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 |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0006280 | sp|Q39262|ZFP3_ARATH | 49.419 | 172 | 65 | 8 | 50 | 220 | 18 | 168 | 8.84e-37 | 133 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0006280 | Msa0054920 | 0.806189 | 9.283068e-50 | -8.615850e-47 |
| Msa0006280 | Msa0144530 | 0.811685 | 6.185676e-51 | -8.615850e-47 |
| Msa0006280 | Msa0545050 | 0.802793 | 4.739289e-49 | -8.615850e-47 |
| Msa0006280 | Msa0641130 | 0.802786 | 4.755065e-49 | -8.615850e-47 |
| Msa0006280 | Msa0733010 | 0.819426 | 1.168985e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0006280 | MtrunA17_Chr1g0149811 | 96.565 | 262 | 8 | 1 | 1 | 261 | 1 | 262 | 0.0 | 526 |
| Msa0006280 | MtrunA17_Chr3g0137111 | 48.511 | 235 | 97 | 9 | 23 | 246 | 4 | 225 | 7.42e-56 | 179 |
| Msa0006280 | MtrunA17_Chr2g0333741 | 42.632 | 190 | 72 | 8 | 1 | 182 | 1 | 161 | 1.37e-30 | 114 |
| Msa0006280 | MtrunA17_Chr4g0001081 | 37.288 | 236 | 97 | 10 | 45 | 261 | 21 | 224 | 1.47e-30 | 113 |
| Msa0006280 | MtrunA17_Chr5g0434121 | 35.149 | 202 | 85 | 6 | 31 | 209 | 2 | 180 | 1.20e-25 | 101 |
| Msa0006280 | MtrunA17_Chr1g0161901 | 41.538 | 130 | 54 | 2 | 50 | 179 | 61 | 168 | 1.33e-24 | 98.6 |
| Msa0006280 | MtrunA17_Chr3g0110091 | 55.172 | 87 | 22 | 3 | 92 | 178 | 85 | 154 | 1.06e-23 | 95.9 |
| Msa0006280 | MtrunA17_Chr8g0376021 | 36.364 | 154 | 72 | 3 | 26 | 179 | 5 | 132 | 2.83e-23 | 94.4 |
| Msa0006280 | MtrunA17_Chr1g0207691 | 38.971 | 136 | 52 | 5 | 52 | 180 | 21 | 132 | 1.23e-18 | 81.3 |
| Msa0006280 | MtrunA17_Chr3g0081131 | 30.811 | 185 | 96 | 6 | 28 | 196 | 20 | 188 | 7.86e-17 | 78.2 |
| Msa0006280 | MtrunA17_Chr4g0072571 | 59.615 | 52 | 21 | 0 | 90 | 141 | 42 | 93 | 5.71e-16 | 73.6 |
| Msa0006280 | MtrunA17_Chr3g0081121 | 31.892 | 185 | 100 | 7 | 28 | 196 | 20 | 194 | 2.10e-14 | 71.6 |
| Msa0006280 | MtrunA17_Chr3g0081141 | 39.604 | 101 | 52 | 3 | 84 | 183 | 89 | 181 | 5.13e-13 | 67.8 |
| Msa0006280 | MtrunA17_Chr4g0053691 | 39.326 | 89 | 24 | 2 | 92 | 180 | 66 | 124 | 5.57e-13 | 65.5 |
| Msa0006280 | MtrunA17_Chr7g0254221 | 70.270 | 37 | 11 | 0 | 93 | 129 | 33 | 69 | 7.39e-13 | 64.7 |
| Msa0006280 | MtrunA17_Chr5g0396031 | 38.261 | 115 | 57 | 4 | 81 | 193 | 34 | 136 | 1.22e-12 | 67.0 |
| Msa0006280 | MtrunA17_Chr7g0251581 | 75.758 | 33 | 8 | 0 | 93 | 125 | 39 | 71 | 1.29e-12 | 64.7 |
| Msa0006280 | MtrunA17_Chr7g0224221 | 27.979 | 193 | 127 | 5 | 7 | 196 | 62 | 245 | 1.11e-11 | 63.9 |
