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.gene81042.t1 | XP_003625944.1 | 84.6 | 280 | 42 | 1 | 18 | 297 | 109 | 387 | 2.30E-129 | 471.9 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene81042.t1 | Q9FNG6 | 70.6 | 299 | 79 | 4 | 1 | 297 | 80 | 371 | 2.3e-106 | 386.7 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene81042.t1 | G7KSR1 | 84.6 | 280 | 42 | 1 | 18 | 297 | 109 | 387 | 1.6e-129 | 471.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene81042.t1 | TF | C3H |
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.gene81042.t1 | MTR_7g109250 | 93.907 | 279 | 16 | 1 | 19 | 297 | 50 | 327 | 0.0 | 534 |
| MS.gene81042.t1 | MTR_7g109250 | 93.907 | 279 | 16 | 1 | 19 | 297 | 110 | 387 | 0.0 | 531 |
| MS.gene81042.t1 | MTR_7g108868 | 47.753 | 178 | 31 | 3 | 31 | 207 | 11 | 127 | 3.00e-45 | 152 |
| MS.gene81042.t1 | MTR_8g058593 | 47.753 | 178 | 31 | 3 | 31 | 207 | 11 | 127 | 3.00e-45 | 152 |
| MS.gene81042.t1 | MTR_8g058607 | 48.333 | 180 | 30 | 4 | 31 | 209 | 24 | 141 | 6.62e-45 | 149 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene81042.t1 | AT1G01350 | 67.893 | 299 | 90 | 4 | 1 | 297 | 42 | 336 | 1.44e-146 | 415 |
| MS.gene81042.t1 | AT5G06420 | 67.224 | 299 | 89 | 4 | 1 | 297 | 80 | 371 | 8.74e-146 | 414 |
| MS.gene81042.t1 | AT5G06420 | 67.224 | 299 | 89 | 4 | 1 | 297 | 80 | 371 | 8.74e-146 | 414 |
| MS.gene81042.t1 | AT4G01023 | 66.102 | 59 | 20 | 0 | 228 | 286 | 76 | 134 | 2.17e-27 | 107 |
| MS.gene81042.t1 | AT4G01023 | 66.102 | 59 | 20 | 0 | 228 | 286 | 95 | 153 | 6.13e-27 | 106 |
| MS.gene81042.t1 | AT4G01023 | 66.102 | 59 | 20 | 0 | 228 | 286 | 95 | 153 | 6.97e-27 | 106 |
Find 68 sgRNAs with CRISPR-Local
Find 75 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTGGGTCACACGGTCCTCTC+AGG | 0.313412 | 8.4:+71572518 | MS.gene81042:CDS |
| CTTGTATAATTGTACATCTT+CGG | 0.375485 | 8.4:-71572425 | None:intergenic |
| GGATATATGCAAGGATTATA+AGG | 0.382708 | 8.4:+71572585 | MS.gene81042:CDS |
| TTATAATCCTTGCATATATC+CGG | 0.408034 | 8.4:-71572583 | None:intergenic |
| CATTTGCAGAAACCCATTTG+TGG | 0.423411 | 8.4:+71572816 | MS.gene81042:CDS |
| TAGCAAAGCAACCGCAACTT+TGG | 0.426930 | 8.4:+71572309 | MS.gene81042:CDS |
| AAAATGAAAGCTAGGTTTCT+CGG | 0.428578 | 8.4:-71572254 | None:intergenic |
| CTTGCTTAAGAGCTCTTTCA+CGG | 0.431115 | 8.4:-71572369 | None:intergenic |
