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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0623670 | PNX99521.1 | 71.831 | 213 | 59 | 1 | 1 | 212 | 2 | 214 | 1.53e-100 | 316 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0623670 | sp|Q9SY66|FRS11_ARATH | 43.229 | 192 | 98 | 4 | 18 | 208 | 17 | 198 | 1.30e-39 | 147 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Gene ID | Type | Classification |
|---|---|---|
| Msa0623670 | TF | FAR1 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0623520 | Msa0623670 | 0.932971 | 3.816069e-95 | -8.615850e-47 |
| Msa0623670 | Msa0917600 | 0.821030 | 5.012868e-53 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0623670 | MtrunA17_Chr5g0431001 | 63.927 | 219 | 72 | 1 | 1 | 212 | 2 | 220 | 3.68e-90 | 274 |
| Msa0623670 | MtrunA17_Chr1g0198761 | 66.845 | 187 | 61 | 1 | 25 | 210 | 18 | 204 | 9.11e-81 | 256 |
| Msa0623670 | MtrunA17_Chr2g0290391 | 44.172 | 163 | 82 | 2 | 49 | 210 | 47 | 201 | 5.80e-37 | 136 |
| Msa0623670 | MtrunA17_Chr2g0276841 | 43.671 | 158 | 82 | 2 | 52 | 208 | 69 | 220 | 3.37e-36 | 134 |
| Msa0623670 | MtrunA17_Chr2g0294841 | 37.017 | 181 | 106 | 2 | 33 | 210 | 25 | 200 | 5.10e-28 | 111 |
| Msa0623670 | MtrunA17_Chr2g0287651 | 29.240 | 171 | 108 | 4 | 59 | 225 | 81 | 242 | 1.63e-14 | 72.4 |
| Msa0623670 | MtrunA17_Chr1g0203051 | 29.197 | 137 | 87 | 3 | 65 | 200 | 91 | 218 | 8.63e-14 | 70.1 |
| Msa0623670 | MtrunA17_Chr6g0458391 | 31.387 | 137 | 83 | 5 | 46 | 182 | 219 | 344 | 3.83e-13 | 68.2 |
| Msa0623670 | MtrunA17_Chr5g0448761 | 32.075 | 159 | 92 | 4 | 51 | 204 | 58 | 205 | 1.80e-12 | 66.2 |
| Msa0623670 | MtrunA17_Chr1g0171741 | 30.220 | 182 | 106 | 8 | 7 | 183 | 89 | 254 | 6.97e-12 | 63.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0623670 | AT5G28530.5 | 42.077 | 183 | 99 | 2 | 30 | 212 | 32 | 207 | 8.37e-41 | 147 |
| Msa0623670 | AT5G28530.4 | 42.077 | 183 | 99 | 2 | 30 | 212 | 32 | 207 | 9.28e-41 | 147 |
| Msa0623670 | AT1G10240.2 | 43.229 | 192 | 98 | 4 | 18 | 208 | 17 | 198 | 1.32e-40 | 147 |
| Msa0623670 | AT1G10240.1 | 43.229 | 192 | 98 | 4 | 18 | 208 | 17 | 198 | 1.32e-40 | 147 |
| Msa0623670 | AT5G28530.3 | 42.077 | 183 | 99 | 2 | 30 | 212 | 32 | 207 | 1.35e-40 | 147 |
| Msa0623670 | AT5G28530.2 | 42.077 | 183 | 99 | 2 | 30 | 212 | 32 | 207 | 1.35e-40 | 147 |
| Msa0623670 | AT5G28530.1 | 42.077 | 183 | 99 | 2 | 30 | 212 | 32 | 207 | 1.35e-40 | 147 |
| Msa0623670 | AT4G38180.1 | 32.075 | 159 | 91 | 4 | 51 | 204 | 71 | 217 | 1.48e-12 | 67.0 |
Find 24 sgRNAs with CRISPR-Local
Find 37 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TATTATCTTTAAAATTAATT+AGG | 0.112230 | 4_3:-972151 | None:intergenic |
