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.gene41063.t1 | XP_013468354.1 | 68.3 | 265 | 38 | 3 | 1 | 219 | 1 | 265 | 1.20E-85 | 326.2 |
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.gene41063.t1 | A0A072VLC9 | 68.3 | 265 | 38 | 3 | 1 | 219 | 1 | 265 | 8.5e-86 | 326.2 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene41063.t1 | TR | Others |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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.gene41063.t1 | MTR_1g069020 | 71.429 | 266 | 30 | 3 | 1 | 220 | 1 | 266 | 3.52e-113 | 336 |
| MS.gene41063.t1 | MTR_1g069020 | 44.697 | 132 | 57 | 4 | 90 | 220 | 246 | 362 | 8.00e-19 | 85.1 |
| MS.gene41063.t1 | MTR_1g069020 | 40.179 | 112 | 62 | 2 | 90 | 200 | 342 | 449 | 1.27e-12 | 67.0 |
| MS.gene41063.t1 | MTR_1g069015 | 50.000 | 262 | 86 | 3 | 1 | 220 | 1 | 259 | 4.00e-69 | 219 |
| MS.gene41063.t1 | MTR_1g069015 | 44.643 | 112 | 57 | 2 | 90 | 200 | 239 | 346 | 1.26e-17 | 81.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 57 sgRNAs with CRISPR-Local
Find 90 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTACCATCAAATGATATTTC+TGG | 0.210331 | 1.3:+42059808 | None:intergenic |
| TGATTCGGGCAATGTTGTTT+TGG | 0.306137 | 1.3:-42060296 | MS.gene41063:CDS |
| GATATTTCTGGAAGACTTGC+TGG | 0.351730 | 1.3:+42059820 | None:intergenic |
| CTAAACAGTGGTTGTTTCCT+TGG | 0.353316 | 1.3:+42060808 | None:intergenic |
| TCAGAAATCGGTACTGATTC+GGG | 0.373490 | 1.3:-42060310 | MS.gene41063:CDS |
| CTTCCAGAAATATCATTTGA+TGG | 0.374155 | 1.3:-42059811 | MS.gene41063:CDS |
| ATCAGAAATCGGTACTGATT+CGG | 0.376397 | 1.3:-42060311 | MS.gene41063:CDS |
| ATATACCATCGACAGTCTTA+AGG | 0.382178 | 1.3:+42060608 | None:intergenic |
| CAATTCTCTAGGGCCTCTTC+AGG | 0.384965 | 1.3:+42060084 | None:intergenic |
| GAACGGTTACATTATATGAT+TGG | 0.388272 | 1.3:-42060848 | MS.gene41063:CDS |
| GTAGAGCTCGGCTCTCCATC+TGG | 0.403978 | 1.3:+42059895 | None:intergenic |
| TAAACAGTGGTTGTTTCCTT+GGG | 0.406143 | 1.3:+42060809 | None:intergenic |
| TAAGACTTTGCATTCATCTC+CGG | 0.406566 | 1.3:+42060047 | None:intergenic |
| TGATTCGGACACTGTTGTTC+CGG | 0.410442 | 1.3:-42059851 | MS.gene41063:CDS |
| ATTGAAGAAGAAGAAGTTGT+AGG | 0.417681 | 1.3:+42060882 | None:intergenic |
| GTTGATGTTGCTTGTGGTAG+TGG | 0.418847 | 1.3:-42060012 | MS.gene41063:CDS |
| TTGAAGAAGAAGAAGTTGTA+GGG | 0.421100 | 1.3:+42060883 | None:intergenic |
| ATTCAGGGAAGAAGCGGTTT+GGG | 0.423535 | 1.3:-42060674 | MS.gene41063:intron |
