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.gene29181.t1 | XP_024640520.1 | 98.3 | 115 | 1 | 1 | 1 | 114 | 1 | 115 | 2.20E-56 | 228 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene29181.t1 | Q29Q81 | 50.0 | 110 | 44 | 6 | 5 | 106 | 4 | 110 | 4.6e-15 | 82.0 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene29181.t1 | G7JYY6 | 98.3 | 115 | 1 | 1 | 1 | 114 | 1 | 115 | 1.6e-56 | 228.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049418 | MS.gene29181 | 0.809193 | 2.14E-50 | -1.69E-46 |
| MS.gene053144 | MS.gene29181 | 0.804329 | 2.28E-49 | -1.69E-46 |
| MS.gene055890 | MS.gene29181 | 0.810192 | 1.30E-50 | -1.69E-46 |
| MS.gene05894 | MS.gene29181 | 0.821968 | 3.04E-53 | -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.gene29181.t1 | MTR_5g033220 | 98.261 | 115 | 1 | 1 | 1 | 114 | 1 | 115 | 2.27e-78 | 226 |
| MS.gene29181.t1 | MTR_8g069510 | 55.085 | 118 | 43 | 5 | 1 | 111 | 1 | 115 | 1.11e-28 | 100 |
| MS.gene29181.t1 | MTR_6g005250 | 44.444 | 108 | 57 | 2 | 5 | 112 | 7 | 111 | 2.88e-19 | 76.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene29181.t1 | AT1G10690 | 40.566 | 106 | 50 | 3 | 7 | 106 | 8 | 106 | 1.82e-18 | 74.7 |
| MS.gene29181.t1 | AT1G60783 | 42.857 | 91 | 47 | 2 | 15 | 105 | 17 | 102 | 1.75e-17 | 72.0 |
| MS.gene29181.t1 | AT5G40460 | 47.826 | 115 | 48 | 7 | 1 | 107 | 1 | 111 | 9.19e-17 | 70.5 |
Find 26 sgRNAs with CRISPR-Local
Find 32 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATCCTTGATCCTTCCCCTCT+TGG | 0.276061 | 5.3:+22323396 | None:intergenic |
| AACGAAAAGCTTCTTTGAAA+TGG | 0.305275 | 5.3:-22323338 | MS.gene29181:CDS |
| TCCAAAGGGATTGTATGTAT+TGG | 0.387019 | 5.3:+22323468 | None:intergenic |
| GCCAATACATACAATCCCTT+TGG | 0.438867 | 5.3:-22323469 | MS.gene29181:CDS |
| TGTTCATACGCCATGTTGAA+AGG | 0.478075 | 5.3:-22323263 | MS.gene29181:CDS |
| TGTATTGGCTTCAAATTCAA+TGG | 0.496731 | 5.3:+22323483 | None:intergenic |
| GGTGGACATATCAAAGTTGT+TGG | 0.496765 | 5.3:+22323372 | None:intergenic |
| CACCAAGAGGGGAAGGATCA+AGG | 0.500618 | 5.3:-22323398 | MS.gene29181:CDS |
| TTTCGTTTCCTCGGAGCTGG+TGG | 0.517258 | 5.3:+22323354 | None:intergenic |
| GTTCATACGCCATGTTGAAA+GGG | 0.550603 | 5.3:-22323262 | MS.gene29181:CDS |
| GACAATTCACAAGTGGAAGG+AGG | 0.590987 | 5.3:-22323555 | MS.gene29181:CDS |
| ACAATTCACAAGTGGAAGGA+GGG | 0.599492 | 5.3:-22323554 | MS.gene29181:CDS |
| TTTGGAGAAAAGTAAACAAG+AGG | 0.601702 | 5.3:-22323451 | MS.gene29181:CDS |
| TAGCTATAGCCCTTTCAACA+TGG | 0.602660 | 5.3:+22323253 | None:intergenic |
| ATGAACACAGTTTCTAACTC+AGG | 0.610457 | 5.3:+22323279 | None:intergenic |
| TCTGACAATTCACAAGTGGA+AGG | 0.624119 | 5.3:-22323558 | MS.gene29181:CDS |
| ATTATCTGACAATTCACAAG+TGG | 0.624603 | 5.3:-22323562 | MS.gene29181:CDS |
| TCAACAACACCAAGAGGGGA+AGG | 0.634273 | 5.3:-22323405 | MS.gene29181:CDS |
| AACACAGTTTCTAACTCAGG+TGG | 0.639915 | 5.3:+22323282 | None:intergenic |
| AGTGTTCAACAACACCAAGA+GGG | 0.640283 | 5.3:-22323410 | MS.gene29181:CDS |
| TAAACAAGAGGAAAGTGACA+TGG | 0.640838 | 5.3:-22323439 | MS.gene29181:CDS |
| GAGTGTTCAACAACACCAAG+AGG | 0.659812 | 5.3:-22323411 | MS.gene29181:CDS |
| GTGTTCAACAACACCAAGAG+GGG | 0.671532 | 5.3:-22323409 | MS.gene29181:CDS |
| TGATATGTCCACCAGCTCCG+AGG | 0.688116 | 5.3:-22323362 | MS.gene29181:CDS |
| TCTTTGAAATGGAATTATCG+CGG | 0.689964 | 5.3:-22323327 | MS.gene29181:CDS |
