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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0529860 | XP_013454510.1 | 96.296 | 216 | 7 | 1 | 1 | 216 | 10 | 224 | 1.06e-149 | 425 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0529860 | sp|Q42485|ZFP1_ARATH | 38.428 | 229 | 92 | 7 | 15 | 216 | 22 | 228 | 3.72e-32 | 119 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0529860 | G7JD88 | 96.296 | 216 | 7 | 1 | 1 | 216 | 10 | 224 | 5.04e-150 | 425 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0529860 | TF | C2H2 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0529860 | Msa0585520 | 0.985257 | 5.249189e-163 | -8.615850e-47 |
| Msa0529860 | Msa0625690 | 0.904592 | 1.045289e-79 | -8.615850e-47 |
| Msa0529860 | Msa1403410 | 0.958079 | 5.707176e-116 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0529860 | MtrunA17_Chr4g0001081 | 96.296 | 216 | 7 | 1 | 1 | 216 | 10 | 224 | 9.71e-154 | 425 |
| Msa0529860 | MtrunA17_Chr2g0333741 | 51.899 | 237 | 80 | 11 | 3 | 216 | 22 | 247 | 9.31e-60 | 187 |
| Msa0529860 | MtrunA17_Chr1g0149811 | 38.559 | 236 | 95 | 10 | 12 | 216 | 46 | 262 | 2.53e-34 | 123 |
| Msa0529860 | MtrunA17_Chr3g0137111 | 36.893 | 206 | 95 | 7 | 15 | 189 | 25 | 226 | 1.27e-26 | 102 |
| Msa0529860 | MtrunA17_Chr8g0376021 | 43.966 | 116 | 53 | 2 | 13 | 122 | 23 | 132 | 7.36e-24 | 94.7 |
| Msa0529860 | MtrunA17_Chr5g0434121 | 50.413 | 121 | 46 | 4 | 7 | 118 | 38 | 153 | 1.96e-21 | 88.6 |
| Msa0529860 | MtrunA17_Chr1g0207691 | 44.231 | 104 | 55 | 1 | 23 | 123 | 29 | 132 | 1.78e-19 | 82.4 |
| Msa0529860 | MtrunA17_Chr1g0161901 | 56.944 | 72 | 24 | 2 | 58 | 122 | 97 | 168 | 3.91e-19 | 82.8 |
| Msa0529860 | MtrunA17_Chr3g0110091 | 60.274 | 73 | 21 | 3 | 53 | 118 | 80 | 151 | 1.77e-18 | 80.9 |
| Msa0529860 | MtrunA17_Chr4g0053691 | 45.455 | 110 | 41 | 4 | 58 | 165 | 67 | 159 | 4.17e-18 | 78.6 |
| Msa0529860 | MtrunA17_Chr4g0072571 | 65.385 | 52 | 16 | 1 | 55 | 106 | 42 | 91 | 3.58e-16 | 73.2 |
| Msa0529860 | MtrunA17_Chr5g0396031 | 40.909 | 110 | 41 | 3 | 37 | 128 | 25 | 128 | 7.07e-16 | 75.5 |
| Msa0529860 | MtrunA17_Chr3g0081131 | 42.157 | 102 | 49 | 3 | 37 | 128 | 76 | 177 | 6.16e-14 | 69.3 |
| Msa0529860 | MtrunA17_Chr3g0081141 | 38.525 | 122 | 53 | 3 | 38 | 140 | 77 | 195 | 2.18e-13 | 67.8 |
| Msa0529860 | MtrunA17_Chr7g0254221 | 76.471 | 34 | 8 | 0 | 58 | 91 | 33 | 66 | 2.88e-12 | 62.4 |
| Msa0529860 | MtrunA17_Chr7g0251581 | 75.758 | 33 | 8 | 0 | 58 | 90 | 39 | 71 | 2.91e-12 | 63.2 |
| Msa0529860 | MtrunA17_Chr3g0081121 | 40.909 | 88 | 37 | 2 | 56 | 128 | 96 | 183 | 4.12e-12 | 63.9 |
