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.gene42493.t1 | RHN52506.1 | 97.5 | 316 | 8 | 0 | 1 | 316 | 55 | 370 | 7.60E-168 | 599.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene42493.t1 | Q9SX73 | 31.7 | 284 | 166 | 4 | 1 | 284 | 21 | 276 | 7.0e-29 | 129.4 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene42493.t1 | A0A396HGY0 | 97.5 | 316 | 8 | 0 | 1 | 316 | 55 | 370 | 5.5e-168 | 599.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049418 | MS.gene42493 | 0.805627 | 1.22E-49 | -1.69E-46 |
| MS.gene050020 | MS.gene42493 | 0.818584 | 1.82E-52 | -1.69E-46 |
| MS.gene05157 | MS.gene42493 | 0.875228 | 3.63E-68 | -1.69E-46 |
| MS.gene053144 | MS.gene42493 | 0.801242 | 9.87E-49 | -1.69E-46 |
| MS.gene053174 | MS.gene42493 | 0.801426 | 9.06E-49 | -1.69E-46 |
| MS.gene054550 | MS.gene42493 | 0.825092 | 5.66E-54 | -1.69E-46 |
| MS.gene055466 | MS.gene42493 | 0.80172 | 7.88E-49 | -1.69E-46 |
| MS.gene055890 | MS.gene42493 | 0.816169 | 6.35E-52 | -1.69E-46 |
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene05157 | MS.gene42493 | PPI |
| MS.gene42493 | MS.gene40432 | PPI |
| MS.gene041717 | MS.gene42493 | PPI |
| MS.gene92477 | MS.gene42493 | PPI |
| MS.gene42493 | MS.gene05157 | PPI |
| MS.gene40432 | MS.gene42493 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene42493.t1 | MTR_6g081040 | 93.987 | 316 | 19 | 0 | 1 | 316 | 55 | 370 | 0.0 | 582 |
| MS.gene42493.t1 | MTR_6g081040 | 93.987 | 316 | 19 | 0 | 1 | 316 | 12 | 327 | 0.0 | 581 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene42493.t1 | AT1G48405 | 33.755 | 237 | 133 | 2 | 1 | 237 | 21 | 233 | 3.75e-37 | 134 |
| MS.gene42493.t1 | AT3G17680 | 41.892 | 222 | 116 | 4 | 7 | 223 | 29 | 242 | 9.49e-31 | 118 |
| MS.gene42493.t1 | AT3G17680 | 41.892 | 222 | 116 | 4 | 7 | 223 | 61 | 274 | 1.77e-30 | 118 |
| MS.gene42493.t1 | AT3G17680 | 41.892 | 222 | 116 | 4 | 7 | 223 | 73 | 286 | 2.31e-30 | 118 |
Find 54 sgRNAs with CRISPR-Local
Find 63 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCTTTCCACTTAAACCTTCT+AGG | 0.230863 | 6.1:-67906514 | None:intergenic |
| TCTTCTCCAAACCATGTATC+TGG | 0.388286 | 6.1:-67906366 | None:intergenic |
| AAAGTAGTTGAGGTCTCTTT+TGG | 0.405251 | 6.1:-67905775 | None:intergenic |
| CAAGTTTCAACTTTGGAAGA+AGG | 0.410477 | 6.1:+67905893 | MS.gene42493:CDS |
| TCAAGGCCAGATACATGGTT+TGG | 0.410594 | 6.1:+67906360 | MS.gene42493:CDS |