| CTGTGAGCATTGTGCATTGA+AGG | 0.436410 | 8.4:+71572870 | MS.gene81042:CDS |
| GTCTGCAACCAGCCTACGCT+TGG | 0.437064 | 8.4:+71573035 | MS.gene81042:CDS |
| GTTGAGACAGGATCCACAAA+TGG | 0.441292 | 8.4:-71572829 | None:intergenic |
| TGCTTGCACTTGGTTGAGAC+AGG | 0.443250 | 8.4:-71572841 | None:intergenic |
| GGTTTCTCGGATTCTTCGTT+CGG | 0.443791 | 8.4:-71572241 | None:intergenic |
| TATAAGGAAACGGGTTATTG+TGG | 0.448344 | 8.4:+71572601 | MS.gene81042:CDS |
| TGCAAGGATTATAAGGAAAC+GGG | 0.452960 | 8.4:+71572592 | MS.gene81042:CDS |
| ATGCAAGGATTATAAGGAAA+CGG | 0.454788 | 8.4:+71572591 | MS.gene81042:CDS |
| AAAGACTCAAAATGAAAGCT+AGG | 0.461332 | 8.4:-71572262 | None:intergenic |
| CAATAATTACACAGATCATA+AGG | 0.476447 | 8.4:+71572453 | MS.gene81042:CDS |
| GAAAGCTAGGAGGATGAGAT+TGG | 0.478340 | 8.4:+71572708 | MS.gene81042:CDS |
| GATCGAGGTGATTACAAACC+TGG | 0.480856 | 8.4:+71572652 | MS.gene81042:CDS |
| GAAACGGGTTATTGTGGGTA+TGG | 0.484427 | 8.4:+71572607 | MS.gene81042:CDS |
| TCCTTCTCCATCTGCCACCC+AGG | 0.487229 | 8.4:-71572670 | None:intergenic |
| CGAAGATGTACAATTATACA+AGG | 0.488171 | 8.4:+71572426 | MS.gene81042:CDS |
| GCAAACAATTGCTAGTGAAA+AGG | 0.493544 | 8.4:+71572492 | MS.gene81042:CDS |
| ATAAGGAAACGGGTTATTGT+GGG | 0.494975 | 8.4:+71572602 | MS.gene81042:CDS |
| GTGGCAGATGGAGAAGGAAT+GGG | 0.495492 | 8.4:+71572675 | MS.gene81042:CDS |
| GGGATGAAGCTGAGAAAGCT+AGG | 0.513238 | 8.4:+71572695 | MS.gene81042:CDS |
| GAGCTCTTTCACGGATGGCA+CGG | 0.524231 | 8.4:-71572360 | None:intergenic |
| CTGCAAATGAAACACGCAAA+TGG | 0.525081 | 8.4:-71572802 | None:intergenic |
| TTGAGACAGGATCCACAAAT+GGG | 0.525917 | 8.4:-71572828 | None:intergenic |
| AGCAAGATTTGATTATCAGC+CGG | 0.527438 | 8.4:+71572564 | MS.gene81042:CDS |
| TGGATGAGTTTATTTATCCT+CGG | 0.527485 | 8.4:-71573096 | None:intergenic |
| GTTCGGTTTAGCATAGGCAG+AGG | 0.531981 | 8.4:-71572224 | None:intergenic |
| TGGGTCACACGGTCCTCTCA+GGG | 0.532282 | 8.4:+71572519 | MS.gene81042:CDS |
| GGTGGCAGATGGAGAAGGAA+TGG | 0.534084 | 8.4:+71572674 | MS.gene81042:CDS |
| CTTAAGAGCTCTTTCACGGA+TGG | 0.538525 | 8.4:-71572365 | None:intergenic |
| TGCAAGTGAAGATGCAGAAG+AGG | 0.539016 | 8.4:+71572732 | MS.gene81042:CDS |
| AATTACACAGATCATAAGGC+TGG | 0.540860 | 8.4:+71572457 | MS.gene81042:CDS |
| GCGAAGCACTATTGAGAATG+AGG | 0.543921 | 8.4:+71572108 | MS.gene81042:CDS |
| TTCTTCGTTCGGTTTAGCAT+AGG | 0.544425 | 8.4:-71572230 | None:intergenic |
