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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0944720 | sp|O82632|GATA9_ARATH | 37.546 | 269 | 106 | 10 | 2 | 266 | 53 | 263 | 8.77e-42 | 148 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0129770 | Msa0944720 | -0.801051 | 1.080445e-48 | -8.615850e-47 |
| Msa0135030 | Msa0944720 | -0.810760 | 9.819894e-51 | -8.615850e-47 |
| Msa0235820 | Msa0944720 | -0.804522 | 2.074955e-49 | -8.615850e-47 |
| Msa0335050 | Msa0944720 | -0.808016 | 3.809701e-50 | -8.615850e-47 |
| Msa0340370 | Msa0944720 | -0.805938 | 1.048258e-49 | -8.615850e-47 |
| Msa0345890 | Msa0944720 | -0.807469 | 4.979569e-50 | -8.615850e-47 |
| Msa0574420 | Msa0944720 | -0.805623 | 1.220782e-49 | -8.615850e-47 |
| Msa0637590 | Msa0944720 | -0.805333 | 1.404363e-49 | -8.615850e-47 |
| Msa0739820 | Msa0944720 | 0.814099 | 1.830327e-51 | -8.615850e-47 |
| Msa0829990 | Msa0944720 | -0.822129 | 2.793499e-53 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0944720 | MtrunA17_Chr6g0461591 | 91.941 | 273 | 6 | 3 | 1 | 269 | 1 | 261 | 0.0 | 506 |
| Msa0944720 | MtrunA17_Chr7g0253101 | 56.250 | 288 | 74 | 8 | 1 | 268 | 1 | 256 | 1.10e-98 | 289 |
| Msa0944720 | MtrunA17_Chr1g0146231 | 37.037 | 243 | 105 | 7 | 26 | 266 | 104 | 300 | 2.57e-36 | 132 |
| Msa0944720 | MtrunA17_Chr4g0035891 | 81.538 | 65 | 12 | 0 | 200 | 264 | 211 | 275 | 6.91e-34 | 124 |
| Msa0944720 | MtrunA17_Chr1g0199671 | 80.000 | 65 | 13 | 0 | 200 | 264 | 242 | 306 | 1.86e-33 | 124 |
| Msa0944720 | MtrunA17_Chr8g0372291 | 73.333 | 75 | 18 | 1 | 190 | 264 | 210 | 282 | 4.53e-33 | 122 |
| Msa0944720 | MtrunA17_Chr2g0326771 | 77.143 | 70 | 16 | 0 | 200 | 269 | 216 | 285 | 4.72e-33 | 122 |
| Msa0944720 | MtrunA17_Chr8g0340401 | 73.913 | 69 | 18 | 0 | 198 | 266 | 224 | 292 | 9.37e-33 | 122 |
| Msa0944720 | MtrunA17_Chr1g0213161 | 70.270 | 74 | 22 | 0 | 192 | 265 | 144 | 217 | 1.41e-32 | 119 |
| Msa0944720 | MtrunA17_Chr3g0140331 | 68.750 | 80 | 20 | 1 | 187 | 266 | 245 | 319 | 3.30e-32 | 121 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0944720 | AT4G32890.1 | 37.546 | 269 | 106 | 10 | 2 | 266 | 53 | 263 | 8.92e-43 | 148 |
| Msa0944720 | AT2G45050.1 | 36.864 | 236 | 80 | 5 | 31 | 266 | 79 | 245 | 1.03e-36 | 131 |