| TTCAAATGGAGAAGCCTAGA+AGG | 0.411732 | 6.1:+67906500 | MS.gene42493:CDS |
| GAAGAGTTTGCTTGAGGTGT+TGG | 0.416910 | 6.1:+67906144 | MS.gene42493:CDS |
| AGGATGAAAATGTTGGCAAT+TGG | 0.428892 | 6.1:+67905695 | None:intergenic |
| CTCTTCACAAGTTTCAACTT+TGG | 0.429231 | 6.1:+67905886 | MS.gene42493:CDS |
| ACAAATGTTACCATTGATGA+AGG | 0.437430 | 6.1:+67905991 | MS.gene42493:CDS |
| GATCAAGAAGAAGTTATTAG+TGG | 0.443016 | 6.1:+67905923 | MS.gene42493:CDS |
| GAGTTATAGAGTTAATAGTT+TGG | 0.443249 | 6.1:+67906207 | MS.gene42493:CDS |
| GAAAGTATTGCGAGTCTTCG+AGG | 0.458677 | 6.1:+67906107 | MS.gene42493:CDS |
| TGGTGTGAGTCAAGTTGATT+CGG | 0.464121 | 6.1:+67905943 | MS.gene42493:CDS |
| GGAAGAAAGGATGAAAATGT+TGG | 0.467904 | 6.1:+67905688 | None:intergenic |
| TTTGGAACTTCATGTTCAAA+TGG | 0.471270 | 6.1:+67906486 | MS.gene42493:CDS |
| AACATGGACTTGCTATTATG+TGG | 0.473266 | 6.1:+67906604 | MS.gene42493:CDS |
| TGCGAGTCTTCGAGGAAAAG+TGG | 0.500606 | 6.1:+67906115 | MS.gene42493:CDS |
| TGGTGGTGAAGGGATAGCTT+TGG | 0.501069 | 6.1:+67906468 | MS.gene42493:CDS |
| AGGTTTAAGTGGAAAGAAGA+AGG | 0.501263 | 6.1:+67906520 | MS.gene42493:CDS |
| GATCTTCAAGGCCAGATACA+TGG | 0.502154 | 6.1:+67906355 | MS.gene42493:CDS |
| GGTTCATGAGGTTGGTGTCA+TGG | 0.507161 | 6.1:+67906081 | MS.gene42493:CDS |
| CTTCTGCATGATTTGTACAA+TGG | 0.516625 | 6.1:+67905800 | MS.gene42493:CDS |
| AAGAAGAAGGAAATTCATCT+AGG | 0.520316 | 6.1:+67906533 | MS.gene42493:CDS |
| AGATACATGGTTTGGAGAAG+AGG | 0.525980 | 6.1:+67906368 | MS.gene42493:CDS |
| AGGAAAATTGAAGATCTTCA+AGG | 0.526049 | 6.1:+67906343 | MS.gene42493:CDS |
| ACCATGGAACCCTTCATCAA+TGG | 0.526447 | 6.1:-67906001 | None:intergenic |
| ACAAGTGAAGAAGAAGAAGA+AGG | 0.536387 | 6.1:+67905719 | MS.gene42493:CDS |
| AGAAGAGAGAGTCAAGAAAA+CGG | 0.544128 | 6.1:+67906418 | MS.gene42493:CDS |
| ACCATTGATGAAGGGTTCCA+TGG | 0.550379 | 6.1:+67906000 | MS.gene42493:CDS |
| AGAAGCCTAGAAGGTTTAAG+TGG | 0.552094 | 6.1:+67906509 | MS.gene42493:CDS |
| AAGTGTTTGTATATATCGAT+CGG | 0.552375 | 6.1:-67905837 | None:intergenic |
| ATAGAGTTTATCTATTGCAT+AGG | 0.555558 | 6.1:+67906323 | MS.gene42493:CDS |
| AAAGGGACGAATGGTGGTGA+AGG | 0.556558 | 6.1:+67906457 | MS.gene42493:CDS |
| GATCAAGATCAAGCGCAAGT+TGG | 0.564528 | 6.1:-67906634 | None:intergenic |
| CAAAGAGCTTGCGTCCGAGT+CGG | 0.566207 | 6.1:+67906240 | MS.gene42493:CDS |
| ATCGGCAACAAAGGGACGAA+TGG | 0.579673 | 6.1:+67906448 | MS.gene42493:CDS |
