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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0684620 | XP_003606781.2 | 96.732 | 153 | 5 | 0 | 1 | 153 | 1 | 153 | 3.71e-103 | 301 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0684620 | sp|Q8GWP3|COPT6_ARATH | 51.020 | 147 | 59 | 5 | 5 | 145 | 1 | 140 | 3.17e-38 | 130 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0684620 | G7JDP2 | 96.732 | 153 | 5 | 0 | 1 | 153 | 1 | 153 | 1.77e-103 | 301 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0059880 | Msa0684620 | 0.821220 | 4.532932e-53 | -8.615850e-47 |
| Msa0605470 | Msa0684620 | 0.801690 | 7.992423e-49 | -8.615850e-47 |
| Msa0645150 | Msa0684620 | 0.811380 | 7.206916e-51 | -8.615850e-47 |
| Msa0668210 | Msa0684620 | 0.809601 | 1.745519e-50 | -8.615850e-47 |
| Msa0670360 | Msa0684620 | 0.811674 | 6.221189e-51 | -8.615850e-47 |
| Msa0671490 | Msa0684620 | 0.827459 | 1.546472e-54 | -8.615850e-47 |
| Msa0684620 | Msa0711240 | 0.819999 | 8.648173e-53 | -8.615850e-47 |
| Msa0684620 | Msa0735130 | 0.854415 | 1.249908e-61 | -8.615850e-47 |
| Msa0684620 | Msa0824860 | 0.810693 | 1.015127e-50 | -8.615850e-47 |
| Msa0684620 | Msa0863840 | 0.800352 | 1.500739e-48 | -8.615850e-47 |
| Msa0684620 | Msa0896920 | 0.809433 | 1.897019e-50 | -8.615850e-47 |
| Msa0684620 | Msa0910830 | 0.800504 | 1.397361e-48 | -8.615850e-47 |
| Msa0684620 | Msa0941120 | 0.824383 | 8.316157e-54 | -8.615850e-47 |
| Msa0684620 | Msa1024350 | 0.833418 | 5.393137e-56 | -8.615850e-47 |
| Msa0684620 | Msa1026050 | 0.835539 | 1.581873e-56 | -8.615850e-47 |
| Msa0684620 | Msa1061670 | 0.850816 | 1.329644e-60 | -8.615850e-47 |
| Msa0684620 | Msa1087370 | 0.813512 | 2.465121e-51 | -8.615850e-47 |
| Msa0684620 | Msa1087380 | 0.819496 | 1.126372e-52 | -8.615850e-47 |
| Msa0684620 | Msa1106680 | 0.803715 | 3.053930e-49 | -8.615850e-47 |
| Msa0684620 | Msa1106960 | 0.840793 | 7.020456e-58 | -8.615850e-47 |
| Msa0684620 | Msa1109880 | 0.818401 | 1.998192e-52 | -8.615850e-47 |
| Msa0684620 | Msa1109890 | 0.847960 | 8.307467e-60 | -8.615850e-47 |
| Msa0684620 | Msa1355330 | 0.808113 | 3.632163e-50 | -8.615850e-47 |
| Msa0684620 | Msa1411550 | 0.806694 | 7.262124e-50 | -8.615850e-47 |
| Msa0684620 | Msa1456600 | 0.816004 | 6.914694e-52 | -8.615850e-47 |
| Msa0684620 | Msa1459610 | 0.806468 | 8.108504e-50 | -8.615850e-47 |
| Msa0129850 | Msa0684620 | 0.803605 | 3.218669e-49 | -8.615850e-47 |
| Msa0177550 | Msa0684620 | 0.813079 | 3.068328e-51 | -8.615850e-47 |
