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.gene79339.t1 | XP_013689578.1 | 43.4 | 341 | 161 | 7 | 5 | 340 | 6 | 319 | 6.30E-67 | 264.6 |
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.gene79339.t1 | A0A2N9I863 | 41.5 | 352 | 172 | 9 | 1 | 337 | 1 | 333 | 1.5e-62 | 249.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene058515 | MS.gene79339 | 0.829721 | 4.39E-55 | -1.69E-46 |
| MS.gene060253 | MS.gene79339 | 0.830904 | 2.26E-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.gene79339.t1 | MTR_7g062720 | 40.541 | 148 | 80 | 3 | 1 | 146 | 1 | 142 | 2.07e-31 | 116 |
| MS.gene79339.t1 | MTR_4g037355 | 41.912 | 136 | 59 | 3 | 155 | 290 | 1 | 116 | 7.17e-23 | 93.2 |
| MS.gene79339.t1 | MTR_4g112730 | 60.000 | 70 | 27 | 1 | 143 | 212 | 2 | 70 | 3.67e-19 | 81.6 |
| MS.gene79339.t1 | MTR_5g061150 | 35.354 | 99 | 64 | 0 | 52 | 150 | 38 | 136 | 4.41e-18 | 80.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 62 sgRNAs with CRISPR-Local
Find 86 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGGATCAATGGAACAAATTA+AGG | 0.196151 | 3.1:-18256103 | MS.gene79339:CDS |
| AGTCTTATTGCCCTCATTAA+TGG | 0.201947 | 3.1:-18256123 | MS.gene79339:CDS |
| AAAGTTGTGGCGTTTATTTC+AGG | 0.203868 | 3.1:+18255807 | None:intergenic |
| GACAAAATTAAGGCAAGATT+TGG | 0.257188 | 3.1:-18256158 | MS.gene79339:CDS |
| GATTCTTGAGGGAGACGATT+TGG | 0.271296 | 3.1:-18256300 | MS.gene79339:CDS |
| CTCAATTAAGTTGTTGTTCC+AGG | 0.274617 | 3.1:+18256349 | None:intergenic |
| CACGGCCTCCACCACGAAAA+TGG | 0.277262 | 3.1:+18255691 | None:intergenic |
| ATTTACTAAATACTCTGATT+TGG | 0.311604 | 3.1:-18255913 | MS.gene79339:CDS |
| CTTGATGATTCTTGTTGGTT+TGG | 0.339105 | 3.1:+18255631 | None:intergenic |
| GAAGAGGTTATATGAATTAT+AGG | 0.339571 | 3.1:-18255668 | MS.gene79339:CDS |
| GGGAGATGTCCCAGAGGAAT+TGG | 0.345733 | 3.1:-18256279 | MS.gene79339:CDS |
| ATTCTTGAGGGAGACGATTT+GGG | 0.354692 | 3.1:-18256299 | MS.gene79339:CDS |
| CGTAGTGGCTATGCTCGTTT+TGG | 0.359061 | 3.1:-18255747 | MS.gene79339:CDS |
| AAGACAGGTAGTATCATTCT+TGG | 0.359896 | 3.1:+18255434 | None:intergenic |
| TTTACCTTGATGATTCTTGT+TGG | 0.362649 | 3.1:+18255626 | None:intergenic |
| CTTGAGACTGCTGATTTCAT+AGG | 0.373343 | 3.1:-18255414 | MS.gene79339:CDS |
| CATAGCCACTACGTCCTCTT+TGG | 0.391081 | 3.1:+18255757 | None:intergenic |
| ACAAAATTAAGGCAAGATTT+GGG | 0.416566 | 3.1:-18256157 | MS.gene79339:CDS |
| TATAACTGAAAAGGAAAAGT+TGG | 0.422757 | 3.1:-18256000 | MS.gene79339:CDS |
| CGTGGTGGAGGCCGTGGAAG+AGG | 0.431707 | 3.1:-18255684 | MS.gene79339:CDS |
| TGCCCTCATTAATGGATCAA+TGG | 0.432677 | 3.1:-18256115 | MS.gene79339:CDS |
| AGATACAAAGAATCTGTTGA+TGG | 0.446469 | 3.1:-18255492 | MS.gene79339:CDS |
| TGGCAAAACTATAACTGAAA+AGG | 0.467052 | 3.1:-18256009 | MS.gene79339:CDS |