| ACAGAAGTAGTGCTTGCACT+TGG | 0.557721 | 8.4:-71572851 | None:intergenic |
| AGCTCTTTCACGGATGGCAC+GGG | 0.560125 | 8.4:-71572359 | None:intergenic |
| TTACAAACCTGGGTGGCAGA+TGG | 0.560301 | 8.4:+71572663 | MS.gene81042:CDS |
| TCATGAGATACGAAAGAAGA+TGG | 0.562670 | 8.4:+71573073 | MS.gene81042:CDS |
| AAGTGAAGATGCAGAAGAGG+AGG | 0.575195 | 8.4:+71572735 | MS.gene81042:CDS |
| CAAGCGACAGAGAGTCTCAA+GGG | 0.580990 | 8.4:+71572388 | MS.gene81042:CDS |
| ACCTGGGTGGCAGATGGAGA+AGG | 0.582406 | 8.4:+71572669 | MS.gene81042:CDS |
| ACAATTGCTAGTGAAAAGGC+TGG | 0.588134 | 8.4:+71572496 | MS.gene81042:CDS |
| TTGCTAGTGAAAAGGCTGGT+GGG | 0.588909 | 8.4:+71572500 | MS.gene81042:CDS |
| AGAGGTCTTTGAAGAGGCGG+TGG | 0.593488 | 8.4:-71572206 | None:intergenic |
| GCAAGCGACAGAGAGTCTCA+AGG | 0.594111 | 8.4:+71572387 | MS.gene81042:CDS |
| TGTAAATTTATGCATGATCG+AGG | 0.594891 | 8.4:+71572637 | MS.gene81042:CDS |
| ATAGGCAGAGGTCTTTGAAG+AGG | 0.595176 | 8.4:-71572212 | None:intergenic |
| GGCAGAGGTCTTTGAAGAGG+CGG | 0.605264 | 8.4:-71572209 | None:intergenic |
| GAAAAGGCTGGTGGGTCACA+CGG | 0.605641 | 8.4:+71572508 | MS.gene81042:CDS |
| ATCGAGGTGATTACAAACCT+GGG | 0.606572 | 8.4:+71572653 | MS.gene81042:CDS |
| ATTGCTAGTGAAAAGGCTGG+TGG | 0.609608 | 8.4:+71572499 | MS.gene81042:CDS |
| AGCACTATTGAGAATGAGGA+TGG | 0.610986 | 8.4:+71572112 | MS.gene81042:CDS |
| AGTGAAGATGCAGAAGAGGA+GGG | 0.615274 | 8.4:+71572736 | MS.gene81042:CDS |
| GATACGAAAGAAGATGGCCG+AGG | 0.629597 | 8.4:+71573079 | MS.gene81042:CDS |
| TTATCAGCCGGATATATGCA+AGG | 0.629970 | 8.4:+71572576 | MS.gene81042:CDS |
| AGTCTCAGTCTCCAAAGTTG+CGG | 0.641815 | 8.4:-71572320 | None:intergenic |
| TGAGGATGGCTCGAACAATG+AGG | 0.664875 | 8.4:+71572126 | MS.gene81042:CDS |
| TAGTTTGAATGATGAAGATG+AGG | 0.668595 | 8.4:+71572762 | MS.gene81042:CDS |
| ATGTGAGCTGAAGCCCTGAG+AGG | 0.679042 | 8.4:-71572532 | None:intergenic |
| ATGAAGCTGAGAAAGCTAGG+AGG | 0.680791 | 8.4:+71572698 | MS.gene81042:CDS |
| GAAGATGTACAATTATACAA+GGG | 0.702149 | 8.4:+71572427 | MS.gene81042:CDS |
| GAGGTGATTACAAACCTGGG+TGG | 0.757244 | 8.4:+71572656 | MS.gene81042:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AAGTAAAATGAACAGAAGTT+AGG | - | chr8.4:71572984-71573003 | None:intergenic | 25.0% |
| ! | AGAAGTTAGGCATATTTAAA+AGG | - | chr8.4:71572971-71572990 | None:intergenic | 25.0% |
| ! | CAATAATTACACAGATCATA+AGG | + | chr8.4:71572453-71572472 | MS.gene81042:CDS | 25.0% |