| Msa0529860 | MtrunA17_Chr7g0222661 | 28.788 | 198 | 97 | 9 | 10 | 176 | 39 | 223 | 2.52e-11 | 61.6 |
| Msa0529860 | MtrunA17_Chr7g0239711 | 48.214 | 56 | 29 | 0 | 58 | 113 | 57 | 112 | 7.51e-11 | 59.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0529860 | AT1G80730.1 | 38.428 | 229 | 92 | 7 | 15 | 216 | 22 | 228 | 3.78e-33 | 119 |
| Msa0529860 | AT5G25160.1 | 42.593 | 216 | 87 | 10 | 27 | 216 | 31 | 235 | 1.56e-31 | 115 |
| Msa0529860 | AT5G10970.1 | 39.726 | 219 | 113 | 8 | 13 | 216 | 58 | 272 | 3.15e-31 | 115 |
| Msa0529860 | AT1G24625.1 | 62.121 | 66 | 24 | 1 | 54 | 118 | 53 | 118 | 1.90e-20 | 85.9 |
| Msa0529860 | AT1G66140.1 | 48.485 | 99 | 23 | 3 | 58 | 128 | 83 | 181 | 1.92e-17 | 79.0 |
| Msa0529860 | AT5G57520.1 | 70.833 | 48 | 14 | 0 | 57 | 104 | 49 | 96 | 2.24e-16 | 73.6 |
| Msa0529860 | AT5G14010.1 | 79.412 | 34 | 7 | 0 | 58 | 91 | 36 | 69 | 2.12e-13 | 65.9 |
| Msa0529860 | AT5G01860.1 | 62.222 | 45 | 17 | 0 | 47 | 91 | 54 | 98 | 7.31e-13 | 65.5 |
Find 33 sgRNAs with CRISPR-Local
Find 44 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCTTCTTCACTACCTTCTTA+TGG | 0.229495 | 4_1:-3638808 | Msa0529860:CDS |
| GGGTAGCCATGTTTCCTAAA+AGG | 0.278959 | 4_1:-3638579 | Msa0529860:CDS |
| TTTCGCGCTTGTGTGCATTC+TGG | 0.297005 | 4_1:+3638869 | None:intergenic |
| GAGAACTATAAAACTTTCTT+TGG | 0.300653 | 4_1:+3638908 | None:intergenic |
| TTGTTTCCATGCAAATTTAT+CGG | 0.310453 | 4_1:-3638995 | Msa0529860:CDS |
| AGGACTTGGAGGTTACTTAT+TGG | 0.313639 | 4_1:-3638545 | Msa0529860:CDS |
| AATGGAAGCTTTCCAATTGC+TGG | 0.323356 | 4_1:+3638658 | None:intergenic |
| AAAACGGGTGTTTGATAAGA+AGG | 0.401545 | 4_1:+3638736 | None:intergenic |
| TTTGATGCACAACCAGCAAT+TGG | 0.402242 | 4_1:-3638670 | Msa0529860:CDS |
| CTCACATGAAAATTTCCTAA+TGG | 0.404461 | 4_1:+3638640 | None:intergenic |
| GCAATTGGAAAGCTTCCATT+AGG | 0.416438 | 4_1:-3638655 | Msa0529860:CDS |
| CCTTTGGTGGTAGCATTTCA+AGG | 0.427189 | 4_1:-3638600 | Msa0529860:CDS |
| CCTAAAAGGCTTGCAAATGA+AGG | 0.436826 | 4_1:-3638565 | Msa0529860:CDS |
| GATGAAGTTGAATCATCCTT+TGG | 0.437021 | 4_1:-3638616 | Msa0529860:CDS |
| AGGCTTGCAAATGAAGGACT+TGG | 0.478799 | 4_1:-3638559 | Msa0529860:CDS |
| GTTCAAATGGACAAAATGGA+TGG | 0.492994 | 4_1:-3638705 | Msa0529860:CDS |
| TTGTTACACAAGCCATAAGA+AGG | 0.503153 | 4_1:+3638796 | None:intergenic |
| CTTGCAAATGAAGGACTTGG+AGG | 0.517674 | 4_1:-3638556 | Msa0529860:CDS |
| TATAGTTCTCAAGCACTTGG+AGG | 0.518487 | 4_1:-3638895 | Msa0529860:CDS |
| AATTTGCATGGAAACAATTG+AGG | 0.530917 | 4_1:+3639001 | None:intergenic |
| GGCTTGTGTAACAAATCACT+TGG | 0.540135 | 4_1:-3638787 | Msa0529860:CDS |
