Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene31001.t1 | RHN69890.1 | 96.2 | 106 | 4 | 0 | 1 | 106 | 262 | 367 | 1.00E-48 | 202.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene31001.t1 | F4J8V5 | 48.3 | 89 | 38 | 3 | 14 | 101 | 526 | 607 | 2.7e-10 | 66.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene31001.t1 | G7JAX9 | 96.2 | 106 | 4 | 0 | 1 | 106 | 524 | 629 | 7.2e-49 | 202.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049318 | MS.gene31001 | 0.81466 | 1.38E-51 | -1.69E-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene31001.t1 | MTR_3g095570 | 96.226 | 106 | 4 | 0 | 1 | 106 | 524 | 629 | 9.91e-67 | 212 |
| MS.gene31001.t1 | MTR_8g093050 | 48.507 | 134 | 32 | 4 | 1 | 105 | 428 | 553 | 1.05e-26 | 103 |
| MS.gene31001.t1 | MTR_8g093050 | 48.462 | 130 | 31 | 3 | 1 | 101 | 454 | 576 | 5.40e-26 | 101 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene31001.t1 | AT3G18770 | 48.315 | 89 | 38 | 3 | 14 | 101 | 526 | 607 | 4.81e-14 | 67.4 |
Find 22 sgRNAs with CRISPR-Local
Find 37 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCAGTGAGCACAATGTCTTA+TGG | 0.355804 | 3.3:-79224225 | MS.gene31001:CDS |
| CAGTGAGCACAATGTCTTAT+GGG | 0.398369 | 3.3:-79224224 | MS.gene31001:CDS |
| GCACCTTGAGACTTTCTGAT+TGG | 0.405605 | 3.3:+79224399 | None:intergenic |
| CACTGGTGAAAACTTGTCTC+AGG | 0.410890 | 3.3:-79224316 | MS.gene31001:CDS |
| GCACAATGTCTTATGGGAAT+AGG | 0.432338 | 3.3:-79224218 | MS.gene31001:CDS |
| ACATTGTGCTCACTGGTGTT+AGG | 0.442174 | 3.3:+79224232 | None:intergenic |
| GTGTTAGGCTCTCTAGAATC+TGG | 0.448222 | 3.3:+79224247 | None:intergenic |
| GAAAACAACAAGTGATGCAT+TGG | 0.476214 | 3.3:-79224196 | MS.gene31001:CDS |
| GCAAATGTGAAGTTGGTGTT+TGG | 0.487229 | 3.3:-79223928 | MS.gene31001:CDS |
| CCATAAGACATTGTGCTCAC+TGG | 0.510597 | 3.3:+79224225 | None:intergenic |
| AGGCTCTCTAGAATCTGGTT+CGG | 0.521290 | 3.3:+79224252 | None:intergenic |
| ATGACTCAACTTCTTGAAGC+TGG | 0.533846 | 3.3:-79224432 | MS.gene31001:CDS |
| CTGCATCAAGACTTCTCCAC+TGG | 0.558770 | 3.3:-79224333 | MS.gene31001:CDS |
| GCAGCATGCAAATGTGAAGT+TGG | 0.583174 | 3.3:-79223935 | MS.gene31001:CDS |
| TTATTACTTATGCCACGTGA+TGG | 0.594204 | 3.3:-79224141 | MS.gene31001:CDS |
| AAGTCTCAAGGTGCCGCTGT+TGG | 0.594638 | 3.3:-79224390 | MS.gene31001:CDS |
| GTGGAGAAGTCTTGATGCAG+AGG | 0.607632 | 3.3:+79224336 | None:intergenic |
| ACTGGTGAAAACTTGTCTCA+GGG | 0.609755 | 3.3:-79224315 | MS.gene31001:CDS |
| TTTCCAATCAGAAAGTCTCA+AGG | 0.615481 | 3.3:-79224402 | MS.gene31001:CDS |
| TGTCGCTTACTGCCATCACG+TGG | 0.644221 | 3.3:+79224129 | None:intergenic |
| CTCAACTTCTTGAAGCTGGT+AGG | 0.648198 | 3.3:-79224428 | MS.gene31001:CDS |
| ATGCACAAGTGCACCAACAG+CGG | 0.706901 | 3.3:+79224377 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GAAATTTTGTCAAACTTACT+AGG | + | chr3.3:79224278-79224297 | None:intergenic | 25.0% |
| CAAAGAACTTTGTGAATGTT+TGG | + | chr3.3:79224391-79224410 | None:intergenic | 30.0% | |
| GACAAAATTTCAGTGACATT+GGG | - | chr3.3:79224287-79224306 | MS.gene31001:CDS | 30.0% | |
| TGACAAAATTTCAGTGACAT+TGG | - | chr3.3:79224286-79224305 | MS.gene31001:CDS | 30.0% | |
| !! | TTATTGCTCTTCAAGTTTTC+AGG | + | chr3.3:79224075-79224094 | None:intergenic | 30.0% |
| GAAAACAACAAGTGATGCAT+TGG | - | chr3.3:79224161-79224180 | MS.gene31001:CDS | 35.0% | |
| TTATTACTTATGCCACGTGA+TGG | - | chr3.3:79224216-79224235 | MS.gene31001:CDS | 35.0% | |