| GATTCAGGGAAGAAGCGGTT+TGG | 0.425743 | 1.3:-42060675 | MS.gene41063:intron |
| AGACTTGCTGGTACATTATC+CGG | 0.428747 | 1.3:+42059832 | None:intergenic |
| TTTAGAGAAGAATCAGAAAT+CGG | 0.452034 | 1.3:-42060322 | MS.gene41063:CDS |
| TATACCATCGACAGTCTTAA+GGG | 0.463067 | 1.3:+42060609 | None:intergenic |
| GGCCCTGGAAAATCATGATT+CGG | 0.464545 | 1.3:-42059866 | MS.gene41063:CDS |
| TTGCATTCATCTCCGGGGAA+TGG | 0.473283 | 1.3:+42060054 | None:intergenic |
| ATGGAGTCTTGCAATTCTCT+AGG | 0.479998 | 1.3:+42060073 | None:intergenic |
| TCTCCATCTGGATGCTTGAA+AGG | 0.480546 | 1.3:+42059907 | None:intergenic |
| GCAAAGTCTTAAAGATGAGT+AGG | 0.480826 | 1.3:-42060035 | MS.gene41063:CDS |
| TTCAATTTGCTTCCAACGAA+CGG | 0.483562 | 1.3:-42060865 | MS.gene41063:CDS |
| AAGACTTTGCATTCATCTCC+GGG | 0.486072 | 1.3:+42060048 | None:intergenic |
| GAGCTCTACTTCAAAGGCCC+TGG | 0.491919 | 1.3:-42059881 | MS.gene41063:CDS |
| CATATAATGTAACCGTTCGT+TGG | 0.492231 | 1.3:+42060853 | None:intergenic |
| TTACTTTGTGGAAGAGATGC+CGG | 0.520785 | 1.3:+42060779 | None:intergenic |
| AACCACTGTTTAGCCATCTC+CGG | 0.530631 | 1.3:-42060798 | MS.gene41063:CDS |
| CGGTTACATTATATGATTGG+TGG | 0.536591 | 1.3:-42060845 | MS.gene41063:CDS |
| GACTTTAATATTATGCAACC+TGG | 0.548218 | 1.3:+42059972 | None:intergenic |
| CAAAGTCTTAAAGATGAGTA+GGG | 0.548624 | 1.3:-42060034 | MS.gene41063:CDS |
| TCAGGCAATACCGACGAAGT+AGG | 0.550175 | 1.3:+42060102 | None:intergenic |
| TGTGGAAGAGATGCCGGAGA+TGG | 0.553990 | 1.3:+42060785 | None:intergenic |
| TGGAGTCTTGCAATTCTCTA+GGG | 0.573608 | 1.3:+42060074 | None:intergenic |
| AATTGCAAGACTCCATTCCC+CGG | 0.573734 | 1.3:-42060066 | MS.gene41063:CDS |
| AGTAGGGTTGATGTTGCTTG+TGG | 0.577027 | 1.3:-42060018 | MS.gene41063:CDS |
| CAATACCGACGAAGTAGGAA+TGG | 0.577162 | 1.3:+42060107 | None:intergenic |
| GGTCCTTTCAAGCATCCAGA+TGG | 0.591432 | 1.3:-42059910 | MS.gene41063:CDS |
| AGGGCCTTTGAAGTAGAGCT+CGG | 0.600227 | 1.3:+42059883 | None:intergenic |
| GTTGTGATTCAGGGAAGAAG+CGG | 0.603821 | 1.3:-42060680 | MS.gene41063:intron |
| GTTTCCCTTAAGACTGTCGA+TGG | 0.609469 | 1.3:-42060613 | MS.gene41063:intron |
| AAAGTCCATTCCTACTTCGT+CGG | 0.613142 | 1.3:-42060112 | MS.gene41063:CDS |
| TATTATCAAAAGATATGATG+AGG | 0.626070 | 1.3:-42060635 | MS.gene41063:CDS |
| TTCGTCGGTATTGCCTGAAG+AGG | 0.626897 | 1.3:-42060097 | MS.gene41063:CDS |
| TGAAGAAGAAGAAGTTGTAG+GGG | 0.627324 | 1.3:+42060884 | None:intergenic |