| TGATTTCATAGGAGAAGAAA+TGG | 0.469590 | 3.1:-18255403 | MS.gene79339:CDS |
| AACCACCAGTTGCGTCCTAC+AGG | 0.478404 | 3.1:-18255843 | MS.gene79339:CDS |
| TTGTTCCTGTAGGACGCAAC+TGG | 0.480977 | 3.1:+18255838 | None:intergenic |
| AGACAGGTAGTATCATTCTT+GGG | 0.483328 | 3.1:+18255435 | None:intergenic |
| TGTTATAGATGCGGGAAGAA+AGG | 0.485394 | 3.1:-18255558 | MS.gene79339:CDS |
| ATCAAGCACCACATTGATGA+TGG | 0.492315 | 3.1:-18256227 | MS.gene79339:CDS |
| TGCAACAACAATATAGAATG+AGG | 0.496917 | 3.1:-18255938 | MS.gene79339:CDS |
| CTGGAGACAACTACATAACC+TGG | 0.502040 | 3.1:-18256367 | MS.gene79339:CDS |
| AACAAGAATCATCAAGGTAA+AGG | 0.504207 | 3.1:-18255624 | MS.gene79339:CDS |
| GTTCCATTGATCCATTAATG+AGG | 0.509644 | 3.1:+18256112 | None:intergenic |
| CAAAGAATCTGTTGATGGAA+AGG | 0.510693 | 3.1:-18255487 | MS.gene79339:CDS |
| ATGATCATTGTTATAGATGC+GGG | 0.512976 | 3.1:-18255566 | MS.gene79339:CDS |
| ATCTGTTGATGGAAAGGAAA+GGG | 0.513746 | 3.1:-18255481 | MS.gene79339:CDS |
| TTCCATTGATCCATTAATGA+GGG | 0.533283 | 3.1:+18256113 | None:intergenic |
| GGACTCGACAAGATTCTTGA+GGG | 0.539594 | 3.1:-18256311 | MS.gene79339:CDS |
| TTGGTTTGGTCATATTTGAG+AGG | 0.544297 | 3.1:+18255645 | None:intergenic |
| GATTTCTAGAGCGACCATCC+TGG | 0.548628 | 3.1:+18255592 | None:intergenic |
| CGTGGTCGAGGCAGAAGTCA+TGG | 0.554869 | 3.1:-18255720 | MS.gene79339:CDS |
| GATGCGGGAAGAAAGGTCAT+TGG | 0.558258 | 3.1:-18255551 | MS.gene79339:CDS |
| GAAATCAGCAGTCTCAAGAC+AGG | 0.562148 | 3.1:+18255419 | None:intergenic |
| AATTGAGTATCTTGCATGTG+AGG | 0.565013 | 3.1:-18256333 | MS.gene79339:CDS |
| GGATATGTCATTGTTCCTGT+AGG | 0.570307 | 3.1:+18255828 | None:intergenic |
| CAAACCAACAAGAATCATCA+AGG | 0.574004 | 3.1:-18255630 | MS.gene79339:CDS |
| TTTGGTTACAGCTCTTCTAG+TGG | 0.574259 | 3.1:-18255895 | MS.gene79339:CDS |
| ATTGAGTATCTTGCATGTGA+GGG | 0.575966 | 3.1:-18256332 | MS.gene79339:CDS |
| GCAACAACAATATAGAATGA+GGG | 0.579939 | 3.1:-18255937 | MS.gene79339:CDS |
| ATGCCCTTGATTAAAAGTTG+TGG | 0.589908 | 3.1:+18255794 | None:intergenic |
| TTCCTGTAGGACGCAACTGG+TGG | 0.593030 | 3.1:+18255841 | None:intergenic |
| GATGATCATTGTTATAGATG+CGG | 0.595627 | 3.1:-18255567 | MS.gene79339:CDS |
| AATTCATATAACCTCTTCCA+CGG | 0.595635 | 3.1:+18255673 | None:intergenic |
| GCAATATCACTTGAGATGCA+TGG | 0.608661 | 3.1:+18255958 | None:intergenic |
| GGGACTCGACAAGATTCTTG+AGG | 0.610766 | 3.1:-18256312 | MS.gene79339:CDS |
| TGTTGATGGAAAGGAAAGGG+AGG | 0.620365 | 3.1:-18255478 | MS.gene79339:CDS |
| GTCATTGGTCTAAAGCATGT+AGG | 0.629444 | 3.1:-18255536 | MS.gene79339:CDS |
| GGTGATTATAATCGCCAAAG+AGG | 0.636655 | 3.1:-18255771 | MS.gene79339:CDS |
| AATCTGTTGATGGAAAGGAA+AGG | 0.653361 | 3.1:-18255482 | MS.gene79339:CDS |
| AATCGCCAAAGAGGACGTAG+TGG | 0.674563 | 3.1:-18255762 | MS.gene79339:CDS |
| TTTGTAATCCATCATCAATG+TGG | 0.715751 | 3.1:+18256219 | None:intergenic |
