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.gene20221.t1 | XP_013447227.1 | 93.1 | 233 | 11 | 2 | 1 | 233 | 1 | 228 | 1.50E-115 | 425.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene20221.t1 | A0A072TUQ1 | 93.1 | 233 | 11 | 2 | 1 | 233 | 1 | 228 | 1.0e-115 | 425.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene052308 | MS.gene20221 | 0.809225 | 2.10E-50 | -1.69E-46 |
| MS.gene052367 | MS.gene20221 | 0.823932 | 1.06E-53 | -1.69E-46 |
| MS.gene052383 | MS.gene20221 | 0.813606 | 2.35E-51 | -1.69E-46 |
| MS.gene054593 | MS.gene20221 | 0.803038 | 4.22E-49 | -1.69E-46 |
| MS.gene055578 | MS.gene20221 | 0.802575 | 5.26E-49 | -1.69E-46 |
| MS.gene056041 | MS.gene20221 | 0.805145 | 1.54E-49 | -1.69E-46 |
| MS.gene05640 | MS.gene20221 | 0.80829 | 3.33E-50 | -1.69E-46 |
| MS.gene056528 | MS.gene20221 | 0.80828 | 3.35E-50 | -1.69E-46 |
| MS.gene057458 | MS.gene20221 | 0.801485 | 8.81E-49 | -1.69E-46 |
| MS.gene058128 | MS.gene20221 | 0.801868 | 7.35E-49 | -1.69E-46 |
| MS.gene058853 | MS.gene20221 | 0.8208 | 5.66E-53 | -1.69E-46 |
| MS.gene060473 | MS.gene20221 | 0.809007 | 2.34E-50 | -1.69E-46 |
| MS.gene060565 | MS.gene20221 | 0.807649 | 4.56E-50 | -1.69E-46 |
| MS.gene06093 | MS.gene20221 | 0.80849 | 3.02E-50 | -1.69E-46 |
| MS.gene061099 | MS.gene20221 | 0.811429 | 7.03E-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.gene20221.t1 | MTR_8g099655 | 93.133 | 233 | 11 | 2 | 1 | 233 | 1 | 228 | 2.43e-147 | 410 |
| MS.gene20221.t1 | MTR_8g017100 | 32.979 | 188 | 85 | 6 | 1 | 174 | 1 | 161 | 2.04e-19 | 83.2 |
| MS.gene20221.t1 | MTR_1g099630 | 27.363 | 201 | 128 | 5 | 1 | 193 | 1 | 191 | 2.90e-16 | 74.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 51 sgRNAs with CRISPR-Local
Find 61 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GAGGACTTGTGCAACTGTTT+TGG | 0.225939 | 4.4:-4650368 | None:intergenic |
| TGCTGCAGAAGGGTCAAATT+TGG | 0.265588 | 4.4:+4650936 | MS.gene20221:CDS |
| CTATTATCTTCTTCCCTTGA+AGG | 0.321987 | 4.4:+4650477 | MS.gene20221:CDS |
| CTCATGGTTCTGCTCCTTGT+AGG | 0.337212 | 4.4:-4650817 | None:intergenic |
| AATGGGAAATTGTTCTTTCA+AGG | 0.367226 | 4.4:+4650273 | None:intergenic |
| CTCGAAAATCGCCCGGGTTA+TGG | 0.367726 | 4.4:+4650388 | MS.gene20221:CDS |
| TTGTCAGAACAGGTAAATAC+TGG | 0.368907 | 4.4:+4650742 | MS.gene20221:CDS |
| TCAATAGAAAGAGTGCGATT+TGG | 0.399831 | 4.4:-4650910 | None:intergenic |
| CAGATGCAGGGTTGAAGAAT+AGG | 0.403928 | 4.4:+4650566 | MS.gene20221:CDS |
| TTCTTGGCGCCCGTTAGCTC+TGG | 0.404284 | 4.4:+4650880 | MS.gene20221:CDS |
| AAGCTCTCTTGGTCTGATAA+TGG | 0.421238 | 4.4:-4650439 | None:intergenic |
| ATCTGGTTGTACCTCCTTCA+AGG | 0.423314 | 4.4:-4650491 | None:intergenic |
| TCCCACTTTCCAAGTGCTCA+TGG | 0.456476 | 4.4:-4650833 | None:intergenic |
| GACCGTAGCTTAAGCTCTCT+TGG | 0.459574 | 4.4:-4650450 | None:intergenic |