| ACACAAGCGCGAAAGAACTT+TGG | 0.541231 | 4_1:-3638860 | Msa0529860:CDS |
| AGCTTTCCGATAAATTTGCA+TGG | 0.561003 | 4_1:+3638989 | None:intergenic |
| CCTTGAAATGCTACCACCAA+AGG | 0.566032 | 4_1:+3638600 | None:intergenic |
| TCTGACTTTGAATCACTACA+TGG | 0.579513 | 4_1:+3639033 | None:intergenic |
| AAATTTATCGGAAAGCTCCT+CGG | 0.581574 | 4_1:-3638983 | Msa0529860:CDS |
| TTGCATGGAAACAATTGAGG+AGG | 0.582251 | 4_1:+3639004 | None:intergenic |
| GAAAGAACTTTGGCGAGAAG+AGG | 0.587899 | 4_1:-3638850 | Msa0529860:CDS |
| TGATCTAAGTCTCTCTAGCA+AGG | 0.597107 | 4_1:-3639058 | Msa0529860:CDS |
| AAGAGGCTATACAGCTAGCA+TGG | 0.598640 | 4_1:-3638833 | Msa0529860:CDS |
| CTTTGGTGGTAGCATTTCAA+GGG | 0.599828 | 4_1:-3638599 | Msa0529860:CDS |
| GAAGTTGAATCATCCTTTGG+TGG | 0.613485 | 4_1:-3638613 | Msa0529860:CDS |
| ATTCTCATGACTAGATTCCG+AGG | 0.661115 | 4_1:+3638966 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATTTGAACAAAATCCAAAAA+CGG | + | chr4_1:3638859-3638878 | None:intergenic | 20.0% |
| ! | TTGTTTCCATGCAAATTTAT+CGG | - | chr4_1:3638581-3638600 | Msa0529860:CDS | 25.0% |
| ! | GAGAACTATAAAACTTTCTT+TGG | + | chr4_1:3638671-3638690 | None:intergenic | 25.0% |
| ! | TTTGAACAAAATCCAAAAAC+GGG | + | chr4_1:3638858-3638877 | None:intergenic | 25.0% |
| !!! | GTTTTTGGATTTTGTTCAAA+TGG | - | chr4_1:3638858-3638877 | Msa0529860:CDS | 25.0% |
| !! | TTTTGTTCAAATGGACAAAA+TGG | - | chr4_1:3638867-3638886 | Msa0529860:CDS | 25.0% |
| !! | ATTAGGAAATTTTCATGTGA+GGG | - | chr4_1:3638938-3638957 | Msa0529860:CDS | 25.0% |
| AATTTGCATGGAAACAATTG+AGG | + | chr4_1:3638578-3638597 | None:intergenic | 30.0% | |
| TAGTTGCATGAAAAAACTCT+CGG | + | chr4_1:3638645-3638664 | None:intergenic | 30.0% | |
| ! | TTTTATAGTTCTCAAGCACT+TGG | - | chr4_1:3638678-3638697 | Msa0529860:CDS | 30.0% |
| CTCACATGAAAATTTCCTAA+TGG | + | chr4_1:3638939-3638958 | None:intergenic | 30.0% | |
| ! | CATTAGGAAATTTTCATGTG+AGG | - | chr4_1:3638937-3638956 | Msa0529860:CDS | 30.0% |
| TCTGACTTTGAATCACTACA+TGG | + | chr4_1:3638546-3638565 | None:intergenic | 35.0% | |
| AGCTTTCCGATAAATTTGCA+TGG | + | chr4_1:3638590-3638609 | None:intergenic | 35.0% | |
| AAATTTATCGGAAAGCTCCT+CGG | - | chr4_1:3638593-3638612 | Msa0529860:CDS | 35.0% | |
| TCTTCTTCACTACCTTCTTA+TGG | - | chr4_1:3638768-3638787 | Msa0529860:CDS | 35.0% | |
| TTGTTACACAAGCCATAAGA+AGG | + | chr4_1:3638783-3638802 | None:intergenic | 35.0% | |
| AAAACGGGTGTTTGATAAGA+AGG | + | chr4_1:3638843-3638862 | None:intergenic | 35.0% | |
| ! | TCTTATCAAACACCCGTTTT+TGG | - | chr4_1:3638843-3638862 | Msa0529860:CDS | 35.0% |
| GTTCAAATGGACAAAATGGA+TGG | - | chr4_1:3638871-3638890 | Msa0529860:CDS | 35.0% | |