| TGCAGAAGTGAAAGTAGTTG+AGG | 0.584459 | 6.1:-67905785 | None:intergenic |
| CAAATGTTACCATTGATGAA+GGG | 0.593424 | 6.1:+67905992 | MS.gene42493:CDS |
| GCGAGTCTTCGAGGAAAAGT+GGG | 0.594547 | 6.1:+67906116 | MS.gene42493:CDS |
| CTAAGTGTGTGCTGAAGATG+AGG | 0.598254 | 6.1:+67906293 | MS.gene42493:CDS |
| GTTACAGAAGAGTTTGCTTG+AGG | 0.608897 | 6.1:+67906138 | MS.gene42493:CDS |
| ACATGGACTTGCTATTATGT+GGG | 0.610897 | 6.1:+67906605 | MS.gene42493:CDS |
| GGCAACAAAGGGACGAATGG+TGG | 0.614907 | 6.1:+67906451 | MS.gene42493:CDS |
| AAGGGACGAATGGTGGTGAA+GGG | 0.619331 | 6.1:+67906458 | MS.gene42493:CDS |
| TCTCTTGATGAAAACCGACT+CGG | 0.619580 | 6.1:-67906254 | None:intergenic |
| GTATTGTTGAATGAGAATGC+TGG | 0.620386 | 6.1:+67906181 | MS.gene42493:CDS |
| CACACACTTAGCTAACTCAC+CGG | 0.626155 | 6.1:-67906281 | None:intergenic |
| AATTTCATCAACATCAACCA+TGG | 0.630066 | 6.1:-67906017 | None:intergenic |
| GGAACAAGGAGTATTATGAG+AGG | 0.665037 | 6.1:+67906389 | MS.gene42493:CDS |
| TGGTTTGGAGAAGAGGAACA+AGG | 0.704148 | 6.1:+67906375 | MS.gene42493:CDS |
| AGAGAGAGTCAAGAAAACGG+TGG | 0.727678 | 6.1:+67906421 | MS.gene42493:CDS |
| GTGTGTGCTGAAGATGAGGG+AGG | 0.735654 | 6.1:+67906297 | MS.gene42493:CDS |
| TAAGTGTGTGCTGAAGATGA+GGG | 0.745974 | 6.1:+67906294 | MS.gene42493:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AAGTGTTTGTATATATCGAT+CGG | - | chr6.1:67905840-67905859 | None:intergenic | 25.0% |
| ! | ATAGAGTTTATCTATTGCAT+AGG | + | chr6.1:67906323-67906342 | MS.gene42493:CDS | 25.0% |
| ! | GAGTTATAGAGTTAATAGTT+TGG | + | chr6.1:67906207-67906226 | MS.gene42493:CDS | 25.0% |
| !!! | GAATGTTATGTGTGATTTTT+TGG | + | chr6.1:67906060-67906079 | MS.gene42493:CDS | 25.0% |
| AAGAAGAAGGAAATTCATCT+AGG | + | chr6.1:67906533-67906552 | MS.gene42493:CDS | 30.0% | |
| AATTTCATCAACATCAACCA+TGG | - | chr6.1:67906020-67906039 | None:intergenic | 30.0% | |
| ACAAATGTTACCATTGATGA+AGG | + | chr6.1:67905991-67906010 | MS.gene42493:CDS | 30.0% | |
| AGGAAAATTGAAGATCTTCA+AGG | + | chr6.1:67906343-67906362 | MS.gene42493:CDS | 30.0% | |
| CAAATGTTACCATTGATGAA+GGG | + | chr6.1:67905992-67906011 | MS.gene42493:CDS | 30.0% | |
| GATCAAGAAGAAGTTATTAG+TGG | + | chr6.1:67905923-67905942 | MS.gene42493:CDS | 30.0% | |
| ! | AAGAATTTTGCTGGGAAAAA+AGG | + | chr6.1:67906556-67906575 | MS.gene42493:CDS | 30.0% |
| ! | TTTGGAACTTCATGTTCAAA+TGG | + | chr6.1:67906486-67906505 | MS.gene42493:CDS | 30.0% |