| TTTCCAATCAGAAAGTCTCA+AGG | - | chr3.3:79223955-79223974 | MS.gene31001:intron | 35.0% | |
| ! | TTTGTTGTATCTCCAAAGTG+TGG | - | chr3.3:79224312-79224331 | MS.gene31001:CDS | 35.0% |
| AAAGTTCTTTGCGTTTGCAG+CGG | - | chr3.3:79224400-79224419 | MS.gene31001:CDS | 40.0% | |
| ACTGGTGAAAACTTGTCTCA+GGG | - | chr3.3:79224042-79224061 | MS.gene31001:intron | 40.0% | |
| ATGACTCAACTTCTTGAAGC+TGG | - | chr3.3:79223925-79223944 | MS.gene31001:CDS | 40.0% | |
| CAGTGAGCACAATGTCTTAT+GGG | - | chr3.3:79224133-79224152 | MS.gene31001:intron | 40.0% | |
| GCACAATGTCTTATGGGAAT+AGG | - | chr3.3:79224139-79224158 | MS.gene31001:CDS | 40.0% | |
| TGTGGCATTAGCCAAAATCA+CGG | - | chr3.3:79224330-79224349 | MS.gene31001:CDS | 40.0% | |
| !! | GCAAATGTGAAGTTGGTGTT+TGG | - | chr3.3:79224429-79224448 | MS.gene31001:CDS | 40.0% |
| !! | TGCTCTTCAAGTTTTCAGGA+CGG | + | chr3.3:79224071-79224090 | None:intergenic | 40.0% |
| !! | TTTTGGCTAATGCCACACTT+TGG | + | chr3.3:79224327-79224346 | None:intergenic | 40.0% |
| ACATTGTGCTCACTGGTGTT+AGG | + | chr3.3:79224128-79224147 | None:intergenic | 45.0% | |
| CACTGGTGAAAACTTGTCTC+AGG | - | chr3.3:79224041-79224060 | MS.gene31001:intron | 45.0% | |
| CCAGTGAGCACAATGTCTTA+TGG | - | chr3.3:79224132-79224151 | MS.gene31001:intron | 45.0% | |
| CCATAAGACATTGTGCTCAC+TGG | + | chr3.3:79224135-79224154 | None:intergenic | 45.0% | |
| CTCAACTTCTTGAAGCTGGT+AGG | - | chr3.3:79223929-79223948 | MS.gene31001:CDS | 45.0% | |
| GCACCTTGAGACTTTCTGAT+TGG | + | chr3.3:79223961-79223980 | None:intergenic | 45.0% | |
| GCAGCATGCAAATGTGAAGT+TGG | - | chr3.3:79224422-79224441 | MS.gene31001:CDS | 45.0% | |
| ! | CTGAGACAAGTTTTCACCAG+TGG | + | chr3.3:79224043-79224062 | None:intergenic | 45.0% |
| !! | AGGCTCTCTAGAATCTGGTT+CGG | + | chr3.3:79224108-79224127 | None:intergenic | 45.0% |
| !! | GCTCTTCAAGTTTTCAGGAC+GGG | + | chr3.3:79224070-79224089 | None:intergenic | 45.0% |
| !! | GTGTTAGGCTCTCTAGAATC+TGG | + | chr3.3:79224113-79224132 | None:intergenic | 45.0% |
| ACGGCGGCACACTATTATTC+TGG | - | chr3.3:79224349-79224368 | MS.gene31001:CDS | 50.0% | |
| ATGCACAAGTGCACCAACAG+CGG | + | chr3.3:79223983-79224002 | None:intergenic | 50.0% | |
| CTGCATCAAGACTTCTCCAC+TGG | - | chr3.3:79224024-79224043 | MS.gene31001:intron | 50.0% | |
| GGCATTAGCCAAAATCACGG+CGG | - | chr3.3:79224333-79224352 | MS.gene31001:CDS | 50.0% | |
| GTGGAGAAGTCTTGATGCAG+AGG | + | chr3.3:79224024-79224043 | None:intergenic | 50.0% | |
| ! | ATAGTGTGCCGCCGTGATTT+TGG | + | chr3.3:79224344-79224363 | None:intergenic | 50.0% |
| ! | TGTCGCTTACTGCCATCACG+TGG | + | chr3.3:79224231-79224250 | None:intergenic | 55.0% |
| !! | AAGTCTCAAGGTGCCGCTGT+TGG | - | chr3.3:79223967-79223986 | MS.gene31001:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.3 | gene | 79223925 | 79224454 | 79223925 | ID=MS.gene31001 |
| chr3.3 | mRNA | 79223925 | 79224454 | 79223925 | ID=MS.gene31001.t1;Parent=MS.gene31001 |
| chr3.3 | exon | 79224139 | 79224454 | 79224139 | ID=MS.gene31001.t1.exon1;Parent=MS.gene31001.t1 |
| chr3.3 | CDS | 79224139 | 79224454 | 79224139 | ID=cds.MS.gene31001.t1;Parent=MS.gene31001.t1 |
| chr3.3 | exon | 79223925 | 79223959 | 79223925 | ID=MS.gene31001.t1.exon2;Parent=MS.gene31001.t1 |
| chr3.3 | CDS | 79223925 | 79223959 | 79223925 | ID=cds.MS.gene31001.t1;Parent=MS.gene31001.t1 |
| Gene Sequence |
| Protein sequence |
