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.gene29708.t1 | XP_003616732.1 | 99.3 | 134 | 1 | 0 | 1 | 134 | 1 | 134 | 1.10E-72 | 282.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene29708.t1 | Q39096 | 35.9 | 156 | 66 | 6 | 12 | 134 | 9 | 163 | 2.5e-12 | 73.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene29708.t1 | G7K7B0 | 99.3 | 134 | 1 | 0 | 1 | 134 | 1 | 134 | 8.2e-73 | 282.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene053562 | MS.gene29708 | 0.809582 | 1.76E-50 | -1.69E-46 |
| MS.gene053633 | MS.gene29708 | -0.801411 | 9.12E-49 | -1.69E-46 |
| MS.gene057173 | MS.gene29708 | 0.832262 | 1.05E-55 | -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.gene29708.t1 | MTR_5g083690 | 99.254 | 134 | 1 | 0 | 1 | 134 | 1 | 134 | 7.34e-98 | 277 |
| MS.gene29708.t1 | MTR_3g023110 | 32.544 | 169 | 76 | 3 | 4 | 134 | 1 | 169 | 6.97e-21 | 83.2 |
| MS.gene29708.t1 | MTR_7g090630 | 44.595 | 74 | 37 | 2 | 1 | 73 | 1 | 71 | 1.06e-15 | 68.2 |
| MS.gene29708.t1 | MTR_7g090630 | 44.595 | 74 | 37 | 2 | 1 | 73 | 1 | 71 | 1.18e-15 | 68.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene29708.t1 | AT2G41430 | 31.737 | 167 | 77 | 5 | 1 | 134 | 1 | 163 | 2.90e-15 | 68.6 |
| MS.gene29708.t1 | AT2G41430 | 31.737 | 167 | 77 | 5 | 1 | 134 | 1 | 163 | 2.90e-15 | 68.6 |
| MS.gene29708.t1 | AT2G41430 | 31.737 | 167 | 77 | 5 | 1 | 134 | 1 | 163 | 2.90e-15 | 68.6 |
| MS.gene29708.t1 | AT2G41430 | 31.737 | 167 | 77 | 5 | 1 | 134 | 1 | 163 | 2.90e-15 | 68.6 |
| MS.gene29708.t1 | AT4G14270 | 50.000 | 66 | 25 | 2 | 12 | 75 | 10 | 69 | 2.36e-14 | 65.9 |
| MS.gene29708.t1 | AT4G14270 | 50.000 | 66 | 25 | 2 | 12 | 75 | 10 | 69 | 2.36e-14 | 65.9 |
| MS.gene29708.t1 | AT2G41430 | 44.615 | 65 | 33 | 1 | 1 | 65 | 1 | 62 | 2.86e-14 | 65.1 |
Find 45 sgRNAs with CRISPR-Local
Find 51 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCCCTTGGTTCCGTGATTAC+TGG | 0.164334 | 5.3:+67785310 | MS.gene29708:CDS |
| TGGGAAAGAGTTGATGAAAT+TGG | 0.243769 | 5.3:+67785648 | MS.gene29708:CDS |
| ATTATGCCACCAAATCTATC+TGG | 0.305386 | 5.3:-67785779 | None:intergenic |
| ACCTCGTTCATTCCTCCCCT+TGG | 0.371694 | 5.3:+67785295 | MS.gene29708:CDS |
| GGGAAAGAGTTGATGAAATT+GGG | 0.389970 | 5.3:+67785649 | MS.gene29708:CDS |
| TTTCATAGTTCTGAGGATCT+TGG | 0.395345 | 5.3:-67785347 | None:intergenic |
| GAGGATCTTGGAAGCGTTCA+CGG | 0.427509 | 5.3:-67785335 | None:intergenic |
| AATAGCCCGTGGGCTCACTC+TGG | 0.435925 | 5.3:-67785749 | None:intergenic |
| TGAAATTGGGATCGTTGAAA+TGG | 0.456391 | 5.3:+67785662 | MS.gene29708:CDS |
| ACTCTGGGCTTCACAATCTT+CGG | 0.460415 | 5.3:-67785733 | None:intergenic |