| ATCAGAATTCTATGTGATAG+TGG | 0.460389 | 4.4:+4650322 | MS.gene20221:CDS |
| TGTTCTTTCAAGGGTACCAC+TGG | 0.470091 | 4.4:+4650283 | MS.gene20221:CDS |
| CACACACCATTCTTAGCTGA+TGG | 0.481472 | 4.4:-4650676 | None:intergenic |
| GGAATTCTTCCAGAGCTAAC+GGG | 0.486798 | 4.4:-4650889 | None:intergenic |
| ATGGTGCCGACACATGGCCT+TGG | 0.487730 | 4.4:-4650420 | None:intergenic |
| ACCATGAGCACTTGGAAAGT+GGG | 0.490347 | 4.4:+4650832 | MS.gene20221:CDS |
| TCATGGTTCTGCTCCTTGTA+GGG | 0.495277 | 4.4:-4650816 | None:intergenic |
| GGAGAATCTGTCGAATGGTT+CGG | 0.499420 | 4.4:+4650639 | MS.gene20221:CDS |
| ATGGGAAATTGTTCTTTCAA+GGG | 0.505584 | 4.4:+4650274 | MS.gene20221:CDS |
| AACCATGAGCACTTGGAAAG+TGG | 0.516348 | 4.4:+4650831 | MS.gene20221:CDS |
| TCTATTGATGATGCTGCAGA+AGG | 0.519843 | 4.4:+4650925 | MS.gene20221:CDS |
| CTGGTTCAAAGATCAGATGC+AGG | 0.526629 | 4.4:+4650553 | MS.gene20221:CDS |
| TGGAATTCTTCCAGAGCTAA+CGG | 0.528940 | 4.4:-4650890 | None:intergenic |
| TGGAGTTTCTGAACAAGAGC+TGG | 0.529828 | 4.4:+4650534 | MS.gene20221:CDS |
| TGGTGTGTGGAAAGTGAAGT+TGG | 0.537807 | 4.4:+4650690 | MS.gene20221:CDS |
| ACAAGTCCTCGAAAATCGCC+CGG | 0.550144 | 4.4:+4650381 | MS.gene20221:CDS |
| GGAGCAGAACCATGAGCACT+TGG | 0.558335 | 4.4:+4650824 | MS.gene20221:CDS |
| CAGAAAACTAGCTTTAGTGA+TGG | 0.569976 | 4.4:+4650514 | MS.gene20221:CDS |
| CTGATAATGGTGCCGACACA+TGG | 0.584425 | 4.4:-4650426 | None:intergenic |
| TTATCTTCTTCCCTTGAAGG+AGG | 0.590566 | 4.4:+4650480 | MS.gene20221:CDS |
| CAAGTCCTCGAAAATCGCCC+GGG | 0.599743 | 4.4:+4650382 | MS.gene20221:CDS |
| ATTCTATTAGTAGCCCTACA+AGG | 0.600271 | 4.4:+4650803 | MS.gene20221:CDS |
| TGATGAGATTGTAAAGAGCT+CGG | 0.605431 | 4.4:+4650591 | MS.gene20221:CDS |
| TGAGCACTTGGAAAGTGGGA+TGG | 0.605593 | 4.4:+4650836 | MS.gene20221:CDS |
| ATAGAATTCTGATAGAGTGA+TGG | 0.611014 | 4.4:-4650312 | None:intergenic |
| GAGCTTTGATTGAGAAGATG+AGG | 0.620197 | 4.4:+4650764 | MS.gene20221:CDS |
| GACCAAGAGAGCTTAAGCTA+CGG | 0.624125 | 4.4:+4650448 | MS.gene20221:CDS |
| GATTGATACAAGACAACTAG+AGG | 0.632915 | 4.4:+4650714 | MS.gene20221:CDS |
| TCTGGTTGTACCTCCTTCAA+GGG | 0.637312 | 4.4:-4650490 | None:intergenic |
| GTGTTGCCATCAGCTAAGAA+TGG | 0.640195 | 4.4:+4650670 | MS.gene20221:CDS |
| CTATTGATGATGCTGCAGAA+GGG | 0.641401 | 4.4:+4650926 | MS.gene20221:CDS |
| TGTTGCAGCGTGTGATTACG+TGG | 0.643926 | 4.4:+4650618 | MS.gene20221:CDS |
| TACGTGGAGAATCTGTCGAA+TGG | 0.644107 | 4.4:+4650634 | MS.gene20221:CDS |
| TGGTTCAAAGATCAGATGCA+GGG | 0.664540 | 4.4:+4650554 | MS.gene20221:CDS |
| TTTGATTGAGAAGATGAGGA+TGG | 0.666755 | 4.4:+4650768 | MS.gene20221:CDS |
| AGAGTGATGGCATTCTCCAG+TGG | 0.677222 | 4.4:-4650299 | None:intergenic |
| CATCAGCTAAGAATGGTGTG+TGG | 0.773073 | 4.4:+4650677 | MS.gene20221:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GGTTCAATTTTACAATTCAA+AGG | + | chr4.4:4650343-4650362 | MS.gene20221:CDS | 25.0% |