| Msa0006280 | MtrunA17_Chr2g0310101 | 36.538 | 104 | 52 | 2 | 91 | 193 | 57 | 147 | 8.13e-11 | 60.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0006280 | AT5G10970.1 | 39.456 | 294 | 113 | 12 | 3 | 261 | 9 | 272 | 2.27e-45 | 154 |
| Msa0006280 | AT5G25160.1 | 49.419 | 172 | 65 | 8 | 50 | 220 | 18 | 168 | 8.99e-38 | 133 |
| Msa0006280 | AT1G80730.1 | 42.439 | 205 | 95 | 8 | 67 | 261 | 37 | 228 | 3.31e-31 | 115 |
| Msa0006280 | AT1G66140.1 | 50.980 | 102 | 34 | 4 | 90 | 181 | 80 | 175 | 4.29e-21 | 89.7 |
| Msa0006280 | AT1G24625.1 | 58.730 | 63 | 22 | 1 | 73 | 131 | 33 | 95 | 1.49e-16 | 76.6 |
| Msa0006280 | AT5G57520.1 | 80.556 | 36 | 7 | 0 | 93 | 128 | 50 | 85 | 3.35e-14 | 68.6 |
| Msa0006280 | AT1G67030.1 | 38.462 | 117 | 55 | 4 | 69 | 183 | 13 | 114 | 3.46e-13 | 67.0 |
| Msa0006280 | AT5G14010.1 | 76.471 | 34 | 8 | 0 | 93 | 126 | 36 | 69 | 5.13e-13 | 65.9 |
| Msa0006280 | AT3G58070.1 | 36.190 | 105 | 63 | 2 | 23 | 127 | 23 | 123 | 8.51e-12 | 63.9 |
| Msa0006280 | AT5G01860.1 | 58.333 | 48 | 17 | 1 | 79 | 126 | 54 | 98 | 5.20e-11 | 61.2 |
Find 30 sgRNAs with CRISPR-Local
Find 74 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTCAAACTCAAGAATCTTTA+TGG | 0.122503 | 1_1:+9160133 | Msa0006280:CDS |
| ATGGCTTCTTTGCCTCTTTA+TGG | 0.168485 | 1_1:+9159996 | Msa0006280:CDS |
| CTTTGTTTATTATGCATAAT+AGG | 0.208681 | 1_1:-9159963 | None:intergenic |
| CCTTCTCATGTTTCGTCTAA+TGG | 0.216612 | 1_1:+9160071 | Msa0006280:CDS |
| TTGCCTCTTTATGGTGCTTT+TGG | 0.219908 | 1_1:+9160005 | Msa0006280:CDS |
| CATGTTTCGTCTAATGGATT+TGG | 0.222723 | 1_1:+9160077 | Msa0006280:CDS |
| AATGGATTTGGAAACTCTTA+TGG | 0.229585 | 1_1:+9160089 | Msa0006280:CDS |
| ATAGCTTCAGCTTCTGCTTT+TGG | 0.233602 | 1_1:+9159936 | Msa0006280:CDS |
| CTCATAACTTCTTTAGATGT+TGG | 0.385754 | 1_1:+9159744 | Msa0006280:CDS |
| TGCAAAGGTGTGCTTGGACT+TGG | 0.428789 | 1_1:-9159585 | None:intergenic |
| TTCTATAGCTCACAAGCATT+AGG | 0.451109 | 1_1:+9159843 | Msa0006280:CDS |
| TTACCAAAAGCACCATAAAG+AGG | 0.498456 | 1_1:-9160008 | None:intergenic |
| AAAGGTGTGCTTGGACTTGG+AGG | 0.516654 | 1_1:-9159582 | None:intergenic |
| TGGAATAGCAAAACTAGGTA+TGG | 0.517898 | 1_1:+9160166 | Msa0006280:CDS |
| ATCTTTATGGATCAACAACC+TGG | 0.518646 | 1_1:+9160146 | Msa0006280:CDS |
| CAACCTGGAATAGCAAAACT+AGG | 0.529841 | 1_1:+9160161 | Msa0006280:CDS |
| ACGAAACATGAGAAGGCTCA+TGG | 0.546829 | 1_1:-9160064 | None:intergenic |
| CATCAAGAGGAAGTGTTGGT+AGG | 0.548091 | 1_1:+9160213 | Msa0006280:CDS |
| AAGTGTTGGTAGGTTTGAAG+TGG | 0.552808 | 1_1:+9160223 | Msa0006280:CDS |
| GAAGAAACAACAATCTATTG+AGG | 0.558110 | 1_1:+9159623 | Msa0006280:CDS |