| GCGCGTGTAGAACACGAAGA+TGG | 0.465797 | 5.3:+67785628 | MS.gene29708:intron |
| CGCGTGTAGAACACGAAGAT+GGG | 0.474343 | 5.3:+67785629 | MS.gene29708:intron |
| GGAACGAACATCGGAGCGTT+GGG | 0.476212 | 5.3:-67785228 | None:intergenic |
| CGGAACGAACATCGGAGCGT+TGG | 0.492883 | 5.3:-67785229 | None:intergenic |
| GGGGTTCAATTTCATGAACA+TGG | 0.523834 | 5.3:-67785416 | None:intergenic |
| GGAGCCTTCTCAGCATACCT+TGG | 0.524540 | 5.3:-67785712 | None:intergenic |
| GTTGGGATTCAGCGAGGAGG+AGG | 0.529767 | 5.3:-67785211 | None:intergenic |
| TGGAGGATTTCTCCGATGAA+TGG | 0.530316 | 5.3:+67785268 | MS.gene29708:CDS |
| ATAGCCCGTGGGCTCACTCT+GGG | 0.531409 | 5.3:-67785748 | None:intergenic |
| TTATGCCACCAAATCTATCT+GGG | 0.545633 | 5.3:-67785778 | None:intergenic |
| GCCAGTAATCACGGAACCAA+GGG | 0.550209 | 5.3:-67785311 | None:intergenic |
| AGTTCCAAGGTATGCTGAGA+AGG | 0.558393 | 5.3:+67785708 | MS.gene29708:CDS |
| AACGAGGTTCCACCATTCAT+CGG | 0.566948 | 5.3:-67785280 | None:intergenic |
| CTGGGCTGATGAATAGCCCG+TGG | 0.567215 | 5.3:-67785760 | None:intergenic |
| TGAAGCCCAGAGTGAGCCCA+CGG | 0.571247 | 5.3:+67785743 | MS.gene29708:CDS |
| TTGAAATGGAGAGGATCTGA+TGG | 0.578122 | 5.3:+67785676 | MS.gene29708:CDS |
| TACGCAAGCGGAACGAACAT+CGG | 0.582960 | 5.3:-67785237 | None:intergenic |
| CGTTCCGCTTGCGTATCGTA+CGG | 0.583236 | 5.3:+67785245 | MS.gene29708:CDS |
| ATGGATGGGCTGAAGTTCCA+AGG | 0.594708 | 5.3:+67785695 | MS.gene29708:CDS |
| GCTTGCGTATCGTACGGTGG+AGG | 0.600361 | 5.3:+67785251 | MS.gene29708:CDS |
| TTGGGATCGTTGAAATGGAG+AGG | 0.600872 | 5.3:+67785667 | MS.gene29708:CDS |
| AGCCAGTAATCACGGAACCA+AGG | 0.611593 | 5.3:-67785312 | None:intergenic |
| AGGATTTCTCCGATGAATGG+TGG | 0.617511 | 5.3:+67785271 | MS.gene29708:CDS |
| AATGGAGAGGATCTGATGGA+TGG | 0.618481 | 5.3:+67785680 | MS.gene29708:CDS |
| ATGGAGAGGATCTGATGGAT+GGG | 0.622633 | 5.3:+67785681 | MS.gene29708:CDS |
| GAAGCCCAGAGTGAGCCCAC+GGG | 0.627082 | 5.3:+67785744 | MS.gene29708:CDS |
| GTTCACGGAGCCAGTAATCA+CGG | 0.629661 | 5.3:-67785320 | None:intergenic |
| TGGGCTGATGAATAGCCCGT+GGG | 0.658555 | 5.3:-67785759 | None:intergenic |
| TCCACCGTACGATACGCAAG+CGG | 0.663483 | 5.3:-67785249 | None:intergenic |
| TCCGCTTGCGTATCGTACGG+TGG | 0.666184 | 5.3:+67785248 | MS.gene29708:CDS |
| AGCGTTGGGATTCAGCGAGG+AGG | 0.680838 | 5.3:-67785214 | None:intergenic |
| GTAATCACGGAACCAAGGGG+AGG | 0.688535 | 5.3:-67785307 | None:intergenic |
| CCAGTAATCACGGAACCAAG+GGG | 0.718986 | 5.3:-67785310 | None:intergenic |
| ACCAAGGGGAGGAATGAACG+AGG | 0.740764 | 5.3:-67785296 | None:intergenic |