| ! | CTTGTATAATTGTACATCTT+CGG | - | chr8.4:71572428-71572447 | None:intergenic | 25.0% |
| ! | GAAGATGTACAATTATACAA+GGG | + | chr8.4:71572427-71572446 | MS.gene81042:CDS | 25.0% |
| ! | GAAGTTAGGCATATTTAAAA+GGG | - | chr8.4:71572970-71572989 | None:intergenic | 25.0% |
| ! | TTATAATCCTTGCATATATC+CGG | - | chr8.4:71572586-71572605 | None:intergenic | 25.0% |
| !!! | ACTTATTTGCTTTGAAGTTA+AGG | - | chr8.4:71572901-71572920 | None:intergenic | 25.0% |
| !!! | CTTATTTGCTTTGAAGTTAA+GGG | - | chr8.4:71572900-71572919 | None:intergenic | 25.0% |
| AAAATGAAAGCTAGGTTTCT+CGG | - | chr8.4:71572257-71572276 | None:intergenic | 30.0% | |
| AAAGACTCAAAATGAAAGCT+AGG | - | chr8.4:71572265-71572284 | None:intergenic | 30.0% | |
| ATGCAAGGATTATAAGGAAA+CGG | + | chr8.4:71572591-71572610 | MS.gene81042:CDS | 30.0% | |
| CGAAGATGTACAATTATACA+AGG | + | chr8.4:71572426-71572445 | MS.gene81042:CDS | 30.0% | |
| GGATATATGCAAGGATTATA+AGG | + | chr8.4:71572585-71572604 | MS.gene81042:CDS | 30.0% | |
| TAGTTTGAATGATGAAGATG+AGG | + | chr8.4:71572762-71572781 | MS.gene81042:CDS | 30.0% | |
| TGTAAATTTATGCATGATCG+AGG | + | chr8.4:71572637-71572656 | MS.gene81042:CDS | 30.0% | |
| AATTACACAGATCATAAGGC+TGG | + | chr8.4:71572457-71572476 | MS.gene81042:CDS | 35.0% | |
| ACATTAAAAATGCCAAGCGT+AGG | - | chr8.4:71573050-71573069 | None:intergenic | 35.0% | |
| AGCAAGATTTGATTATCAGC+CGG | + | chr8.4:71572564-71572583 | MS.gene81042:CDS | 35.0% | |
| GCAAACAATTGCTAGTGAAA+AGG | + | chr8.4:71572492-71572511 | MS.gene81042:CDS | 35.0% | |
| TCATGAGATACGAAAGAAGA+TGG | + | chr8.4:71573073-71573092 | MS.gene81042:CDS | 35.0% | |
| TGCAAGGATTATAAGGAAAC+GGG | + | chr8.4:71572592-71572611 | MS.gene81042:CDS | 35.0% | |
| ! | TACGCTTGGCATTTTTAATG+TGG | + | chr8.4:71573049-71573068 | MS.gene81042:CDS | 35.0% |
| !! | ATAAGGAAACGGGTTATTGT+GGG | + | chr8.4:71572602-71572621 | MS.gene81042:CDS | 35.0% |
| !! | TATAAGGAAACGGGTTATTG+TGG | + | chr8.4:71572601-71572620 | MS.gene81042:CDS | 35.0% |
| ACAATTGCTAGTGAAAAGGC+TGG | + | chr8.4:71572496-71572515 | MS.gene81042:CDS | 40.0% | |
| AGCACTATTGAGAATGAGGA+TGG | + | chr8.4:71572112-71572131 | MS.gene81042:CDS | 40.0% | |
| ATCGAGGTGATTACAAACCT+GGG | + | chr8.4:71572653-71572672 | MS.gene81042:CDS | 40.0% | |
| CATTTGCAGAAACCCATTTG+TGG | + | chr8.4:71572816-71572835 | MS.gene81042:CDS | 40.0% | |