| ACAAGTGAAGAAGAAGAAGA+AGG | + | chr6.1:67905719-67905738 | MS.gene42493:CDS | 35.0% | |
| AGAAGAGAGAGTCAAGAAAA+CGG | + | chr6.1:67906418-67906437 | MS.gene42493:CDS | 35.0% | |
| AGGTTTAAGTGGAAAGAAGA+AGG | + | chr6.1:67906520-67906539 | MS.gene42493:CDS | 35.0% | |
| CTCTTCACAAGTTTCAACTT+TGG | + | chr6.1:67905886-67905905 | MS.gene42493:CDS | 35.0% | |
| GGAAAAAAGGTCATAGTTTG+TGG | + | chr6.1:67906569-67906588 | MS.gene42493:CDS | 35.0% | |
| GTATTGTTGAATGAGAATGC+TGG | + | chr6.1:67906181-67906200 | MS.gene42493:CDS | 35.0% | |
| GTGGAAAAAGTTGAAGAACA+TGG | + | chr6.1:67906588-67906607 | MS.gene42493:CDS | 35.0% | |
| TCTTTCCACTTAAACCTTCT+AGG | - | chr6.1:67906517-67906536 | None:intergenic | 35.0% | |
| ! | AAAGTAGTTGAGGTCTCTTT+TGG | - | chr6.1:67905778-67905797 | None:intergenic | 35.0% |
| ! | CAAGTTTCAACTTTGGAAGA+AGG | + | chr6.1:67905893-67905912 | MS.gene42493:CDS | 35.0% |
| ! | CATCTAGGAAGAATTTTGCT+GGG | + | chr6.1:67906548-67906567 | MS.gene42493:CDS | 35.0% |
| ! | CTTCTGCATGATTTGTACAA+TGG | + | chr6.1:67905800-67905819 | MS.gene42493:CDS | 35.0% |
| ! | GTTTTCATCAAGAGAAAAGC+CGG | + | chr6.1:67906262-67906281 | MS.gene42493:CDS | 35.0% |
| ! | TCATCTAGGAAGAATTTTGC+TGG | + | chr6.1:67906547-67906566 | MS.gene42493:CDS | 35.0% |
| !! | AACATGGACTTGCTATTATG+TGG | + | chr6.1:67906604-67906623 | MS.gene42493:CDS | 35.0% |
| !! | ACATGGACTTGCTATTATGT+GGG | + | chr6.1:67906605-67906624 | MS.gene42493:CDS | 35.0% |
| !!! | CAAGAAAACGGTGGTTTTAT+CGG | + | chr6.1:67906430-67906449 | MS.gene42493:CDS | 35.0% |
| !!! | GATTTTTTGGTTCATGAGGT+TGG | + | chr6.1:67906073-67906092 | MS.gene42493:CDS | 35.0% |
| !!! | GTGTGATTTTTTGGTTCATG+AGG | + | chr6.1:67906069-67906088 | MS.gene42493:CDS | 35.0% |
| AGAAGCCTAGAAGGTTTAAG+TGG | + | chr6.1:67906509-67906528 | MS.gene42493:CDS | 40.0% | |
| TAAGTGTGTGCTGAAGATGA+GGG | + | chr6.1:67906294-67906313 | MS.gene42493:CDS | 40.0% | |
| TCTCTTGATGAAAACCGACT+CGG | - | chr6.1:67906257-67906276 | None:intergenic | 40.0% | |
| TCTTCTCCAAACCATGTATC+TGG | - | chr6.1:67906369-67906388 | None:intergenic | 40.0% | |
| TGCAGAAGTGAAAGTAGTTG+AGG | - | chr6.1:67905788-67905807 | None:intergenic | 40.0% | |
| TTCAAATGGAGAAGCCTAGA+AGG | + | chr6.1:67906500-67906519 | MS.gene42493:CDS | 40.0% | |
| ! | AGATACATGGTTTGGAGAAG+AGG | + | chr6.1:67906368-67906387 | MS.gene42493:CDS | 40.0% |
| ! | GTTACAGAAGAGTTTGCTTG+AGG | + | chr6.1:67906138-67906157 | MS.gene42493:CDS | 40.0% |