| ACAAGAGGAAAGTGACATGG+AGG | 0.701741 | 5.3:-22323436 | MS.gene29181:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATTCAGAGAAAAATAGAAAA+TGG | - | chr5.3:22323294-22323313 | MS.gene29181:CDS | 20.0% |
| !! | TTCAGAGAAAAATAGAAAAT+GGG | - | chr5.3:22323295-22323314 | MS.gene29181:CDS | 20.0% |
| ATTATCTGACAATTCACAAG+TGG | - | chr5.3:22323256-22323275 | MS.gene29181:CDS | 30.0% | |
| TTTGGAGAAAAGTAAACAAG+AGG | - | chr5.3:22323367-22323386 | MS.gene29181:CDS | 30.0% | |
| ! | AACGAAAAGCTTCTTTGAAA+TGG | - | chr5.3:22323480-22323499 | MS.gene29181:CDS | 30.0% |
| !! | CTTGTTTACTTTTCTCCAAA+GGG | + | chr5.3:22323367-22323386 | None:intergenic | 30.0% |
| !! | TCTTGTTTACTTTTCTCCAA+AGG | + | chr5.3:22323368-22323387 | None:intergenic | 30.0% |
| !! | TCTTTGAAATGGAATTATCG+CGG | - | chr5.3:22323491-22323510 | MS.gene29181:CDS | 30.0% |
| !! | TGTATTGGCTTCAAATTCAA+TGG | + | chr5.3:22323338-22323357 | None:intergenic | 30.0% |
| ATGAACACAGTTTCTAACTC+AGG | + | chr5.3:22323542-22323561 | None:intergenic | 35.0% | |
| TAAACAAGAGGAAAGTGACA+TGG | - | chr5.3:22323379-22323398 | MS.gene29181:CDS | 35.0% | |
| TCCAAAGGGATTGTATGTAT+TGG | + | chr5.3:22323353-22323372 | None:intergenic | 35.0% | |
| ! | AAAGAAGCTTTTCGTTTCCT+CGG | + | chr5.3:22323476-22323495 | None:intergenic | 35.0% |
| AACACAGTTTCTAACTCAGG+TGG | + | chr5.3:22323539-22323558 | None:intergenic | 40.0% | |
| ACAATTCACAAGTGGAAGGA+GGG | - | chr5.3:22323264-22323283 | MS.gene29181:CDS | 40.0% | |
| AGTGTTCAACAACACCAAGA+GGG | - | chr5.3:22323408-22323427 | MS.gene29181:CDS | 40.0% | |
| GCCAATACATACAATCCCTT+TGG | - | chr5.3:22323349-22323368 | MS.gene29181:CDS | 40.0% | |
| GGTGGACATATCAAAGTTGT+TGG | + | chr5.3:22323449-22323468 | None:intergenic | 40.0% | |
| GTTCATACGCCATGTTGAAA+GGG | - | chr5.3:22323556-22323575 | MS.gene29181:CDS | 40.0% | |
| TAGCTATAGCCCTTTCAACA+TGG | + | chr5.3:22323568-22323587 | None:intergenic | 40.0% | |
| TCTGACAATTCACAAGTGGA+AGG | - | chr5.3:22323260-22323279 | MS.gene29181:CDS | 40.0% | |
| TGTTCATACGCCATGTTGAA+AGG | - | chr5.3:22323555-22323574 | MS.gene29181:CDS | 40.0% | |
| ACAAGAGGAAAGTGACATGG+AGG | - | chr5.3:22323382-22323401 | MS.gene29181:CDS | 45.0% | |
| GACAATTCACAAGTGGAAGG+AGG | - | chr5.3:22323263-22323282 | MS.gene29181:CDS | 45.0% | |
| GAGTGTTCAACAACACCAAG+AGG | - | chr5.3:22323407-22323426 | MS.gene29181:CDS | 45.0% | |
| GTGTTCAACAACACCAAGAG+GGG | - | chr5.3:22323409-22323428 | MS.gene29181:CDS | 45.0% | |
| ATCCTTGATCCTTCCCCTCT+TGG | + | chr5.3:22323425-22323444 | None:intergenic | 50.0% | |
| TCAACAACACCAAGAGGGGA+AGG | - | chr5.3:22323413-22323432 | MS.gene29181:CDS | 50.0% | |
| CACCAAGAGGGGAAGGATCA+AGG | - | chr5.3:22323420-22323439 | MS.gene29181:CDS | 55.0% | |
| TGATATGTCCACCAGCTCCG+AGG | - | chr5.3:22323456-22323475 | MS.gene29181:CDS | 55.0% | |
| TTTCGTTTCCTCGGAGCTGG+TGG | + | chr5.3:22323467-22323486 | None:intergenic | 55.0% | |
| ! | GCTTTTCGTTTCCTCGGAGC+TGG | + | chr5.3:22323470-22323489 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.3 | gene | 22323248 | 22323592 | 22323248 | ID=MS.gene29181 |
| chr5.3 | mRNA | 22323248 | 22323592 | 22323248 | ID=MS.gene29181.t1;Parent=MS.gene29181 |
| chr5.3 | exon | 22323248 | 22323592 | 22323248 | ID=MS.gene29181.t1.exon1;Parent=MS.gene29181.t1 |
| chr5.3 | CDS | 22323248 | 22323592 | 22323248 | ID=cds.MS.gene29181.t1;Parent=MS.gene29181.t1 |
| Gene Sequence |
| Protein sequence |
