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.gene34056.t1 | XP_003591877.1 | 85.6 | 146 | 21 | 0 | 1 | 146 | 1 | 146 | 1.20E-57 | 232.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene34056.t1 | Q9SMK9 | 86.6 | 119 | 16 | 0 | 28 | 146 | 24 | 142 | 5.3e-51 | 201.8 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene34056.t1 | G7I515 | 85.6 | 146 | 21 | 0 | 1 | 146 | 1 | 146 | 8.4e-58 | 232.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049227 | MS.gene34056 | 0.809945 | 1.47E-50 | -1.69E-46 |
| MS.gene054585 | MS.gene34056 | 0.824257 | 8.90E-54 | -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.gene34056.t1 | MTR_1g094780 | 89.796 | 147 | 15 | 0 | 1 | 147 | 1 | 147 | 5.50e-88 | 271 |
| MS.gene34056.t1 | MTR_7g101395 | 75.833 | 120 | 29 | 0 | 28 | 147 | 30 | 149 | 5.76e-59 | 194 |
| MS.gene34056.t1 | MTR_7g101425 | 75.000 | 120 | 30 | 0 | 28 | 147 | 30 | 149 | 1.22e-58 | 193 |
| MS.gene34056.t1 | MTR_1g064090 | 72.951 | 122 | 33 | 0 | 26 | 147 | 16 | 137 | 1.00e-57 | 191 |
| MS.gene34056.t1 | MTR_5g098720 | 59.055 | 127 | 51 | 1 | 15 | 140 | 2 | 128 | 2.01e-43 | 152 |
| MS.gene34056.t1 | MTR_2g094960 | 59.664 | 119 | 46 | 1 | 29 | 147 | 5 | 121 | 7.59e-41 | 144 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene34056.t1 | AT3G53260 | 68.148 | 135 | 37 | 1 | 19 | 147 | 8 | 142 | 1.19e-55 | 185 |
| MS.gene34056.t1 | AT2G37040 | 63.576 | 151 | 50 | 2 | 1 | 147 | 1 | 150 | 3.98e-55 | 184 |
| MS.gene34056.t1 | AT3G10340 | 67.424 | 132 | 42 | 1 | 17 | 147 | 1 | 132 | 5.04e-53 | 178 |
| MS.gene34056.t1 | AT5G04230 | 63.559 | 118 | 41 | 1 | 30 | 147 | 12 | 127 | 2.17e-44 | 154 |
| MS.gene34056.t1 | AT5G04230 | 63.559 | 118 | 41 | 1 | 30 | 147 | 12 | 127 | 2.38e-44 | 154 |
Find 53 sgRNAs with CRISPR-Local
Find 79 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAAAGGGTCATTGTTGTTAC+TGG | 0.232524 | 1.2:-73546447 | None:intergenic |
| CTAAGGGCACAACCGGTTTC+CGG | 0.296842 | 1.2:-73546541 | None:intergenic |
| CAACAATGACCCTTTGAATT+GGG | 0.317046 | 1.2:+73546454 | MS.gene34056:CDS |
| TCCACCATTGCAAAGATTCA+TGG | 0.339048 | 1.2:-73546417 | None:intergenic |
| ACAACAATGACCCTTTGAAT+TGG | 0.354806 | 1.2:+73546453 | MS.gene34056:CDS |
| CCAATCACTACTAGCTTTAA+CGG | 0.372093 | 1.2:-73546654 | None:intergenic |
| TACCGGCGTGGCGGTTGAAC+TGG | 0.380657 | 1.2:+73546613 | MS.gene34056:CDS |
| CGGAAACCGGTTGTGCCCTT+AGG | 0.420331 | 1.2:+73546542 | MS.gene34056:CDS |
| ACCTGATGAGTTCACTTTGA+AGG | 0.426969 | 1.2:-73546769 | None:intergenic |
| TTTCCACCTAAGGGCACAAC+CGG | 0.434202 | 1.2:-73546548 | None:intergenic |
| GTGGTTGATAGTATGAATAA+AGG | 0.440659 | 1.2:+73546677 | MS.gene34056:CDS |
| GGCGGTTGAACTGGCGGAAG+AGG | 0.442005 | 1.2:+73546622 | MS.gene34056:CDS |