| ACCCATTCGTTCTTTATAAA+AGG | 0.122878 | 4_3:+971787 | Msa0623670:CDS |
| CCATTAATCTTTAATCATAT+TGG | 0.249711 | 4_3:-972176 | None:intergenic |
| TCATCACAATCATGAGTTAT+TGG | 0.289585 | 4_3:+971974 | Msa0623670:CDS |
| ATTATCTTTAAAATTAATTA+GGG | 0.292292 | 4_3:-972150 | None:intergenic |
| CCCATTCGTTCTTTATAAAA+GGG | 0.378145 | 4_3:+971788 | Msa0623670:CDS |
| CCTCATGTCAGTAACATTGA+TGG | 0.379564 | 4_3:+971627 | Msa0623670:CDS |
| CTAAATATTTGCCCTTCAAA+AGG | 0.402295 | 4_3:-971657 | None:intergenic |
| TGGTAGTGATTGGCAATCTA+AGG | 0.404374 | 4_3:+971521 | Msa0623670:CDS |
| AACCAGCTTTCGACAACAAT+AGG | 0.437905 | 4_3:-972061 | None:intergenic |
| ATCCTATTGTTGTCGAAAGC+TGG | 0.455314 | 4_3:+972059 | Msa0623670:CDS |
| AAAATAATGATGGTAGTGAT+TGG | 0.465147 | 4_3:+971511 | Msa0623670:CDS |
| GGGCAAATATTTAGTAATGA+TGG | 0.472481 | 4_3:+971666 | Msa0623670:CDS |
| GTTGGAATGTTGCGATAAGC+AGG | 0.492886 | 4_3:-972020 | None:intergenic |
| TGTCAGTAACATTGATGGGT+TGG | 0.515305 | 4_3:+971632 | Msa0623670:CDS |
| ATACGACTTTGATCAGCAGT+TGG | 0.558928 | 4_3:-972038 | None:intergenic |
| CTCATGTCAGTAACATTGAT+GGG | 0.568274 | 4_3:+971628 | Msa0623670:CDS |
| AGGGAATTTGTTTGTCATCG+TGG | 0.571012 | 4_3:+971807 | Msa0623670:CDS |
| ACAACGCAACATTAACGAAG+TGG | 0.585119 | 4_3:+971842 | Msa0623670:CDS |
| AAATCTTCAAAATGTAATTG+TGG | 0.587616 | 4_3:+971882 | Msa0623670:CDS |
| TAATTGTGGTGCAAAGATGT+TGG | 0.600117 | 4_3:+971896 | Msa0623670:CDS |
| ATGTCTGAAGAAAATAATGA+TGG | 0.610520 | 4_3:+971501 | Msa0623670:CDS |
| GAATTTGTTTGTCATCGTGG+TGG | 0.635704 | 4_3:+971810 | Msa0623670:CDS |
| CCATCAATGTTACTGACATG+AGG | 0.654897 | 4_3:-971627 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAATCTTCAAAATGTAATTG+TGG | + | chr4_3:971882-971901 | Msa0623670:CDS | 20.0% |
| ! | ATGTCTGAAGAAAATAATGA+TGG | + | chr4_3:971501-971520 | Msa0623670:CDS | 25.0% |
| !! | AAAATAATGATGGTAGTGAT+TGG | + | chr4_3:971511-971530 | Msa0623670:CDS | 25.0% |
| !! | TCTTTATTTGCACGAAAAAA+TGG | + | chr4_3:971708-971727 | Msa0623670:CDS | 25.0% |
| ! | TTGGTTGCTATAAAAACAAT+TGG | + | chr4_3:971915-971934 | Msa0623670:CDS | 25.0% |
| !!! | TATAAAAACAATTGGCTTTG+AGG | + | chr4_3:971923-971942 | Msa0623670:CDS | 25.0% |
| ! | GAAAAAAATAGTTACTGTTG+AGG | + | chr4_3:972121-972140 | Msa0623670:CDS | 25.0% |
| CTAAATATTTGCCCTTCAAA+AGG | - | chr4_3:971660-971679 | None:intergenic | 30.0% | |
| GGGCAAATATTTAGTAATGA+TGG | + | chr4_3:971666-971685 | Msa0623670:CDS | 30.0% | |
| !! | GAAAAAATGGATTTTCGATC+AGG | + | chr4_3:971721-971740 | Msa0623670:CDS | 30.0% |
| ACCCATTCGTTCTTTATAAA+AGG | + | chr4_3:971787-971806 | Msa0623670:CDS | 30.0% | |
| ! | CCCTTTTATAAAGAACGAAT+GGG | - | chr4_3:971791-971810 | None:intergenic | 30.0% |
