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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0602070 | XP_003606402.1 | 99.344 | 305 | 2 | 0 | 86 | 390 | 91 | 395 | 0.0 | 618 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0092220 | Msa0602070 | 0.800906 | 1.156596e-48 | -8.615850e-47 |
| Msa0173250 | Msa0602070 | 0.801611 | 8.299928e-49 | -8.615850e-47 |
| Msa0547340 | Msa0602070 | 0.977334 | 1.422959e-143 | -8.615850e-47 |
| Msa0566930 | Msa0602070 | 0.802581 | 5.242230e-49 | -8.615850e-47 |
| Msa0602050 | Msa0602070 | 0.814629 | 1.397617e-51 | -8.615850e-47 |
| Msa0602070 | Msa0643200 | 0.940633 | 1.671907e-100 | -8.615850e-47 |
| Msa0602070 | Msa0682860 | 0.944888 | 8.504859e-104 | -8.615850e-47 |
| Msa0602070 | Msa0689830 | 0.833454 | 5.283419e-56 | -8.615850e-47 |
| Msa0602070 | Msa1124210 | 0.824229 | 9.036669e-54 | -8.615850e-47 |
| Msa0602070 | Msa1402010 | 0.808860 | 2.516038e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0602070 | MtrunA17_Chr4g0029291 | 99.344 | 305 | 2 | 0 | 86 | 390 | 91 | 395 | 0.0 | 618 |
| Msa0602070 | MtrunA17_Chr4g0029271 | 83.120 | 391 | 60 | 2 | 1 | 390 | 1 | 386 | 0.0 | 596 |
| Msa0602070 | MtrunA17_Chr2g0318341 | 47.222 | 288 | 145 | 4 | 107 | 390 | 38 | 322 | 1.40e-96 | 291 |
| Msa0602070 | MtrunA17_Chr2g0318311 | 47.569 | 288 | 144 | 4 | 107 | 390 | 38 | 322 | 3.77e-96 | 290 |
| Msa0602070 | MtrunA17_Chr8g0360691 | 46.520 | 273 | 141 | 3 | 107 | 377 | 38 | 307 | 1.78e-88 | 271 |
| Msa0602070 | MtrunA17_Chr2g0292811 | 42.537 | 268 | 135 | 3 | 110 | 377 | 46 | 294 | 2.58e-76 | 239 |
| Msa0602070 | MtrunA17_Chr2g0287361 | 40.138 | 289 | 150 | 5 | 93 | 377 | 26 | 295 | 8.52e-76 | 238 |
| Msa0602070 | MtrunA17_Chr2g0292801 | 43.657 | 268 | 132 | 3 | 110 | 377 | 309 | 557 | 6.12e-75 | 243 |
| Msa0602070 | MtrunA17_Chr2g0292821 | 43.284 | 268 | 133 | 3 | 110 | 377 | 309 | 557 | 1.18e-73 | 240 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0602070 | AT5G60530.1 | 68.136 | 295 | 92 | 2 | 86 | 378 | 135 | 429 | 1.90e-157 | 451 |
| Msa0602070 | AT5G60520.1 | 68.182 | 308 | 97 | 1 | 72 | 378 | 21 | 328 | 1.43e-153 | 437 |
| Msa0602070 | AT4G27400.1 | 44.561 | 285 | 152 | 4 | 106 | 387 | 35 | 316 | 1.51e-91 | 279 |
| Msa0602070 | AT5G54370.1 | 43.243 | 296 | 159 | 5 | 95 | 387 | 20 | 309 | 1.32e-89 | 274 |
| Msa0602070 | AT1G54890.1 | 43.403 | 288 | 156 | 5 | 95 | 377 | 26 | 311 | 2.57e-86 | 266 |
| Msa0602070 | AT3G19430.1 | 43.310 | 284 | 143 | 5 | 97 | 377 | 258 | 526 | 5.17e-77 | 248 |
| Msa0602070 | AT3G19430.2 | 43.310 | 284 | 143 | 5 | 97 | 377 | 281 | 549 | 7.19e-77 | 248 |
Find 106 sgRNAs with CRISPR-Local
Find 256 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGACAAAGGCAAAGGAAA+GGG | 0.406086 | 4_2:+45298083 | Msa0602070:CDS |
| AAATGATAAGGACGAAGGCA+AGG | 0.611935 | 4_2:+45298031 | Msa0602070:CDS |
| AACAACGGTAACAATGGCAA+CGG | 0.628721 | 4_2:+45298002 | Msa0602070:CDS |
| AAGAAAGTGGAGCATCTTGG+TGG | 0.578600 | 4_2:+45297875 | Msa0602070:CDS |
| AAGAAGAACAAGAAGGATAA+AGG | 0.412069 | 4_2:+45298245 | Msa0602070:CDS |
| AAGACAAAGGCAAAGGAAAG+GGG | 0.568570 | 4_2:+45298084 | Msa0602070:CDS |
| AAGCATCATCTGATGGCAAT+TGG | 0.461439 | 4_2:-45299236 | None:intergenic |
| AAGCTTGCCAGCTCTTCAAT+CGG | 0.459439 | 4_2:+45298136 | Msa0602070:CDS |
| AAGGACGAAGGCAAGGACAA+AGG | 0.625848 | 4_2:+45298038 | Msa0602070:CDS |