| CTGCAAATGAAACACGCAAA+TGG | - | chr8.4:71572805-71572824 | None:intergenic | 40.0% | |
| CTTGCTTAAGAGCTCTTTCA+CGG | - | chr8.4:71572372-71572391 | None:intergenic | 40.0% | |
| TTATCAGCCGGATATATGCA+AGG | + | chr8.4:71572576-71572595 | MS.gene81042:CDS | 40.0% | |
| TTCTTCGTTCGGTTTAGCAT+AGG | - | chr8.4:71572233-71572252 | None:intergenic | 40.0% | |
| TTGAGACAGGATCCACAAAT+GGG | - | chr8.4:71572831-71572850 | None:intergenic | 40.0% | |
| AAGTGAAGATGCAGAAGAGG+AGG | + | chr8.4:71572735-71572754 | MS.gene81042:CDS | 45.0% | |
| ACAGAAGTAGTGCTTGCACT+TGG | - | chr8.4:71572854-71572873 | None:intergenic | 45.0% | |
| AGTCTCAGTCTCCAAAGTTG+CGG | - | chr8.4:71572323-71572342 | None:intergenic | 45.0% | |
| AGTGAAGATGCAGAAGAGGA+GGG | + | chr8.4:71572736-71572755 | MS.gene81042:CDS | 45.0% | |
| ATGAAGCTGAGAAAGCTAGG+AGG | + | chr8.4:71572698-71572717 | MS.gene81042:CDS | 45.0% | |
| ATTGCTAGTGAAAAGGCTGG+TGG | + | chr8.4:71572499-71572518 | MS.gene81042:CDS | 45.0% | |
| CTTAAGAGCTCTTTCACGGA+TGG | - | chr8.4:71572368-71572387 | None:intergenic | 45.0% | |
| GAAAGCTAGGAGGATGAGAT+TGG | + | chr8.4:71572708-71572727 | MS.gene81042:CDS | 45.0% | |
| GATCGAGGTGATTACAAACC+TGG | + | chr8.4:71572652-71572671 | MS.gene81042:CDS | 45.0% | |
| GGTTTCTCGGATTCTTCGTT+CGG | - | chr8.4:71572244-71572263 | None:intergenic | 45.0% | |
| GTTGAGACAGGATCCACAAA+TGG | - | chr8.4:71572832-71572851 | None:intergenic | 45.0% | |
| TAAAAATGCCAAGCGTAGGC+TGG | - | chr8.4:71573046-71573065 | None:intergenic | 45.0% | |
| TAGCAAAGCAACCGCAACTT+TGG | + | chr8.4:71572309-71572328 | MS.gene81042:CDS | 45.0% | |
| TGCAAGTGAAGATGCAGAAG+AGG | + | chr8.4:71572732-71572751 | MS.gene81042:CDS | 45.0% | |
| TTGCTAGTGAAAAGGCTGGT+GGG | + | chr8.4:71572500-71572519 | MS.gene81042:CDS | 45.0% | |
| ! | ATAGGCAGAGGTCTTTGAAG+AGG | - | chr8.4:71572215-71572234 | None:intergenic | 45.0% |
| ! | CTGTGAGCATTGTGCATTGA+AGG | + | chr8.4:71572870-71572889 | MS.gene81042:CDS | 45.0% |
| ! | GCGAAGCACTATTGAGAATG+AGG | + | chr8.4:71572108-71572127 | MS.gene81042:CDS | 45.0% |
| !! | GAAACGGGTTATTGTGGGTA+TGG | + | chr8.4:71572607-71572626 | MS.gene81042:CDS | 45.0% |
| CAAGCGACAGAGAGTCTCAA+GGG | + | chr8.4:71572388-71572407 | MS.gene81042:CDS | 50.0% | |
| GAGGTGATTACAAACCTGGG+TGG | + | chr8.4:71572656-71572675 | MS.gene81042:CDS | 50.0% | |
| GATACGAAAGAAGATGGCCG+AGG | + | chr8.4:71573079-71573098 | MS.gene81042:CDS | 50.0% | |
