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.gene06754.t1 | RHN69591.1 | 98.9 | 94 | 1 | 0 | 4 | 97 | 86 | 179 | 3.90E-40 | 174.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene06754.t1 | Q700C7 | 75.6 | 82 | 16 | 2 | 16 | 97 | 266 | 343 | 5.4e-22 | 105.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene06754.t1 | G7J6A1 | 98.9 | 94 | 1 | 0 | 4 | 97 | 215 | 308 | 2.8e-40 | 174.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050298 | MS.gene06754 | 0.805602 | 1.23E-49 | -1.69E-46 |
| MS.gene052142 | MS.gene06754 | 0.802435 | 5.62E-49 | -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.gene06754.t1 | MTR_3g090850 | 98.969 | 97 | 1 | 0 | 1 | 97 | 212 | 308 | 5.37e-62 | 192 |
| MS.gene06754.t1 | MTR_1g028470 | 73.256 | 86 | 21 | 2 | 12 | 97 | 189 | 272 | 3.12e-35 | 122 |
| MS.gene06754.t1 | MTR_2g022280 | 51.852 | 81 | 38 | 1 | 17 | 97 | 86 | 165 | 6.15e-21 | 83.6 |
| MS.gene06754.t1 | MTR_0194s0050 | 50.704 | 71 | 34 | 1 | 27 | 97 | 289 | 358 | 2.97e-14 | 67.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene06754.t1 | AT5G53210 | 81.690 | 71 | 12 | 1 | 27 | 97 | 274 | 343 | 6.95e-31 | 112 |
| MS.gene06754.t1 | AT5G53210 | 81.690 | 71 | 12 | 1 | 27 | 97 | 274 | 343 | 1.02e-30 | 112 |
| MS.gene06754.t1 | AT3G06120 | 39.175 | 97 | 48 | 2 | 11 | 97 | 77 | 172 | 7.30e-15 | 67.8 |
| MS.gene06754.t1 | AT3G24140 | 50.704 | 71 | 34 | 1 | 27 | 97 | 304 | 373 | 1.35e-14 | 68.9 |
| MS.gene06754.t1 | AT3G24140 | 50.704 | 71 | 34 | 1 | 27 | 97 | 304 | 373 | 1.50e-14 | 68.9 |
Find 17 sgRNAs with CRISPR-Local
Find 63 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACTGTTTCTCAACGAATTCC+AGG | 0.392508 | 3.3:-75844332 | MS.gene06754:CDS |
| TTGACCTCCACGTCAGCAAT+AGG | 0.436432 | 3.3:+75844383 | None:intergenic |
| GAGGAAGTAGAGGAACTAGT+AGG | 0.492572 | 3.3:+75844449 | None:intergenic |
| GTAGAGGAACTAGTAGGAGA+TGG | 0.502378 | 3.3:+75844455 | None:intergenic |
| ATAATCTTCAAAGCTTGTCC+TGG | 0.509002 | 3.3:+75844314 | None:intergenic |
| TTGAACAGGCTGGAATATGA+AGG | 0.517160 | 3.3:-75843312 | MS.gene06754:intron |
| GTTGAACTCCTTCACTATCA+AGG | 0.535634 | 3.3:-75844222 | MS.gene06754:intron |
| CTAGTAGGAGATGGATCAAG+AGG | 0.552519 | 3.3:+75844464 | None:intergenic |
| ATCATTGACTGAGGAAGTAG+AGG | 0.588412 | 3.3:+75844439 | None:intergenic |
| GTCTCCTATTGCTGACGTGG+AGG | 0.609724 | 3.3:-75844387 | MS.gene06754:CDS |
| TGAACAGGCTGGAATATGAA+GGG | 0.624225 | 3.3:-75843311 | MS.gene06754:intron |
| AAAGTCTCCTATTGCTGACG+TGG | 0.628049 | 3.3:-75844390 | MS.gene06754:CDS |
| AAGTACTATTAATGTTAACA+TGG | 0.635453 | 3.3:+75844258 | None:intergenic |
| TAAACGTACCTTGATAGTGA+AGG | 0.635932 | 3.3:+75844214 | None:intergenic |
| ATTGATGTTATCATTGACTG+AGG | 0.636012 | 3.3:+75844430 | None:intergenic |
| AAGGGTGATGTGATGAGCAA+TGG | 0.660129 | 3.3:-75843293 | MS.gene06754:CDS |
| GATAGTGAAGGAGTTCAACA+TGG | 0.664739 | 3.3:+75844226 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAATAAAATTATATTGAAC+AGG | - | chr3.3:75844451-75844470 | MS.gene06754:CDS | 10.0% |
| !! | TATATATGTCAAAAAGTAAA+TGG | - | chr3.3:75843745-75843764 | MS.gene06754:intron | 15.0% |
| !! | AAGTACTATTAATGTTAACA+TGG | + | chr3.3:75843522-75843541 | None:intergenic | 20.0% |
