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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0410860 | XP_013460002.1 | 95.614 | 114 | 5 | 0 | 1 | 114 | 268 | 381 | 8.65e-71 | 226 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0410860 | sp|Q9LSE7|B561C_ARATH | 46.903 | 113 | 58 | 2 | 1 | 112 | 277 | 388 | 1.38e-24 | 99.0 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0410860 | A0A072UY52 | 95.614 | 114 | 5 | 0 | 1 | 114 | 268 | 381 | 4.13e-71 | 226 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0160960 | Msa0410860 | 0.819305 | 1.245105e-52 | -8.615850e-47 |
| Msa0171280 | Msa0410860 | 0.801899 | 7.243452e-49 | -8.615850e-47 |
| Msa0371950 | Msa0410860 | 0.811858 | 5.673794e-51 | -8.615850e-47 |
| Msa0389390 | Msa0410860 | 0.801157 | 1.028099e-48 | -8.615850e-47 |
| Msa0410860 | Msa0461790 | 0.905238 | 5.298742e-80 | -8.615850e-47 |
| Msa0410860 | Msa0521670 | 0.802580 | 5.245562e-49 | -8.615850e-47 |
| Msa0410860 | Msa0532960 | 0.806405 | 8.356716e-50 | -8.615850e-47 |
| Msa0410860 | Msa0574600 | 0.813823 | 2.106114e-51 | -8.615850e-47 |
| Msa0410860 | Msa0574730 | 0.822728 | 2.028143e-53 | -8.615850e-47 |
| Msa0410860 | Msa0613110 | 0.806778 | 6.972349e-50 | -8.615850e-47 |
| Msa0410860 | Msa0624960 | 0.812298 | 4.549883e-51 | -8.615850e-47 |
| Msa0410860 | Msa0672450 | 0.812228 | 4.711604e-51 | -8.615850e-47 |
| Msa0410860 | Msa0708310 | 0.802322 | 5.926884e-49 | -8.615850e-47 |
| Msa0410860 | Msa0711150 | 0.801215 | 1.000265e-48 | -8.615850e-47 |
| Msa0410860 | Msa0755180 | 0.800558 | 1.362301e-48 | -8.615850e-47 |
| Msa0410860 | Msa0960390 | 0.806631 | 7.491067e-50 | -8.615850e-47 |
| Msa0410860 | Msa1054840 | 0.802718 | 4.911140e-49 | -8.615850e-47 |
| Msa0410860 | Msa1111870 | 0.806834 | 6.783823e-50 | -8.615850e-47 |
| Msa0410860 | Msa1280150 | 0.814437 | 1.541352e-51 | -8.615850e-47 |
| Msa0410860 | Msa1457160 | 0.803207 | 3.892278e-49 | -8.615850e-47 |
| Msa0296870 | Msa0410860 | 0.800389 | 1.474553e-48 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0410860 | MtrunA17_Chr3g0101961 | 95.614 | 114 | 5 | 0 | 1 | 114 | 268 | 381 | 7.95e-75 | 226 |
| Msa0410860 | MtrunA17_Chr7g0234191 | 48.598 | 107 | 53 | 2 | 6 | 111 | 321 | 426 | 1.50e-22 | 90.9 |
| Msa0410860 | MtrunA17_Chr4g0076051 | 45.455 | 110 | 54 | 2 | 6 | 110 | 273 | 381 | 5.98e-20 | 83.2 |
| Msa0410860 | MtrunA17_Chr2g0278181 | 43.860 | 114 | 58 | 2 | 3 | 111 | 181 | 293 | 9.37e-20 | 82.0 |
| Msa0410860 | MtrunA17_Chr5g0447771 | 34.259 | 108 | 67 | 3 | 5 | 111 | 316 | 420 | 8.78e-17 | 74.3 |
| Msa0410860 | MtrunA17_Chr2g0290131 | 39.823 | 113 | 62 | 2 | 3 | 110 | 273 | 384 | 5.38e-16 | 72.0 |
| Msa0410860 | MtrunA17_Chr5g0444651 | 33.333 | 93 | 61 | 1 | 12 | 104 | 298 | 389 | 1.58e-12 | 62.4 |
| Msa0410860 | MtrunA17_Chr7g0275621 | 30.303 | 99 | 68 | 1 | 3 | 101 | 281 | 378 | 5.33e-12 | 60.8 |
