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.gene26448.t1 | XP_018459315.1 | 45.6 | 342 | 161 | 6 | 1 | 340 | 1 | 319 | 1.70E-64 | 256.5 |
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.gene26448.t1 | A0A2N9I863 | 41.3 | 358 | 175 | 9 | 1 | 343 | 1 | 338 | 1.3e-61 | 246.5 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene060253 | MS.gene26448 | 0.855812 | 4.91E-62 | -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.gene26448.t1 | MTR_7g062720 | 40.541 | 148 | 80 | 3 | 1 | 146 | 1 | 142 | 2.13e-31 | 116 |
| MS.gene26448.t1 | MTR_4g037355 | 39.394 | 132 | 60 | 4 | 155 | 286 | 1 | 112 | 4.39e-21 | 88.2 |
| MS.gene26448.t1 | MTR_5g061150 | 35.354 | 99 | 64 | 0 | 52 | 150 | 38 | 136 | 4.33e-18 | 80.1 |
| MS.gene26448.t1 | MTR_4g112730 | 57.971 | 69 | 28 | 1 | 143 | 211 | 2 | 69 | 9.39e-18 | 77.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 63 sgRNAs with CRISPR-Local
Find 86 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGGATCAATGGAACAAATTA+AGG | 0.196151 | 4.1:+23754605 | MS.gene26448:CDS |
| AGTCTTATTGCCCTCATTAA+TGG | 0.201947 | 4.1:+23754585 | MS.gene26448:CDS |
| AAAGTTGTAGCGTTTATTTC+AGG | 0.228341 | 4.1:-23754901 | None:intergenic |
| GACAAAATTAAGGCAAGATT+TGG | 0.257188 | 4.1:+23754550 | MS.gene26448:CDS |
| GATTCTTGAGGGAGACGATT+TGG | 0.271296 | 4.1:+23754408 | MS.gene26448:CDS |
| CTCAATTAAGTTGTTGTTCC+AGG | 0.274617 | 4.1:-23754359 | None:intergenic |
| CACGGCCTCCACCACGAAAA+TGG | 0.277262 | 4.1:-23755017 | None:intergenic |
| CATAGGAGAAGATATTAATA+TGG | 0.311554 | 4.1:+23755311 | MS.gene26448:CDS |
| ATTTACTGAATACTCTGATT+TGG | 0.313227 | 4.1:+23754795 | MS.gene26448:CDS |
| CTTGATGATTCTTGTTGGTT+TGG | 0.339105 | 4.1:-23755077 | None:intergenic |
| GAAGAGGTTATATGAATTAT+AGG | 0.339571 | 4.1:+23755040 | MS.gene26448:CDS |
| GGGAGATGTCCCAGAGGAAT+TGG | 0.345733 | 4.1:+23754429 | MS.gene26448:CDS |
| ATTCTTGAGGGAGACGATTT+GGG | 0.354692 | 4.1:+23754409 | MS.gene26448:CDS |
| AAGACAGGTAGTATCATTCT+TGG | 0.359896 | 4.1:-23755274 | None:intergenic |
| TTTACCTTGATGATTCTTGT+TGG | 0.362649 | 4.1:-23755082 | None:intergenic |
| CTTGAGGCTGCTGATTTCAT+AGG | 0.363536 | 4.1:+23755294 | MS.gene26448:CDS |
| CATAGCCACCACGTCCTCTT+TGG | 0.374275 | 4.1:-23754951 | None:intergenic |
| CGTGGTGGCTATGCTCGTTT+TGG | 0.395091 | 4.1:+23754961 | MS.gene26448:CDS |
| ACAAAATTAAGGCAAGATTT+GGG | 0.416566 | 4.1:+23754551 | MS.gene26448:CDS |
| TATAACTGAAAAGGAAAAGT+TGG | 0.422757 | 4.1:+23754708 | MS.gene26448:CDS |
| CGTGGTGGAGGCCGTGGAAG+AGG | 0.431707 | 4.1:+23755024 | MS.gene26448:CDS |
| TGCCCTCATTAATGGATCAA+TGG | 0.432677 | 4.1:+23754593 | MS.gene26448:CDS |
| AGATACAAAGAATATGTTGA+TGG | 0.436598 | 4.1:+23755216 | MS.gene26448:CDS |
| TGGCAAAACTATAACTGAAA+AGG | 0.467052 | 4.1:+23754699 | MS.gene26448:CDS |