| CGATTTGGGAGATGTCCCAG+AGG | 0.725435 | 3.1:-18256285 | MS.gene79339:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTATGTTTAAAATTTTGAAT+TGG | + | chr3.1:18255418-18255437 | None:intergenic | 10.0% |
| !!! | TTCAAAATTTTAAACATAAC+TGG | - | chr3.1:18255419-18255438 | MS.gene79339:CDS | 15.0% |
| !! | ATTTACTAAATACTCTGATT+TGG | - | chr3.1:18255892-18255911 | MS.gene79339:CDS | 20.0% |
| ! | ACAAAATTAAGGCAAGATTT+GGG | - | chr3.1:18255648-18255667 | MS.gene79339:CDS | 25.0% |
| ! | GAAGAGGTTATATGAATTAT+AGG | - | chr3.1:18256137-18256156 | MS.gene79339:CDS | 25.0% |
| ! | TATAACTGAAAAGGAAAAGT+TGG | - | chr3.1:18255805-18255824 | MS.gene79339:CDS | 25.0% |
| !! | AAAAGATCCCAAGATTTTAT+GGG | - | chr3.1:18255625-18255644 | MS.gene79339:CDS | 25.0% |
| !! | AATTTTGTCCCATAAAATCT+TGG | + | chr3.1:18255636-18255655 | None:intergenic | 25.0% |
| !! | ATTGCACAATTAGAATTTTG+TGG | - | chr3.1:18255776-18255795 | MS.gene79339:CDS | 25.0% |
| !! | ATTTTGTCCCATAAAATCTT+GGG | + | chr3.1:18255635-18255654 | None:intergenic | 25.0% |
| !! | GATTTTATGGGACAAAATTA+AGG | - | chr3.1:18255637-18255656 | MS.gene79339:CDS | 25.0% |
| !!! | CAACAACAGTTTTATAATCT+TGG | + | chr3.1:18255730-18255749 | None:intergenic | 25.0% |
| AACAAGAATCATCAAGGTAA+AGG | - | chr3.1:18256181-18256200 | MS.gene79339:CDS | 30.0% | |
| AATTCATATAACCTCTTCCA+CGG | + | chr3.1:18256135-18256154 | None:intergenic | 30.0% | |
| AGATACAAAGAATCTGTTGA+TGG | - | chr3.1:18256313-18256332 | MS.gene79339:CDS | 30.0% | |
| ATGATCATTGTTATAGATGC+GGG | - | chr3.1:18256239-18256258 | MS.gene79339:CDS | 30.0% | |
| GACAAAATTAAGGCAAGATT+TGG | - | chr3.1:18255647-18255666 | MS.gene79339:CDS | 30.0% | |
| GATGATCATTGTTATAGATG+CGG | - | chr3.1:18256238-18256257 | MS.gene79339:CDS | 30.0% | |
| GCAACAACAATATAGAATGA+GGG | - | chr3.1:18255868-18255887 | MS.gene79339:CDS | 30.0% | |
| TGATTTCATAGGAGAAGAAA+TGG | - | chr3.1:18256402-18256421 | MS.gene79339:CDS | 30.0% | |
| TGCAACAACAATATAGAATG+AGG | - | chr3.1:18255867-18255886 | MS.gene79339:CDS | 30.0% | |
| TGGATCAATGGAACAAATTA+AGG | - | chr3.1:18255702-18255721 | MS.gene79339:CDS | 30.0% | |
| TGGCAAAACTATAACTGAAA+AGG | - | chr3.1:18255796-18255815 | MS.gene79339:CDS | 30.0% | |
| TTCCATTGATCCATTAATGA+GGG | + | chr3.1:18255695-18255714 | None:intergenic | 30.0% | |
| TTTGTAATCCATCATCAATG+TGG | + | chr3.1:18255589-18255608 | None:intergenic | 30.0% | |
| ! | CAAAAGATCCCAAGATTTTA+TGG | - | chr3.1:18255624-18255643 | MS.gene79339:CDS | 30.0% |
| ! | TATCTTTTACACAGATACTC+TGG | + | chr3.1:18256298-18256317 | None:intergenic | 30.0% |
| ! | TTTACCTTGATGATTCTTGT+TGG | + | chr3.1:18256182-18256201 | None:intergenic | 30.0% |
| AAAGGTAAAAACATCCAGGA+TGG | - | chr3.1:18256199-18256218 | MS.gene79339:CDS | 35.0% | |