| Msa0194230 | Msa0684620 | 0.812544 | 4.019931e-51 | -8.615850e-47 |
| Msa0234120 | Msa0684620 | 0.803469 | 3.435360e-49 | -8.615850e-47 |
| Msa0393900 | Msa0684620 | 0.808840 | 2.541620e-50 | -8.615850e-47 |
| Msa0396700 | Msa0684620 | 0.800548 | 1.368884e-48 | -8.615850e-47 |
| Msa0409490 | Msa0684620 | 0.841758 | 3.911741e-58 | -8.615850e-47 |
| Msa0414480 | Msa0684620 | 0.818778 | 1.641175e-52 | -8.615850e-47 |
| Msa0418150 | Msa0684620 | 0.800723 | 1.260858e-48 | -8.615850e-47 |
| Msa0464300 | Msa0684620 | 0.811430 | 7.028826e-51 | -8.615850e-47 |
| Msa0266640 | Msa0684620 | 0.802358 | 5.825735e-49 | -8.615850e-47 |
| Msa0266650 | Msa0684620 | 0.803692 | 3.087913e-49 | -8.615850e-47 |
| Msa0274250 | Msa0684620 | 0.823384 | 1.425689e-53 | -8.615850e-47 |
| Msa0274260 | Msa0684620 | 0.810466 | 1.136770e-50 | -8.615850e-47 |
| Msa0278950 | Msa0684620 | 0.836363 | 9.775774e-57 | -8.615850e-47 |
| Msa0314440 | Msa0684620 | 0.811399 | 7.138996e-51 | -8.615850e-47 |
| Msa0491800 | Msa0684620 | 0.812869 | 3.412207e-51 | -8.615850e-47 |
| Msa0533510 | Msa0684620 | 0.803707 | 3.065494e-49 | -8.615850e-47 |
| Msa0533520 | Msa0684620 | 0.805522 | 1.281809e-49 | -8.615850e-47 |
| Msa0535570 | Msa0684620 | 0.800151 | 1.648915e-48 | -8.615850e-47 |
| Msa0538440 | Msa0684620 | 0.803568 | 3.276594e-49 | -8.615850e-47 |
| Msa0538450 | Msa0684620 | 0.819066 | 1.411409e-52 | -8.615850e-47 |
| Msa0538520 | Msa0684620 | 0.809789 | 1.590826e-50 | -8.615850e-47 |
| Msa0554660 | Msa0684620 | 0.808215 | 3.455691e-50 | -8.615850e-47 |
| Msa0589720 | Msa0684620 | 0.810136 | 1.338911e-50 | -8.615850e-47 |
| Msa0589740 | Msa0684620 | 0.804602 | 1.996433e-49 | -8.615850e-47 |
| Msa0591490 | Msa0684620 | 0.817145 | 3.837304e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0684620 | MtrunA17_Chr4g0032581 | 96.732 | 153 | 5 | 0 | 1 | 153 | 1 | 153 | 3.41e-107 | 301 |
| Msa0684620 | MtrunA17_Chr4g0032291 | 80.000 | 120 | 23 | 1 | 35 | 153 | 46 | 165 | 7.80e-63 | 190 |
| Msa0684620 | MtrunA17_Chr4g0032571 | 74.074 | 135 | 33 | 2 | 9 | 142 | 4 | 137 | 1.19e-56 | 174 |
| Msa0684620 | MtrunA17_Chr7g0240831 | 44.755 | 143 | 71 | 4 | 8 | 147 | 2 | 139 | 2.19e-35 | 120 |
| Msa0684620 | MtrunA17_Chr7g0240841 | 44.755 | 143 | 71 | 4 | 8 | 147 | 2 | 139 | 2.19e-35 | 120 |
| Msa0684620 | MtrunA17_Chr4g0008841 | 45.763 | 118 | 60 | 1 | 32 | 145 | 13 | 130 | 9.78e-33 | 113 |
| Msa0684620 | MtrunA17_Chr7g0240861 | 44.928 | 138 | 71 | 3 | 17 | 149 | 12 | 149 | 7.98e-31 | 108 |