| AACCACCAGTTGCGTCCTAC+AGG | 0.478404 | 4.1:+23754865 | MS.gene26448:CDS |
| TTGTTCCTGTAGGACGCAAC+TGG | 0.480977 | 4.1:-23754870 | None:intergenic |
| AGACAGGTAGTATCATTCTT+GGG | 0.483328 | 4.1:-23755273 | None:intergenic |
| ATCAAGCACCACATTGATGA+TGG | 0.492315 | 4.1:+23754481 | MS.gene26448:CDS |
| TGCAACAACAATATAGAATG+AGG | 0.496917 | 4.1:+23754770 | MS.gene26448:CDS |
| CTGGAGACAACTACATAACC+TGG | 0.502040 | 4.1:+23754341 | MS.gene26448:CDS |
| AACAAGAATCATCAAGGTAA+AGG | 0.504207 | 4.1:+23755084 | MS.gene26448:CDS |
| GTTCCATTGATCCATTAATG+AGG | 0.509644 | 4.1:-23754596 | None:intergenic |
| CAAAGAATATGTTGATGGAA+AGG | 0.512741 | 4.1:+23755221 | MS.gene26448:CDS |
| GATGCAGAATGAAAGGTCAT+TGG | 0.512994 | 4.1:+23755157 | MS.gene26448:CDS |
| ATATGTTGATGGAAAGGAAA+AGG | 0.525191 | 4.1:+23755227 | MS.gene26448:CDS |
| TTCCATTGATCCATTAATGA+GGG | 0.533283 | 4.1:-23754595 | None:intergenic |
| GGACTCGACAAGATTCTTGA+GGG | 0.539594 | 4.1:+23754397 | MS.gene26448:CDS |
| TTGGTTTGGTCATATTTGAG+AGG | 0.544297 | 4.1:-23755063 | None:intergenic |
| CGTGGTCGAGGCAGAAGTCA+TGG | 0.554869 | 4.1:+23754988 | MS.gene26448:CDS |
| GAAATCAGCAGCCTCAAGAC+AGG | 0.558951 | 4.1:-23755289 | None:intergenic |
| AATTGAGTATCTTGCATGTG+AGG | 0.565013 | 4.1:+23754375 | MS.gene26448:CDS |
| CAAACCAACAAGAATCATCA+AGG | 0.574004 | 4.1:+23755078 | MS.gene26448:CDS |
| TTTGGTTACAGCTCTTCTAG+TGG | 0.574259 | 4.1:+23754813 | MS.gene26448:CDS |
| ATTGAGTATCTTGCATGTGA+GGG | 0.575966 | 4.1:+23754376 | MS.gene26448:CDS |
| GGATATGCCATTGTTCCTGT+AGG | 0.578642 | 4.1:-23754880 | None:intergenic |
| GCAACAACAATATAGAATGA+GGG | 0.579939 | 4.1:+23754771 | MS.gene26448:CDS |
| TGTTATAGATGCAGAATGAA+AGG | 0.584920 | 4.1:+23755150 | MS.gene26448:CDS |
| TTCCTGTAGGACGCAACTGG+TGG | 0.593030 | 4.1:-23754867 | None:intergenic |
| AATTCATATAACCTCTTCCA+CGG | 0.595635 | 4.1:-23755035 | None:intergenic |
| AGGTAAAGGTAAAAGCATCA+AGG | 0.601527 | 4.1:+23755098 | MS.gene26448:CDS |
| GCAATATCACTTGAGATGCA+TGG | 0.608661 | 4.1:-23754750 | None:intergenic |
| TATAATCGCCAAAGAGGACG+TGG | 0.608957 | 4.1:+23754943 | MS.gene26448:CDS |
| GGGACTCGACAAGATTCTTG+AGG | 0.610766 | 4.1:+23754396 | MS.gene26448:CDS |
| TGTTGATGGAAAGGAAAAGG+AGG | 0.612844 | 4.1:+23755230 | MS.gene26448:CDS |
| ACGATCATCATGATTTCTAG+AGG | 0.627654 | 4.1:-23755127 | None:intergenic |
| GAATGATACTACCTGTCTTG+AGG | 0.637144 | 4.1:+23755278 | MS.gene26448:CDS |
| CGATCATCATGATTTCTAGA+GGG | 0.638172 | 4.1:-23755126 | None:intergenic |
| GGTGGTTATAATCGCCAAAG+AGG | 0.642086 | 4.1:+23754937 | MS.gene26448:CDS |
| AAAGGTAAAAGCATCAAGGA+AGG | 0.650159 | 4.1:+23755102 | MS.gene26448:CDS |
| GTTGCGTCCTACAGGAACAA+TGG | 0.661047 | 4.1:+23754873 | MS.gene26448:CDS |
| AATCGCCAAAGAGGACGTGG+TGG | 0.698905 | 4.1:+23754946 | MS.gene26448:CDS |