| TATGGAGTGACCACTGGGTT+TGG | 0.453303 | 1.2:+73546710 | MS.gene34056:CDS |
| TGAGGTGAAGCGTATGGTAG+AGG | 0.454428 | 1.2:+73546514 | MS.gene34056:CDS |
| CCGTTAAAGCTAGTAGTGAT+TGG | 0.454848 | 1.2:+73546654 | MS.gene34056:CDS |
| GTGATCTGCTTGATGAAGTT+AGG | 0.455150 | 1.2:+73547572 | MS.gene34056:CDS |
| CCCTTCAAAGTGAACTCATC+AGG | 0.460498 | 1.2:+73546768 | MS.gene34056:CDS |
| GATAGCTATGGAGTGACCAC+TGG | 0.474320 | 1.2:+73546704 | MS.gene34056:CDS |
| TGGTTGATAGTATGAATAAA+GGG | 0.479080 | 1.2:+73546678 | MS.gene34056:CDS |
| GTTGTGCCCTTAGGTGGAAA+AGG | 0.495345 | 1.2:+73546551 | MS.gene34056:CDS |
| TCCATGAATCTTTGCAATGG+TGG | 0.496445 | 1.2:+73546416 | MS.gene34056:CDS |
| CCTGATGAGTTCACTTTGAA+GGG | 0.497056 | 1.2:-73546768 | None:intergenic |
| CGTTAAAGCTAGTAGTGATT+GGG | 0.503606 | 1.2:+73546655 | MS.gene34056:CDS |
| AACAATGACCCTTTGAATTG+GGG | 0.517697 | 1.2:+73546455 | MS.gene34056:CDS |
| AACAATAGCACAAGTGGCTG+CGG | 0.522595 | 1.2:+73546577 | MS.gene34056:CDS |
| CCATACGCTTCACCTCATCT+AGG | 0.525749 | 1.2:-73546508 | None:intergenic |
| GGTAGAGGAATACCGGAAAC+CGG | 0.526167 | 1.2:+73546529 | MS.gene34056:CDS |
| AAACCGGTTGTGCCCTTAGG+TGG | 0.529697 | 1.2:+73546545 | MS.gene34056:CDS |
| AACTTCATCAAGCAGATCAC+TGG | 0.535838 | 1.2:-73547569 | None:intergenic |
| AGCGTATGGTAGAGGAATAC+CGG | 0.537269 | 1.2:+73546522 | MS.gene34056:CDS |
| TATGGCTGCAGATTCTATGA+AGG | 0.539419 | 1.2:+73546478 | MS.gene34056:CDS |
| TCAAATGGAGATAATAGCAA+TGG | 0.548037 | 1.2:+73546380 | MS.gene34056:CDS |
| TGACCCTTTGAATTGGGGTA+TGG | 0.549794 | 1.2:+73546460 | MS.gene34056:CDS |
| CAGCCATACCCCAATTCAAA+GGG | 0.559111 | 1.2:-73546463 | None:intergenic |
| TCTTCCATGAATCTTTGCAA+TGG | 0.570876 | 1.2:+73546413 | MS.gene34056:CDS |
| AATAAAGGGACTGATAGCTA+TGG | 0.573860 | 1.2:+73546692 | MS.gene34056:CDS |
| CGGCGTGGCGGTTGAACTGG+CGG | 0.577849 | 1.2:+73546616 | MS.gene34056:CDS |
| GCGGTTGCAACTCATAGTAC+CGG | 0.581294 | 1.2:+73546596 | MS.gene34056:CDS |
| GATAATAGCAATGGTTGTAA+CGG | 0.587621 | 1.2:+73546389 | MS.gene34056:CDS |
| GCAGCCATACCCCAATTCAA+AGG | 0.588052 | 1.2:-73546464 | None:intergenic |
| AGGTTTAACAATAGCACAAG+TGG | 0.595101 | 1.2:+73546571 | MS.gene34056:CDS |
| CCTAGATGAGGTGAAGCGTA+TGG | 0.602524 | 1.2:+73546508 | MS.gene34056:CDS |
| ATAGCTATGGAGTGACCACT+GGG | 0.616078 | 1.2:+73546705 | MS.gene34056:CDS |
| TAAAGCTAGTAGTGATTGGG+TGG | 0.624133 | 1.2:+73546658 | MS.gene34056:CDS |
| ATGGCTGCAGATTCTATGAA+GGG | 0.630430 | 1.2:+73546479 | MS.gene34056:CDS |
| CGCCAGTTCAACCGCCACGC+CGG | 0.633173 | 1.2:-73546615 | None:intergenic |
| AACTCATAGTACCGGCGTGG+CGG | 0.639411 | 1.2:+73546604 | MS.gene34056:CDS |
| GAAGGGTAGTCACCTAGATG+AGG | 0.661131 | 1.2:+73546496 | MS.gene34056:CDS |
