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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0412270 | RCV35100.1 | 100.000 | 103 | 0 | 0 | 1 | 103 | 130 | 232 | 3.26e-67 | 211 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0412270 | sp|P0CG89|H4_SOYBN | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 3.06e-67 | 199 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0412270 | A0A7C8Z1D6 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 1.17e-64 | 199 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0223080 | Msa0412270 | 0.831402 | 1.704107e-55 | -8.615850e-47 |
| Msa0412270 | Msa0412280 | 0.849118 | 3.969891e-60 | -8.615850e-47 |
| Msa0412270 | Msa0412390 | 0.835713 | 1.429832e-56 | -8.615850e-47 |
| Msa0412270 | Msa0456880 | 0.812767 | 3.592910e-51 | -8.615850e-47 |
| Msa0412270 | Msa0460780 | 0.820925 | 5.301786e-53 | -8.615850e-47 |
| Msa0412270 | Msa1085260 | 0.807500 | 4.903984e-50 | -8.615850e-47 |
| Msa0412270 | Msa1440880 | 0.812983 | 3.221605e-51 | -8.615850e-47 |
| Msa0412270 | Msa1446820 | 0.818147 | 2.281219e-52 | -8.615850e-47 |
| Msa0302160 | Msa0412270 | 0.824341 | 8.506784e-54 | -8.615850e-47 |
| Msa0339490 | Msa0412270 | 0.819857 | 9.316217e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0412270 | MtrunA17_Chr4g0072411 | 100.000 | 103 | 0 | 0 | 1 | 103 | 59 | 161 | 5.39e-69 | 203 |
| Msa0412270 | MtrunA17_Chr5g0425951 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 2.26e-68 | 199 |
| Msa0412270 | MtrunA17_Chr4g0030431 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 2.26e-68 | 199 |
| Msa0412270 | MtrunA17_Chr3g0100121 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 2.26e-68 | 199 |
| Msa0412270 | MtrunA17_Chr3g0113681 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 2.26e-68 | 199 |
| Msa0412270 | MtrunA17_Chr2g0327641 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 2.26e-68 | 199 |
| Msa0412270 | MtrunA17_Chr3g0103351 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 2.26e-68 | 199 |
| Msa0412270 | MtrunA17_Chr8g0352791 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 2.26e-68 | 199 |
| Msa0412270 | MtrunA17_Chr3g0103821 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 2.26e-68 | 199 |
| Msa0412270 | MtrunA17_Chr3g0104031 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 2.26e-68 | 199 |
| Msa0412270 | MtrunA17_Chr7g0225731 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 2.26e-68 | 199 |
| Msa0412270 | MtrunA17_Chr3g0103801 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 2.26e-68 | 199 |
| Msa0412270 | MtrunA17_Chr3g0103881 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 2.26e-68 | 199 |
| Msa0412270 | MtrunA17_Chr7g0262791 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 2.26e-68 | 199 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0412270 | AT3G53730.1 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 3.11e-68 | 199 |
| Msa0412270 | AT1G07820.2 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 3.11e-68 | 199 |
| Msa0412270 | AT1G07820.1 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 3.11e-68 | 199 |
| Msa0412270 | AT5G59690.1 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 3.11e-68 | 199 |
| Msa0412270 | AT3G46320.1 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 3.11e-68 | 199 |
| Msa0412270 | AT2G28740.1 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 3.11e-68 | 199 |