| TTTGTAATCCATCATCAATG+TGG | 0.715751 | 4.1:-23754489 | None:intergenic |
| CGATTTGGGAGATGTCCCAG+AGG | 0.725435 | 4.1:+23754423 | MS.gene26448:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTATGTTTAAAATTTTGAAT+TGG | - | chr4.1:23754321-23754340 | None:intergenic | 10.0% |
| !!! | TTCAAAATTTTAAACATAAC+TGG | + | chr4.1:23754322-23754341 | MS.gene26448:CDS | 15.0% |
| ! | ACAAAATTAAGGCAAGATTT+GGG | + | chr4.1:23754551-23754570 | MS.gene26448:CDS | 25.0% |
| ! | AGATACAAAGAATATGTTGA+TGG | + | chr4.1:23755216-23755235 | MS.gene26448:CDS | 25.0% |
| ! | ATTTACTGAATACTCTGATT+TGG | + | chr4.1:23754795-23754814 | MS.gene26448:CDS | 25.0% |
| ! | CATAGGAGAAGATATTAATA+TGG | + | chr4.1:23755311-23755330 | MS.gene26448:CDS | 25.0% |
| ! | GAAGAGGTTATATGAATTAT+AGG | + | chr4.1:23755040-23755059 | MS.gene26448:CDS | 25.0% |
| ! | TATAACTGAAAAGGAAAAGT+TGG | + | chr4.1:23754708-23754727 | MS.gene26448:CDS | 25.0% |
| !! | AAAAGATCCCAAGATTTTAT+GGG | + | chr4.1:23754528-23754547 | MS.gene26448:CDS | 25.0% |
| !! | AATTTTGTCCCATAAAATCT+TGG | - | chr4.1:23754539-23754558 | None:intergenic | 25.0% |
| !! | ATTGCACAATTAGAATTTTG+TGG | + | chr4.1:23754679-23754698 | MS.gene26448:CDS | 25.0% |
| !! | ATTTTGTCCCATAAAATCTT+GGG | - | chr4.1:23754538-23754557 | None:intergenic | 25.0% |
| !! | GATTTTATGGGACAAAATTA+AGG | + | chr4.1:23754540-23754559 | MS.gene26448:CDS | 25.0% |
| !!! | CAACAACAGTTTTATAATCT+TGG | - | chr4.1:23754633-23754652 | None:intergenic | 25.0% |
| AAAGTTGTAGCGTTTATTTC+AGG | - | chr4.1:23754904-23754923 | None:intergenic | 30.0% | |
| AACAAGAATCATCAAGGTAA+AGG | + | chr4.1:23755084-23755103 | MS.gene26448:CDS | 30.0% | |
| AATTCATATAACCTCTTCCA+CGG | - | chr4.1:23755038-23755057 | None:intergenic | 30.0% | |
| GACAAAATTAAGGCAAGATT+TGG | + | chr4.1:23754550-23754569 | MS.gene26448:CDS | 30.0% | |
| GCAACAACAATATAGAATGA+GGG | + | chr4.1:23754771-23754790 | MS.gene26448:CDS | 30.0% | |
| TGCAACAACAATATAGAATG+AGG | + | chr4.1:23754770-23754789 | MS.gene26448:CDS | 30.0% | |
| TGGATCAATGGAACAAATTA+AGG | + | chr4.1:23754605-23754624 | MS.gene26448:CDS | 30.0% | |
| TGGCAAAACTATAACTGAAA+AGG | + | chr4.1:23754699-23754718 | MS.gene26448:CDS | 30.0% | |
| TGTTATAGATGCAGAATGAA+AGG | + | chr4.1:23755150-23755169 | MS.gene26448:CDS | 30.0% | |
| TTCCATTGATCCATTAATGA+GGG | - | chr4.1:23754598-23754617 | None:intergenic | 30.0% | |
| TTTGTAATCCATCATCAATG+TGG | - | chr4.1:23754492-23754511 | None:intergenic | 30.0% | |
| ! | AACGCTACAACTTTTAATCA+AGG | + | chr4.1:23754910-23754929 | MS.gene26448:CDS | 30.0% |
| ! | ACGCTACAACTTTTAATCAA+GGG | + | chr4.1:23754911-23754930 | MS.gene26448:CDS | 30.0% |
| ! | ATATGTTGATGGAAAGGAAA+AGG | + | chr4.1:23755227-23755246 | MS.gene26448:CDS | 30.0% |
| ! | CAAAAGATCCCAAGATTTTA+TGG | + | chr4.1:23754527-23754546 | MS.gene26448:CDS | 30.0% |