| CCCATTCGTTCTTTATAAAA+GGG | + | chr4_3:971788-971807 | Msa0623670:CDS | 30.0% | |
| ! | TCCCTTTTATAAAGAACGAA+TGG | - | chr4_3:971792-971811 | None:intergenic | 30.0% |
| !! | AATTGGCTTTGAGGAAAAAT+GGG | + | chr4_3:971932-971951 | Msa0623670:CDS | 30.0% |
| TCATCACAATCATGAGTTAT+TGG | + | chr4_3:971974-971993 | Msa0623670:CDS | 30.0% | |
| TGAGTTATTGGATGAAAAAG+AGG | + | chr4_3:971986-972005 | Msa0623670:CDS | 30.0% | |
| ! | TGAGGCAAATTTTCGTTTTG+TGG | - | chr4_3:971612-971631 | None:intergenic | 35.0% |
| CTCATGTCAGTAACATTGAT+GGG | + | chr4_3:971628-971647 | Msa0623670:CDS | 35.0% | |
| TAATTGTGGTGCAAAGATGT+TGG | + | chr4_3:971896-971915 | Msa0623670:CDS | 35.0% | |
| !! | CAATTGGCTTTGAGGAAAAA+TGG | + | chr4_3:971931-971950 | Msa0623670:CDS | 35.0% |
| ! | TGGTAGTGATTGGCAATCTA+AGG | + | chr4_3:971521-971540 | Msa0623670:CDS | 40.0% |
| CCATCAATGTTACTGACATG+AGG | - | chr4_3:971630-971649 | None:intergenic | 40.0% | |
| CCTCATGTCAGTAACATTGA+TGG | + | chr4_3:971627-971646 | Msa0623670:CDS | 40.0% | |
| ! | TGTCAGTAACATTGATGGGT+TGG | + | chr4_3:971632-971651 | Msa0623670:CDS | 40.0% |
| !!! | ATGGGTTGGTTCCTTTTGAA+GGG | + | chr4_3:971646-971665 | Msa0623670:CDS | 40.0% |
| ! | AGGGAATTTGTTTGTCATCG+TGG | + | chr4_3:971807-971826 | Msa0623670:CDS | 40.0% |
| ! | GAATTTGTTTGTCATCGTGG+TGG | + | chr4_3:971810-971829 | Msa0623670:CDS | 40.0% |
| ACAACGCAACATTAACGAAG+TGG | + | chr4_3:971842-971861 | Msa0623670:CDS | 40.0% | |
| ATACGACTTTGATCAGCAGT+TGG | - | chr4_3:972041-972060 | None:intergenic | 40.0% | |
| ATCCTATTGTTGTCGAAAGC+TGG | + | chr4_3:972059-972078 | Msa0623670:CDS | 40.0% | |
| AACCAGCTTTCGACAACAAT+AGG | - | chr4_3:972064-972083 | None:intergenic | 40.0% | |
| !!! | GATGGGTTGGTTCCTTTTGA+AGG | + | chr4_3:971645-971664 | Msa0623670:CDS | 45.0% |
| !! | TGGCTTTGAGGAAAAATGGG+TGG | + | chr4_3:971935-971954 | Msa0623670:CDS | 45.0% |
| GTTGGAATGTTGCGATAAGC+AGG | - | chr4_3:972023-972042 | None:intergenic | 45.0% | |
| !!! | ATTATCTTTAAAATTAATTA+GGG | - | chr4_3:972153-972172 | None:intergenic | 5.0% |
| !!! | TATTATCTTTAAAATTAATT+AGG | - | chr4_3:972154-972173 | None:intergenic | 5.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 971501 | 972184 | 971501 | ID=Msa0623670;Name=Msa0623670 |
| chr4_3 | mRNA | 971501 | 972184 | 971501 | ID=Msa0623670-mRNA-1;Parent=Msa0623670;Name=Msa0623670-mRNA-1;_AED=0.09;_eAED=0.09;_QI=0|-1|0|1|-1|1|1|0|227 |
| chr4_3 | exon | 971501 | 972184 | 971501 | ID=Msa0623670-mRNA-1:exon:279;Parent=Msa0623670-mRNA-1 |
| chr4_3 | CDS | 971501 | 972184 | 971501 | ID=Msa0623670-mRNA-1:cds;Parent=Msa0623670-mRNA-1 |
| Gene Sequence |
| Protein sequence |