| Msa0412270 | AT1G07660.1 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 3.11e-68 | 199 |
| Msa0412270 | AT3G45930.1 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 3.11e-68 | 199 |
| Msa0412270 | AT5G59970.1 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 3.11e-68 | 199 |
| Msa0412270 | AT5G59970.2 | 100.000 | 103 | 0 | 0 | 1 | 103 | 1 | 103 | 3.11e-68 | 199 |
| Msa0412270 | AT1G07660.2 | 83.495 | 103 | 0 | 1 | 1 | 103 | 1 | 86 | 4.52e-51 | 155 |
Find 37 sgRNAs with CRISPR-Local
Find 33 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGTTCTTCCTTGTCTCTTCA+AGG | 0.367893 | 3_2:+55547156 | None:intergenic |
| GGAAGAACCCTCTATGGATT+TGG | 0.370047 | 3_2:-55547142 | Msa0412270:CDS |
| AGACAAGGAAGAACCCTCTA+TGG | 0.396310 | 3_2:-55547148 | Msa0412270:CDS |
| AGGTGTCTTGAAGATCTTCT+TGG | 0.405705 | 3_2:-55547257 | Msa0412270:CDS |
| TTCAACCTCCAAATCCATAG+AGG | 0.435462 | 3_2:+55547134 | None:intergenic |
| CAATCGACGAATAGCAGGTT+TGG | 0.439411 | 3_2:+55547333 | None:intergenic |
| CTTGCCAATCGACGAATAGC+AGG | 0.487494 | 3_2:+55547328 | None:intergenic |
| GGTAAGGGACTCGGAAAGGG+AGG | 0.488695 | 3_2:-55547403 | Msa0412270:CDS |
| AGGCCGTGGAAAGGGAGGTA+AGG | 0.492819 | 3_2:-55547419 | Msa0412270:CDS |
| GGAGGTAAGGGACTCGGAAA+GGG | 0.499726 | 3_2:-55547406 | Msa0412270:CDS |
| AGAACCCTCTATGGATTTGG+AGG | 0.508817 | 3_2:-55547139 | Msa0412270:CDS |
| CTCGCGAAAATGTCAGGCCG+TGG | 0.510433 | 3_2:-55547433 | None:intergenic |
| GAAGATCTTCAAGACACCTC+TGG | 0.510902 | 3_2:+55547261 | None:intergenic |
| GTCCCTTACCTCCCTTTCCA+CGG | 0.513750 | 3_2:+55547416 | None:intergenic |
| AAAATGTCAGGCCGTGGAAA+GGG | 0.516096 | 3_2:-55547427 | Msa0412270:CDS |
| GGGAGGTAAGGGACTCGGAA+AGG | 0.518226 | 3_2:-55547407 | Msa0412270:CDS |
| TTACATACACTGAGCATGCT+AGG | 0.520723 | 3_2:-55547213 | Msa0412270:CDS |
| GGTTCTTCGTGATAACATCC+AGG | 0.522451 | 3_2:-55547362 | Msa0412270:CDS |
| AGGTGCAAAGAGGCATAGAA+AGG | 0.530485 | 3_2:-55547383 | Msa0412270:CDS |
| GGAAAGGGAGGTAAGGGACT+CGG | 0.535187 | 3_2:-55547412 | Msa0412270:CDS |
| GAGGAAGACGGTGACAGCCA+TGG | 0.546349 | 3_2:-55547191 | Msa0412270:CDS |
| GGCCGTGGAAAGGGAGGTAA+GGG | 0.552535 | 3_2:-55547418 | Msa0412270:CDS |
| CAAACCTGCTATTCGTCGAT+TGG | 0.553041 | 3_2:-55547332 | Msa0412270:CDS |
| GAAAATGTCAGGCCGTGGAA+AGG | 0.558967 | 3_2:-55547428 | None:intergenic |
| CGTCGATTGGCAAGAAGAGG+TGG | 0.593946 | 3_2:-55547319 | Msa0412270:CDS |
| TAGCAGGTTTGGTGATACCC+TGG | 0.596796 | 3_2:+55547344 | None:intergenic |
| TCAACCTCCAAATCCATAGA+GGG | 0.597347 | 3_2:+55547135 | None:intergenic |
| GGTGGTGTCAAGAGAATCAG+TGG | 0.607763 | 3_2:-55547301 | Msa0412270:CDS |
| GTCTATGCCTTGAAGAGACA+AGG | 0.608946 | 3_2:-55547163 | Msa0412270:CDS |
| ATTCGTCGATTGGCAAGAAG+AGG | 0.629429 | 3_2:-55547322 | Msa0412270:CDS |
| CAAGGCATAGACAACATCCA+TGG | 0.629842 | 3_2:+55547174 | None:intergenic |
| GTTCTTCGTGATAACATCCA+GGG | 0.632029 | 3_2:-55547361 | Msa0412270:CDS |
| ATGTCAGGCCGTGGAAAGGG+AGG | 0.634999 | 3_2:-55547424 | Msa0412270:CDS |
| TGAGCATGCTAGGAGGAAGA+CGG | 0.671956 | 3_2:-55547203 | Msa0412270:CDS |
| TCGGAAAGGGAGGTGCAAAG+AGG | 0.683014 | 3_2:-55547393 | Msa0412270:CDS |
| TTGATCTATGAAGAAACCAG+AGG | 0.704889 | 3_2:-55547277 | Msa0412270:CDS |
| CATACACTGAGCATGCTAGG+AGG | 0.707859 | 3_2:-55547210 | Msa0412270:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TTGATCTATGAAGAAACCAG+AGG | - | chr3_2:55547282-55547301 | Msa0412270:CDS | 35.0% | |
