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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0272420 | XP_003593542.1 | 91.496 | 341 | 29 | 0 | 1 | 341 | 1 | 341 | 0.0 | 653 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0272420 | sp|D7U6G6|ANRPN_VITVI | 33.134 | 335 | 210 | 7 | 8 | 339 | 13 | 336 | 7.87e-55 | 185 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000180 | Msa0272420 | 0.802968 | 4.361252e-49 | -8.615850e-47 |
| Msa0000220 | Msa0272420 | 0.861728 | 8.363487e-64 | -8.615850e-47 |
| Msa0000500 | Msa0272420 | 0.831888 | 1.293055e-55 | -8.615850e-47 |
| Msa0001460 | Msa0272420 | 0.825838 | 3.767169e-54 | -8.615850e-47 |
| Msa0004340 | Msa0272420 | 0.815563 | 8.672747e-52 | -8.615850e-47 |
| Msa0004350 | Msa0272420 | 0.808943 | 2.415392e-50 | -8.615850e-47 |
| Msa0005690 | Msa0272420 | 0.850880 | 1.275708e-60 | -8.615850e-47 |
| Msa0006050 | Msa0272420 | 0.878788 | 2.114552e-69 | -8.615850e-47 |
| Msa0006700 | Msa0272420 | 0.846408 | 2.213814e-59 | -8.615850e-47 |
| Msa0007230 | Msa0272420 | 0.812547 | 4.014140e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0272420 | MtrunA17_Chr2g0282001 | 91.496 | 341 | 29 | 0 | 1 | 341 | 1 | 341 | 0.0 | 653 |
| Msa0272420 | MtrunA17_Chr2g0281991 | 87.097 | 341 | 44 | 0 | 1 | 341 | 2 | 342 | 0.0 | 617 |
| Msa0272420 | MtrunA17_Chr2g0282011 | 84.164 | 341 | 54 | 0 | 1 | 341 | 2 | 342 | 0.0 | 572 |
| Msa0272420 | MtrunA17_Chr7g0275521 | 60.234 | 342 | 131 | 4 | 1 | 339 | 1 | 340 | 8.27e-146 | 415 |
| Msa0272420 | MtrunA17_Chr1g0155411 | 34.524 | 336 | 199 | 8 | 7 | 339 | 8 | 325 | 1.97e-55 | 184 |
| Msa0272420 | MtrunA17_Chr1g0155431 | 33.945 | 327 | 195 | 8 | 7 | 330 | 8 | 316 | 1.32e-54 | 182 |
| Msa0272420 | MtrunA17_Chr7g0245731 | 34.024 | 338 | 195 | 9 | 2 | 332 | 53 | 369 | 4.77e-54 | 181 |
| Msa0272420 | MtrunA17_Chr7g0245741 | 34.018 | 341 | 197 | 9 | 6 | 339 | 7 | 326 | 1.29e-53 | 179 |
| Msa0272420 | MtrunA17_Chr4g0048961 | 31.940 | 335 | 214 | 7 | 6 | 337 | 13 | 336 | 3.04e-53 | 178 |
| Msa0272420 | MtrunA17_Chr7g0245671 | 34.104 | 346 | 193 | 10 | 6 | 339 | 7 | 329 | 1.21e-52 | 176 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0272420 | AT5G42800.1 | 32.249 | 338 | 208 | 7 | 7 | 341 | 8 | 327 | 8.91e-52 | 176 |
| Msa0272420 | AT1G61720.1 | 32.523 | 329 | 212 | 6 | 4 | 331 | 10 | 329 | 4.08e-50 | 171 |
| Msa0272420 | AT4G27250.1 | 32.036 | 334 | 206 | 8 | 8 | 330 | 14 | 337 | 5.38e-47 | 162 |
| Msa0272420 | AT2G45400.1 | 32.941 | 340 | 206 | 9 | 7 | 339 | 40 | 364 | 1.15e-46 | 162 |
| Msa0272420 | AT4G27250.2 | 32.335 | 334 | 195 | 10 | 8 | 330 | 14 | 327 | 6.28e-45 | 157 |
