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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0474050 | QDX01710.1 | 99.658 | 292 | 1 | 0 | 1 | 292 | 1 | 292 | 0.0 | 612 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0474050 | sp|Q39013|NAC2_ARATH | 63.667 | 300 | 90 | 9 | 1 | 292 | 1 | 289 | 3.50e-123 | 356 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0474050 | A0A6B7JG21 | 99.658 | 292 | 1 | 0 | 1 | 292 | 1 | 292 | 0.0 | 612 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0427810 | Msa0474050 | 0.970283 | 2.208725e-131 | -8.615850e-47 |
| Msa0474050 | Msa1360940 | 0.821146 | 4.715408e-53 | -8.615850e-47 |
| Msa0474050 | Msa1465180 | 0.864210 | 1.432923e-64 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0474050 | MtrunA17_Chr3g0130731 | 99.315 | 292 | 2 | 0 | 1 | 292 | 1 | 292 | 0.0 | 610 |
| Msa0474050 | MtrunA17_Chr8g0384721 | 70.847 | 295 | 65 | 8 | 1 | 287 | 1 | 282 | 1.08e-143 | 405 |
| Msa0474050 | MtrunA17_Chr3g0124761 | 62.215 | 307 | 82 | 9 | 1 | 292 | 1 | 288 | 2.66e-124 | 356 |
| Msa0474050 | MtrunA17_Chr2g0318081 | 44.912 | 285 | 133 | 5 | 3 | 276 | 12 | 283 | 3.73e-74 | 231 |
| Msa0474050 | MtrunA17_Chr2g0318101 | 67.284 | 162 | 42 | 3 | 7 | 157 | 15 | 176 | 3.98e-74 | 231 |
| Msa0474050 | MtrunA17_Chr8g0359921 | 67.683 | 164 | 45 | 3 | 4 | 163 | 11 | 170 | 2.04e-73 | 228 |
| Msa0474050 | MtrunA17_Chr4g0047841 | 60.317 | 189 | 44 | 4 | 7 | 171 | 15 | 196 | 5.00e-71 | 223 |
| Msa0474050 | MtrunA17_Chr5g0417791 | 50.926 | 216 | 99 | 5 | 5 | 214 | 1 | 215 | 7.50e-70 | 217 |
| Msa0474050 | MtrunA17_Chr7g0252971 | 56.989 | 186 | 68 | 3 | 4 | 178 | 5 | 189 | 3.58e-69 | 218 |
| Msa0474050 | MtrunA17_Chr4g0042561 | 63.226 | 155 | 55 | 2 | 6 | 158 | 8 | 162 | 6.45e-69 | 215 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0474050 | AT1G01720.1 | 63.667 | 300 | 90 | 9 | 1 | 292 | 1 | 289 | 3.55e-124 | 356 |
| Msa0474050 | AT5G08790.1 | 66.409 | 259 | 59 | 8 | 1 | 252 | 1 | 238 | 2.32e-112 | 326 |
| Msa0474050 | AT5G63790.1 | 57.383 | 298 | 83 | 7 | 1 | 292 | 44 | 303 | 1.15e-106 | 313 |
| Msa0474050 | AT5G63790.2 | 57.383 | 298 | 83 | 7 | 1 | 292 | 54 | 313 | 1.52e-106 | 313 |
| Msa0474050 | AT1G77450.1 | 53.929 | 280 | 89 | 4 | 3 | 281 | 6 | 246 | 9.45e-99 | 290 |