| AGAGCCGAGCTCTACTTCAA+AGG | 0.627631 | 1.3:-42059887 | MS.gene41063:CDS |
| GGGGTGCAATTAGAAGAAGT+AGG | 0.628823 | 1.3:+42060903 | None:intergenic |
| AAGCAGCATCCTGAGTGTAG+AGG | 0.635067 | 1.3:-42059931 | MS.gene41063:CDS |
| TTGAAAGGACCTCTACACTC+AGG | 0.674727 | 1.3:+42059922 | None:intergenic |
| TGGCTCGTTAAATCATCCCA+AGG | 0.675240 | 1.3:-42060825 | MS.gene41063:CDS |
| TGCCGGAGATGGCTAAACAG+TGG | 0.700088 | 1.3:+42060796 | None:intergenic |
| AGACTTTGCATTCATCTCCG+GGG | 0.703022 | 1.3:+42060049 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTTTCAAGAGTTTTTTATT+TGG | - | chr1.3:42060313-42060332 | MS.gene41063:CDS | 15.0% |
| !!! | GTTTTATTAATTTTTATTGC+AGG | - | chr1.3:42060554-42060573 | MS.gene41063:intron | 15.0% |
| !! | TATTATCAAAAGATATGATG+AGG | - | chr1.3:42060060-42060079 | MS.gene41063:CDS | 20.0% |
| !!! | TATCAAGAAATTTTCTCTAA+CGG | - | chr1.3:42060439-42060458 | MS.gene41063:intron | 20.0% |
| !!! | TCATCATATCTTTTGATAAT+AGG | + | chr1.3:42060061-42060080 | None:intergenic | 20.0% |
| !!! | TGTAATAACTTTGATTTTGA+GGG | + | chr1.3:42059987-42060006 | None:intergenic | 20.0% |
| !!! | TTGTTTTTTCTTCTATTTCA+TGG | - | chr1.3:42060286-42060305 | MS.gene41063:CDS | 20.0% |
| ! | AAAAAACAAAAATCCATCAG+GGG | + | chr1.3:42060275-42060294 | None:intergenic | 25.0% |
| ! | ACATTTAATGTTGTGATTCA+GGG | - | chr1.3:42060006-42060025 | MS.gene41063:CDS | 25.0% |
| ! | AGAAAAAACAAAAATCCATC+AGG | + | chr1.3:42060277-42060296 | None:intergenic | 25.0% |
| ! | GAAAAAACAAAAATCCATCA+GGG | + | chr1.3:42060276-42060295 | None:intergenic | 25.0% |
| ! | GAAATGAAATACTTACTTTG+TGG | + | chr1.3:42059931-42059950 | None:intergenic | 25.0% |
| ! | TGAATTAAGCATAAACTGAA+GGG | + | chr1.3:42059959-42059978 | None:intergenic | 25.0% |
| ! | TTACCATCAAATGATATTTC+TGG | + | chr1.3:42060890-42060909 | None:intergenic | 25.0% |
| ! | TTGAATTAAGCATAAACTGA+AGG | + | chr1.3:42059960-42059979 | None:intergenic | 25.0% |
| ! | TTTAGAGAAGAATCAGAAAT+CGG | - | chr1.3:42060373-42060392 | MS.gene41063:intron | 25.0% |
| !! | ATTAATTTTTATTGCAGGTG+TGG | - | chr1.3:42060559-42060578 | MS.gene41063:intron | 25.0% |
| !! | TTCATAACTGTCAATGTTTT+TGG | - | chr1.3:42060180-42060199 | MS.gene41063:intron | 25.0% |
| !!! | AACGGTAAATATTTTGATGA+TGG | - | chr1.3:42060457-42060476 | MS.gene41063:intron | 25.0% |
| !!! | ATATCTTTTGATAATAGGAG+CGG | + | chr1.3:42060056-42060075 | None:intergenic | 25.0% |