| ! | CAAAGAATATGTTGATGGAA+AGG | + | chr4.1:23755221-23755240 | MS.gene26448:CDS | 30.0% |
| ! | TATCTTTTACACAGATACTC+TGG | - | chr4.1:23755201-23755220 | None:intergenic | 30.0% |
| ! | TTTACCTTGATGATTCTTGT+TGG | - | chr4.1:23755085-23755104 | None:intergenic | 30.0% |
| AAGACAGGTAGTATCATTCT+TGG | - | chr4.1:23755277-23755296 | None:intergenic | 35.0% | |
| AATTGAGTATCTTGCATGTG+AGG | + | chr4.1:23754375-23754394 | MS.gene26448:CDS | 35.0% | |
| AGACAGGTAGTATCATTCTT+GGG | - | chr4.1:23755276-23755295 | None:intergenic | 35.0% | |
| ATTGAGTATCTTGCATGTGA+GGG | + | chr4.1:23754376-23754395 | MS.gene26448:CDS | 35.0% | |
| CAAACCAACAAGAATCATCA+AGG | + | chr4.1:23755078-23755097 | MS.gene26448:CDS | 35.0% | |
| GTTCCATTGATCCATTAATG+AGG | - | chr4.1:23754599-23754618 | None:intergenic | 35.0% | |
| ! | ACGATCATCATGATTTCTAG+AGG | - | chr4.1:23755130-23755149 | None:intergenic | 35.0% |
| ! | CGATCATCATGATTTCTAGA+GGG | - | chr4.1:23755129-23755148 | None:intergenic | 35.0% |
| ! | CTCAATTAAGTTGTTGTTCC+AGG | - | chr4.1:23754362-23754381 | None:intergenic | 35.0% |
| ! | CTTGATGATTCTTGTTGGTT+TGG | - | chr4.1:23755080-23755099 | None:intergenic | 35.0% |
| ! | TTTTCTTTGCCAATTCCTCT+GGG | - | chr4.1:23754441-23754460 | None:intergenic | 35.0% |
| ! | TTTTTCTTTGCCAATTCCTC+TGG | - | chr4.1:23754442-23754461 | None:intergenic | 35.0% |
| !! | AAAGGTAAAAGCATCAAGGA+AGG | + | chr4.1:23755102-23755121 | MS.gene26448:CDS | 35.0% |
| !! | AGGTAAAGGTAAAAGCATCA+AGG | + | chr4.1:23755098-23755117 | MS.gene26448:CDS | 35.0% |
| !! | AGTCTTATTGCCCTCATTAA+TGG | + | chr4.1:23754585-23754604 | MS.gene26448:CDS | 35.0% |
| !! | TTGGTTTGGTCATATTTGAG+AGG | - | chr4.1:23755066-23755085 | None:intergenic | 35.0% |
| ATCAAGCACCACATTGATGA+TGG | + | chr4.1:23754481-23754500 | MS.gene26448:CDS | 40.0% | |
| ATTCTTGAGGGAGACGATTT+GGG | + | chr4.1:23754409-23754428 | MS.gene26448:CDS | 40.0% | |
| GAATGATACTACCTGTCTTG+AGG | + | chr4.1:23755278-23755297 | MS.gene26448:CDS | 40.0% | |
| GATGCAGAATGAAAGGTCAT+TGG | + | chr4.1:23755157-23755176 | MS.gene26448:CDS | 40.0% | |
| GCAATATCACTTGAGATGCA+TGG | - | chr4.1:23754753-23754772 | None:intergenic | 40.0% | |
| TTTGGTTACAGCTCTTCTAG+TGG | + | chr4.1:23754813-23754832 | MS.gene26448:CDS | 40.0% | |
| ! | ACAACTTTTAATCAAGGGCG+TGG | + | chr4.1:23754916-23754935 | MS.gene26448:CDS | 40.0% |
| ! | TGCCCTCATTAATGGATCAA+TGG | + | chr4.1:23754593-23754612 | MS.gene26448:CDS | 40.0% |
| ! | TGTTGATGGAAAGGAAAAGG+AGG | + | chr4.1:23755230-23755249 | MS.gene26448:CDS | 40.0% |
| CTGGAGACAACTACATAACC+TGG | + | chr4.1:23754341-23754360 | MS.gene26448:CDS | 45.0% | |
| GATTCTTGAGGGAGACGATT+TGG | + | chr4.1:23754408-23754427 | MS.gene26448:CDS | 45.0% | |
| GGACTCGACAAGATTCTTGA+GGG | + | chr4.1:23754397-23754416 | MS.gene26448:CDS | 45.0% | |