| GGGATGAAGCTGAGAAAGCT+AGG | + | chr8.4:71572695-71572714 | MS.gene81042:CDS | 50.0% | |
| GTGGCAGATGGAGAAGGAAT+GGG | + | chr8.4:71572675-71572694 | MS.gene81042:CDS | 50.0% | |
| GTTCGGTTTAGCATAGGCAG+AGG | - | chr8.4:71572227-71572246 | None:intergenic | 50.0% | |
| TGAGGATGGCTCGAACAATG+AGG | + | chr8.4:71572126-71572145 | MS.gene81042:CDS | 50.0% | |
| TGCTTGCACTTGGTTGAGAC+AGG | - | chr8.4:71572844-71572863 | None:intergenic | 50.0% | |
| TTACAAACCTGGGTGGCAGA+TGG | + | chr8.4:71572663-71572682 | MS.gene81042:CDS | 50.0% | |
| AGCTCTTTCACGGATGGCAC+GGG | - | chr8.4:71572362-71572381 | None:intergenic | 55.0% | |
| ATGTGAGCTGAAGCCCTGAG+AGG | - | chr8.4:71572535-71572554 | None:intergenic | 55.0% | |
| GAGCTCTTTCACGGATGGCA+CGG | - | chr8.4:71572363-71572382 | None:intergenic | 55.0% | |
| GCAAGCGACAGAGAGTCTCA+AGG | + | chr8.4:71572387-71572406 | MS.gene81042:CDS | 55.0% | |
| GGTGGCAGATGGAGAAGGAA+TGG | + | chr8.4:71572674-71572693 | MS.gene81042:CDS | 55.0% | |
| ! | AGAGGTCTTTGAAGAGGCGG+TGG | - | chr8.4:71572209-71572228 | None:intergenic | 55.0% |
| ! | GAAAAGGCTGGTGGGTCACA+CGG | + | chr8.4:71572508-71572527 | MS.gene81042:CDS | 55.0% |
| ! | GGCAGAGGTCTTTGAAGAGG+CGG | - | chr8.4:71572212-71572231 | None:intergenic | 55.0% |
| ACCTGGGTGGCAGATGGAGA+AGG | + | chr8.4:71572669-71572688 | MS.gene81042:CDS | 60.0% | |
| GTCTGCAACCAGCCTACGCT+TGG | + | chr8.4:71573035-71573054 | MS.gene81042:CDS | 60.0% | |
| TCCTTCTCCATCTGCCACCC+AGG | - | chr8.4:71572673-71572692 | None:intergenic | 60.0% | |
| TGGGTCACACGGTCCTCTCA+GGG | + | chr8.4:71572519-71572538 | MS.gene81042:CDS | 60.0% | |
| GTGGGTCACACGGTCCTCTC+AGG | + | chr8.4:71572518-71572537 | MS.gene81042:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8.4 | gene | 71572100 | 71573109 | 71572100 | ID=MS.gene81042 |
| chr8.4 | mRNA | 71572100 | 71573109 | 71572100 | ID=MS.gene81042.t1;Parent=MS.gene81042 |
| chr8.4 | exon | 71572100 | 71572891 | 71572100 | ID=MS.gene81042.t1.exon1;Parent=MS.gene81042.t1 |
| chr8.4 | CDS | 71572100 | 71572891 | 71572100 | ID=cds.MS.gene81042.t1;Parent=MS.gene81042.t1 |
| chr8.4 | exon | 71573008 | 71573109 | 71573008 | ID=MS.gene81042.t1.exon2;Parent=MS.gene81042.t1 |
| chr8.4 | CDS | 71573008 | 71573109 | 71573008 | ID=cds.MS.gene81042.t1;Parent=MS.gene81042.t1 |
| Gene Sequence |
| Protein sequence |