| !!! | GTGTAATAACTTTGATTTTG+AGG | + | chr1.3:42059988-42060007 | None:intergenic | 25.0% |
| ATTGAAGAAGAAGAAGTTGT+AGG | + | chr1.3:42059816-42059835 | None:intergenic | 30.0% | |
| CAAAGTCTTAAAGATGAGTA+GGG | - | chr1.3:42060661-42060680 | MS.gene41063:CDS | 30.0% | |
| CACATTTAATGTTGTGATTC+AGG | - | chr1.3:42060005-42060024 | MS.gene41063:CDS | 30.0% | |
| CTTCCAGAAATATCATTTGA+TGG | - | chr1.3:42060884-42060903 | MS.gene41063:CDS | 30.0% | |
| GAACGGTTACATTATATGAT+TGG | - | chr1.3:42059847-42059866 | MS.gene41063:CDS | 30.0% | |
| GACTTTAATATTATGCAACC+TGG | + | chr1.3:42060726-42060745 | None:intergenic | 30.0% | |
| TTGAAGAAGAAGAAGTTGTA+GGG | + | chr1.3:42059815-42059834 | None:intergenic | 30.0% | |
| !!! | GGTATATACGTTTTGATTGA+GGG | - | chr1.3:42060103-42060122 | MS.gene41063:CDS | 30.0% |
| !!! | GTATATACGTTTTGATTGAG+GGG | - | chr1.3:42060104-42060123 | MS.gene41063:CDS | 30.0% |
| !!! | TGGTATATACGTTTTGATTG+AGG | - | chr1.3:42060102-42060121 | MS.gene41063:CDS | 30.0% |
| ATATACCATCGACAGTCTTA+AGG | + | chr1.3:42060090-42060109 | None:intergenic | 35.0% | |
| CAGTTATGAATACAAACCTG+AGG | + | chr1.3:42060170-42060189 | None:intergenic | 35.0% | |
| CATATAATGTAACCGTTCGT+TGG | + | chr1.3:42059845-42059864 | None:intergenic | 35.0% | |
| CGGTTACATTATATGATTGG+TGG | - | chr1.3:42059850-42059869 | MS.gene41063:CDS | 35.0% | |
| GCAAAGTCTTAAAGATGAGT+AGG | - | chr1.3:42060660-42060679 | MS.gene41063:CDS | 35.0% | |
| GTAAAAATAGACGTAGTACC+AGG | - | chr1.3:42060705-42060724 | MS.gene41063:intron | 35.0% | |
| TAAGACTTTGCATTCATCTC+CGG | + | chr1.3:42060651-42060670 | None:intergenic | 35.0% | |
| TATACCATCGACAGTCTTAA+GGG | + | chr1.3:42060089-42060108 | None:intergenic | 35.0% | |
| TGAAGAAGAAGAAGTTGTAG+GGG | + | chr1.3:42059814-42059833 | None:intergenic | 35.0% | |
| ! | TAAACAGTGGTTGTTTCCTT+GGG | + | chr1.3:42059889-42059908 | None:intergenic | 35.0% |
| ! | TTCAATTTGCTTCCAACGAA+CGG | - | chr1.3:42059830-42059849 | MS.gene41063:CDS | 35.0% |
| !! | ATCAGAAATCGGTACTGATT+CGG | - | chr1.3:42060384-42060403 | MS.gene41063:intron | 35.0% |
| !! | ATTTGGCTTTCCTGAAAACT+GGG | - | chr1.3:42060330-42060349 | MS.gene41063:CDS | 35.0% |
| !! | TATTTGGCTTTCCTGAAAAC+TGG | - | chr1.3:42060329-42060348 | MS.gene41063:CDS | 35.0% |
| AAAGTCCATTCCTACTTCGT+CGG | - | chr1.3:42060583-42060602 | MS.gene41063:intron | 40.0% | |
| AAGACTTTGCATTCATCTCC+GGG | + | chr1.3:42060650-42060669 | None:intergenic | 40.0% | |