| Msa0684620 | MtrunA17_Chr1g0150721 | 34.965 | 143 | 69 | 5 | 31 | 153 | 1 | 139 | 1.72e-18 | 76.6 |
| Msa0684620 | MtrunA17_Chr3g0136431 | 31.387 | 137 | 67 | 3 | 31 | 144 | 1 | 133 | 3.72e-15 | 68.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0684620 | AT2G26975.1 | 51.020 | 147 | 59 | 5 | 5 | 145 | 1 | 140 | 3.22e-39 | 130 |
| Msa0684620 | AT5G59030.1 | 43.452 | 168 | 80 | 4 | 1 | 153 | 1 | 168 | 5.07e-34 | 117 |
| Msa0684620 | AT3G46900.1 | 47.107 | 121 | 60 | 3 | 36 | 152 | 34 | 154 | 2.03e-31 | 110 |
| Msa0684620 | AT5G59040.1 | 43.443 | 122 | 68 | 1 | 30 | 150 | 28 | 149 | 1.11e-29 | 105 |
| Msa0684620 | AT2G37925.1 | 43.478 | 115 | 61 | 2 | 30 | 140 | 28 | 142 | 2.56e-27 | 99.8 |
| Msa0684620 | AT5G20650.1 | 36.800 | 125 | 54 | 3 | 31 | 130 | 1 | 125 | 1.29e-15 | 69.7 |
Find 37 sgRNAs with CRISPR-Local
Find 38 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CATTGATTCTCTTTGATAAT+TGG | 0.164937 | 4_4:-48017379 | Msa0684620:CDS |
| TAGGGTTGGCTTAGCTTATT+TGG | 0.182024 | 4_4:-48017207 | Msa0684620:CDS |
| TTTCAATGGTGGAGTGTTCT+TGG | 0.286706 | 4_4:-48017165 | Msa0684620:CDS |
| AATTGGCCTGCTGGTAATTC+TGG | 0.314673 | 4_4:-48017362 | Msa0684620:CDS |
| TGATGCACATGACATTCTTC+TGG | 0.316430 | 4_4:-48017412 | Msa0684620:CDS |
| CTCTTTGATAATTGGCCTGC+TGG | 0.345995 | 4_4:-48017371 | Msa0684620:CDS |
| CTTAGCTTATTTGGTTATGT+TGG | 0.348391 | 4_4:-48017198 | Msa0684620:CDS |
| CTGTGCTTGGTCATGCTGTT+GGG | 0.361371 | 4_4:-48017139 | Msa0684620:CDS |
| TGAACTAGACCGGCCACAAC+AGG | 0.384941 | 4_4:+48017248 | None:intergenic |
| GGCCACAACAGGGTTTGAAC+CGG | 0.386419 | 4_4:+48017259 | None:intergenic |
| GCTGTGCTTGGTCATGCTGT+TGG | 0.390679 | 4_4:-48017140 | Msa0684620:CDS |
| GGAGAGAAACTCGATGAGTA+TGG | 0.396012 | 4_4:+48017301 | None:intergenic |
| GTGTTCTTGGTTGCTGTGCT+TGG | 0.406869 | 4_4:-48017152 | Msa0684620:CDS |
| TTGGCTCTCATGTCTTTCAA+TGG | 0.439850 | 4_4:-48017179 | Msa0684620:CDS |
| ACTCATCATCATAGTGTCAT+TGG | 0.442685 | 4_4:+48017448 | None:intergenic |
| TAATTCTGGTAAGTATGTAT+TGG | 0.444952 | 4_4:-48017348 | Msa0684620:CDS |
| GATGCACATGACATTCTTCT+GGG | 0.480501 | 4_4:-48017411 | Msa0684620:CDS |
| GGGTTTAATGAACCGCGTGC+TGG | 0.488776 | 4_4:+48017280 | None:intergenic |
| GCCACAACAGGGTTTGAACC+GGG | 0.512994 | 4_4:+48017260 | None:intergenic |
| ATGGATCATGGCATGGATCA+TGG | 0.518842 | 4_4:-48017503 | Msa0684620:CDS |
| GCTCTCATGTCTTTCAATGG+TGG | 0.527046 | 4_4:-48017176 | Msa0684620:CDS |
| AACTGATACAGCATGGATCA+TGG | 0.527414 | 4_4:-48017515 | None:intergenic |