| !!! | AACGTTTTTCAAAACATTCT+TGG | + | chr4.4:4650864-4650883 | MS.gene20221:CDS | 25.0% |
| !!! | AAGAATGTTTTGAAAAACGT+TGG | - | chr4.4:4650865-4650884 | None:intergenic | 25.0% |
| ATAGAATTCTGATAGAGTGA+TGG | - | chr4.4:4650315-4650334 | None:intergenic | 30.0% | |
| ATCAGAATTCTATGTGATAG+TGG | + | chr4.4:4650322-4650341 | MS.gene20221:CDS | 30.0% | |
| ATGGGAAATTGTTCTTTCAA+GGG | + | chr4.4:4650274-4650293 | MS.gene20221:CDS | 30.0% | |
| ATTCTATTAGTAGCCCTACA+AGG | + | chr4.4:4650803-4650822 | MS.gene20221:CDS | 35.0% | |
| CTATTATCTTCTTCCCTTGA+AGG | + | chr4.4:4650477-4650496 | MS.gene20221:CDS | 35.0% | |
| GATTGATACAAGACAACTAG+AGG | + | chr4.4:4650714-4650733 | MS.gene20221:CDS | 35.0% | |
| TGATGAGATTGTAAAGAGCT+CGG | + | chr4.4:4650591-4650610 | MS.gene20221:CDS | 35.0% | |
| TTGTCAGAACAGGTAAATAC+TGG | + | chr4.4:4650742-4650761 | MS.gene20221:CDS | 35.0% | |
| TTTGATTGAGAAGATGAGGA+TGG | + | chr4.4:4650768-4650787 | MS.gene20221:CDS | 35.0% | |
| ! | TCAATAGAAAGAGTGCGATT+TGG | - | chr4.4:4650913-4650932 | None:intergenic | 35.0% |
| !! | CAGAAAACTAGCTTTAGTGA+TGG | + | chr4.4:4650514-4650533 | MS.gene20221:CDS | 35.0% |
| !!! | CTAAAGCTAGTTTTCTGATC+TGG | - | chr4.4:4650511-4650530 | None:intergenic | 35.0% |
| AAGCTCTCTTGGTCTGATAA+TGG | - | chr4.4:4650442-4650461 | None:intergenic | 40.0% | |
| TGGAATTCTTCCAGAGCTAA+CGG | - | chr4.4:4650893-4650912 | None:intergenic | 40.0% | |
| TGGTTCAAAGATCAGATGCA+GGG | + | chr4.4:4650554-4650573 | MS.gene20221:CDS | 40.0% | |
| TTATCTTCTTCCCTTGAAGG+AGG | + | chr4.4:4650480-4650499 | MS.gene20221:CDS | 40.0% | |
| ! | AGAGGAGATTTTGTCAGAAC+AGG | + | chr4.4:4650732-4650751 | MS.gene20221:CDS | 40.0% |
| ! | AGGACTTGTGCAACTGTTTT+GGG | - | chr4.4:4650370-4650389 | None:intergenic | 40.0% |
| ! | GAGCTTTGATTGAGAAGATG+AGG | + | chr4.4:4650764-4650783 | MS.gene20221:CDS | 40.0% |
| !! | CTATTGATGATGCTGCAGAA+GGG | + | chr4.4:4650926-4650945 | MS.gene20221:CDS | 40.0% |
| !! | TCTATTGATGATGCTGCAGA+AGG | + | chr4.4:4650925-4650944 | MS.gene20221:CDS | 40.0% |
| AACCATGAGCACTTGGAAAG+TGG | + | chr4.4:4650831-4650850 | MS.gene20221:CDS | 45.0% | |
| ACCATGAGCACTTGGAAAGT+GGG | + | chr4.4:4650832-4650851 | MS.gene20221:CDS | 45.0% | |
| ATCTGGTTGTACCTCCTTCA+AGG | - | chr4.4:4650494-4650513 | None:intergenic | 45.0% | |
| CACACACCATTCTTAGCTGA+TGG | - | chr4.4:4650679-4650698 | None:intergenic | 45.0% | |
| CAGATGCAGGGTTGAAGAAT+AGG | + | chr4.4:4650566-4650585 | MS.gene20221:CDS | 45.0% | |
| CATCAGCTAAGAATGGTGTG+TGG | + | chr4.4:4650677-4650696 | MS.gene20221:CDS | 45.0% | |
| CTGGTTCAAAGATCAGATGC+AGG | + | chr4.4:4650553-4650572 | MS.gene20221:CDS | 45.0% | |
| GACCAAGAGAGCTTAAGCTA+CGG | + | chr4.4:4650448-4650467 | MS.gene20221:CDS | 45.0% | |
| GGAATTCTTCCAGAGCTAAC+GGG | - | chr4.4:4650892-4650911 | None:intergenic | 45.0% | |