| ATGGAGTCTTGCAATTCTCT+AGG | + | chr1.3:42060625-42060644 | None:intergenic | 40.0% | |
| TGGAGTCTTGCAATTCTCTA+GGG | + | chr1.3:42060624-42060643 | None:intergenic | 40.0% | |
| TTACTTTGTGGAAGAGATGC+CGG | + | chr1.3:42059919-42059938 | None:intergenic | 40.0% | |
| ! | CTAAACAGTGGTTGTTTCCT+TGG | + | chr1.3:42059890-42059909 | None:intergenic | 40.0% |
| ! | GGATAATGCTTTTACTCCTC+AGG | - | chr1.3:42060151-42060170 | MS.gene41063:intron | 40.0% |
| ! | GTCCGAATCATGATTTTCCA+GGG | + | chr1.3:42060834-42060853 | None:intergenic | 40.0% |
| ! | TCTAAAGCAAGCTAGAACAG+AGG | + | chr1.3:42060359-42060378 | None:intergenic | 40.0% |
| ! | TGTCCGAATCATGATTTTCC+AGG | + | chr1.3:42060835-42060854 | None:intergenic | 40.0% |
| !! | AGACTTGCTGGTACATTATC+CGG | + | chr1.3:42060866-42060885 | None:intergenic | 40.0% |
| !! | GATATTTCTGGAAGACTTGC+TGG | + | chr1.3:42060878-42060897 | None:intergenic | 40.0% |
| !! | TCAGAAATCGGTACTGATTC+GGG | - | chr1.3:42060385-42060404 | MS.gene41063:intron | 40.0% |
| !! | TGATTCGGGCAATGTTGTTT+TGG | - | chr1.3:42060399-42060418 | MS.gene41063:intron | 40.0% |
| AACCACTGTTTAGCCATCTC+CGG | - | chr1.3:42059897-42059916 | MS.gene41063:CDS | 45.0% | |
| AATTGCAAGACTCCATTCCC+CGG | - | chr1.3:42060629-42060648 | MS.gene41063:CDS | 45.0% | |
| AGACTTTGCATTCATCTCCG+GGG | + | chr1.3:42060649-42060668 | None:intergenic | 45.0% | |
| AGTTTCATTGCTACCCCTGA+TGG | - | chr1.3:42060259-42060278 | MS.gene41063:CDS | 45.0% | |
| ATTCAGGGAAGAAGCGGTTT+GGG | - | chr1.3:42060021-42060040 | MS.gene41063:CDS | 45.0% | |
| CAATACCGACGAAGTAGGAA+TGG | + | chr1.3:42060591-42060610 | None:intergenic | 45.0% | |
| CATCAATAAACAACGCACGC+TGG | - | chr1.3:42060130-42060149 | MS.gene41063:intron | 45.0% | |
| GGCCCTGGAAAATCATGATT+CGG | - | chr1.3:42060829-42060848 | MS.gene41063:CDS | 45.0% | |
| GGGGTGCAATTAGAAGAAGT+AGG | + | chr1.3:42059795-42059814 | None:intergenic | 45.0% | |
| GTTGTGATTCAGGGAAGAAG+CGG | - | chr1.3:42060015-42060034 | MS.gene41063:CDS | 45.0% | |
| GTTTCCCTTAAGACTGTCGA+TGG | - | chr1.3:42060082-42060101 | MS.gene41063:CDS | 45.0% | |
| TCTCCATCTGGATGCTTGAA+AGG | + | chr1.3:42060791-42060810 | None:intergenic | 45.0% | |
| TGGCTCGTTAAATCATCCCA+AGG | - | chr1.3:42059870-42059889 | MS.gene41063:CDS | 45.0% | |
| TTGAAAGGACCTCTACACTC+AGG | + | chr1.3:42060776-42060795 | None:intergenic | 45.0% | |
| ! | ACAGAGGTTTCCCAGTTTTC+AGG | + | chr1.3:42060343-42060362 | None:intergenic | 45.0% |