| GGTTCAAACCCTGTTGTGGC+CGG | 0.535871 | 4_4:-48017257 | Msa0684620:CDS |
| TTGGTAGATGATGATGACTT+TGG | 0.542496 | 4_4:+48017467 | None:intergenic |
| ACCCGGTTCAAACCCTGTTG+TGG | 0.557595 | 4_4:-48017261 | Msa0684620:CDS |
| CAAAAGTGTCTGAACTAGAC+CGG | 0.563621 | 4_4:+48017238 | None:intergenic |
| AGCACGCGGTTCATTAAACC+CGG | 0.594726 | 4_4:-48017278 | Msa0684620:CDS |
| TACTTACCAGAATTACCAGC+AGG | 0.597954 | 4_4:+48017356 | None:intergenic |
| GTATGGACATGGCGAAAACA+AGG | 0.607210 | 4_4:+48017318 | None:intergenic |
| TCATGGCATGGATCATGGAA+TGG | 0.632980 | 4_4:-48017498 | Msa0684620:CDS |
| TCGAGTTTCTCTCCAGCACG+CGG | 0.634850 | 4_4:-48017292 | Msa0684620:CDS |
| CATGGATCATGGAATGGCAA+TGG | 0.647968 | 4_4:-48017492 | Msa0684620:CDS |
| ATACAGCATGGATCATGGCA+TGG | 0.657843 | 4_4:-48017510 | None:intergenic |
| AAACTCGATGAGTATGGACA+TGG | 0.667480 | 4_4:+48017307 | None:intergenic |
| GAACTAGACCGGCCACAACA+GGG | 0.667595 | 4_4:+48017249 | None:intergenic |
| AATAATTAACAAGATAACGG+AGG | 0.670863 | 4_4:+48017059 | None:intergenic |
| ATGCACATGACATTCTTCTG+GGG | 0.703114 | 4_4:-48017410 | Msa0684620:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CATTGATTCTCTTTGATAAT+TGG | - | chr4_4:48017188-48017207 | Msa0684620:CDS | 25.0% |
| ! | TAATTCTGGTAAGTATGTAT+TGG | - | chr4_4:48017219-48017238 | Msa0684620:CDS | 25.0% |
| CTTAGCTTATTTGGTTATGT+TGG | - | chr4_4:48017369-48017388 | Msa0684620:CDS | 30.0% | |
| !!! | GATGTTGTTTTTTGAAAGCA+CGG | + | chr4_4:48017468-48017487 | None:intergenic | 30.0% |
| ! | TTGGTAGATGATGATGACTT+TGG | + | chr4_4:48017103-48017122 | None:intergenic | 35.0% |
| ACTCATCATCATAGTGTCAT+TGG | + | chr4_4:48017122-48017141 | None:intergenic | 35.0% | |
| ! | AGACACTTTTGCATGTTCTT+AGG | - | chr4_4:48017341-48017360 | Msa0684620:CDS | 35.0% |
| ! | GACACTTTTGCATGTTCTTA+GGG | - | chr4_4:48017342-48017361 | Msa0684620:CDS | 35.0% |
| TGATGCACATGACATTCTTC+TGG | - | chr4_4:48017155-48017174 | Msa0684620:CDS | 40.0% | |
| GATGCACATGACATTCTTCT+GGG | - | chr4_4:48017156-48017175 | Msa0684620:CDS | 40.0% | |
| ATGCACATGACATTCTTCTG+GGG | - | chr4_4:48017157-48017176 | Msa0684620:CDS | 40.0% | |
| TACTTACCAGAATTACCAGC+AGG | + | chr4_4:48017214-48017233 | None:intergenic | 40.0% | |
| AAACTCGATGAGTATGGACA+TGG | + | chr4_4:48017263-48017282 | None:intergenic | 40.0% | |
| !! | CAAAAGTGTCTGAACTAGAC+CGG | + | chr4_4:48017332-48017351 | None:intergenic | 40.0% |
| ! | CTTTTGCATGTTCTTAGGGT+TGG | - | chr4_4:48017346-48017365 | Msa0684620:CDS | 40.0% |