| AAAGTTGTGGCGTTTATTTC+AGG | + | chr3.1:18256001-18256020 | None:intergenic | 35.0% | |
| AAGACAGGTAGTATCATTCT+TGG | + | chr3.1:18256374-18256393 | None:intergenic | 35.0% | |
| AATTGAGTATCTTGCATGTG+AGG | - | chr3.1:18255472-18255491 | MS.gene79339:CDS | 35.0% | |
| AGACAGGTAGTATCATTCTT+GGG | + | chr3.1:18256373-18256392 | None:intergenic | 35.0% | |
| AGGTAAAGGTAAAAACATCC+AGG | - | chr3.1:18256195-18256214 | MS.gene79339:CDS | 35.0% | |
| ATGCCCTTGATTAAAAGTTG+TGG | + | chr3.1:18256014-18256033 | None:intergenic | 35.0% | |
| ATTGAGTATCTTGCATGTGA+GGG | - | chr3.1:18255473-18255492 | MS.gene79339:CDS | 35.0% | |
| CAAACCAACAAGAATCATCA+AGG | - | chr3.1:18256175-18256194 | MS.gene79339:CDS | 35.0% | |
| GTTCCATTGATCCATTAATG+AGG | + | chr3.1:18255696-18255715 | None:intergenic | 35.0% | |
| ! | AACGCCACAACTTTTAATCA+AGG | - | chr3.1:18256007-18256026 | MS.gene79339:CDS | 35.0% |
| ! | AATCTGTTGATGGAAAGGAA+AGG | - | chr3.1:18256323-18256342 | MS.gene79339:CDS | 35.0% |
| ! | ACAACTTTTAATCAAGGGCA+TGG | - | chr3.1:18256013-18256032 | MS.gene79339:CDS | 35.0% |
| ! | ACGCCACAACTTTTAATCAA+GGG | - | chr3.1:18256008-18256027 | MS.gene79339:CDS | 35.0% |
| ! | ATCTGTTGATGGAAAGGAAA+GGG | - | chr3.1:18256324-18256343 | MS.gene79339:CDS | 35.0% |
| ! | CAAAGAATCTGTTGATGGAA+AGG | - | chr3.1:18256318-18256337 | MS.gene79339:CDS | 35.0% |
| ! | CTCAATTAAGTTGTTGTTCC+AGG | + | chr3.1:18255459-18255478 | None:intergenic | 35.0% |
| ! | CTTGATGATTCTTGTTGGTT+TGG | + | chr3.1:18256177-18256196 | None:intergenic | 35.0% |
| ! | TTTTCTTTGCCAATTCCTCT+GGG | + | chr3.1:18255538-18255557 | None:intergenic | 35.0% |
| ! | TTTTTCTTTGCCAATTCCTC+TGG | + | chr3.1:18255539-18255558 | None:intergenic | 35.0% |
| !! | AGTCTTATTGCCCTCATTAA+TGG | - | chr3.1:18255682-18255701 | MS.gene79339:CDS | 35.0% |
| !! | TTGGTTTGGTCATATTTGAG+AGG | + | chr3.1:18256163-18256182 | None:intergenic | 35.0% |
| ATCAAGCACCACATTGATGA+TGG | - | chr3.1:18255578-18255597 | MS.gene79339:CDS | 40.0% | |
| ATTCTTGAGGGAGACGATTT+GGG | - | chr3.1:18255506-18255525 | MS.gene79339:CDS | 40.0% | |
| GCAATATCACTTGAGATGCA+TGG | + | chr3.1:18255850-18255869 | None:intergenic | 40.0% | |
| GGATATGTCATTGTTCCTGT+AGG | + | chr3.1:18255980-18255999 | None:intergenic | 40.0% | |
| GGTGATTATAATCGCCAAAG+AGG | - | chr3.1:18256034-18256053 | MS.gene79339:CDS | 40.0% | |
| TGTTATAGATGCGGGAAGAA+AGG | - | chr3.1:18256247-18256266 | MS.gene79339:CDS | 40.0% | |
| TTTGGTTACAGCTCTTCTAG+TGG | - | chr3.1:18255910-18255929 | MS.gene79339:CDS | 40.0% | |
| ! | GTCATTGGTCTAAAGCATGT+AGG | - | chr3.1:18256269-18256288 | MS.gene79339:CDS | 40.0% |
| ! | TGCCCTCATTAATGGATCAA+TGG | - | chr3.1:18255690-18255709 | MS.gene79339:CDS | 40.0% |
| !! | CTTGAGACTGCTGATTTCAT+AGG | - | chr3.1:18256391-18256410 | MS.gene79339:CDS | 40.0% |
