 | Msa1157160 | 0.829157 | 6.024584e-55 | -8.615850e-47 |
| Msa0095200 | Msa1248400 | 0.804776 | 1.836514e-49 | -8.615850e-47 |
| Msa0095200 | Msa1284030 | 0.815543 | 8.759977e-52 | -8.615850e-47 |
| Msa0095200 | Msa1309910 | 0.805242 | 1.467033e-49 | -8.615850e-47 |
| Msa0095200 | Msa1323060 | 0.800324 | 1.520659e-48 | -8.615850e-47 |
| Msa0095200 | Msa1327820 | 0.806054 | 9.908276e-50 | -8.615850e-47 |
| Msa0095200 | Msa1354850 | 0.832173 | 1.099697e-55 | -8.615850e-47 |
| Msa0095200 | Msa1354890 | 0.859050 | 5.408574e-63 | -8.615850e-47 |
| Msa0095200 | Msa1355020 | 0.809252 | 2.074315e-50 | -8.615850e-47 |
| Msa0095200 | Msa1355060 | 0.868036 | 8.795176e-66 | -8.615850e-47 |
| Msa0095200 | Msa1380540 | 0.807959 | 3.916585e-50 | -8.615850e-47 |
| Msa0095200 | Msa1380580 | 0.821774 | 3.375969e-53 | -8.615850e-47 |
| Msa0095200 | Msa1385940 | 0.810720 | 1.001763e-50 | -8.615850e-47 |
| Msa0095200 | Msa1387090 | 0.802264 | 6.092761e-49 | -8.615850e-47 |
| Msa0095200 | Msa1394050 | 0.807757 | 4.324579e-50 | -8.615850e-47 |
| Msa0095200 | Msa1394090 | 0.804288 | 2.321148e-49 | -8.615850e-47 |
| Msa0095200 | Msa1394140 | 0.828673 | 7.887228e-55 | -8.615850e-47 |
| Msa0095200 | Msa1394170 | 0.800030 | 1.744439e-48 | -8.615850e-47 |
| Msa0095200 | Msa1394240 | 0.842180 | 3.027080e-58 | -8.615850e-47 |
| Msa0095200 | Msa1406230 | 0.807518 | 4.859802e-50 | -8.615850e-47 |
| Msa0095200 | Msa1415120 | 0.817280 | 3.579102e-52 | -8.615850e-47 |
| Msa0095200 | Msa1422750 | 0.820068 | 8.336696e-53 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0095200 | MtrunA17_Chr4g0015681 | 96.667 | 60 | 2 | 0 | 1 | 60 | 1 | 60 | 7.64e-35 | 113 |
| Msa0095200 | MtrunA17_CPg0492901 | 96.667 | 60 | 2 | 0 | 1 | 60 | 1 | 60 | 7.64e-35 | 113 |
| Msa0095200 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0095200 | ATCG00070.1 | 76.667 | 60 | 14 | 0 | 1 | 60 | 1 | 60 | 3.76e-26 | 92.0 |
| Msa0095200 | ATCG00080.1 | 97.222 | 36 | 1 | 0 | 62 | 97 | 1 | 36 | 2.92e-19 | 73.9 |
Find 6 sgRNAs with CRISPR-Local
Find 30 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TATGCTTAATATCTTTAGCT+TGG | 0.440922 | 1_2:-79030196 | Msa0095200:CDS |
| ACTGGCATAAAATCTACAAT+TGG | 0.453871 | 1_2:+79030093 | None:intergenic |
| AATGATCCAGGACGTAATCC+TGG | 0.474800 | 1_2:-79029546 | Msa0095200:CDS |
| GGATTCCTATCTAATGATCC+AGG | 0.536202 | 1_2:-79029558 | Msa0095200:CDS |
| TCACGTCCAGGATTACGTCC+TGG | 0.548081 | 1_2:+79029540 | None:intergenic |
| TACGTCCTGGATCATTAGAT+AGG | 0.581605 | 1_2:+79029553 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTCCAAATATTAAAATTTT+TGG | - | chr1_2:79029822-79029841 | Msa0095200:intron | 10.0% |
| !!! | TATCCAAAAATTTTAATATT+TGG | + | chr1_2:79029828-79029847 | None:intergenic | 10.0% |
| !! | ATTTCAAAAAAAAAAAACTT+AGG | + | chr1_2:79029979-79029998 | None:intergenic | 10.0% |
| !!! | AATTTTAATATTTGGAATCA+AGG | + | chr1_2:79029820-79029839 | None:intergenic | 15.0% |
| !!! | CGTTTTTTTTTTAATTATCT+TGG | - | chr1_2:79030074-79030093 | Msa0095200:CDS | 15.0% |