| !! | AGAAATAGATGAAATTAAAG+TGG | + | chr3.3:75844339-75844358 | None:intergenic | 20.0% |
| !! | CCAGTAATATATTATAAGAA+TGG | - | chr3.3:75843942-75843961 | MS.gene06754:intron | 20.0% |
| !! | CCATTCTTATAATATATTAC+TGG | + | chr3.3:75843945-75843964 | None:intergenic | 20.0% |
| !! | TATTTATAGTGTACTGTAAT+TGG | - | chr3.3:75844257-75844276 | MS.gene06754:CDS | 20.0% |
| !!! | ATGGTTTGTAATTAATACTA+TGG | - | chr3.3:75843961-75843980 | MS.gene06754:intron | 20.0% |
| !!! | TATACTTGATTTTATTGTGA+TGG | + | chr3.3:75843659-75843678 | None:intergenic | 20.0% |
| ! | ATAACAAAGATAGAGATGTT+TGG | + | chr3.3:75844114-75844133 | None:intergenic | 25.0% |
| ! | CTATTGAAGAGTAAAAAGAA+AGG | + | chr3.3:75843623-75843642 | None:intergenic | 25.0% |
| ! | TAAAATTATATTGAACAGGC+TGG | - | chr3.3:75844455-75844474 | MS.gene06754:CDS | 25.0% |
| !! | CTTTCTTTTTACTCTTCAAT+AGG | - | chr3.3:75843621-75843640 | MS.gene06754:intron | 25.0% |
| !! | TTGATGTACTTTAAAAGTAG+TGG | - | chr3.3:75843769-75843788 | MS.gene06754:intron | 25.0% |
| AAAGATAGAGATGTTTGGTA+AGG | + | chr3.3:75844109-75844128 | None:intergenic | 30.0% | |
| AGCAAACATTCTGCTAAAAA+TGG | - | chr3.3:75844054-75844073 | MS.gene06754:intron | 30.0% | |
| GCAAACATTCTGCTAAAAAT+GGG | - | chr3.3:75844055-75844074 | MS.gene06754:intron | 30.0% | |
| GCTACTTATGTGTTCAATTT+AGG | - | chr3.3:75843918-75843937 | MS.gene06754:intron | 30.0% | |
| TATCAAGGTACGTTTATTCT+TGG | - | chr3.3:75843570-75843589 | MS.gene06754:intron | 30.0% | |
| ! | ACAGTTTTCAAAAGAACATG+AGG | + | chr3.3:75843430-75843449 | None:intergenic | 30.0% |
| ! | ACATTTGTTGAAAAGCCAAA+TGG | + | chr3.3:75844429-75844448 | None:intergenic | 30.0% |
| ! | ATTGATGTTATCATTGACTG+AGG | + | chr3.3:75843350-75843369 | None:intergenic | 30.0% |
| !! | TAGCTATAGCTTTATACTTG+TGG | + | chr3.3:75844286-75844305 | None:intergenic | 30.0% |
| !!! | ATTTTTAGCAGAATGTTTGC+TGG | + | chr3.3:75844055-75844074 | None:intergenic | 30.0% |
| ATAATCTTCAAAGCTTGTCC+TGG | + | chr3.3:75843466-75843485 | None:intergenic | 35.0% | |
| CTATAGCTAGCTAGTATACT+GGG | - | chr3.3:75844297-75844316 | MS.gene06754:CDS | 35.0% | |
| GGCAAACTTTGGTTAAGTTT+GGG | - | chr3.3:75844394-75844413 | MS.gene06754:CDS | 35.0% | |
| GTAAAAGATACGGCAAACTT+TGG | - | chr3.3:75844383-75844402 | MS.gene06754:CDS | 35.0% | |
| TCACAGTAAAAAACTGCACT+AGG | + | chr3.3:75843714-75843733 | None:intergenic | 35.0% | |
| TGAGGACAAATGTCTGAATA+AGG | + | chr3.3:75843854-75843873 | None:intergenic | 35.0% | |
| TTCCAAAATTCAAACTCCGT+TGG | - | chr3.3:75844361-75844380 | MS.gene06754:CDS | 35.0% | |
| TTGAAAAGCCAAATGGAACA+AGG | + | chr3.3:75844422-75844441 | None:intergenic | 35.0% | |
| ! | AACTCCGTTGGTAAAAGATA+CGG | - | chr3.3:75844373-75844392 | MS.gene06754:CDS | 35.0% |
| ! | ATACGTCTTTTCAGCAAATG+AGG | + | chr3.3:75843872-75843891 | None:intergenic | 35.0% |
| ! | TACCAACGGAGTTTGAATTT+TGG | + | chr3.3:75844366-75844385 | None:intergenic | 35.0% |
| ! | TTTGCCGTATCTTTTACCAA+CGG | + | chr3.3:75844380-75844399 | None:intergenic | 35.0% |
| !! | TAAACGTACCTTGATAGTGA+AGG | + | chr3.3:75843566-75843585 | None:intergenic | 35.0% |