| CTGGAGACAACTACATAACC+TGG | - | chr3.1:18255438-18255457 | MS.gene79339:CDS | 45.0% | |
| GAAATCAGCAGTCTCAAGAC+AGG | + | chr3.1:18256389-18256408 | None:intergenic | 45.0% | |
| GATTCTTGAGGGAGACGATT+TGG | - | chr3.1:18255505-18255524 | MS.gene79339:CDS | 45.0% | |
| GGACTCGACAAGATTCTTGA+GGG | - | chr3.1:18255494-18255513 | MS.gene79339:CDS | 45.0% | |
| ! | CATGGTCGAAACCATTTTCG+TGG | - | chr3.1:18256103-18256122 | MS.gene79339:CDS | 45.0% |
| ! | TGTTGATGGAAAGGAAAGGG+AGG | - | chr3.1:18256327-18256346 | MS.gene79339:CDS | 45.0% |
| AATCGCCAAAGAGGACGTAG+TGG | - | chr3.1:18256043-18256062 | MS.gene79339:CDS | 50.0% | |
| CATAGCCACTACGTCCTCTT+TGG | + | chr3.1:18256051-18256070 | None:intergenic | 50.0% | |
| GATGCGGGAAGAAAGGTCAT+TGG | - | chr3.1:18256254-18256273 | MS.gene79339:CDS | 50.0% | |
| GGGACTCGACAAGATTCTTG+AGG | - | chr3.1:18255493-18255512 | MS.gene79339:CDS | 50.0% | |
| TTGTTCCTGTAGGACGCAAC+TGG | + | chr3.1:18255970-18255989 | None:intergenic | 50.0% | |
| ! | AGTGGCTATGCTCGTTTTGG+TGG | - | chr3.1:18256061-18256080 | MS.gene79339:CDS | 50.0% |
| ! | CGAAACCATTTTCGTGGTGG+AGG | - | chr3.1:18256109-18256128 | MS.gene79339:CDS | 50.0% |
| ! | CGTAGTGGCTATGCTCGTTT+TGG | - | chr3.1:18256058-18256077 | MS.gene79339:CDS | 50.0% |
| ! | GGTCGAAACCATTTTCGTGG+TGG | - | chr3.1:18256106-18256125 | MS.gene79339:CDS | 50.0% |
| !! | GATTTCTAGAGCGACCATCC+TGG | + | chr3.1:18256216-18256235 | None:intergenic | 50.0% |
| !! | TATGCTCGTTTTGGTGGTCG+TGG | - | chr3.1:18256067-18256086 | MS.gene79339:CDS | 50.0% |
| AACCACCAGTTGCGTCCTAC+AGG | - | chr3.1:18255962-18255981 | MS.gene79339:CDS | 55.0% | |
| GGGAGATGTCCCAGAGGAAT+TGG | - | chr3.1:18255526-18255545 | MS.gene79339:CDS | 55.0% | |
| TTCCTGTAGGACGCAACTGG+TGG | + | chr3.1:18255967-18255986 | None:intergenic | 55.0% | |
| ! | CGATTTGGGAGATGTCCCAG+AGG | - | chr3.1:18255520-18255539 | MS.gene79339:CDS | 55.0% |
| CACGGCCTCCACCACGAAAA+TGG | + | chr3.1:18256117-18256136 | None:intergenic | 60.0% | |
| CGTGGTCGAGGCAGAAGTCA+TGG | - | chr3.1:18256085-18256104 | MS.gene79339:CDS | 60.0% | |
| !! | CATTTTCGTGGTGGAGGCCG+TGG | - | chr3.1:18256115-18256134 | MS.gene79339:CDS | 60.0% |
| !! | CGTTTTGGTGGTCGTGGTCG+AGG | - | chr3.1:18256073-18256092 | MS.gene79339:CDS | 60.0% |
| ! | CGTGGTGGAGGCCGTGGAAG+AGG | - | chr3.1:18256121-18256140 | MS.gene79339:CDS | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.1 | gene | 18255398 | 18256429 | 18255398 | ID=MS.gene79339 |
| chr3.1 | mRNA | 18255398 | 18256429 | 18255398 | ID=MS.gene79339.t1;Parent=MS.gene79339 |
| chr3.1 | exon | 18255398 | 18256429 | 18255398 | ID=MS.gene79339.t1.exon1;Parent=MS.gene79339.t1 |
| chr3.1 | CDS | 18255398 | 18256429 | 18255398 | ID=cds.MS.gene79339.t1;Parent=MS.gene79339.t1 |
| Gene Sequence |
| Protein sequence |