| TGCAACTCATAGTACCGGCG+TGG | 0.671857 | 1.2:+73546601 | MS.gene34056:CDS |
| ATCACTACTAGCTTTAACGG+CGG | 0.674303 | 1.2:-73546651 | None:intergenic |
| TCACACAGAAGAACAAAACA+AGG | 0.686755 | 1.2:+73546740 | MS.gene34056:CDS |
| CACAGAAGAACAAAACAAGG+TGG | 0.749750 | 1.2:+73546743 | MS.gene34056:CDS |
| TGAGGTTGCACCAAACCCAG+TGG | 0.771981 | 1.2:-73546720 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CTAAAATAAAATATATTTTG+GGG | + | chr1.2:73547403-73547422 | MS.gene34056:intron | 10.0% |
| !!! | GTCTAAAATAAAATATATTT+TGG | + | chr1.2:73547401-73547420 | MS.gene34056:intron | 10.0% |
| !! | ATATCACAACTTAATATTAT+AGG | - | chr1.2:73547279-73547298 | None:intergenic | 15.0% |
| !!! | AATCTAGTTTTTAAAAATCA+TGG | + | chr1.2:73547167-73547186 | MS.gene34056:intron | 15.0% |
| !! | ATAAGATCACTTTATAAAGT+TGG | - | chr1.2:73546921-73546940 | None:intergenic | 20.0% |
| !! | TATCTTCTTGCTAAAATTAT+TGG | - | chr1.2:73547116-73547135 | None:intergenic | 20.0% |
| !! | TGTAAAAAACATTTACCTTA+TGG | + | chr1.2:73546964-73546983 | MS.gene34056:intron | 20.0% |
| !! | TTAATTGTTATGTAACCATA+AGG | - | chr1.2:73546982-73547001 | None:intergenic | 20.0% |
| !!! | AATTTTATCAAATGCATGTA+TGG | - | chr1.2:73547230-73547249 | None:intergenic | 20.0% |
| !!! | GTTTTTAGTTGGTTTATTAA+TGG | + | chr1.2:73547494-73547513 | MS.gene34056:intron | 20.0% |
| !!! | TATTTTAATATCTTGTGTCT+CGG | + | chr1.2:73547472-73547491 | MS.gene34056:intron | 20.0% |
| !!! | TTGTAATTTTGACAAATCTA+TGG | + | chr1.2:73547197-73547216 | MS.gene34056:intron | 20.0% |
| ! | AAATGAAAACTACAACATCT+TGG | + | chr1.2:73547075-73547094 | MS.gene34056:intron | 25.0% |
| ! | TATCGTATCTTAACATATGT+TGG | + | chr1.2:73547444-73547463 | MS.gene34056:intron | 25.0% |
| !! | ATTTACATTTTCCCTTACTT+TGG | + | chr1.2:73547533-73547552 | MS.gene34056:intron | 25.0% |
| !! | TAGTTGGTTTATTAATGGAT+TGG | + | chr1.2:73547499-73547518 | MS.gene34056:intron | 25.0% |
| !! | TTTACATTTTCCCTTACTTT+GGG | + | chr1.2:73547534-73547553 | MS.gene34056:intron | 25.0% |
| !!! | TGGTTGATAGTATGAATAAA+GGG | + | chr1.2:73546678-73546697 | MS.gene34056:CDS | 25.0% |
| GATAATAGCAATGGTTGTAA+CGG | + | chr1.2:73546389-73546408 | MS.gene34056:CDS | 30.0% | |
| TCAAATGGAGATAATAGCAA+TGG | + | chr1.2:73546380-73546399 | MS.gene34056:CDS | 30.0% | |
| ! | TTACATTTTCCCTTACTTTG+GGG | + | chr1.2:73547535-73547554 | MS.gene34056:intron | 30.0% |
| !! | GTGGTTGATAGTATGAATAA+AGG | + | chr1.2:73546677-73546696 | MS.gene34056:CDS | 30.0% |
| AACAATGACCCTTTGAATTG+GGG | + | chr1.2:73546455-73546474 | MS.gene34056:CDS | 35.0% | |
| AATAAAGGGACTGATAGCTA+TGG | + | chr1.2:73546692-73546711 | MS.gene34056:CDS | 35.0% | |
| ACAACAATGACCCTTTGAAT+TGG | + | chr1.2:73546453-73546472 | MS.gene34056:CDS | 35.0% | |