| Msa0410860 | MtrunA17_Chr8g0347591 | 34.000 | 100 | 65 | 1 | 1 | 100 | 279 | 377 | 3.95e-11 | 58.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0410860 | AT3G25290.1 | 46.903 | 113 | 58 | 2 | 1 | 112 | 277 | 388 | 1.40e-25 | 99.0 |
| Msa0410860 | AT3G25290.2 | 46.903 | 113 | 58 | 2 | 1 | 112 | 277 | 388 | 1.40e-25 | 99.0 |
| Msa0410860 | AT4G17280.1 | 44.860 | 107 | 58 | 1 | 2 | 108 | 278 | 383 | 1.15e-24 | 96.7 |
| Msa0410860 | AT5G47530.1 | 49.505 | 101 | 49 | 2 | 1 | 100 | 268 | 367 | 1.31e-24 | 96.3 |
| Msa0410860 | AT4G12980.1 | 49.524 | 105 | 52 | 1 | 6 | 110 | 284 | 387 | 2.30e-24 | 95.5 |
| Msa0410860 | AT5G35735.1 | 47.748 | 111 | 50 | 4 | 1 | 107 | 266 | 372 | 6.69e-24 | 94.4 |
| Msa0410860 | AT3G59070.1 | 35.652 | 115 | 70 | 3 | 1 | 112 | 278 | 391 | 2.77e-16 | 73.6 |
| Msa0410860 | AT2G04850.1 | 34.545 | 110 | 68 | 3 | 3 | 111 | 279 | 385 | 1.62e-13 | 65.5 |
| Msa0410860 | AT3G07570.1 | 34.091 | 88 | 57 | 1 | 10 | 97 | 277 | 363 | 9.78e-11 | 57.8 |
Find 24 sgRNAs with CRISPR-Local
Find 26 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTATCTATGCTTGTGTAAT+TGG | 0.156616 | 3_2:+52714925 | Msa0410860:CDS |
| CTATACTTGTGATCTTTCTT+TGG | 0.217638 | 3_2:-52714793 | None:intergenic |
| CTTCAAAGGCTTTGACATCT+TGG | 0.282677 | 3_2:+52714882 | Msa0410860:CDS |
| TTCAAAGGCTTTGACATCTT+GGG | 0.291829 | 3_2:+52714883 | Msa0410860:CDS |
| AGTAAAGAACTTGGAGTATA+GGG | 0.304729 | 3_2:+52715015 | Msa0410860:CDS |
| GAGTAAAGAACTTGGAGTAT+AGG | 0.321962 | 3_2:+52715014 | Msa0410860:CDS |
| CAACCATTATCTTAGCTATA+TGG | 0.338799 | 3_2:+52714854 | Msa0410860:CDS |
| TGCTTGTGTAATTGGATGTC+TGG | 0.362662 | 3_2:+52714933 | Msa0410860:CDS |
| AACATCTTTCATTTCTTAGT+TGG | 0.385981 | 3_2:+52714826 | Msa0410860:CDS |
| AAGATCACAAGTATAGAATA+TGG | 0.394642 | 3_2:+52714800 | Msa0410860:CDS |
| GTTCCATATAGCTAAGATAA+TGG | 0.440844 | 3_2:-52714857 | None:intergenic |
| TTGCTTGGATTATGTGGCTA+TGG | 0.448234 | 3_2:+52714983 | Msa0410860:CDS |
| TGGAATCACTCTAATGACTT+TGG | 0.479693 | 3_2:+52714735 | Msa0410860:CDS |
| TGAGCTTAGAAGTTGTTGCT+TGG | 0.480776 | 3_2:+52714968 | Msa0410860:CDS |
| TCAAAGGCTTTGACATCTTG+GGG | 0.482252 | 3_2:+52714884 | Msa0410860:CDS |
| AAGTTGTTGCTTGGATTATG+TGG | 0.503907 | 3_2:+52714977 | Msa0410860:CDS |
| AACAAGAAGAGTAAAGAACT+TGG | 0.557520 | 3_2:+52715006 | Msa0410860:CDS |
| AAAACACCACATAGATGCGT+TGG | 0.563663 | 3_2:+52714715 | Msa0410860:CDS |
| GCTATATGGAACGTCTTCAA+AGG | 0.568443 | 3_2:+52714868 | Msa0410860:CDS |
| AAAGGCTTTGACATCTTGGG+GGG | 0.588838 | 3_2:+52714886 | Msa0410860:CDS |
| CAAAGGCTTTGACATCTTGG+GGG | 0.589311 | 3_2:+52714885 | Msa0410860:CDS |
| ATATATATGGGAAACCAACC+AGG | 0.605661 | 3_2:+52714685 | None:intergenic |
| GTGATTCCAACGCATCTATG+TGG | 0.638600 | 3_2:-52714721 | None:intergenic |