| Msa0474050 | AT4G27410.2 | 70.323 | 155 | 42 | 2 | 4 | 157 | 11 | 162 | 9.65e-74 | 228 |
| Msa0474050 | AT3G15500.1 | 67.081 | 161 | 49 | 2 | 4 | 163 | 11 | 168 | 2.08e-73 | 228 |
| Msa0474050 | AT1G52890.1 | 67.081 | 161 | 49 | 2 | 4 | 163 | 11 | 168 | 4.39e-73 | 227 |
| Msa0474050 | AT1G61110.1 | 57.292 | 192 | 64 | 3 | 3 | 183 | 12 | 196 | 1.61e-70 | 221 |
| Msa0474050 | AT4G27410.3 | 63.372 | 172 | 42 | 3 | 4 | 157 | 11 | 179 | 2.91e-69 | 218 |
Find 85 sgRNAs with CRISPR-Local
Find 264 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAATCAACTTCTTTGACAAC+GGG | 0.403446 | 3_3:-76867433 | None:intergenic |
| AACCACTGTACGTGGTCACT+TGG | 0.436160 | 3_3:+76868529 | Msa0474050:three_prime_UTR |
| AACCTAAGTGGAATGATCTT+GGG | 0.472070 | 3_3:+76868249 | Msa0474050:CDS |
| AAGGCGTTAGTATTCTATGC+CGG | 0.611791 | 3_3:+76867739 | Msa0474050:CDS |
| AATACCATTCTTTCTCACTA+TGG | 0.343467 | 3_3:-76867591 | None:intergenic |
| AATTGGGAAATTGAAGCCGA+TGG | 0.549113 | 3_3:+76867708 | Msa0474050:CDS |
| ACAATTTGCAGCTTGATGAT+TGG | 0.442736 | 3_3:+76867973 | Msa0474050:intron |
| ACACAAGAAACAAGAATGCA+AGG | 0.604942 | 3_3:+76867310 | Msa0474050:exon |
| ACATGGACCATTTGGAATAT+TGG | 0.279197 | 3_3:+76868606 | Msa0474050:three_prime_UTR |
| ACCACGTACAGTGGTTAATT+AGG | 0.382891 | 3_3:-76868522 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AAATCAACTTCTTTGACAAC+GGG | - | chr3_3:76867436-76867455 | None:intergenic | 30.0% | |
| CAAATCAACTTCTTTGACAA+CGG | - | chr3_3:76867437-76867456 | None:intergenic | 30.0% | |
| ATTATTCATTTGCAATTGGG+AGG | - | chr3_3:76867535-76867554 | None:intergenic | 30.0% | |
| AATACCATTCTTTCTCACTA+TGG | - | chr3_3:76867594-76867613 | None:intergenic | 30.0% | |
| CCAAAGGAGTTAAAACTAAT+TGG | + | chr3_3:76867770-76867789 | Msa0474050:CDS | 30.0% | |
| GAAGCCAGAAATTCAAAAAT+TGG | + | chr3_3:76868106-76868125 | Msa0474050:CDS | 30.0% | |
| AGCCAGAAATTCAAAAATTG+GGG | + | chr3_3:76868108-76868127 | Msa0474050:CDS | 30.0% | |
| ATTAGGTCCAATATTCCAAA+TGG | - | chr3_3:76868616-76868635 | None:intergenic | 30.0% | |
| AAATCAACTTCTTTGACAAC+GGG | - | chr3_3:76867436-76867455 | None:intergenic | 30.0% | |
| CAAATCAACTTCTTTGACAA+CGG | - | chr3_3:76867437-76867456 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 76867135 | 76868844 | 76867135 | ID=Msa0474050;Name=Msa0474050 |