| AGGTTTAACAATAGCACAAG+TGG | + | chr1.2:73546571-73546590 | MS.gene34056:CDS | 35.0% | |
| CAACAATGACCCTTTGAATT+GGG | + | chr1.2:73546454-73546473 | MS.gene34056:CDS | 35.0% | |
| CGTTAAAGCTAGTAGTGATT+GGG | + | chr1.2:73546655-73546674 | MS.gene34056:CDS | 35.0% | |
| TCACACAGAAGAACAAAACA+AGG | + | chr1.2:73546740-73546759 | MS.gene34056:CDS | 35.0% | |
| TCTTCCATGAATCTTTGCAA+TGG | + | chr1.2:73546413-73546432 | MS.gene34056:CDS | 35.0% | |
| ! | GTTAAACCTTTTCCACCTAA+GGG | - | chr1.2:73546560-73546579 | None:intergenic | 35.0% |
| ! | TGTTAAACCTTTTCCACCTA+AGG | - | chr1.2:73546561-73546580 | None:intergenic | 35.0% |
| !! | CCAATCACTACTAGCTTTAA+CGG | - | chr1.2:73546657-73546676 | None:intergenic | 35.0% |
| !! | TTGTTTTGTTCTTCTGTGTG+AGG | - | chr1.2:73546741-73546760 | None:intergenic | 35.0% |
| AACTTCATCAAGCAGATCAC+TGG | - | chr1.2:73547572-73547591 | None:intergenic | 40.0% | |
| ACCTGATGAGTTCACTTTGA+AGG | - | chr1.2:73546772-73546791 | None:intergenic | 40.0% | |
| ATGGCTGCAGATTCTATGAA+GGG | + | chr1.2:73546479-73546498 | MS.gene34056:CDS | 40.0% | |
| CACAGAAGAACAAAACAAGG+TGG | + | chr1.2:73546743-73546762 | MS.gene34056:CDS | 40.0% | |
| CCGTTAAAGCTAGTAGTGAT+TGG | + | chr1.2:73546654-73546673 | MS.gene34056:CDS | 40.0% | |
| CCTGATGAGTTCACTTTGAA+GGG | - | chr1.2:73546771-73546790 | None:intergenic | 40.0% | |
| GTGATCTGCTTGATGAAGTT+AGG | + | chr1.2:73547572-73547591 | MS.gene34056:CDS | 40.0% | |
| TAAAGCTAGTAGTGATTGGG+TGG | + | chr1.2:73546658-73546677 | MS.gene34056:CDS | 40.0% | |
| TATGGCTGCAGATTCTATGA+AGG | + | chr1.2:73546478-73546497 | MS.gene34056:CDS | 40.0% | |
| TCCACCATTGCAAAGATTCA+TGG | - | chr1.2:73546420-73546439 | None:intergenic | 40.0% | |
| TCCATGAATCTTTGCAATGG+TGG | + | chr1.2:73546416-73546435 | MS.gene34056:CDS | 40.0% | |
| ! | CAAAGGGTCATTGTTGTTAC+TGG | - | chr1.2:73546450-73546469 | None:intergenic | 40.0% |
| !! | ATCACTACTAGCTTTAACGG+CGG | - | chr1.2:73546654-73546673 | None:intergenic | 40.0% |
| !!! | ATTTTCCCTTACTTTGGGGT+AGG | + | chr1.2:73547539-73547558 | MS.gene34056:intron | 40.0% |
| !!! | CTTGTGTCTCGGTTTTTAGT+TGG | + | chr1.2:73547483-73547502 | MS.gene34056:intron | 40.0% |
| AACAATAGCACAAGTGGCTG+CGG | + | chr1.2:73546577-73546596 | MS.gene34056:CDS | 45.0% | |
| AACACACCTACCCCAAAGTA+AGG | - | chr1.2:73547548-73547567 | None:intergenic | 45.0% | |
| ACACACCTACCCCAAAGTAA+GGG | - | chr1.2:73547547-73547566 | None:intergenic | 45.0% | |
| AGCGTATGGTAGAGGAATAC+CGG | + | chr1.2:73546522-73546541 | MS.gene34056:CDS | 45.0% | |
| ATAGCTATGGAGTGACCACT+GGG | + | chr1.2:73546705-73546724 | MS.gene34056:CDS | 45.0% | |
| CAGCCATACCCCAATTCAAA+GGG | - | chr1.2:73546466-73546485 | None:intergenic | 45.0% | |
| CCCTTCAAAGTGAACTCATC+AGG | + | chr1.2:73546768-73546787 | MS.gene34056:CDS | 45.0% | |
