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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0623520 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0623520 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0623520 | A0A2K3N8Z5 | 71.831 | 213 | 59 | 1 | 1 | 212 | 2 | 214 | 7.31e-101 | 316 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0623520 | 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 |
| Msa0623520 | Msa0917600 | 0.800537 | 1.376056e-48 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0623520 | MtrunA17_Chr5g0431001 | 63.927 | 219 | 72 | 1 | 1 | 212 | 2 | 220 | 3.68e-90 | 274 |
| Msa0623520 | MtrunA17_Chr1g0198761 | 66.845 | 187 | 61 | 1 | 25 | 210 | 18 | 204 | 9.11e-81 | 256 |
| Msa0623520 | MtrunA17_Chr2g0290391 | 44.172 | 163 | 82 | 2 | 49 | 210 | 47 | 201 | 5.80e-37 | 136 |
| Msa0623520 | MtrunA17_Chr2g0276841 | 43.671 | 158 | 82 | 2 | 52 | 208 | 69 | 220 | 3.37e-36 | 134 |
| Msa0623520 | MtrunA17_Chr2g0294841 | 37.017 | 181 | 106 | 2 | 33 | 210 | 25 | 200 | 5.10e-28 | 111 |
| Msa0623520 | MtrunA17_Chr2g0287651 | 29.240 | 171 | 108 | 4 | 59 | 225 | 81 | 242 | 1.63e-14 | 72.4 |
| Msa0623520 | MtrunA17_Chr1g0203051 | 29.197 | 137 | 87 | 3 | 65 | 200 | 91 | 218 | 8.63e-14 | 70.1 |
| Msa0623520 | MtrunA17_Chr6g0458391 | 31.387 | 137 | 83 | 5 | 46 | 182 | 219 | 344 | 3.83e-13 | 68.2 |
| Msa0623520 | MtrunA17_Chr5g0448761 | 32.075 | 159 | 92 | 4 | 51 | 204 | 58 | 205 | 1.80e-12 | 66.2 |
| Msa0623520 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0623520 | AT5G28530.5 | 42.077 | 183 | 99 | 2 | 30 | 212 | 32 | 207 | 8.37e-41 | 147 |
| Msa0623520 | AT5G28530.4 | 42.077 | 183 | 99 | 2 | 30 | 212 | 32 | 207 | 9.28e-41 | 147 |
| Msa0623520 | AT1G10240.2 | 43.229 | 192 | 98 | 4 | 18 | 208 | 17 | 198 | 1.32e-40 | 147 |
| Msa0623520 | AT1G10240.1 | 43.229 | 192 | 98 | 4 | 18 | 208 | 17 | 198 | 1.32e-40 | 147 |
| Msa0623520 | AT5G28530.3 | 42.077 | 183 | 99 | 2 | 30 | 212 | 32 | 207 | 1.35e-40 | 147 |
| Msa0623520 | AT5G28530.2 | 42.077 | 183 | 99 | 2 | 30 | 212 | 32 | 207 | 1.35e-40 | 147 |
| Msa0623520 | AT5G28530.1 | 42.077 | 183 | 99 | 2 | 30 | 212 | 32 | 207 | 1.35e-40 | 147 |
| Msa0623520 | 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:+910346 | None:intergenic |
| ACCCATTCGTTCTTTATAAA+AGG | 0.122878 | 4_3:-910710 | Msa0623520:CDS |
| CATTAATTCTTTAATCATAT+TGG | 0.250614 | 4_3:+910321 | None:intergenic |
| TCATCACAATCATGAGTTAT+TGG | 0.289585 | 4_3:-910523 | Msa0623520:CDS |
| ATTATCTTTAAAATTAATTA+GGG | 0.292292 | 4_3:+910347 | None:intergenic |
