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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0570030 | XP_003630424.1 | 88.571 | 315 | 33 | 2 | 1 | 315 | 1 | 312 | 2.21e-168 | 480 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0570030 | sp|P81393|MYB08_ANTMA | 65.363 | 179 | 56 | 1 | 1 | 173 | 1 | 179 | 4.04e-81 | 248 |
Co-expression Network
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0570030 | MtrunA17_Chr8g0385321 | 88.571 | 315 | 33 | 2 | 1 | 315 | 1 | 312 | 2.04e-172 | 480 |
| Msa0570030 | MtrunA17_Chr3g0131121 | 47.386 | 306 | 106 | 6 | 1 | 282 | 1 | 275 | 1.10e-87 | 265 |
| Msa0570030 | MtrunA17_Chr4g0037141 | 46.372 | 317 | 128 | 9 | 1 | 311 | 1 | 281 | 2.46e-86 | 261 |
| Msa0570030 | MtrunA17_Chr5g0435101 | 61.644 | 146 | 51 | 1 | 3 | 148 | 2 | 142 | 7.97e-66 | 206 |
| Msa0570030 | MtrunA17_Chr7g0270891 | 57.862 | 159 | 67 | 0 | 1 | 159 | 1 | 159 | 1.12e-64 | 208 |
| Msa0570030 | MtrunA17_Chr4g0058631 | 42.629 | 251 | 118 | 3 | 1 | 225 | 1 | 251 | 2.87e-64 | 207 |
| Msa0570030 | MtrunA17_Chr1g0193371 | 68.217 | 129 | 41 | 0 | 1 | 129 | 1 | 129 | 6.44e-64 | 206 |
| Msa0570030 | MtrunA17_Chr1g0193801 | 52.247 | 178 | 78 | 1 | 1 | 178 | 1 | 171 | 1.50e-63 | 206 |
| Msa0570030 | MtrunA17_Chr4g0048511 | 66.667 | 129 | 42 | 1 | 1 | 128 | 1 | 129 | 2.47e-63 | 204 |
| Msa0570030 | MtrunA17_Chr2g0281071 | 67.442 | 129 | 41 | 1 | 1 | 128 | 1 | 129 | 4.14e-63 | 203 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0570030 | AT4G38620.1 | 76.510 | 149 | 34 | 1 | 1 | 149 | 1 | 148 | 1.12e-81 | 249 |
| Msa0570030 | AT2G16720.1 | 82.171 | 129 | 23 | 0 | 1 | 129 | 1 | 129 | 1.31e-80 | 246 |
| Msa0570030 | AT4G09460.1 | 63.483 | 178 | 50 | 2 | 1 | 176 | 1 | 165 | 2.05e-78 | 239 |
| Msa0570030 | AT4G34990.1 | 67.296 | 159 | 44 | 1 | 1 | 159 | 1 | 151 | 3.75e-78 | 239 |
| Msa0570030 | AT1G22640.1 | 80.315 | 127 | 25 | 0 | 1 | 127 | 1 | 127 | 3.40e-77 | 237 |
| Msa0570030 | AT1G35515.1 | 78.571 | 126 | 27 | 0 | 1 | 126 | 1 | 126 | 7.78e-74 | 226 |
| Msa0570030 | AT4G12350.1 | 49.495 | 198 | 90 | 2 | 1 | 198 | 1 | 188 | 2.87e-66 | 210 |
| Msa0570030 | AT5G26660.1 | 60.248 | 161 | 61 | 1 | 1 | 161 | 1 | 158 | 6.32e-66 | 211 |
| Msa0570030 | AT5G16770.4 | 67.188 | 128 | 42 | 0 | 1 | 128 | 1 | 128 | 1.36e-65 | 209 |
| Msa0570030 | AT5G16770.3 | 67.188 | 128 | 42 | 0 | 1 | 128 | 1 | 128 | 1.36e-65 | 209 |
Find 86 sgRNAs with CRISPR-Local
Find 238 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACCATTCCCGACGCCGG+TGG | 0.648900 | 4_1:-72081274 | None:intergenic |
| AAACAAAGGTGCTTGGTCCA+AGG | 0.588189 | 4_1:+72080038 | Msa0570030:CDS |
| AAACGCAAACTCTATAGCCG+TGG | 0.599125 | 4_1:+72080715 | Msa0570030:CDS |
| AAACTTGACAATCCCGGCCC+CGG | 0.577725 | 4_1:-72081307 | None:intergenic |
| AAATTTATAGCCCAAAATAT+TGG | 0.315592 | 4_1:-72081620 | None:intergenic |
| AACAACAAGGTGAAGGTTGC+TGG | 0.363863 | 4_1:+72080091 | Msa0570030:CDS |
| AACACACAAACAAAGGTGCT+TGG | 0.551791 | 4_1:+72080031 | Msa0570030:CDS |
| AACACAGGCTTGGCAAGATG+TGG | 0.575098 | 4_1:+72080245 | Msa0570030:intron |
| AAGCAGCAGCGGCGCCGGAG+AGG | 0.599580 | 4_1:-72080771 | None:intergenic |
| AAGGCGTTCATCTTCTTCCT+TGG | 0.409969 | 4_1:-72080055 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GAAAAACAACACACAAACAA+AGG | + | chr4_1:72080024-72080043 | Msa0570030:CDS | 30.0% | |