| chr3_3 | mRNA | 76867135 | 76868844 | 76867135 | ID=Msa0474050-mRNA-1;Parent=Msa0474050;Name=Msa0474050-mRNA-1;_AED=0.07;_eAED=0.07;_QI=190|1|1|1|1|1|3|417|292 |
| chr3_3 | exon | 76867135 | 76867484 | 76867135 | ID=Msa0474050-mRNA-1:exon:20288;Parent=Msa0474050-mRNA-1 |
| chr3_3 | exon | 76867581 | 76867855 | 76867581 | ID=Msa0474050-mRNA-1:exon:20289;Parent=Msa0474050-mRNA-1 |
| chr3_3 | exon | 76867984 | 76868844 | 76867984 | ID=Msa0474050-mRNA-1:exon:20290;Parent=Msa0474050-mRNA-1 |
| chr3_3 | five_prime_UTR | 76867135 | 76867324 | 76867135 | ID=Msa0474050-mRNA-1:five_prime_utr;Parent=Msa0474050-mRNA-1 |
| chr3_3 | CDS | 76867325 | 76867484 | 76867325 | ID=Msa0474050-mRNA-1:cds;Parent=Msa0474050-mRNA-1 |
| chr3_3 | CDS | 76867581 | 76867855 | 76867581 | ID=Msa0474050-mRNA-1:cds;Parent=Msa0474050-mRNA-1 |
| chr3_3 | CDS | 76867984 | 76868427 | 76867984 | ID=Msa0474050-mRNA-1:cds;Parent=Msa0474050-mRNA-1 |
| chr3_3 | three_prime_UTR | 76868428 | 76868844 | 76868428 | ID=Msa0474050-mRNA-1:three_prime_utr;Parent=Msa0474050-mRNA-1 |
| Gene Sequence |
>Msa0474050 ATGCAAGGTGAATTAGAATTACCACCTGGTTTCAGATTTCACCCCACTGATGAAGAATTGGTGAATCATTACTTGTGTCGCAAATGTGCTGGTCAATCTATTTCTGTTCCCGTTGTCAAAGAAGTTGATTTGTATAAGTTTGATCCATGGCAGCTTCCAGAAATGGGTTACCATAGTGAGAAAGAATGGTATTTTTTCTCTCCAAGGGACAGAAAGTATCCTAATGGTTCGCGGCCAAATCGAGCTGCTGGAAGTGGTTATTGGAAAGCTACTGGAGCTGATAAACCAATTGGGAAATTGAAGCCGATGGGGATTAAAAAGGCGTTAGTATTCTATGCCGGTAAAGCCCCCAAAGGAGTTAAAACTAATTGGATTATGCACGAATATCGTCTTGCCAACGTTGATAGATCAGCCGGAAAGAAAAACAACTTGAGGCTTGATGATTGGGTGTTGTGTAGAATTTACAACAAGAAAGGCAAGATTGAGAAATTCAACACTAGTAACACACCAAAGGTTCAAAATTATTATGAACACGAAAAAGTAGAAGAACATGAGATGAAGCCAGAAATTCAAAAATTGGGGAATTACCAATTGTACATGGACACTTCAGATTCAGTTCCAAAGCTGCACACGGACTCTAGCAGCTCCGGTGGACACGTGGTTTCACCGGATGTCACGTGCGACAGAGAGGTGCAGAGTGAACCTAAGTGGAATGATCTTGGGATACAGCTGGATGACGCGTTTGATTTTCAGCTCAATTACTTGGAAAATGCTCTTTCATTTGATATTGACAATGACCCCTTTGGGACCAATCAGTACCAAATGAACCAGCTTTCGCCGTTACAGGACATGTTCATGTACCCACAAAAGCCATTTTGA |
| Protein sequence |
>Msa0474050 MQGELELPPGFRFHPTDEELVNHYLCRKCAGQSISVPVVKEVDLYKFDPWQLPEMGYHSEKEWYFFSPRDRKYPNGSRPNRAAGSGYWKATGADKPIGKLKPMGIKKALVFYAGKAPKGVKTNWIMHEYRLANVDRSAGKKNNLRLDDWVLCRIYNKKGKIEKFNTSNTPKVQNYYEHEKVEEHEMKPEIQKLGNYQLYMDTSDSVPKLHTDSSSSGGHVVSPDVTCDREVQSEPKWNDLGIQLDDAFDFQLNYLENALSFDIDNDPFGTNQYQMNQLSPLQDMFMYPQKPF* |