| GGAGAATCTGTCGAATGGTT+CGG | + | chr4.4:4650639-4650658 | MS.gene20221:CDS | 45.0% | |
| GTGTTGCCATCAGCTAAGAA+TGG | + | chr4.4:4650670-4650689 | MS.gene20221:CDS | 45.0% | |
| TACGTGGAGAATCTGTCGAA+TGG | + | chr4.4:4650634-4650653 | MS.gene20221:CDS | 45.0% | |
| TCTGGTTGTACCTCCTTCAA+GGG | - | chr4.4:4650493-4650512 | None:intergenic | 45.0% | |
| TGCTGCAGAAGGGTCAAATT+TGG | + | chr4.4:4650936-4650955 | MS.gene20221:CDS | 45.0% | |
| TGGAGTTTCTGAACAAGAGC+TGG | + | chr4.4:4650534-4650553 | MS.gene20221:CDS | 45.0% | |
| TGGCGAAAAACACCATAACC+CGG | - | chr4.4:4650403-4650422 | None:intergenic | 45.0% | |
| TGGTGTGTGGAAAGTGAAGT+TGG | + | chr4.4:4650690-4650709 | MS.gene20221:CDS | 45.0% | |
| ! | GAGGACTTGTGCAACTGTTT+TGG | - | chr4.4:4650371-4650390 | None:intergenic | 45.0% |
| ! | GGTTATGGTGTTTTTCGCCA+AGG | + | chr4.4:4650403-4650422 | MS.gene20221:CDS | 45.0% |
| ! | TCATGGTTCTGCTCCTTGTA+GGG | - | chr4.4:4650819-4650838 | None:intergenic | 45.0% |
| !! | TGTTCTTTCAAGGGTACCAC+TGG | + | chr4.4:4650283-4650302 | MS.gene20221:CDS | 45.0% |
| ACAAGTCCTCGAAAATCGCC+CGG | + | chr4.4:4650381-4650400 | MS.gene20221:CDS | 50.0% | |
| AGAGTGATGGCATTCTCCAG+TGG | - | chr4.4:4650302-4650321 | None:intergenic | 50.0% | |
| GACCGTAGCTTAAGCTCTCT+TGG | - | chr4.4:4650453-4650472 | None:intergenic | 50.0% | |
| GGCGAAAAACACCATAACCC+GGG | - | chr4.4:4650402-4650421 | None:intergenic | 50.0% | |
| TCCCACTTTCCAAGTGCTCA+TGG | - | chr4.4:4650836-4650855 | None:intergenic | 50.0% | |
| TGAGCACTTGGAAAGTGGGA+TGG | + | chr4.4:4650836-4650855 | MS.gene20221:CDS | 50.0% | |
| TGTTGCAGCGTGTGATTACG+TGG | + | chr4.4:4650618-4650637 | MS.gene20221:CDS | 50.0% | |
| ! | CTCATGGTTCTGCTCCTTGT+AGG | - | chr4.4:4650820-4650839 | None:intergenic | 50.0% |
| ! | TTTTCGCCAAGGCCATGTGT+CGG | + | chr4.4:4650414-4650433 | MS.gene20221:CDS | 50.0% |
| !! | CTGATAATGGTGCCGACACA+TGG | - | chr4.4:4650429-4650448 | None:intergenic | 50.0% |
| CAAGTCCTCGAAAATCGCCC+GGG | + | chr4.4:4650382-4650401 | MS.gene20221:CDS | 55.0% | |
| CTCGAAAATCGCCCGGGTTA+TGG | + | chr4.4:4650388-4650407 | MS.gene20221:CDS | 55.0% | |
| GGAGCAGAACCATGAGCACT+TGG | + | chr4.4:4650824-4650843 | MS.gene20221:CDS | 55.0% | |
| ! | CATAACCCGGGCGATTTTCG+AGG | - | chr4.4:4650390-4650409 | None:intergenic | 55.0% |
| TTCTTGGCGCCCGTTAGCTC+TGG | + | chr4.4:4650880-4650899 | MS.gene20221:CDS | 60.0% | |
| !! | ATGGTGCCGACACATGGCCT+TGG | - | chr4.4:4650423-4650442 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 4650274 | 4650975 | 4650274 | ID=MS.gene20221 |
| chr4.4 | mRNA | 4650274 | 4650975 | 4650274 | ID=MS.gene20221.t1;Parent=MS.gene20221 |
| chr4.4 | exon | 4650274 | 4650975 | 4650274 | ID=MS.gene20221.t1.exon1;Parent=MS.gene20221.t1 |
| chr4.4 | CDS | 4650274 | 4650975 | 4650274 | ID=cds.MS.gene20221.t1;Parent=MS.gene20221.t1 |
| Gene Sequence |
| Protein sequence |