| !! | TAGGGTTGGCTTAGCTTATT+TGG | - | chr4_4:48017360-48017379 | Msa0684620:CDS | 40.0% |
| ! | TTGGCTCTCATGTCTTTCAA+TGG | - | chr4_4:48017388-48017407 | Msa0684620:CDS | 40.0% |
| ! | TTTCAATGGTGGAGTGTTCT+TGG | - | chr4_4:48017402-48017421 | Msa0684620:CDS | 40.0% |
| ATGGATCATGGCATGGATCA+TGG | - | chr4_4:48017064-48017083 | Msa0684620:CDS | 45.0% | |
| TCATGGCATGGATCATGGAA+TGG | - | chr4_4:48017069-48017088 | Msa0684620:CDS | 45.0% | |
| CATGGATCATGGAATGGCAA+TGG | - | chr4_4:48017075-48017094 | Msa0684620:CDS | 45.0% | |
| ! | CTCTTTGATAATTGGCCTGC+TGG | - | chr4_4:48017196-48017215 | Msa0684620:CDS | 45.0% |
| ! | AATTGGCCTGCTGGTAATTC+TGG | - | chr4_4:48017205-48017224 | Msa0684620:CDS | 45.0% |
| GTATGGACATGGCGAAAACA+AGG | + | chr4_4:48017252-48017271 | None:intergenic | 45.0% | |
| GGAGAGAAACTCGATGAGTA+TGG | + | chr4_4:48017269-48017288 | None:intergenic | 45.0% | |
| GCTCTCATGTCTTTCAATGG+TGG | - | chr4_4:48017391-48017410 | Msa0684620:CDS | 45.0% | |
| AGCACGCGGTTCATTAAACC+CGG | - | chr4_4:48017289-48017308 | Msa0684620:CDS | 50.0% | |
| GTGTTCTTGGTTGCTGTGCT+TGG | - | chr4_4:48017415-48017434 | Msa0684620:CDS | 50.0% | |
| CTGTGCTTGGTCATGCTGTT+GGG | - | chr4_4:48017428-48017447 | Msa0684620:CDS | 50.0% | |
| TCGAGTTTCTCTCCAGCACG+CGG | - | chr4_4:48017275-48017294 | Msa0684620:CDS | 55.0% | |
| GGGTTTAATGAACCGCGTGC+TGG | + | chr4_4:48017290-48017309 | None:intergenic | 55.0% | |
| ACCCGGTTCAAACCCTGTTG+TGG | - | chr4_4:48017306-48017325 | Msa0684620:CDS | 55.0% | |
| GCCACAACAGGGTTTGAACC+GGG | + | chr4_4:48017310-48017329 | None:intergenic | 55.0% | |
| GGCCACAACAGGGTTTGAAC+CGG | + | chr4_4:48017311-48017330 | None:intergenic | 55.0% | |
| GGTTCAAACCCTGTTGTGGC+CGG | - | chr4_4:48017310-48017329 | Msa0684620:CDS | 55.0% | |
| GAACTAGACCGGCCACAACA+GGG | + | chr4_4:48017321-48017340 | None:intergenic | 55.0% | |
| TGAACTAGACCGGCCACAAC+AGG | + | chr4_4:48017322-48017341 | None:intergenic | 55.0% | |
| GCTGTGCTTGGTCATGCTGT+TGG | - | chr4_4:48017427-48017446 | Msa0684620:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 48017064 | 48017525 | 48017064 | ID=Msa0684620;Name=Msa0684620 |
| chr4_4 | mRNA | 48017064 | 48017525 | 48017064 | ID=Msa0684620-mRNA-1;Parent=Msa0684620;Name=Msa0684620-mRNA-1;_AED=0.24;_eAED=0.24;_QI=0|-1|0|1|-1|1|1|0|153 |
| chr4_4 | exon | 48017064 | 48017525 | 48017064 | ID=Msa0684620-mRNA-1:exon:11879;Parent=Msa0684620-mRNA-1 |
| chr4_4 | CDS | 48017064 | 48017525 | 48017064 | ID=Msa0684620-mRNA-1:cds;Parent=Msa0684620-mRNA-1 |
| Gene Sequence |
| Protein sequence |
