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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1138460 | PNX60301.1 | 54.962 | 131 | 57 | 2 | 1 | 130 | 1 | 130 | 3.37e-29 | 113 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1138460 | A0A2K3K1X4 | 54.962 | 131 | 57 | 2 | 1 | 130 | 1 | 130 | 1.61e-29 | 113 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0719080 | Msa1138460 | 0.837101 | 6.339994e-57 | -8.615850e-47 |
| Msa0719090 | Msa1138460 | 0.838768 | 2.362957e-57 | -8.615850e-47 |
| Msa0719390 | Msa1138460 | 0.846111 | 2.665890e-59 | -8.615850e-47 |
| Msa0789640 | Msa1138460 | 0.842915 | 1.931230e-58 | -8.615850e-47 |
| Msa1077610 | Msa1138460 | 0.806283 | 8.868499e-50 | -8.615850e-47 |
| Msa1138460 | Msa1305900 | 0.843669 | 1.215779e-58 | -8.615850e-47 |
| Msa1138460 | Msa1394840 | 0.802925 | 4.451780e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1138460 | MtrunA17_Chr7g0219661 | 62.857 | 70 | 25 | 1 | 1 | 69 | 1 | 70 | 9.11e-22 | 84.0 |
| Msa1138460 | MtrunA17_Chr7g0219701 | 43.511 | 131 | 54 | 6 | 1 | 130 | 1 | 112 | 1.03e-20 | 80.9 |
| Msa1138460 | MtrunA17_Chr7g0219801 | 39.370 | 127 | 59 | 9 | 1 | 121 | 1 | 115 | 6.95e-11 | 55.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 30 sgRNAs with CRISPR-Local
Find 34 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTTTAATGTTGGGGTTGTTT+TGG | 0.175960 | 7_4:-7943330 | None:intergenic |
| CTTCATTATCATCAACAATT+AGG | 0.296966 | 7_4:-7943241 | None:intergenic |
| GCTTCACATGTCCTCGTGTT+TGG | 0.341264 | 7_4:-7943434 | None:intergenic |
| GCACTAAGCGTATGTCCTTC+TGG | 0.349860 | 7_4:+7943356 | Msa1138460:CDS |
| TTAGTGCAGGGTTTAATGTT+GGG | 0.357777 | 7_4:-7943340 | None:intergenic |
| AATACTAACCAAGGAACTAA+TGG | 0.370481 | 7_4:+7943200 | Msa1138460:CDS |
| CAATGCATCCATTAGTTCCT+TGG | 0.390474 | 7_4:-7943208 | None:intergenic |
| CTTAGTGCAGGGTTTAATGT+TGG | 0.412591 | 7_4:-7943341 | None:intergenic |
| TGATTTGTTCATGGATCAAC+TGG | 0.420475 | 7_4:+7943265 | Msa1138460:CDS |
| TAATGAAGGTGATTTGTTCA+TGG | 0.459068 | 7_4:+7943256 | Msa1138460:CDS |
| ATTGATCTTAACAGCGCTAC+TGG | 0.463582 | 7_4:+7943127 | Msa1138460:CDS |
| CAAGGAACTAATGGATGCAT+TGG | 0.478361 | 7_4:+7943209 | Msa1138460:CDS |
| TTCATGGATCAACTGGATGC+AGG | 0.486313 | 7_4:+7943272 | Msa1138460:CDS |
| ACGTTATACTGACCACCGTT+TGG | 0.503130 | 7_4:-7943407 | None:intergenic |
| TAGTGCAGGGTTTAATGTTG+GGG | 0.511163 | 7_4:-7943339 | None:intergenic |
| TCACATGTCCTCGTGTTTGG+AGG | 0.512530 | 7_4:-7943431 | None:intergenic |
| GAAGGACATACGCTTAGTGC+AGG | 0.526238 | 7_4:-7943353 | None:intergenic |
| AGCTCCAACAACACAATGAA+AGG | 0.541869 | 7_4:+7943092 | None:intergenic |
| TCTGTGATGCTGCTGAGATA+CGG | 0.549808 | 7_4:-7943175 | None:intergenic |
| GGATCAAGCAGAGTGCTCGC+TGG | 0.555198 | 7_4:+7943293 | Msa1138460:CDS |
| GATAGTTTGCCATGTCGACT+CGG | 0.592829 | 7_4:-7943463 | None:intergenic |
| GCGTATCTGTGTTCACCAGA+AGG | 0.594498 | 7_4:-7943371 | None:intergenic |
| AGCAATGAACCGAGTCGACA+TGG | 0.599914 | 7_4:+7943454 | Msa1138460:CDS |
| GCTAGTTCATGTCTTCCAAA+CGG | 0.604098 | 7_4:+7943392 | Msa1138460:CDS |
| AAGGACATACGCTTAGTGCA+GGG | 0.615012 | 7_4:-7943352 | None:intergenic |
| CTAATTGTTGATGATAATGA+AGG | 0.622868 | 7_4:+7943242 | Msa1138460:CDS |
| TCACAGAACAATACTAACCA+AGG | 0.639191 | 7_4:+7943191 | Msa1138460:CDS |
| GCTGCTGAGATACGGTGATG+TGG | 0.659351 | 7_4:-7943167 | None:intergenic |
| AGTTCATGTCTTCCAAACGG+TGG | 0.709184 | 7_4:+7943395 | Msa1138460:CDS |