| GATGAAGTTGAATCATCCTT+TGG | - | chr4_1:3638960-3638979 | Msa0529860:CDS | 35.0% | |
| TGATCTAAGTCTCTCTAGCA+AGG | - | chr4_1:3638518-3638537 | Msa0529860:CDS | 40.0% | |
| TTGCATGGAAACAATTGAGG+AGG | + | chr4_1:3638575-3638594 | None:intergenic | 40.0% | |
| ATTCTCATGACTAGATTCCG+AGG | + | chr4_1:3638613-3638632 | None:intergenic | 40.0% | |
| TATAGTTCTCAAGCACTTGG+AGG | - | chr4_1:3638681-3638700 | Msa0529860:CDS | 40.0% | |
| GGCTTGTGTAACAAATCACT+TGG | - | chr4_1:3638789-3638808 | Msa0529860:CDS | 40.0% | |
| TTTGATGCACAACCAGCAAT+TGG | - | chr4_1:3638906-3638925 | Msa0529860:CDS | 40.0% | |
| AATGGAAGCTTTCCAATTGC+TGG | + | chr4_1:3638921-3638940 | None:intergenic | 40.0% | |
| GCAATTGGAAAGCTTCCATT+AGG | - | chr4_1:3638921-3638940 | Msa0529860:CDS | 40.0% | |
| GAAGTTGAATCATCCTTTGG+TGG | - | chr4_1:3638963-3638982 | Msa0529860:CDS | 40.0% | |
| ! | CTTTGGTGGTAGCATTTCAA+GGG | - | chr4_1:3638977-3638996 | Msa0529860:CDS | 40.0% |
| !! | TGCAAGCCTTTTAGGAAACA+TGG | + | chr4_1:3639006-3639025 | None:intergenic | 40.0% |
| ! | CCTTCATTTGCAAGCCTTTT+AGG | + | chr4_1:3639014-3639033 | None:intergenic | 40.0% |
| CCTAAAAGGCTTGCAAATGA+AGG | - | chr4_1:3639011-3639030 | Msa0529860:CDS | 40.0% | |
| AGGACTTGGAGGTTACTTAT+TGG | - | chr4_1:3639031-3639050 | Msa0529860:CDS | 40.0% | |
| ACACAAGCGCGAAAGAACTT+TGG | - | chr4_1:3638716-3638735 | Msa0529860:CDS | 45.0% | |
| GAAAGAACTTTGGCGAGAAG+AGG | - | chr4_1:3638726-3638745 | Msa0529860:CDS | 45.0% | |
| AAGAGGCTATACAGCTAGCA+TGG | - | chr4_1:3638743-3638762 | Msa0529860:CDS | 45.0% | |
| CCTTGAAATGCTACCACCAA+AGG | + | chr4_1:3638979-3638998 | None:intergenic | 45.0% | |
| ! | CCTTTGGTGGTAGCATTTCA+AGG | - | chr4_1:3638976-3638995 | Msa0529860:CDS | 45.0% |
| GGGTAGCCATGTTTCCTAAA+AGG | - | chr4_1:3638997-3639016 | Msa0529860:CDS | 45.0% | |
| AGGCTTGCAAATGAAGGACT+TGG | - | chr4_1:3639017-3639036 | Msa0529860:CDS | 45.0% | |
| CTTGCAAATGAAGGACTTGG+AGG | - | chr4_1:3639020-3639039 | Msa0529860:CDS | 45.0% | |
| TTTCGCGCTTGTGTGCATTC+TGG | + | chr4_1:3638710-3638729 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 3638474 | 3639124 | 3638474 | ID=Msa0529860;Name=Msa0529860 |
| chr4_1 | mRNA | 3638474 | 3639124 | 3638474 | ID=Msa0529860-mRNA-1;Parent=Msa0529860;Name=Msa0529860-mRNA-1;_AED=0.02;_eAED=0.02;_QI=0|-1|0|1|-1|1|1|0|216 |
| chr4_1 | exon | 3638474 | 3639124 | 3638474 | ID=Msa0529860-mRNA-1:exon:1073;Parent=Msa0529860-mRNA-1 |
| chr4_1 | CDS | 3638474 | 3639124 | 3638474 | ID=Msa0529860-mRNA-1:cds;Parent=Msa0529860-mRNA-1 |
| Gene Sequence |
| Protein sequence |