| Msa0944720 | AT5G25830.1 | 34.444 | 270 | 128 | 9 | 2 | 266 | 60 | 285 | 2.08e-36 | 132 |
| Msa0944720 | AT3G60530.1 | 79.710 | 69 | 14 | 0 | 198 | 266 | 156 | 224 | 1.01e-35 | 128 |
| Msa0944720 | AT5G66320.2 | 34.909 | 275 | 128 | 7 | 2 | 264 | 78 | 313 | 2.46e-35 | 129 |
| Msa0944720 | AT5G66320.1 | 34.909 | 275 | 128 | 7 | 2 | 264 | 78 | 313 | 2.46e-35 | 129 |
| Msa0944720 | AT3G24050.1 | 75.000 | 68 | 17 | 0 | 199 | 266 | 193 | 260 | 8.83e-34 | 124 |
| Msa0944720 | AT3G54810.1 | 67.470 | 83 | 26 | 1 | 182 | 264 | 212 | 293 | 1.67e-32 | 122 |
| Msa0944720 | AT3G54810.2 | 67.470 | 83 | 26 | 1 | 182 | 264 | 212 | 293 | 1.67e-32 | 122 |
| Msa0944720 | AT4G36240.1 | 36.641 | 262 | 84 | 11 | 10 | 268 | 50 | 232 | 1.79e-32 | 119 |
Find 52 sgRNAs with CRISPR-Local
Find 172 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACACTATGCAATGCATG+TGG | 0.740057 | 6_3:+21691882 | Msa0944720:CDS |
| AAAGTCTCTGCAGTTGCGTG+CGG | 0.637759 | 6_3:+21691645 | Msa0944720:CDS |
| AAATATCCATGTCTATAGGA+GGG | 0.653251 | 6_3:-21690495 | None:intergenic |
| AACATATTCCAAATGCAAGA+AGG | 0.563153 | 6_3:+21691802 | Msa0944720:CDS |
| AAGCTTGTTTCAACAAAGGA+GGG | 0.570788 | 6_3:-21691578 | None:intergenic |
| AAGTGGATTTAGGGATGGAG+TGG | 0.569403 | 6_3:+21691298 | Msa0944720:CDS |
| AATGGTCCTGCCCTCCATTG+TGG | 0.428822 | 6_3:-21691852 | None:intergenic |
| ACAAAAGTAGGACTCTTTGC+TGG | 0.482358 | 6_3:-21691945 | None:intergenic |
| ACAAAGGACCCCACAATGGA+GGG | 0.595325 | 6_3:+21691842 | Msa0944720:CDS |
| ACAATGGAGGGCAGGACCAT+TGG | 0.400380 | 6_3:+21691854 | Msa0944720:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AAAAAGAACAGAAGCAAGTT+TGG | - | chr6_3:21690451-21690470 | None:intergenic | 30.0% | |
| AAATATCCATGTCTATAGGA+GGG | - | chr6_3:21690498-21690517 | None:intergenic | 30.0% | |
| TTGCAAATATCCATGTCTAT+AGG | - | chr6_3:21690502-21690521 | None:intergenic | 30.0% | |
| GCTAGTACTTTATGCAAAAA+TGG | + | chr6_3:21690651-21690670 | Msa0944720:intron | 30.0% | |
| GTTTGTGTATGCATAGAATT+TGG | + | chr6_3:21690895-21690914 | Msa0944720:intron | 30.0% | |
| CATTCACATCTTATAAGTGA+TGG | + | chr6_3:21691540-21691559 | Msa0944720:CDS | 30.0% | |
| CTTTGTTGAAACAAGCTTAT+TGG | + | chr6_3:21691583-21691602 | Msa0944720:CDS | 30.0% | |
| AACATATTCCAAATGCAAGA+AGG | + | chr6_3:21691802-21691821 | Msa0944720:CDS | 30.0% | |