| Msa0272420 | AT2G45400.2 | 34.256 | 289 | 174 | 7 | 7 | 292 | 40 | 315 | 4.28e-43 | 152 |
| Msa0272420 | AT1G09510.1 | 35.034 | 294 | 162 | 9 | 7 | 295 | 8 | 277 | 6.90e-39 | 140 |
| Msa0272420 | AT4G35420.1 | 29.254 | 335 | 218 | 7 | 6 | 340 | 7 | 322 | 1.05e-36 | 135 |
| Msa0272420 | AT1G09500.3 | 33.784 | 296 | 164 | 9 | 7 | 295 | 8 | 278 | 5.70e-36 | 132 |
| Msa0272420 | AT1G09500.1 | 33.784 | 296 | 164 | 9 | 7 | 295 | 8 | 278 | 1.52e-35 | 132 |
Find 93 sgRNAs with CRISPR-Local
Find 302 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGATGAAAATGGAAATGG+TGG | 0.554971 | 2_3:+3970548 | Msa0272420:CDS |
| AAATGGAAATGGTGGAATTG+AGG | 0.596604 | 2_3:+3970556 | Msa0272420:CDS |
| AAGTTCTTAGAAGATATAGA+TGG | 0.488977 | 2_3:+3970695 | Msa0272420:CDS |
| AATACTAATATCCACTTGTC+CGG | 0.485305 | 2_3:-3971879 | None:intergenic |
| AATACTCAAGTTTCTGAGAG+TGG | 0.592377 | 2_3:-3967626 | None:intergenic |
| AATGCATTATCTAGTAAATA+TGG | 0.292838 | 2_3:-3967431 | None:intergenic |
| AATTCACAGCCTTGAATTGC+TGG | 0.321732 | 2_3:-3967970 | None:intergenic |
| ACAAATCACATATCTCTCTT+AGG | 0.341922 | 2_3:-3972166 | None:intergenic |
| ACAGGTGGTGCTGGTTATAT+TGG | 0.319946 | 2_3:+3967556 | Msa0272420:CDS |
| ACATCATCAATGTGGACTAG+TGG | 0.564824 | 2_3:-3970725 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATATGTTAGATCATTGTGAG+TGG | + | chr2_3:3967484-3967503 | Msa0272420:five_prime_UTR | 30.0% | |
| GAATTGAAAAAAATGGATGG+TGG | - | chr2_3:3967700-3967719 | None:intergenic | 30.0% | |
| GAATCAGTTTGATGTAGATA+GGG | - | chr2_3:3968015-3968034 | None:intergenic | 30.0% | |
| AGAATCAGTTTGATGTAGAT+AGG | - | chr2_3:3968016-3968035 | None:intergenic | 30.0% | |
| AGCACTCACAACAATAAAAT+TGG | - | chr2_3:3968108-3968127 | None:intergenic | 30.0% | |
| TCGTTGATATAAGTGAATGT+TGG | + | chr2_3:3968262-3968281 | Msa0272420:intron | 30.0% | |
| TGATATAAGTGAATGTTGGT+AGG | + | chr2_3:3968266-3968285 | Msa0272420:intron | 30.0% | |
| ACTTCATTGATGAAACTTGT+TGG | + | chr2_3:3968438-3968457 | Msa0272420:CDS | 30.0% | |
| AGTATTTACCTTATGGAAAG+CGG | - | chr2_3:3968495-3968514 | None:intergenic | 30.0% | |
| TCTACCAAAAAAAAAAGGGT+CGG | + | chr2_3:3968660-3968679 | Msa0272420:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_3 | gene | 3967416 | 3972330 | 3967416 | ID=Msa0272420;Name=Msa0272420 |
| chr2_3 | mRNA | 3967416 | 3972330 | 3967416 | ID=Msa0272420-mRNA-1;Parent=Msa0272420;Name=Msa0272420-mRNA-1;_AED=0.07;_eAED=0.07;_QI=113|1|1|1|1|1|5|520|341 |
| chr2_3 | exon | 3967416 | 3967643 | 3967416 | ID=Msa0272420-mRNA-1:exon:1925;Parent=Msa0272420-mRNA-1 |