| TAAACAAAGTTGTGCAAACA+TGG | 0.560936 | 1_1:+9159977 | Msa0006280:CDS |
| ATTAATGGAAAGACTAAGCA+AGG | 0.563627 | 1_1:+9159530 | None:intergenic |
| TATGGACATCATCATCATCA+TGG | 0.564611 | 1_1:+9160107 | Msa0006280:CDS |
| TCTTGAGAAGAGAAGATGCA+TGG | 0.579539 | 1_1:-9159555 | None:intergenic |
| ACATCATCAAGAGGAAGTGT+TGG | 0.585725 | 1_1:+9160209 | Msa0006280:CDS |
| TATAGCTCACAAGCATTAGG+TGG | 0.606344 | 1_1:+9159846 | Msa0006280:CDS |
| AGAACAACAACATCATCAAG+AGG | 0.611847 | 1_1:+9160200 | Msa0006280:CDS |
| TGAGGTAGAAGATATCACTA+AGG | 0.642828 | 1_1:+9159641 | Msa0006280:CDS |
| CCATTAGACGAAACATGAGA+AGG | 0.645690 | 1_1:-9160071 | None:intergenic |
| GAGTGTGCTTGAATTCCAAG+AGG | 0.647089 | 1_1:-9160035 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CTTTGTTTATTATGCATAAT+AGG | - | chr1_1:9159966-9159985 | None:intergenic | 20.0% |
| !!! | CTTTGTTTATTATGCATAAT+AGG | - | chr1_1:9159966-9159985 | None:intergenic | 20.0% |
| !!! | TTTTCATGTTGATTTTGCAA+AGG | - | chr1_1:9159603-9159622 | None:intergenic | 25.0% |
| !!! | TTTTCATGTTGATTTTGCAA+AGG | - | chr1_1:9159603-9159622 | None:intergenic | 25.0% |
| GAAGAAACAACAATCTATTG+AGG | + | chr1_1:9159623-9159642 | Msa0006280:CDS | 30.0% | |
| CTCATAACTTCTTTAGATGT+TGG | + | chr1_1:9159744-9159763 | Msa0006280:CDS | 30.0% | |
| TAAACAAAGTTGTGCAAACA+TGG | + | chr1_1:9159977-9159996 | Msa0006280:CDS | 30.0% | |
| ! | AATGGATTTGGAAACTCTTA+TGG | + | chr1_1:9160089-9160108 | Msa0006280:CDS | 30.0% |
| GTCAAACTCAAGAATCTTTA+TGG | + | chr1_1:9160133-9160152 | Msa0006280:CDS | 30.0% | |
| GAAGAAACAACAATCTATTG+AGG | + | chr1_1:9159623-9159642 | Msa0006280:CDS | 30.0% | |
| CTCATAACTTCTTTAGATGT+TGG | + | chr1_1:9159744-9159763 | Msa0006280:CDS | 30.0% | |
| TAAACAAAGTTGTGCAAACA+TGG | + | chr1_1:9159977-9159996 | Msa0006280:CDS | 30.0% | |
| ! | AATGGATTTGGAAACTCTTA+TGG | + | chr1_1:9160089-9160108 | Msa0006280:CDS | 30.0% |
| GTCAAACTCAAGAATCTTTA+TGG | + | chr1_1:9160133-9160152 | Msa0006280:CDS | 30.0% | |
| TGAGGTAGAAGATATCACTA+AGG | + | chr1_1:9159641-9159660 | Msa0006280:CDS | 35.0% | |
| TTCTATAGCTCACAAGCATT+AGG | + | chr1_1:9159843-9159862 | Msa0006280:CDS | 35.0% | |
| ! | TCTCTCTTTTGTGAGCATTT+TGG | - | chr1_1:9159875-9159894 | None:intergenic | 35.0% |
| GAGAGATCAATAGCAAAAAG+AGG | + | chr1_1:9159891-9159910 | Msa0006280:CDS | 35.0% | |
| GCAAAAAGAGGACAAAGATT+TGG | + | chr1_1:9159903-9159922 | Msa0006280:CDS | 35.0% | |
| !! | TTACCAAAAGCACCATAAAG+AGG | - | chr1_1:9160011-9160030 | None:intergenic | 35.0% |
| !! | GCTTTTGGTAATAAACCTCT+TGG | + | chr1_1:9160020-9160039 | Msa0006280:CDS | 35.0% |