| CGGAGCGTTGGGATTCAGCG+AGG | 0.742236 | 5.3:-67785217 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTTATGTGATTAATTTTGA+TGG | + | chr5.3:67785580-67785599 | MS.gene29708:intron | 15.0% |
| !! | AATAAAGTAAAATAGCTTAC+GGG | - | chr5.3:67785439-67785458 | None:intergenic | 20.0% |
| !! | CAATAAAGTAAAATAGCTTA+CGG | - | chr5.3:67785440-67785459 | None:intergenic | 20.0% |
| !!! | GATTAATTTTGATGGATTAA+TGG | + | chr5.3:67785588-67785607 | MS.gene29708:intron | 20.0% |
| ! | ATAAAGTAAAATAGCTTACG+GGG | - | chr5.3:67785438-67785457 | None:intergenic | 25.0% |
| !!! | GTTTTCTGATTTTGAAATGA+TGG | + | chr5.3:67785377-67785396 | MS.gene29708:CDS | 25.0% |
| ! | AATGGATCTGATGTTTGTTT+TGG | + | chr5.3:67785606-67785625 | MS.gene29708:intron | 30.0% |
| TGAAATTGGGATCGTTGAAA+TGG | + | chr5.3:67785662-67785681 | MS.gene29708:CDS | 35.0% | |
| !! | GAGTCATTTTCATAGTTCTG+AGG | - | chr5.3:67785357-67785376 | None:intergenic | 35.0% |
| !! | GGGAAAGAGTTGATGAAATT+GGG | + | chr5.3:67785649-67785668 | MS.gene29708:CDS | 35.0% |
| !! | TGGGAAAGAGTTGATGAAAT+TGG | + | chr5.3:67785648-67785667 | MS.gene29708:CDS | 35.0% |
| !! | TTTCATAGTTCTGAGGATCT+TGG | - | chr5.3:67785350-67785369 | None:intergenic | 35.0% |
| GGGGTTCAATTTCATGAACA+TGG | - | chr5.3:67785419-67785438 | None:intergenic | 40.0% | |
| TTGAAATGGAGAGGATCTGA+TGG | + | chr5.3:67785676-67785695 | MS.gene29708:CDS | 40.0% | |
| AACGAGGTTCCACCATTCAT+CGG | - | chr5.3:67785283-67785302 | None:intergenic | 45.0% | |
| AATGGAGAGGATCTGATGGA+TGG | + | chr5.3:67785680-67785699 | MS.gene29708:CDS | 45.0% | |
| ACTCTGGGCTTCACAATCTT+CGG | - | chr5.3:67785736-67785755 | None:intergenic | 45.0% | |
| AGGATTTCTCCGATGAATGG+TGG | + | chr5.3:67785271-67785290 | MS.gene29708:CDS | 45.0% | |
| AGTTCCAAGGTATGCTGAGA+AGG | + | chr5.3:67785708-67785727 | MS.gene29708:CDS | 45.0% | |
| TGGAGGATTTCTCCGATGAA+TGG | + | chr5.3:67785268-67785287 | MS.gene29708:CDS | 45.0% | |
| TTGGGATCGTTGAAATGGAG+AGG | + | chr5.3:67785667-67785686 | MS.gene29708:CDS | 45.0% | |
| ! | ATGGAGAGGATCTGATGGAT+GGG | + | chr5.3:67785681-67785700 | MS.gene29708:CDS | 45.0% |
| AGCCAGTAATCACGGAACCA+AGG | - | chr5.3:67785315-67785334 | None:intergenic | 50.0% | |
| CCAGTAATCACGGAACCAAG+GGG | - | chr5.3:67785313-67785332 | None:intergenic | 50.0% | |
| CGCGTGTAGAACACGAAGAT+GGG | + | chr5.3:67785629-67785648 | MS.gene29708:intron | 50.0% | |
| GCCAGTAATCACGGAACCAA+GGG | - | chr5.3:67785314-67785333 | None:intergenic | 50.0% | |
| GTTCACGGAGCCAGTAATCA+CGG | - | chr5.3:67785323-67785342 | None:intergenic | 50.0% | |
| TACGCAAGCGGAACGAACAT+CGG | - | chr5.3:67785240-67785259 | None:intergenic | 50.0% | |
| !! | ATGGATGGGCTGAAGTTCCA+AGG | + | chr5.3:67785695-67785714 | MS.gene29708:CDS | 50.0% |