| GTTCTTCGTGATAACATCCA+GGG | - | chr3_2:55547198-55547217 | Msa0412270:CDS | 40.0% | |
| AGGTGTCTTGAAGATCTTCT+TGG | - | chr3_2:55547302-55547321 | Msa0412270:CDS | 40.0% | |
| TTACATACACTGAGCATGCT+AGG | - | chr3_2:55547346-55547365 | Msa0412270:CDS | 40.0% | |
| TCAACCTCCAAATCCATAGA+GGG | + | chr3_2:55547427-55547446 | None:intergenic | 40.0% | |
| ! | AGGTGCAAAGAGGCATAGAA+AGG | - | chr3_2:55547176-55547195 | Msa0412270:CDS | 45.0% |
| GGTTCTTCGTGATAACATCC+AGG | - | chr3_2:55547197-55547216 | Msa0412270:CDS | 45.0% | |
| CAATCGACGAATAGCAGGTT+TGG | + | chr3_2:55547229-55547248 | None:intergenic | 45.0% | |
| CAAACCTGCTATTCGTCGAT+TGG | - | chr3_2:55547227-55547246 | Msa0412270:CDS | 45.0% | |
| ! | ATTCGTCGATTGGCAAGAAG+AGG | - | chr3_2:55547237-55547256 | Msa0412270:CDS | 45.0% |
| GAAGATCTTCAAGACACCTC+TGG | + | chr3_2:55547301-55547320 | None:intergenic | 45.0% | |
| CAAGGCATAGACAACATCCA+TGG | + | chr3_2:55547388-55547407 | None:intergenic | 45.0% | |
| GTCTATGCCTTGAAGAGACA+AGG | - | chr3_2:55547396-55547415 | Msa0412270:CDS | 45.0% | |
| GGTTCTTCCTTGTCTCTTCA+AGG | + | chr3_2:55547406-55547425 | None:intergenic | 45.0% | |
| AGACAAGGAAGAACCCTCTA+TGG | - | chr3_2:55547411-55547430 | Msa0412270:CDS | 45.0% | |
| GGAAGAACCCTCTATGGATT+TGG | - | chr3_2:55547417-55547436 | Msa0412270:CDS | 45.0% | |
| AGAACCCTCTATGGATTTGG+AGG | - | chr3_2:55547420-55547439 | Msa0412270:CDS | 45.0% | |
| !! | TAGCAGGTTTGGTGATACCC+TGG | + | chr3_2:55547218-55547237 | None:intergenic | 50.0% |
| CTTGCCAATCGACGAATAGC+AGG | + | chr3_2:55547234-55547253 | None:intergenic | 50.0% | |
| ! | GGTGGTGTCAAGAGAATCAG+TGG | - | chr3_2:55547258-55547277 | Msa0412270:CDS | 50.0% |
| CATACACTGAGCATGCTAGG+AGG | - | chr3_2:55547349-55547368 | Msa0412270:CDS | 50.0% | |
| TGAGCATGCTAGGAGGAAGA+CGG | - | chr3_2:55547356-55547375 | Msa0412270:CDS | 50.0% | |
| GTCCCTTACCTCCCTTTCCA+CGG | + | chr3_2:55547146-55547165 | None:intergenic | 55.0% | |
| GGAAAGGGAGGTAAGGGACT+CGG | - | chr3_2:55547147-55547166 | Msa0412270:CDS | 55.0% | |
| GGAGGTAAGGGACTCGGAAA+GGG | - | chr3_2:55547153-55547172 | Msa0412270:CDS | 55.0% | |
| ! | TCGGAAAGGGAGGTGCAAAG+AGG | - | chr3_2:55547166-55547185 | Msa0412270:CDS | 55.0% |
| ! | CGTCGATTGGCAAGAAGAGG+TGG | - | chr3_2:55547240-55547259 | Msa0412270:CDS | 55.0% |
| ATGTCAGGCCGTGGAAAGGG+AGG | - | chr3_2:55547135-55547154 | Msa0412270:CDS | 60.0% | |
| AGGCCGTGGAAAGGGAGGTA+AGG | - | chr3_2:55547140-55547159 | Msa0412270:CDS | 60.0% | |
| GGCCGTGGAAAGGGAGGTAA+GGG | - | chr3_2:55547141-55547160 | Msa0412270:CDS | 60.0% | |
| GGGAGGTAAGGGACTCGGAA+AGG | - | chr3_2:55547152-55547171 | Msa0412270:CDS | 60.0% | |
| GGTAAGGGACTCGGAAAGGG+AGG | - | chr3_2:55547156-55547175 | Msa0412270:CDS | 60.0% | |
| GAGGAAGACGGTGACAGCCA+TGG | - | chr3_2:55547368-55547387 | Msa0412270:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_2 | gene | 55547135 | 55547446 | 55547135 | ID=Msa0412270;Name=Msa0412270 |
| chr3_2 | mRNA | 55547135 | 55547446 | 55547135 | ID=Msa0412270-mRNA-1;Parent=Msa0412270;Name=Msa0412270-mRNA-1;_AED=0.35;_eAED=0.35;_QI=0|-1|0|1|-1|1|1|0|103 |
| chr3_2 | exon | 55547135 | 55547446 | 55547135 | ID=Msa0412270-mRNA-1:exon:11306;Parent=Msa0412270-mRNA-1 |
| chr3_2 | CDS | 55547135 | 55547446 | 55547135 | ID=Msa0412270-mRNA-1:cds;Parent=Msa0412270-mRNA-1 |
| Gene Sequence |
| Protein sequence |