| CCCATTCGTTCTTTATAAAA+GGG | 0.378145 | 4_3:-910709 | Msa0623520:CDS |
| CCTCATGTCAGTAACATTGA+TGG | 0.379564 | 4_3:-910870 | Msa0623520:CDS |
| CTAAATATTTGCCCTTCAAA+AGG | 0.402295 | 4_3:+910840 | None:intergenic |
| TGGTAGTGATTGGCAATCTA+AGG | 0.404374 | 4_3:-910976 | Msa0623520:CDS |
| AACCAGCTTTCGACAACAAT+AGG | 0.437905 | 4_3:+910436 | None:intergenic |
| ATCCTATTGTTGTCGAAAGC+TGG | 0.455314 | 4_3:-910438 | Msa0623520:CDS |
| AAAATAATGATGGTAGTGAT+TGG | 0.465147 | 4_3:-910986 | Msa0623520:CDS |
| GGGCAAATATTTAGTAATGA+TGG | 0.472481 | 4_3:-910831 | Msa0623520:CDS |
| GTTGGAATGTTGCGATAAGC+AGG | 0.492886 | 4_3:+910477 | None:intergenic |
| TGTCAGTAACATTGATGGGT+TGG | 0.515305 | 4_3:-910865 | Msa0623520:CDS |
| ATACGACTTTGATCAGCAGT+TGG | 0.558928 | 4_3:+910459 | None:intergenic |
| CTCATGTCAGTAACATTGAT+GGG | 0.568274 | 4_3:-910869 | Msa0623520:CDS |
| AGGGAATTTGTTTGTCATCG+TGG | 0.571012 | 4_3:-910690 | Msa0623520:CDS |
| ACAACGCAACATTAACGAAG+TGG | 0.585119 | 4_3:-910655 | Msa0623520:CDS |
| AAATCTTCAAAATGTAATTG+TGG | 0.587616 | 4_3:-910615 | Msa0623520:CDS |
| TAATTGTGGTGCAAAGATGT+TGG | 0.600117 | 4_3:-910601 | Msa0623520:CDS |
| ATGTCTGAAGAAAATAATGA+TGG | 0.610520 | 4_3:-910996 | Msa0623520:CDS |
| GAATTTGTTTGTCATCGTGG+TGG | 0.635704 | 4_3:-910687 | Msa0623520:CDS |
| CCATCAATGTTACTGACATG+AGG | 0.654897 | 4_3:+910870 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAATCTTCAAAATGTAATTG+TGG | - | chr4_3:910716-910735 | Msa0623520:CDS | 20.0% |
| ! | ATGTCTGAAGAAAATAATGA+TGG | - | chr4_3:910335-910354 | Msa0623520:CDS | 25.0% |
| !! | AAAATAATGATGGTAGTGAT+TGG | - | chr4_3:910345-910364 | Msa0623520:CDS | 25.0% |
| !! | TCTTTATTTGCACGAAAAAA+TGG | - | chr4_3:910542-910561 | Msa0623520:CDS | 25.0% |
| ! | TTGGTTGCTATAAAAACAAT+TGG | - | chr4_3:910749-910768 | Msa0623520:CDS | 25.0% |
| !!! | TATAAAAACAATTGGCTTTG+AGG | - | chr4_3:910757-910776 | Msa0623520:CDS | 25.0% |
| ! | GAAAAAAATAGTTACTGTTG+AGG | - | chr4_3:910955-910974 | Msa0623520:CDS | 25.0% |
| CTAAATATTTGCCCTTCAAA+AGG | + | chr4_3:910494-910513 | None:intergenic | 30.0% | |
| GGGCAAATATTTAGTAATGA+TGG | - | chr4_3:910500-910519 | Msa0623520:CDS | 30.0% | |
| !! | GAAAAAATGGATTTTCGATC+AGG | - | chr4_3:910555-910574 | Msa0623520:CDS | 30.0% |
| ACCCATTCGTTCTTTATAAA+AGG | - | chr4_3:910621-910640 | Msa0623520:CDS | 30.0% | |
| ! | CCCTTTTATAAAGAACGAAT+GGG | + | chr4_3:910625-910644 | None:intergenic | 30.0% |
| CCCATTCGTTCTTTATAAAA+GGG | - | chr4_3:910622-910641 | Msa0623520:CDS | 30.0% | |