| !! | GAGGATCTTGGAAGCGTTCA+CGG | - | chr5.3:67785338-67785357 | None:intergenic | 50.0% |
| ACCAAGGGGAGGAATGAACG+AGG | - | chr5.3:67785299-67785318 | None:intergenic | 55.0% | |
| ACCTCGTTCATTCCTCCCCT+TGG | + | chr5.3:67785295-67785314 | MS.gene29708:CDS | 55.0% | |
| CCCCTTGGTTCCGTGATTAC+TGG | + | chr5.3:67785310-67785329 | MS.gene29708:CDS | 55.0% | |
| CGTTCCGCTTGCGTATCGTA+CGG | + | chr5.3:67785245-67785264 | MS.gene29708:CDS | 55.0% | |
| GCGCGTGTAGAACACGAAGA+TGG | + | chr5.3:67785628-67785647 | MS.gene29708:intron | 55.0% | |
| GGAGCCTTCTCAGCATACCT+TGG | - | chr5.3:67785715-67785734 | None:intergenic | 55.0% | |
| GTAATCACGGAACCAAGGGG+AGG | - | chr5.3:67785310-67785329 | None:intergenic | 55.0% | |
| TCCACCGTACGATACGCAAG+CGG | - | chr5.3:67785252-67785271 | None:intergenic | 55.0% | |
| TGGGCTGATGAATAGCCCGT+GGG | - | chr5.3:67785762-67785781 | None:intergenic | 55.0% | |
| ! | GGAACGAACATCGGAGCGTT+GGG | - | chr5.3:67785231-67785250 | None:intergenic | 55.0% |
| AATAGCCCGTGGGCTCACTC+TGG | - | chr5.3:67785752-67785771 | None:intergenic | 60.0% | |
| ATAGCCCGTGGGCTCACTCT+GGG | - | chr5.3:67785751-67785770 | None:intergenic | 60.0% | |
| CGGAACGAACATCGGAGCGT+TGG | - | chr5.3:67785232-67785251 | None:intergenic | 60.0% | |
| CTGGGCTGATGAATAGCCCG+TGG | - | chr5.3:67785763-67785782 | None:intergenic | 60.0% | |
| GCTTGCGTATCGTACGGTGG+AGG | + | chr5.3:67785251-67785270 | MS.gene29708:CDS | 60.0% | |
| GTTGGGATTCAGCGAGGAGG+AGG | - | chr5.3:67785214-67785233 | None:intergenic | 60.0% | |
| TCCGCTTGCGTATCGTACGG+TGG | + | chr5.3:67785248-67785267 | MS.gene29708:CDS | 60.0% | |
| TGAAGCCCAGAGTGAGCCCA+CGG | + | chr5.3:67785743-67785762 | MS.gene29708:CDS | 60.0% | |
| ! | AGCGTTGGGATTCAGCGAGG+AGG | - | chr5.3:67785217-67785236 | None:intergenic | 60.0% |
| GAAGCCCAGAGTGAGCCCAC+GGG | + | chr5.3:67785744-67785763 | MS.gene29708:CDS | 65.0% | |
| !! | CGGAGCGTTGGGATTCAGCG+AGG | - | chr5.3:67785220-67785239 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.3 | gene | 67785183 | 67785786 | 67785183 | ID=MS.gene29708 |
| chr5.3 | mRNA | 67785183 | 67785786 | 67785183 | ID=MS.gene29708.t1;Parent=MS.gene29708 |
| chr5.3 | exon | 67785183 | 67785438 | 67785183 | ID=MS.gene29708.t1.exon1;Parent=MS.gene29708.t1 |
| chr5.3 | CDS | 67785183 | 67785438 | 67785183 | ID=cds.MS.gene29708.t1;Parent=MS.gene29708.t1 |
| chr5.3 | exon | 67785638 | 67785786 | 67785638 | ID=MS.gene29708.t1.exon2;Parent=MS.gene29708.t1 |
| chr5.3 | CDS | 67785638 | 67785786 | 67785638 | ID=cds.MS.gene29708.t1;Parent=MS.gene29708.t1 |
| Gene Sequence |
| Protein sequence |