| !! | CATGTTTCGTCTAATGGATT+TGG | + | chr1_1:9160077-9160096 | Msa0006280:CDS | 35.0% |
| TATGGACATCATCATCATCA+TGG | + | chr1_1:9160107-9160126 | Msa0006280:CDS | 35.0% | |
| ATCTTTATGGATCAACAACC+TGG | + | chr1_1:9160146-9160165 | Msa0006280:CDS | 35.0% | |
| !!! | ATACCTAGTTTTGCTATTCC+AGG | - | chr1_1:9160167-9160186 | None:intergenic | 35.0% |
| TGGAATAGCAAAACTAGGTA+TGG | + | chr1_1:9160166-9160185 | Msa0006280:CDS | 35.0% | |
| AGAACAACAACATCATCAAG+AGG | + | chr1_1:9160200-9160219 | Msa0006280:CDS | 35.0% | |
| TGAGGTAGAAGATATCACTA+AGG | + | chr1_1:9159641-9159660 | Msa0006280:CDS | 35.0% | |
| TTCTATAGCTCACAAGCATT+AGG | + | chr1_1:9159843-9159862 | Msa0006280:CDS | 35.0% | |
| ! | TCTCTCTTTTGTGAGCATTT+TGG | - | chr1_1:9159875-9159894 | None:intergenic | 35.0% |
| GAGAGATCAATAGCAAAAAG+AGG | + | chr1_1:9159891-9159910 | Msa0006280:CDS | 35.0% | |
| GCAAAAAGAGGACAAAGATT+TGG | + | chr1_1:9159903-9159922 | Msa0006280:CDS | 35.0% | |
| !! | TTACCAAAAGCACCATAAAG+AGG | - | chr1_1:9160011-9160030 | None:intergenic | 35.0% |
| !! | GCTTTTGGTAATAAACCTCT+TGG | + | chr1_1:9160020-9160039 | Msa0006280:CDS | 35.0% |
| !! | CATGTTTCGTCTAATGGATT+TGG | + | chr1_1:9160077-9160096 | Msa0006280:CDS | 35.0% |
| TATGGACATCATCATCATCA+TGG | + | chr1_1:9160107-9160126 | Msa0006280:CDS | 35.0% | |
| ATCTTTATGGATCAACAACC+TGG | + | chr1_1:9160146-9160165 | Msa0006280:CDS | 35.0% | |
| !!! | ATACCTAGTTTTGCTATTCC+AGG | - | chr1_1:9160167-9160186 | None:intergenic | 35.0% |
| TGGAATAGCAAAACTAGGTA+TGG | + | chr1_1:9160166-9160185 | Msa0006280:CDS | 35.0% | |
| AGAACAACAACATCATCAAG+AGG | + | chr1_1:9160200-9160219 | Msa0006280:CDS | 35.0% | |
| TCTTGAGAAGAGAAGATGCA+TGG | - | chr1_1:9159558-9159577 | None:intergenic | 40.0% | |
| !! | TGATTTTGCAAAGGTGTGCT+TGG | - | chr1_1:9159594-9159613 | None:intergenic | 40.0% |
| TATAGCTCACAAGCATTAGG+TGG | + | chr1_1:9159846-9159865 | Msa0006280:CDS | 40.0% | |
| ! | ATAGCTTCAGCTTCTGCTTT+TGG | + | chr1_1:9159936-9159955 | Msa0006280:CDS | 40.0% |
| ATGGCTTCTTTGCCTCTTTA+TGG | + | chr1_1:9159996-9160015 | Msa0006280:CDS | 40.0% | |
| ! | TTGCCTCTTTATGGTGCTTT+TGG | + | chr1_1:9160005-9160024 | Msa0006280:CDS | 40.0% |
| CCATTAGACGAAACATGAGA+AGG | - | chr1_1:9160074-9160093 | None:intergenic | 40.0% | |
| CCTTCTCATGTTTCGTCTAA+TGG | + | chr1_1:9160071-9160090 | Msa0006280:CDS | 40.0% | |
| GACATCATCATCATCATGGT+TGG | + | chr1_1:9160111-9160130 | Msa0006280:CDS | 40.0% | |
| CAACCTGGAATAGCAAAACT+AGG | + | chr1_1:9160161-9160180 | Msa0006280:CDS | 40.0% | |
| ! | ACATCATCAAGAGGAAGTGT+TGG | + | chr1_1:9160209-9160228 | Msa0006280:CDS | 40.0% |