| AAGGACTCGCGATTACACAT+GGG | 0.725962 | 4_2:+45298927 | Msa0602070:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TTATCCTTCTTGTTCTTCTT+TGG | - | chr4_2:45298245-45298264 | None:intergenic | 30.0% | |
| AAGAAGAACAAGAAGGATAA+AGG | + | chr4_2:45298245-45298264 | Msa0602070:CDS | 30.0% | |
| TAATACTTGATCTATACCGT+TGG | + | chr4_2:45298351-45298370 | Msa0602070:intron | 30.0% | |
| TCAGGTCCAAAATATAAAGT+TGG | - | chr4_2:45298400-45298419 | None:intergenic | 30.0% | |
| TGGATCATCATAAGATAAGA+TGG | - | chr4_2:45298433-45298452 | None:intergenic | 30.0% | |
| ATTCCATTGAGTTACTCTAT+TGG | - | chr4_2:45299001-45299020 | None:intergenic | 30.0% | |
| TTGACTCTCTTACAGTAAAA+TGG | + | chr4_2:45299028-45299047 | Msa0602070:CDS | 30.0% | |
| TGACTCTCTTACAGTAAAAT+GGG | + | chr4_2:45299029-45299048 | Msa0602070:CDS | 30.0% | |
| TTAGTAACTATTCCTTCTGA+TGG | + | chr4_2:45299060-45299079 | Msa0602070:CDS | 30.0% | |
| TTTGCTTGAAATGGACATAA+GGG | + | chr4_2:45299173-45299192 | Msa0602070:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_2 | gene | 45297867 | 45299488 | 45297867 | ID=Msa0602070;Name=Msa0602070 |
| chr4_2 | mRNA | 45297867 | 45299488 | 45297867 | ID=Msa0602070-mRNA-1;Parent=Msa0602070;Name=Msa0602070-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|1|0|1|1|1|2|0|390 |
| chr4_2 | exon | 45297867 | 45298308 | 45297867 | ID=Msa0602070-mRNA-1:exon:10153;Parent=Msa0602070-mRNA-1 |
| chr4_2 | exon | 45298758 | 45299488 | 45298758 | ID=Msa0602070-mRNA-1:exon:10154;Parent=Msa0602070-mRNA-1 |
| chr4_2 | CDS | 45297867 | 45298308 | 45297867 | ID=Msa0602070-mRNA-1:cds;Parent=Msa0602070-mRNA-1 |
| chr4_2 | CDS | 45298758 | 45299488 | 45298758 | ID=Msa0602070-mRNA-1:cds;Parent=Msa0602070-mRNA-1 |
| Gene Sequence |
>Msa0602070 ATGGCTGGAAGAAAGTGGAGCATCTTGGTGGCCTTTTTTATCTTACTCATCTCTATGGAAGCTGTCATTGCTCAAGGCCAAGGAAATGGTAATGGCAATGGCAATGATAACGGTAACAATGGCAACGGTAATGGTAACAACGGTAACAATGGCAACGGTAAGGGAAATGATAAGGACGAAGGCAAGGACAAAGGAAAAGACAAAGACAAAGACGACAAAGACAAAGGCAAAGGAAAGGGGAAAAAGGATGATGACTCCTCAAAATATGAAAGCTTGCCAGCTCTTCAATCGGGACAGGAACGAGGGTTCTGCCAAGCACAAAATACTTGTCATTTCAAGACACTTGTGTGTCCGGAAGAGTGTAAACAAAGGAAGCCAAAGAAGAACAAGAAGGATAAAGGTTGCTTCATTGACTGCAACAAATGTGAAGCCACTTGCAAGTTTAGAAGACCAAATTGTGATGGCTATGGTTCATTGTGTTACGATCCTCGCTTTGTTGGTGGTGACGGTGTGATGTTCTACTTCCATGGAGCCAAAGGAGGAAACTTCGCCATAGTTTCAGACGATGAATTCCAAATCAACGCACACTTCATCGGTACTCGACCTCAGGGAAGGACTCGCGATTACACATGGGTGCAAGCACTTTCTGTCATGTTCGACACACACACTCTTGTTATTGCAGCCAATAGAGTAACTCAATGGAATGACAAAGTTGACTCTCTTACAGTAAAATGGGACGGCGAATTAGTAACTATTCCTTCTGATGGAGATGCCGAATGGAAGTCAAGTGGCAACCAAAGAGAAGTGATTGTGGAAAGAACAGATGATGCAAACAGTGTTAGAGTGACAGTTTCCGGTTTGCTTGAAATGGACATAAGGGTAAGGCCTATTGGAGAAAAGGAAAACAAGGCTCACAATTACCAATTGCCATCAGATGATGCTTTTGCTCATTTGGAAACACAATTCAAGTTTAAAAATCCTACAGATTCTATTGAAGGAGTTTTAGGTCAAACTTATAGGCCAAGTTATGTTAGTCCTGTCAAGAGAGGCGTTGCTATGCCGATGATGGGAGGGGAAGACAAGTACCAAACTCCATCACTCTTTTCAACAACATGCAAACTCTGCAGGTTCCAGAGGCCTTCCACTAGCCAAGGACTAATTGCTCAATACTGA |
| Protein sequence |
>Msa0602070 MAGRKWSILVAFFILLISMEAVIAQGQGNGNGNGNDNGNNGNGNGNNGNNGNGKGNDKDEGKDKGKDKDKDDKDKGKGKGKKDDDSSKYESLPALQSGQERGFCQAQNTCHFKTLVCPEECKQRKPKKNKKDKGCFIDCNKCEATCKFRRPNCDGYGSLCYDPRFVGGDGVMFYFHGAKGGNFAIVSDDEFQINAHFIGTRPQGRTRDYTWVQALSVMFDTHTLVIAANRVTQWNDKVDSLTVKWDGELVTIPSDGDAEWKSSGNQREVIVERTDDANSVRVTVSGLLEMDIRVRPIGEKENKAHNYQLPSDDAFAHLETQFKFKNPTDSIEGVLGQTYRPSYVSPVKRGVAMPMMGGEDKYQTPSLFSTTCKLCRFQRPSTSQGLIAQY* |