| GGATATGCCATTGTTCCTGT+AGG | - | chr4.1:23754883-23754902 | None:intergenic | 45.0% | |
| GGTGGTTATAATCGCCAAAG+AGG | + | chr4.1:23754937-23754956 | MS.gene26448:CDS | 45.0% | |
| TATAATCGCCAAAGAGGACG+TGG | + | chr4.1:23754943-23754962 | MS.gene26448:CDS | 45.0% | |
| ! | CATGGTCGAAACCATTTTCG+TGG | + | chr4.1:23755006-23755025 | MS.gene26448:CDS | 45.0% |
| !! | ACTTTTAATCAAGGGCGTGG+TGG | + | chr4.1:23754919-23754938 | MS.gene26448:CDS | 45.0% |
| !! | CTTGAGGCTGCTGATTTCAT+AGG | + | chr4.1:23755294-23755313 | MS.gene26448:CDS | 45.0% |
| GAAATCAGCAGCCTCAAGAC+AGG | - | chr4.1:23755292-23755311 | None:intergenic | 50.0% | |
| GGGACTCGACAAGATTCTTG+AGG | + | chr4.1:23754396-23754415 | MS.gene26448:CDS | 50.0% | |
| GTTGCGTCCTACAGGAACAA+TGG | + | chr4.1:23754873-23754892 | MS.gene26448:CDS | 50.0% | |
| TTGTTCCTGTAGGACGCAAC+TGG | - | chr4.1:23754873-23754892 | None:intergenic | 50.0% | |
| ! | CGAAACCATTTTCGTGGTGG+AGG | + | chr4.1:23755012-23755031 | MS.gene26448:CDS | 50.0% |
| ! | GGTCGAAACCATTTTCGTGG+TGG | + | chr4.1:23755009-23755028 | MS.gene26448:CDS | 50.0% |
| !! | TATGCTCGTTTTGGTGGTCG+TGG | + | chr4.1:23754970-23754989 | MS.gene26448:CDS | 50.0% |
| AACCACCAGTTGCGTCCTAC+AGG | + | chr4.1:23754865-23754884 | MS.gene26448:CDS | 55.0% | |
| AATCGCCAAAGAGGACGTGG+TGG | + | chr4.1:23754946-23754965 | MS.gene26448:CDS | 55.0% | |
| CATAGCCACCACGTCCTCTT+TGG | - | chr4.1:23754954-23754973 | None:intergenic | 55.0% | |
| GGGAGATGTCCCAGAGGAAT+TGG | + | chr4.1:23754429-23754448 | MS.gene26448:CDS | 55.0% | |
| TTCCTGTAGGACGCAACTGG+TGG | - | chr4.1:23754870-23754889 | None:intergenic | 55.0% | |
| ! | CGATTTGGGAGATGTCCCAG+AGG | + | chr4.1:23754423-23754442 | MS.gene26448:CDS | 55.0% |
| ! | CGTGGTGGCTATGCTCGTTT+TGG | + | chr4.1:23754961-23754980 | MS.gene26448:CDS | 55.0% |
| ! | GGTGGCTATGCTCGTTTTGG+TGG | + | chr4.1:23754964-23754983 | MS.gene26448:CDS | 55.0% |
| CACGGCCTCCACCACGAAAA+TGG | - | chr4.1:23755020-23755039 | None:intergenic | 60.0% | |
| CGTGGTCGAGGCAGAAGTCA+TGG | + | chr4.1:23754988-23755007 | MS.gene26448:CDS | 60.0% | |
| !! | CATTTTCGTGGTGGAGGCCG+TGG | + | chr4.1:23755018-23755037 | MS.gene26448:CDS | 60.0% |
| !! | CGTTTTGGTGGTCGTGGTCG+AGG | + | chr4.1:23754976-23754995 | MS.gene26448:CDS | 60.0% |
| ! | CGTGGTGGAGGCCGTGGAAG+AGG | + | chr4.1:23755024-23755043 | MS.gene26448:CDS | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.1 | gene | 23754301 | 23755338 | 23754301 | ID=MS.gene26448 |
| chr4.1 | mRNA | 23754301 | 23755338 | 23754301 | ID=MS.gene26448.t1;Parent=MS.gene26448 |
| chr4.1 | exon | 23754301 | 23755338 | 23754301 | ID=MS.gene26448.t1.exon1;Parent=MS.gene26448.t1 |
| chr4.1 | CDS | 23754301 | 23755338 | 23754301 | ID=cds.MS.gene26448.t1;Parent=MS.gene26448.t1 |
| Gene Sequence |
| Protein sequence |