| ! | GTTGATGTTGCTTGTGGTAG+TGG | - | chr1.3:42060683-42060702 | MS.gene41063:intron | 45.0% |
| ! | TGATTCGGACACTGTTGTTC+CGG | - | chr1.3:42060844-42060863 | MS.gene41063:CDS | 45.0% |
| !! | AGTAGGGTTGATGTTGCTTG+TGG | - | chr1.3:42060677-42060696 | MS.gene41063:intron | 45.0% |
| AAGCAGCATCCTGAGTGTAG+AGG | - | chr1.3:42060764-42060783 | MS.gene41063:intron | 50.0% | |
| AGAGCCGAGCTCTACTTCAA+AGG | - | chr1.3:42060808-42060827 | MS.gene41063:CDS | 50.0% | |
| GATTCAGGGAAGAAGCGGTT+TGG | - | chr1.3:42060020-42060039 | MS.gene41063:CDS | 50.0% | |
| GGTCCTTTCAAGCATCCAGA+TGG | - | chr1.3:42060785-42060804 | MS.gene41063:CDS | 50.0% | |
| TCAGGCAATACCGACGAAGT+AGG | + | chr1.3:42060596-42060615 | None:intergenic | 50.0% | |
| TTCGTCGGTATTGCCTGAAG+AGG | - | chr1.3:42060598-42060617 | MS.gene41063:intron | 50.0% | |
| TTGCATTCATCTCCGGGGAA+TGG | + | chr1.3:42060644-42060663 | None:intergenic | 50.0% | |
| !! | AGGGCCTTTGAAGTAGAGCT+CGG | + | chr1.3:42060815-42060834 | None:intergenic | 50.0% |
| !! | CAATTCTCTAGGGCCTCTTC+AGG | + | chr1.3:42060614-42060633 | None:intergenic | 50.0% |
| GAGCTCTACTTCAAAGGCCC+TGG | - | chr1.3:42060814-42060833 | MS.gene41063:CDS | 55.0% | |
| TGCCGGAGATGGCTAAACAG+TGG | + | chr1.3:42059902-42059921 | None:intergenic | 55.0% | |
| TGTGGAAGAGATGCCGGAGA+TGG | + | chr1.3:42059913-42059932 | None:intergenic | 55.0% | |
| GTAGAGCTCGGCTCTCCATC+TGG | + | chr1.3:42060803-42060822 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.3 | gene | 42059777 | 42060940 | 42059777 | ID=MS.gene41063 |
| chr1.3 | mRNA | 42059777 | 42060940 | 42059777 | ID=MS.gene41063.t1;Parent=MS.gene41063 |
| chr1.3 | exon | 42060783 | 42060940 | 42060783 | ID=MS.gene41063.t1.exon1;Parent=MS.gene41063.t1 |
| chr1.3 | CDS | 42060783 | 42060940 | 42060783 | ID=cds.MS.gene41063.t1;Parent=MS.gene41063.t1 |
| chr1.3 | exon | 42060614 | 42060690 | 42060614 | ID=MS.gene41063.t1.exon2;Parent=MS.gene41063.t1 |
| chr1.3 | CDS | 42060614 | 42060690 | 42060614 | ID=cds.MS.gene41063.t1;Parent=MS.gene41063.t1 |
| chr1.3 | exon | 42060257 | 42060349 | 42060257 | ID=MS.gene41063.t1.exon3;Parent=MS.gene41063.t1 |
| chr1.3 | CDS | 42060257 | 42060349 | 42060257 | ID=cds.MS.gene41063.t1;Parent=MS.gene41063.t1 |
| chr1.3 | exon | 42059777 | 42060141 | 42059777 | ID=MS.gene41063.t1.exon4;Parent=MS.gene41063.t1 |
| chr1.3 | CDS | 42059777 | 42060141 | 42059777 | ID=cds.MS.gene41063.t1;Parent=MS.gene41063.t1 |
| Gene Sequence |
| Protein sequence |