| ATCACAAGTATAGAATATGG+TGG | 0.645971 | 3_2:+52714803 | Msa0410860:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AAGATCACAAGTATAGAATA+TGG | + | chr3_2:52714800-52714819 | Msa0410860:CDS | 25.0% |
| ! | AACATCTTTCATTTCTTAGT+TGG | + | chr3_2:52714826-52714845 | Msa0410860:CDS | 25.0% |
| ! | ATTATCTATGCTTGTGTAAT+TGG | + | chr3_2:52714925-52714944 | Msa0410860:CDS | 25.0% |
| !!! | TTTGTGTTGCCATTTTTCTT+AGG | + | chr3_2:52714770-52714789 | Msa0410860:CDS | 30.0% |
| TTTCTTTGGCCTAAGAAAAA+TGG | - | chr3_2:52714782-52714801 | None:intergenic | 30.0% | |
| CTATACTTGTGATCTTTCTT+TGG | - | chr3_2:52714796-52714815 | None:intergenic | 30.0% | |
| ATCACAAGTATAGAATATGG+TGG | + | chr3_2:52714803-52714822 | Msa0410860:CDS | 30.0% | |
| CAACCATTATCTTAGCTATA+TGG | + | chr3_2:52714854-52714873 | Msa0410860:CDS | 30.0% | |
| GTTCCATATAGCTAAGATAA+TGG | - | chr3_2:52714860-52714879 | None:intergenic | 30.0% | |
| !!! | ATTGGATGTCTGGTTTTAAT+TGG | + | chr3_2:52714943-52714962 | Msa0410860:CDS | 30.0% |
| AACAAGAAGAGTAAAGAACT+TGG | + | chr3_2:52715006-52715025 | Msa0410860:CDS | 30.0% | |
| TGGAATCACTCTAATGACTT+TGG | + | chr3_2:52714735-52714754 | Msa0410860:CDS | 35.0% | |
| ! | TTCAAAGGCTTTGACATCTT+GGG | + | chr3_2:52714883-52714902 | Msa0410860:CDS | 35.0% |
| ! | AAGTTGTTGCTTGGATTATG+TGG | + | chr3_2:52714977-52714996 | Msa0410860:CDS | 35.0% |
| ! | GTGTTTTGTGAATTCCTGGT+TGG | - | chr3_2:52714702-52714721 | None:intergenic | 40.0% |
| ! | TGTGGTGTTTTGTGAATTCC+TGG | - | chr3_2:52714706-52714725 | None:intergenic | 40.0% |
| AAAACACCACATAGATGCGT+TGG | + | chr3_2:52714715-52714734 | Msa0410860:CDS | 40.0% | |
| GCTATATGGAACGTCTTCAA+AGG | + | chr3_2:52714868-52714887 | Msa0410860:CDS | 40.0% | |
| ! | CTTCAAAGGCTTTGACATCT+TGG | + | chr3_2:52714882-52714901 | Msa0410860:CDS | 40.0% |
| ! | TCAAAGGCTTTGACATCTTG+GGG | + | chr3_2:52714884-52714903 | Msa0410860:CDS | 40.0% |
| TGCTTGTGTAATTGGATGTC+TGG | + | chr3_2:52714933-52714952 | Msa0410860:CDS | 40.0% | |
| TGAGCTTAGAAGTTGTTGCT+TGG | + | chr3_2:52714968-52714987 | Msa0410860:CDS | 40.0% | |
| TTGCTTGGATTATGTGGCTA+TGG | + | chr3_2:52714983-52715002 | Msa0410860:CDS | 40.0% | |
| GTGATTCCAACGCATCTATG+TGG | - | chr3_2:52714724-52714743 | None:intergenic | 45.0% | |
| ! | CAAAGGCTTTGACATCTTGG+GGG | + | chr3_2:52714885-52714904 | Msa0410860:CDS | 45.0% |
| ! | AAAGGCTTTGACATCTTGGG+GGG | + | chr3_2:52714886-52714905 | Msa0410860:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_2 | gene | 52714691 | 52715035 | 52714691 | ID=Msa0410860;Name=Msa0410860 |
| chr3_2 | mRNA | 52714691 | 52715035 | 52714691 | ID=Msa0410860-mRNA-1;Parent=Msa0410860;Name=Msa0410860-mRNA-1;_AED=0.45;_eAED=0.45;_QI=0|-1|0|1|-1|1|1|0|114 |
| chr3_2 | exon | 52714691 | 52715035 | 52714691 | ID=Msa0410860-mRNA-1:exon:10480;Parent=Msa0410860-mRNA-1 |
| chr3_2 | CDS | 52714691 | 52715035 | 52714691 | ID=Msa0410860-mRNA-1:cds;Parent=Msa0410860-mRNA-1 |
| Gene Sequence |
| Protein sequence |