| ATATTTCACTGCACCTCTCT+GGG | - | chr3.3:75843798-75843817 | MS.gene06754:intron | 40.0% | |
| CGGCAAACTTTGGTTAAGTT+TGG | - | chr3.3:75844393-75844412 | MS.gene06754:CDS | 40.0% | |
| GATAGTGAAGGAGTTCAACA+TGG | + | chr3.3:75843554-75843573 | None:intergenic | 40.0% | |
| GATGCATGTTACATGTACCT+TGG | + | chr3.3:75843827-75843846 | None:intergenic | 40.0% | |
| GCTATAGCTAGCTAGTATAC+TGG | - | chr3.3:75844296-75844315 | MS.gene06754:CDS | 40.0% | |
| GTTGAACTCCTTCACTATCA+AGG | - | chr3.3:75843555-75843574 | MS.gene06754:intron | 40.0% | |
| TATATTTCACTGCACCTCTC+TGG | - | chr3.3:75843797-75843816 | MS.gene06754:intron | 40.0% | |
| TGAACAGGCTGGAATATGAA+GGG | - | chr3.3:75844466-75844485 | MS.gene06754:CDS | 40.0% | |
| TTGAACAGGCTGGAATATGA+AGG | - | chr3.3:75844465-75844484 | MS.gene06754:CDS | 40.0% | |
| ! | ACTGTTTCTCAACGAATTCC+AGG | - | chr3.3:75843445-75843464 | MS.gene06754:intron | 40.0% |
| ! | ATCATTGACTGAGGAAGTAG+AGG | + | chr3.3:75843341-75843360 | None:intergenic | 40.0% |
| AAAGTCTCCTATTGCTGACG+TGG | - | chr3.3:75843387-75843406 | MS.gene06754:intron | 45.0% | |
| AAGGGTGATGTGATGAGCAA+TGG | - | chr3.3:75844484-75844503 | MS.gene06754:CDS | 45.0% | |
| CAAGTTCTTCAGCACTCAGT+TGG | + | chr3.3:75844022-75844041 | None:intergenic | 45.0% | |
| CTAGTAGGAGATGGATCAAG+AGG | + | chr3.3:75843316-75843335 | None:intergenic | 45.0% | |
| GAGGAAGTAGAGGAACTAGT+AGG | + | chr3.3:75843331-75843350 | None:intergenic | 45.0% | |
| GATGTTTGGTAAGGAGAGTG+TGG | + | chr3.3:75844100-75844119 | None:intergenic | 45.0% | |
| GTAGAGGAACTAGTAGGAGA+TGG | + | chr3.3:75843325-75843344 | None:intergenic | 45.0% | |
| TATTTCACTGCACCTCTCTG+GGG | - | chr3.3:75843799-75843818 | MS.gene06754:intron | 45.0% | |
| !! | TTTGGGAGCCTTGTTCCATT+TGG | - | chr3.3:75844411-75844430 | MS.gene06754:CDS | 45.0% |
| !! | ATTAATTTATTTATATAGAT+TGG | - | chr3.3:75843987-75844006 | MS.gene06754:intron | 5.0% |
| TTGACCTCCACGTCAGCAAT+AGG | + | chr3.3:75843397-75843416 | None:intergenic | 50.0% | |
| ! | GACGTGGAGGTCAAGTTTTC+AGG | - | chr3.3:75843403-75843422 | MS.gene06754:intron | 50.0% |
| GTCTCCTATTGCTGACGTGG+AGG | - | chr3.3:75843390-75843409 | MS.gene06754:intron | 55.0% | |
| TGTACCTTGGCACCCCAGAG+AGG | + | chr3.3:75843814-75843833 | None:intergenic | 60.0% | |
| !! | TGCACCTCTCTGGGGTGCCA+AGG | - | chr3.3:75843807-75843826 | MS.gene06754:intron | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.3 | gene | 75843286 | 75844513 | 75843286 | ID=MS.gene06754 |
| chr3.3 | mRNA | 75843286 | 75844513 | 75843286 | ID=MS.gene06754.t1;Parent=MS.gene06754 |
| chr3.3 | exon | 75844223 | 75844513 | 75844223 | ID=MS.gene06754.t1.exon1;Parent=MS.gene06754.t1 |
| chr3.3 | CDS | 75844223 | 75844513 | 75844223 | ID=cds.MS.gene06754.t1;Parent=MS.gene06754.t1 |
| chr3.3 | exon | 75844126 | 75844156 | 75844126 | ID=MS.gene06754.t1.exon2;Parent=MS.gene06754.t1 |
| chr3.3 | CDS | 75844126 | 75844156 | 75844126 | ID=cds.MS.gene06754.t1;Parent=MS.gene06754.t1 |
| chr3.3 | exon | 75843286 | 75843326 | 75843286 | ID=MS.gene06754.t1.exon3;Parent=MS.gene06754.t1 |
| chr3.3 | CDS | 75843286 | 75843326 | 75843286 | ID=cds.MS.gene06754.t1;Parent=MS.gene06754.t1 |
| Gene Sequence |
| Protein sequence |