| TATATCAAACAACAAGGTGA+AGG | + | chr4_1:72080084-72080103 | Msa0570030:CDS | 30.0% | |
| ACAATGAGATCAAGAACTAT+TGG | + | chr4_1:72080680-72080699 | Msa0570030:CDS | 30.0% | |
| CAGTTATTCAGTAATTTCAG+TGG | + | chr4_1:72080955-72080974 | Msa0570030:CDS | 30.0% | |
| AGGATAAGCTATATCATCAA+CGG | - | chr4_1:72081064-72081083 | None:intergenic | 30.0% | |
| AATCAACTTGGAACTTTCAT+TGG | + | chr4_1:72081089-72081108 | Msa0570030:CDS | 30.0% | |
| CTTTGTCGTCAAATATCTTT+AGG | + | chr4_1:72081156-72081175 | Msa0570030:CDS | 30.0% | |
| ATAGTATTATTGCAGCAACA+AGG | - | chr4_1:72081204-72081223 | None:intergenic | 30.0% | |
| AATAATACTATGCCTATCGT+TGG | + | chr4_1:72081213-72081232 | Msa0570030:CDS | 30.0% | |
| GAAAAACAACACACAAACAA+AGG | + | chr4_1:72080024-72080043 | Msa0570030:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 72079980 | 72081667 | 72079980 | ID=Msa0570030;Name=Msa0570030 |
| chr4_1 | mRNA | 72079980 | 72081667 | 72079980 | ID=Msa0570030-mRNA-1;Parent=Msa0570030;Name=Msa0570030-mRNA-1;_AED=0.04;_eAED=0.04;_QI=23|1|1|1|1|1|3|335|317 |
| chr4_1 | exon | 72079980 | 72080135 | 72079980 | ID=Msa0570030-mRNA-1:exon:24534;Parent=Msa0570030-mRNA-1 |
| chr4_1 | exon | 72080252 | 72080381 | 72080252 | ID=Msa0570030-mRNA-1:exon:24535;Parent=Msa0570030-mRNA-1 |
| chr4_1 | exon | 72080642 | 72081667 | 72080642 | ID=Msa0570030-mRNA-1:exon:24536;Parent=Msa0570030-mRNA-1 |
| chr4_1 | five_prime_UTR | 72079980 | 72080002 | 72079980 | ID=Msa0570030-mRNA-1:five_prime_utr;Parent=Msa0570030-mRNA-1 |
| chr4_1 | CDS | 72080003 | 72080135 | 72080003 | ID=Msa0570030-mRNA-1:cds;Parent=Msa0570030-mRNA-1 |
| chr4_1 | CDS | 72080252 | 72080381 | 72080252 | ID=Msa0570030-mRNA-1:cds;Parent=Msa0570030-mRNA-1 |
| chr4_1 | CDS | 72080642 | 72081332 | 72080642 | ID=Msa0570030-mRNA-1:cds;Parent=Msa0570030-mRNA-1 |
| chr4_1 | three_prime_UTR | 72081333 | 72081667 | 72081333 | ID=Msa0570030-mRNA-1:three_prime_utr;Parent=Msa0570030-mRNA-1 |
| Gene Sequence |
>Msa0570030 ATGGGTAGATCTCCTTGCTGTGAAAAACAACACACAAACAAAGGTGCTTGGTCCAAGGAAGAAGATGAACGCCTTATTAACTATATCAAACAACAAGGTGAAGGTTGCTGGCGTTCTCTTCCTAAAGCAGCAGGCTTGGCAAGATGTGGAAAAAGCTGTAGATTGAGATGGATCAATTATCTCAGACCTGATCTTAAACGTGGAAACTTCACTCATGAGGAAGATGAACTTATCATTAGCCTCCACGCTATGGTTGGAAACAAATGGTCTCAGATTGCTCAAAAATTGCCCGGAAGAACAGACAATGAGATCAAGAACTATTGGAACACTCACATAAAACGCAAACTCTATAGCCGTGGAATTGATCCTACAACACATCAGCCACTCAAAACCCTCTCCGGCGCCGCTGCTGCTTCAGCCGGTACTTCCTCAGCAACAACCACCTCTGCAGAAGCTGCTTCTCCTTCAATGGTTGTTAATAATAATTCATCCGTATTACCTGTAGTACCCTCAACCAACGAGAGCAGTACTAGTAGCAGCATGAGCCACCACCACAACAAGATTAAGAGTGAGTTTCAGTTATTCAGTAATTTCAGTGGCTCTCGGCTTAAAAAGTATGTTGCAACTGATTCTGTCCATGGTGGTGTTGAAGAATCAGTTTCAAACAGTAGCAGTGGTGTTACCGTTGATGATATAGCTTATCCTCCTCCAATCAACTTGGAACTTTCATTGGCTATATCCTCTCCCTCTCAACAGCCACGGCAAAAAGCTTTGTGTCTTTGTCGTCAAATATCTTTAGGGTTACATGGTAGTAGCCACCAACCTTGTTGCTGCAATAATACTATGCCTATCGTTGGTGTTTCAACTTCTGCTGTTGCTGCTCCACCACCTGCTACCACCGGCGTCGGGAATGGTTTTTTCAAATTTTCCGGGGCCGGGATTGTCAAGTTTTGA |
| Protein sequence |
>Msa0570030 MGRSPCCEKQHTNKGAWSKEEDERLINYIKQQGEGCWRSLPKAAGLARCGKSCRLRWINYLRPDLKRGNFTHEEDELIISLHAMVGNKWSQIAQKLPGRTDNEIKNYWNTHIKRKLYSRGIDPTTHQPLKTLSGAAAASAGTSSATTTSAEAASPSMVVNNNSSVLPVVPSTNESSTSSSMSHHHNKIKSEFQLFSNFSGSRLKKYVATDSVHGGVEESVSNSSSGVTVDDIAYPPPINLELSLAISSPSQQPRQKALCLCRQISLGLHGSSHQPCCCNNTMPIVGVSTSAVAAPPPATTGVGNGFFKFSGAGIVKF* |