| ! | TCCCTTTTATAAAGAACGAA+TGG | + | chr4_3:910626-910645 | None:intergenic | 30.0% |
| !! | AATTGGCTTTGAGGAAAAAT+GGG | - | chr4_3:910766-910785 | Msa0623520:CDS | 30.0% |
| TCATCACAATCATGAGTTAT+TGG | - | chr4_3:910808-910827 | Msa0623520:CDS | 30.0% | |
| TGAGTTATTGGATGAAAAAG+AGG | - | chr4_3:910820-910839 | Msa0623520:CDS | 30.0% | |
| ! | TGAGGCAAATTTTCGTTTTG+TGG | + | chr4_3:910446-910465 | None:intergenic | 35.0% |
| CTCATGTCAGTAACATTGAT+GGG | - | chr4_3:910462-910481 | Msa0623520:CDS | 35.0% | |
| TAATTGTGGTGCAAAGATGT+TGG | - | chr4_3:910730-910749 | Msa0623520:CDS | 35.0% | |
| !! | CAATTGGCTTTGAGGAAAAA+TGG | - | chr4_3:910765-910784 | Msa0623520:CDS | 35.0% |
| ! | TGGTAGTGATTGGCAATCTA+AGG | - | chr4_3:910355-910374 | Msa0623520:CDS | 40.0% |
| CCATCAATGTTACTGACATG+AGG | + | chr4_3:910464-910483 | None:intergenic | 40.0% | |
| CCTCATGTCAGTAACATTGA+TGG | - | chr4_3:910461-910480 | Msa0623520:CDS | 40.0% | |
| ! | TGTCAGTAACATTGATGGGT+TGG | - | chr4_3:910466-910485 | Msa0623520:CDS | 40.0% |
| !!! | ATGGGTTGGTTCCTTTTGAA+GGG | - | chr4_3:910480-910499 | Msa0623520:CDS | 40.0% |
| ! | AGGGAATTTGTTTGTCATCG+TGG | - | chr4_3:910641-910660 | Msa0623520:CDS | 40.0% |
| ! | GAATTTGTTTGTCATCGTGG+TGG | - | chr4_3:910644-910663 | Msa0623520:CDS | 40.0% |
| ACAACGCAACATTAACGAAG+TGG | - | chr4_3:910676-910695 | Msa0623520:CDS | 40.0% | |
| ATACGACTTTGATCAGCAGT+TGG | + | chr4_3:910875-910894 | None:intergenic | 40.0% | |
| ATCCTATTGTTGTCGAAAGC+TGG | - | chr4_3:910893-910912 | Msa0623520:CDS | 40.0% | |
| AACCAGCTTTCGACAACAAT+AGG | + | chr4_3:910898-910917 | None:intergenic | 40.0% | |
| !!! | GATGGGTTGGTTCCTTTTGA+AGG | - | chr4_3:910479-910498 | Msa0623520:CDS | 45.0% |
| !! | TGGCTTTGAGGAAAAATGGG+TGG | - | chr4_3:910769-910788 | Msa0623520:CDS | 45.0% |
| GTTGGAATGTTGCGATAAGC+AGG | + | chr4_3:910857-910876 | None:intergenic | 45.0% | |
| !!! | ATTATCTTTAAAATTAATTA+GGG | + | chr4_3:910987-911006 | None:intergenic | 5.0% |
| !!! | TATTATCTTTAAAATTAATT+AGG | + | chr4_3:910988-911007 | None:intergenic | 5.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 910335 | 911018 | 910335 | ID=Msa0623520;Name=Msa0623520 |
| chr4_3 | mRNA | 910335 | 911018 | 910335 | ID=Msa0623520-mRNA-1;Parent=Msa0623520;Name=Msa0623520-mRNA-1;_AED=0.09;_eAED=0.09;_QI=0|-1|0|1|-1|1|1|0|227 |
| chr4_3 | exon | 910335 | 911018 | 910335 | ID=Msa0623520-mRNA-1:exon:296;Parent=Msa0623520-mRNA-1 |
| chr4_3 | CDS | 910335 | 911018 | 910335 | ID=Msa0623520-mRNA-1:cds;Parent=Msa0623520-mRNA-1 |
| Gene Sequence |
| Protein sequence |