| GAGAATGCAATCTATTAAGT+AGG | + | chr6_3:21692010-21692029 | Msa0944720:CDS | 30.0% | |
| TTTCATGTAGACCAAAAGAT+GGG | + | chr6_3:21692076-21692095 | Msa0944720:three_prime_UTR | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_3 | gene | 21690311 | 21692223 | 21690311 | ID=Msa0944720;Name=Msa0944720 |
| chr6_3 | mRNA | 21690311 | 21692223 | 21690311 | ID=Msa0944720-mRNA-1;Parent=Msa0944720;Name=Msa0944720-mRNA-1;_AED=0.00;_eAED=0.00;_QI=197|1|1|1|1|1|2|192|269 |
| chr6_3 | exon | 21690311 | 21690582 | 21690311 | ID=Msa0944720-mRNA-1:exon:6489;Parent=Msa0944720-mRNA-1 |
| chr6_3 | exon | 21691297 | 21692223 | 21691297 | ID=Msa0944720-mRNA-1:exon:6490;Parent=Msa0944720-mRNA-1 |
| chr6_3 | five_prime_UTR | 21690311 | 21690507 | 21690311 | ID=Msa0944720-mRNA-1:five_prime_utr;Parent=Msa0944720-mRNA-1 |
| chr6_3 | CDS | 21690508 | 21690582 | 21690508 | ID=Msa0944720-mRNA-1:cds;Parent=Msa0944720-mRNA-1 |
| chr6_3 | CDS | 21691297 | 21692031 | 21691297 | ID=Msa0944720-mRNA-1:cds;Parent=Msa0944720-mRNA-1 |
| chr6_3 | three_prime_UTR | 21692032 | 21692223 | 21692032 | ID=Msa0944720-mRNA-1:three_prime_utr;Parent=Msa0944720-mRNA-1 |
| Gene Sequence |
>Msa0944720 ATGGATATTTGCAACAATGTATCAGTTTCAGGAGAGTTTTCCACCATTGATGACCTTTTTCCTGCTCACAACACGGAAGTGGATTTAGGGATGGAGTGGTTGTCAGTGTTTGTTGAAGAATGTTTTTCAAGTAAACCAAGTTGTGTCATAGCACCTTCTTCTAATGTTCAAATTCAAGAAAGTACAAACACAAAACCTTCAAACACAATGCAAAAACCTCAACAACAAAATCAATCTTATTTGCAAAATTTTGTTGTTCCTGGAAAAGCAAGAAGCAAGAGAAAAAGACTTTCAGCTCCTAGTACCAAAATTTGGTCACATTCACATCTTATAAGTGATGGTAATTTGATTTCTGACCCTCCTTTGTTGAAACAAGCTTATTGGTTAGCCGACAGCGAACTCATTGCTCCGAAAAATGAGCAAAAAGTCTCTGCAGTTGCGTGCGGAGATCAGACAGAAGCAAAAAGAAGGGTGAAGAGAGTGGTAAAAATGGAGAAAGAGAAAGAGAGTTTTGAGCTTGGAATTATTCAAGTTAAGAATAGTGAGAATAATAATGATGATGTTAATGATGATGATGAGGAACATATTCCAAATGCAAGAAGGTGCACTCATTGTTTGTCACAAAGGACCCCACAATGGAGGGCAGGACCATTGGGACCAAAAACACTATGCAATGCATGTGGTGTGAGGTACAAGTCTGGTAGGTTGTTGCCAGAGTATAGGCCAGCAAAGAGTCCTACTTTTGTTAGCTACTTGCATTCAAATTCACACAAAAAAGTTCTTGAGATGAGAATGCAATCTATTAAGTAG |
| Protein sequence |
>Msa0944720 MDICNNVSVSGEFSTIDDLFPAHNTEVDLGMEWLSVFVEECFSSKPSCVIAPSSNVQIQESTNTKPSNTMQKPQQQNQSYLQNFVVPGKARSKRKRLSAPSTKIWSHSHLISDGNLISDPPLLKQAYWLADSELIAPKNEQKVSAVACGDQTEAKRRVKRVVKMEKEKESFELGIIQVKNSENNNDDVNDDDEEHIPNARRCTHCLSQRTPQWRAGPLGPKTLCNACGVRYKSGRLLPEYRPAKSPTFVSYLHSNSHKKVLEMRMQSIK* |