| TGACCCTTTGAATTGGGGTA+TGG | + | chr1.2:73546460-73546479 | MS.gene34056:CDS | 45.0% | |
| !!! | TCTAAAATAAAATATATTTT+GGG | + | chr1.2:73547402-73547421 | MS.gene34056:intron | 5.0% |
| CCATACGCTTCACCTCATCT+AGG | - | chr1.2:73546511-73546530 | None:intergenic | 50.0% | |
| CCTAGATGAGGTGAAGCGTA+TGG | + | chr1.2:73546508-73546527 | MS.gene34056:CDS | 50.0% | |
| GAAGGGTAGTCACCTAGATG+AGG | + | chr1.2:73546496-73546515 | MS.gene34056:CDS | 50.0% | |
| GATAGCTATGGAGTGACCAC+TGG | + | chr1.2:73546704-73546723 | MS.gene34056:CDS | 50.0% | |
| GCAGCCATACCCCAATTCAA+AGG | - | chr1.2:73546467-73546486 | None:intergenic | 50.0% | |
| GCGGTTGCAACTCATAGTAC+CGG | + | chr1.2:73546596-73546615 | MS.gene34056:CDS | 50.0% | |
| GGTAGAGGAATACCGGAAAC+CGG | + | chr1.2:73546529-73546548 | MS.gene34056:CDS | 50.0% | |
| GTTGTGCCCTTAGGTGGAAA+AGG | + | chr1.2:73546551-73546570 | MS.gene34056:CDS | 50.0% | |
| TATGGAGTGACCACTGGGTT+TGG | + | chr1.2:73546710-73546729 | MS.gene34056:CDS | 50.0% | |
| TGAGGTGAAGCGTATGGTAG+AGG | + | chr1.2:73546514-73546533 | MS.gene34056:CDS | 50.0% | |
| ! | TTTCCACCTAAGGGCACAAC+CGG | - | chr1.2:73546551-73546570 | None:intergenic | 50.0% |
| AAACCGGTTGTGCCCTTAGG+TGG | + | chr1.2:73546545-73546564 | MS.gene34056:CDS | 55.0% | |
| TGAGGTTGCACCAAACCCAG+TGG | - | chr1.2:73546723-73546742 | None:intergenic | 55.0% | |
| ! | CTAAGGGCACAACCGGTTTC+CGG | - | chr1.2:73546544-73546563 | None:intergenic | 55.0% |
| !! | AACTCATAGTACCGGCGTGG+CGG | + | chr1.2:73546604-73546623 | MS.gene34056:CDS | 55.0% |
| !! | TGCAACTCATAGTACCGGCG+TGG | + | chr1.2:73546601-73546620 | MS.gene34056:CDS | 55.0% |
| CGGAAACCGGTTGTGCCCTT+AGG | + | chr1.2:73546542-73546561 | MS.gene34056:CDS | 60.0% | |
| GGCGGTTGAACTGGCGGAAG+AGG | + | chr1.2:73546622-73546641 | MS.gene34056:CDS | 65.0% | |
| TACCGGCGTGGCGGTTGAAC+TGG | + | chr1.2:73546613-73546632 | MS.gene34056:CDS | 65.0% | |
| CGCCAGTTCAACCGCCACGC+CGG | - | chr1.2:73546618-73546637 | None:intergenic | 70.0% | |
| CGGCGTGGCGGTTGAACTGG+CGG | + | chr1.2:73546616-73546635 | MS.gene34056:CDS | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.2 | gene | 73546371 | 73547597 | 73546371 | ID=MS.gene34056 |
| chr1.2 | mRNA | 73546371 | 73547597 | 73546371 | ID=MS.gene34056.t1;Parent=MS.gene34056 |
| chr1.2 | exon | 73546371 | 73546789 | 73546371 | ID=MS.gene34056.t1.exon1;Parent=MS.gene34056.t1 |
| chr1.2 | CDS | 73546371 | 73546789 | 73546371 | ID=cds.MS.gene34056.t1;Parent=MS.gene34056.t1 |
| chr1.2 | exon | 73547561 | 73547597 | 73547561 | ID=MS.gene34056.t1.exon2;Parent=MS.gene34056.t1 |
| chr1.2 | CDS | 73547561 | 73547597 | 73547561 | ID=cds.MS.gene34056.t1;Parent=MS.gene34056.t1 |
| Gene Sequence |
| Protein sequence |