| ATAACGTGCCTCCAAACACG+AGG | 0.719146 | 7_4:+7943423 | Msa1138460:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | CTTCATTATCATCAACAATT+AGG | - | chr7_4:7943244-7943263 | None:intergenic | 25.0% |
| !!! | CTAATTGTTGATGATAATGA+AGG | + | chr7_4:7943242-7943261 | Msa1138460:CDS | 25.0% |
| AATACTAACCAAGGAACTAA+TGG | + | chr7_4:7943200-7943219 | Msa1138460:CDS | 30.0% | |
| !! | TAATGAAGGTGATTTGTTCA+TGG | + | chr7_4:7943256-7943275 | Msa1138460:CDS | 30.0% |
| !! | TTTAATGTTGGGGTTGTTTT+GGG | - | chr7_4:7943332-7943351 | None:intergenic | 30.0% |
| TCACAGAACAATACTAACCA+AGG | + | chr7_4:7943191-7943210 | Msa1138460:CDS | 35.0% | |
| !! | TGATTTGTTCATGGATCAAC+TGG | + | chr7_4:7943265-7943284 | Msa1138460:CDS | 35.0% |
| ! | GTTTAATGTTGGGGTTGTTT+TGG | - | chr7_4:7943333-7943352 | None:intergenic | 35.0% |
| TTAGTGCAGGGTTTAATGTT+GGG | - | chr7_4:7943343-7943362 | None:intergenic | 35.0% | |
| ATTGATCTTAACAGCGCTAC+TGG | + | chr7_4:7943127-7943146 | Msa1138460:CDS | 40.0% | |
| CAATGCATCCATTAGTTCCT+TGG | - | chr7_4:7943211-7943230 | None:intergenic | 40.0% | |
| ! | CAAGGAACTAATGGATGCAT+TGG | + | chr7_4:7943209-7943228 | Msa1138460:CDS | 40.0% |
| TAGTGCAGGGTTTAATGTTG+GGG | - | chr7_4:7943342-7943361 | None:intergenic | 40.0% | |
| CTTAGTGCAGGGTTTAATGT+TGG | - | chr7_4:7943344-7943363 | None:intergenic | 40.0% | |
| GCTAGTTCATGTCTTCCAAA+CGG | + | chr7_4:7943392-7943411 | Msa1138460:CDS | 40.0% | |
| TCTGTGATGCTGCTGAGATA+CGG | - | chr7_4:7943178-7943197 | None:intergenic | 45.0% | |
| TTCATGGATCAACTGGATGC+AGG | + | chr7_4:7943272-7943291 | Msa1138460:CDS | 45.0% | |
| !!! | TTGGGGTTGTTTTGGGATCT+GGG | - | chr7_4:7943325-7943344 | None:intergenic | 45.0% |
| AAGGACATACGCTTAGTGCA+GGG | - | chr7_4:7943355-7943374 | None:intergenic | 45.0% | |
| AGTTCATGTCTTCCAAACGG+TGG | + | chr7_4:7943395-7943414 | Msa1138460:CDS | 45.0% | |
| ACGTTATACTGACCACCGTT+TGG | - | chr7_4:7943410-7943429 | None:intergenic | 45.0% | |
| ! | GATAGTTTGCCATGTCGACT+CGG | - | chr7_4:7943466-7943485 | None:intergenic | 45.0% |
| !!! | TGGGGTTGTTTTGGGATCTG+GGG | - | chr7_4:7943324-7943343 | None:intergenic | 50.0% |
| !!! | GTTGGGGTTGTTTTGGGATC+TGG | - | chr7_4:7943326-7943345 | None:intergenic | 50.0% |
| GAAGGACATACGCTTAGTGC+AGG | - | chr7_4:7943356-7943375 | None:intergenic | 50.0% | |
| GCACTAAGCGTATGTCCTTC+TGG | + | chr7_4:7943356-7943375 | Msa1138460:CDS | 50.0% | |
| GCGTATCTGTGTTCACCAGA+AGG | - | chr7_4:7943374-7943393 | None:intergenic | 50.0% | |
| ATAACGTGCCTCCAAACACG+AGG | + | chr7_4:7943423-7943442 | Msa1138460:CDS | 50.0% | |
| TCACATGTCCTCGTGTTTGG+AGG | - | chr7_4:7943434-7943453 | None:intergenic | 50.0% | |
| GCTTCACATGTCCTCGTGTT+TGG | - | chr7_4:7943437-7943456 | None:intergenic | 50.0% | |
| AGCAATGAACCGAGTCGACA+TGG | + | chr7_4:7943454-7943473 | Msa1138460:CDS | 50.0% | |
| GCTGCTGAGATACGGTGATG+TGG | - | chr7_4:7943170-7943189 | None:intergenic | 55.0% | |
| !!! | GGGGTTGTTTTGGGATCTGG+GGG | - | chr7_4:7943323-7943342 | None:intergenic | 55.0% |
| ! | GGATCAAGCAGAGTGCTCGC+TGG | + | chr7_4:7943293-7943312 | Msa1138460:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_4 | gene | 7943107 | 7943499 | 7943107 | ID=Msa1138460;Name=Msa1138460 |
| chr7_4 | mRNA | 7943107 | 7943499 | 7943107 | ID=Msa1138460-mRNA-1;Parent=Msa1138460;Name=Msa1138460-mRNA-1;_AED=0.24;_eAED=0.24;_QI=0|-1|0|1|-1|1|1|0|130 |
| chr7_4 | exon | 7943107 | 7943499 | 7943107 | ID=Msa1138460-mRNA-1:exon:2169;Parent=Msa1138460-mRNA-1 |
| chr7_4 | CDS | 7943107 | 7943499 | 7943107 | ID=Msa1138460-mRNA-1:cds;Parent=Msa1138460-mRNA-1 |
| Gene Sequence |
| Protein sequence |