| chr2_3 | exon | 3967872 | 3968038 | 3967872 | ID=Msa0272420-mRNA-1:exon:1926;Parent=Msa0272420-mRNA-1 |
| chr2_3 | exon | 3968293 | 3968505 | 3968293 | ID=Msa0272420-mRNA-1:exon:1927;Parent=Msa0272420-mRNA-1 |
| chr2_3 | exon | 3970494 | 3970882 | 3970494 | ID=Msa0272420-mRNA-1:exon:1928;Parent=Msa0272420-mRNA-1 |
| chr2_3 | exon | 3971669 | 3972330 | 3971669 | ID=Msa0272420-mRNA-1:exon:1929;Parent=Msa0272420-mRNA-1 |
| chr2_3 | five_prime_UTR | 3967416 | 3967528 | 3967416 | ID=Msa0272420-mRNA-1:five_prime_utr;Parent=Msa0272420-mRNA-1 |
| chr2_3 | CDS | 3967529 | 3967643 | 3967529 | ID=Msa0272420-mRNA-1:cds;Parent=Msa0272420-mRNA-1 |
| chr2_3 | CDS | 3967872 | 3968038 | 3967872 | ID=Msa0272420-mRNA-1:cds;Parent=Msa0272420-mRNA-1 |
| chr2_3 | CDS | 3968293 | 3968505 | 3968293 | ID=Msa0272420-mRNA-1:cds;Parent=Msa0272420-mRNA-1 |
| chr2_3 | CDS | 3970494 | 3970882 | 3970494 | ID=Msa0272420-mRNA-1:cds;Parent=Msa0272420-mRNA-1 |
| chr2_3 | CDS | 3971669 | 3971810 | 3971669 | ID=Msa0272420-mRNA-1:cds;Parent=Msa0272420-mRNA-1 |
| chr2_3 | three_prime_UTR | 3971811 | 3972330 | 3971811 | ID=Msa0272420-mRNA-1:three_prime_utr;Parent=Msa0272420-mRNA-1 |
| Gene Sequence |
>Msa0272420 ATGGAAAGGAGCTGCAAGGTGTGTGTTACAGGTGGTGCTGGTTATATTGGCTCTCTCCTAGTCAAGAAGCTTTTGGAAAAGGGATACACTGTCCATGCCACTCTCAGAAACTTGAAGGACGAGTCCAAAGTCAGCTTTCTGAGAGGCTTTCCACATGCAAATACAAGATTGGTGTTATTTGAAGCTGACATCTATAAACCAGATGATTTTTGGCCAGCAATTCAAGGCTGTGAATTTGTCTTCCATGTTGCCACTCCCTATCTACATCAAACTGATTCTCAGTTTAAGAGCATAGAGGAAGCAGCAGTAGCAGGTGTAAAAAGCATAGCTGAGACTTGTATTAAATCAAAAACAGCGAGAAGACTGATATACACTGGCACCGTGGTTGCTGCTTCTCCACTGAAGGATGATGGGAGTGGTTACAAAGACTTCATTGATGAAACTTGTTGGACTCCTCTCCAGAGTCTCCACCTTCCTCTCACCGCTTTCCATAAGGAGTACGCTTATTCCAAGACATTGGCAGAGAGAGAATTATTAACGAGTTATGGTAAAGATGAAAATGGAAATGGTGGAATTGAGGTGGTTACTCTTGGTGTTGGCCTAGTGGGAGGAGATGCTCTTCTCAGTTACTTACCCGCAAGTGTTGCAGTGATTATCTCTCAGCTTCAAGACAATGAAGTTGCATATCAGTCTATGAAGTTCTTAGAAGATATAGATGGAAAAATTCCACTAGTCCACATTGATGATGTTTGTGAAGCTCATATCTTTTGTGCTGAAGATTCATCTATCAATGACAGATTTTTGGTTGCAAGCTCATATGCATCATCAGCAGAGATAGCAAATTATTATCTTCAAAACTATCCAGAATTCAATTTGAAAGAGAAGTATTTGGAAGAGTCAAACAGAGCAATCAAATGGGCATCAACAAAGCTCATAGATAAAGGGTTTTCCTACAAATATGATCTCAAGATGATACTAGACGATAGTGTCAAATGCGGAAGAAGGACGGGCGATCTTAGTATATAA |
| Protein sequence |
>Msa0272420 MERSCKVCVTGGAGYIGSLLVKKLLEKGYTVHATLRNLKDESKVSFLRGFPHANTRLVLFEADIYKPDDFWPAIQGCEFVFHVATPYLHQTDSQFKSIEEAAVAGVKSIAETCIKSKTARRLIYTGTVVAASPLKDDGSGYKDFIDETCWTPLQSLHLPLTAFHKEYAYSKTLAERELLTSYGKDENGNGGIEVVTLGVGLVGGDALLSYLPASVAVIISQLQDNEVAYQSMKFLEDIDGKIPLVHIDDVCEAHIFCAEDSSINDRFLVASSYASSAEIANYYLQNYPEFNLKEKYLEESNRAIKWASTKLIDKGFSYKYDLKMILDDSVKCGRRTGDLSI* |