| !! | GAAAAAACTACTTGAATAAA+GGG | + | chr1_2:79029579-79029598 | None:intergenic | 20.0% |
| !! | AGAAAAAACTACTTGAATAA+AGG | + | chr1_2:79029580-79029599 | None:intergenic | 20.0% |
| !!! | TTATTCAAGTAGTTTTTTCT+TGG | - | chr1_2:79029580-79029599 | Msa0095200:CDS | 20.0% |
| !! | TGAAAATTCTATTATTCGAT+TGG | - | chr1_2:79029866-79029885 | Msa0095200:intron | 20.0% |
| !!! | TGTGGATATGAAAAAAATTT+TGG | - | chr1_2:79029917-79029936 | Msa0095200:intron | 20.0% |
| !! | TCTTATAAACTTAGTATCAA+AGG | - | chr1_2:79030008-79030027 | Msa0095200:intron | 20.0% |
| !!! | TTTTTCTCTTAGCTTTTGTT+TGG | - | chr1_2:79029672-79029691 | Msa0095200:intron | 25.0% |
| !!! | TTTGTTTCTCTTTTCATCTT+CGG | - | chr1_2:79030149-79030168 | Msa0095200:CDS | 25.0% |
| ! | AATTGGATTCAAAAAAGCGT+AGG | + | chr1_2:79029621-79029640 | None:intergenic | 30.0% |
| ACTGGCATAAAATCTACAAT+TGG | + | chr1_2:79029638-79029657 | None:intergenic | 30.0% | |
| !! | AAAAAGAGTAAGGGTATTAC+TGG | + | chr1_2:79029656-79029675 | None:intergenic | 30.0% |
| GCTAAGAGAAAAAAGAGTAA+GGG | + | chr1_2:79029665-79029684 | None:intergenic | 30.0% | |
| AGCTAAGAGAAAAAAGAGTA+AGG | + | chr1_2:79029666-79029685 | None:intergenic | 30.0% | |
| !! | AATCAAGATCTAGGTATTGG+TGG | + | chr1_2:79029898-79029917 | None:intergenic | 35.0% |
| CACAATCAAGATCTAGGTAT+TGG | + | chr1_2:79029901-79029920 | None:intergenic | 35.0% | |
| CAATACCTAGATCTTGATTG+TGG | - | chr1_2:79029899-79029918 | Msa0095200:intron | 35.0% | |
| CATATCCACAATCAAGATCT+AGG | + | chr1_2:79029907-79029926 | None:intergenic | 35.0% | |
| GAGAATCTATTCTCTTTCTC+TGG | - | chr1_2:79030051-79030070 | Msa0095200:CDS | 35.0% | |
| ! | TTCAAAAAAGCGTAGGCTTC+AGG | + | chr1_2:79029614-79029633 | None:intergenic | 40.0% |
| GGATTCCTATCTAATGATCC+AGG | - | chr1_2:79030170-79030189 | Msa0095200:CDS | 40.0% | |
| TACGTCCTGGATCATTAGAT+AGG | + | chr1_2:79030178-79030197 | None:intergenic | 40.0% | |
| !! | CAAGATCTAGGTATTGGTGG+TGG | + | chr1_2:79029895-79029914 | None:intergenic | 45.0% |
| AATGATCCAGGACGTAATCC+TGG | - | chr1_2:79030182-79030201 | Msa0095200:CDS | 45.0% | |
| !!! | AATAAATTCTTAATTTTTTT+CGG | + | chr1_2:79029743-79029762 | None:intergenic | 5.0% |
| TCACGTCCAGGATTACGTCC+TGG | + | chr1_2:79030191-79030210 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 79029533 | 79030217 | 79029533 | ID=Msa0095200;Name=Msa0095200 |
| chr1_2 | mRNA | 79029533 | 79030217 | 79029533 | ID=Msa0095200-mRNA-1;Parent=Msa0095200;Name=Msa0095200-mRNA-1;_AED=0.30;_eAED=0.30;_QI=0|0|0|1|0|0|2|0|97 |
| chr1_2 | exon | 79030043 | 79030217 | 79030043 | ID=Msa0095200-mRNA-1:exon:28083;Parent=Msa0095200-mRNA-1 |
| chr1_2 | exon | 79029533 | 79029651 | 79029533 | ID=Msa0095200-mRNA-1:exon:28082;Parent=Msa0095200-mRNA-1 |
| chr1_2 | CDS | 79030043 | 79030217 | 79030043 | ID=Msa0095200-mRNA-1:cds;Parent=Msa0095200-mRNA-1 |
| chr1_2 | CDS | 79029533 | 79029651 | 79029533 | ID=Msa0095200-mRNA-1:cds;Parent=Msa0095200-mRNA-1 |
| Gene Sequence |
| Protein sequence |