| !! | AAGTGTTGGTAGGTTTGAAG+TGG | + | chr1_1:9160223-9160242 | Msa0006280:CDS | 40.0% |
| TCTTGAGAAGAGAAGATGCA+TGG | - | chr1_1:9159558-9159577 | None:intergenic | 40.0% | |
| !! | TGATTTTGCAAAGGTGTGCT+TGG | - | chr1_1:9159594-9159613 | None:intergenic | 40.0% |
| TATAGCTCACAAGCATTAGG+TGG | + | chr1_1:9159846-9159865 | Msa0006280:CDS | 40.0% | |
| ! | ATAGCTTCAGCTTCTGCTTT+TGG | + | chr1_1:9159936-9159955 | Msa0006280:CDS | 40.0% |
| ATGGCTTCTTTGCCTCTTTA+TGG | + | chr1_1:9159996-9160015 | Msa0006280:CDS | 40.0% | |
| ! | TTGCCTCTTTATGGTGCTTT+TGG | + | chr1_1:9160005-9160024 | Msa0006280:CDS | 40.0% |
| CCATTAGACGAAACATGAGA+AGG | - | chr1_1:9160074-9160093 | None:intergenic | 40.0% | |
| CCTTCTCATGTTTCGTCTAA+TGG | + | chr1_1:9160071-9160090 | Msa0006280:CDS | 40.0% | |
| GACATCATCATCATCATGGT+TGG | + | chr1_1:9160111-9160130 | Msa0006280:CDS | 40.0% | |
| CAACCTGGAATAGCAAAACT+AGG | + | chr1_1:9160161-9160180 | Msa0006280:CDS | 40.0% | |
| ! | ACATCATCAAGAGGAAGTGT+TGG | + | chr1_1:9160209-9160228 | Msa0006280:CDS | 40.0% |
| !! | AAGTGTTGGTAGGTTTGAAG+TGG | + | chr1_1:9160223-9160242 | Msa0006280:CDS | 40.0% |
| GAGTGTGCTTGAATTCCAAG+AGG | - | chr1_1:9160038-9160057 | None:intergenic | 45.0% | |
| ACGAAACATGAGAAGGCTCA+TGG | - | chr1_1:9160067-9160086 | None:intergenic | 45.0% | |
| !! | CATCAAGAGGAAGTGTTGGT+AGG | + | chr1_1:9160213-9160232 | Msa0006280:CDS | 45.0% |
| GAGTGTGCTTGAATTCCAAG+AGG | - | chr1_1:9160038-9160057 | None:intergenic | 45.0% | |
| ACGAAACATGAGAAGGCTCA+TGG | - | chr1_1:9160067-9160086 | None:intergenic | 45.0% | |
| !! | CATCAAGAGGAAGTGTTGGT+AGG | + | chr1_1:9160213-9160232 | Msa0006280:CDS | 45.0% |
| ! | AAAGGTGTGCTTGGACTTGG+AGG | - | chr1_1:9159585-9159604 | None:intergenic | 50.0% |
| ! | TGCAAAGGTGTGCTTGGACT+TGG | - | chr1_1:9159588-9159607 | None:intergenic | 50.0% |
| ! | AAAGGTGTGCTTGGACTTGG+AGG | - | chr1_1:9159585-9159604 | None:intergenic | 50.0% |
| ! | TGCAAAGGTGTGCTTGGACT+TGG | - | chr1_1:9159588-9159607 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_1 | gene | 9159534 | 9160319 | 9159534 | ID=Msa0006280;Name=Msa0006280 |
| chr1_1 | mRNA | 9159534 | 9160319 | 9159534 | ID=Msa0006280-mRNA-1;Parent=Msa0006280;Name=Msa0006280-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|261 |
| chr1_1 | exon | 9159534 | 9160319 | 9159534 | ID=Msa0006280-mRNA-1:exon:3207;Parent=Msa0006280-mRNA-1 |
| chr1_1 | CDS | 9159534 | 9160319 | 9159534 | ID=Msa0006280-mRNA-1:cds;Parent=Msa0006280-mRNA-1 |
| Gene Sequence |
| Protein sequence |