| !! | GGAACAAGGAGTATTATGAG+AGG | + | chr6.1:67906389-67906408 | MS.gene42493:CDS | 40.0% |
| !! | TGGTGTGAGTCAAGTTGATT+CGG | + | chr6.1:67905943-67905962 | MS.gene42493:CDS | 40.0% |
| !!! | GTGGTTTTATCGGCAACAAA+GGG | + | chr6.1:67906440-67906459 | MS.gene42493:CDS | 40.0% |
| ACCATGGAACCCTTCATCAA+TGG | - | chr6.1:67906004-67906023 | None:intergenic | 45.0% | |
| ACCATTGATGAAGGGTTCCA+TGG | + | chr6.1:67906000-67906019 | MS.gene42493:CDS | 45.0% | |
| AGAGAGAGTCAAGAAAACGG+TGG | + | chr6.1:67906421-67906440 | MS.gene42493:CDS | 45.0% | |
| CACACACTTAGCTAACTCAC+CGG | - | chr6.1:67906284-67906303 | None:intergenic | 45.0% | |
| CTAAGTGTGTGCTGAAGATG+AGG | + | chr6.1:67906293-67906312 | MS.gene42493:CDS | 45.0% | |
| GATCTTCAAGGCCAGATACA+TGG | + | chr6.1:67906355-67906374 | MS.gene42493:CDS | 45.0% | |
| TCAAGGCCAGATACATGGTT+TGG | + | chr6.1:67906360-67906379 | MS.gene42493:CDS | 45.0% | |
| ! | GAAGAGTTTGCTTGAGGTGT+TGG | + | chr6.1:67906144-67906163 | MS.gene42493:CDS | 45.0% |
| ! | TGGTTTGGAGAAGAGGAACA+AGG | + | chr6.1:67906375-67906394 | MS.gene42493:CDS | 45.0% |
| !! | GAAAGTATTGCGAGTCTTCG+AGG | + | chr6.1:67906107-67906126 | MS.gene42493:CDS | 45.0% |
| !!! | GGTGGTTTTATCGGCAACAA+AGG | + | chr6.1:67906439-67906458 | MS.gene42493:CDS | 45.0% |
| ATCGGCAACAAAGGGACGAA+TGG | + | chr6.1:67906448-67906467 | MS.gene42493:CDS | 50.0% | |
| GCGAGTCTTCGAGGAAAAGT+GGG | + | chr6.1:67906116-67906135 | MS.gene42493:CDS | 50.0% | |
| TGCGAGTCTTCGAGGAAAAG+TGG | + | chr6.1:67906115-67906134 | MS.gene42493:CDS | 50.0% | |
| ! | AAAGGGACGAATGGTGGTGA+AGG | + | chr6.1:67906457-67906476 | MS.gene42493:CDS | 50.0% |
| ! | AAGGGACGAATGGTGGTGAA+GGG | + | chr6.1:67906458-67906477 | MS.gene42493:CDS | 50.0% |
| ! | TGGTGGTGAAGGGATAGCTT+TGG | + | chr6.1:67906468-67906487 | MS.gene42493:CDS | 50.0% |
| !! | GGTTCATGAGGTTGGTGTCA+TGG | + | chr6.1:67906081-67906100 | MS.gene42493:CDS | 50.0% |
| CAAAGAGCTTGCGTCCGAGT+CGG | + | chr6.1:67906240-67906259 | MS.gene42493:CDS | 55.0% | |
| GGCAACAAAGGGACGAATGG+TGG | + | chr6.1:67906451-67906470 | MS.gene42493:CDS | 55.0% | |
| GTGTGTGCTGAAGATGAGGG+AGG | + | chr6.1:67906297-67906316 | MS.gene42493:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6.1 | gene | 67905698 | 67906648 | 67905698 | ID=MS.gene42493 |
| chr6.1 | mRNA | 67905698 | 67906648 | 67905698 | ID=MS.gene42493.t1;Parent=MS.gene42493 |
| chr6.1 | exon | 67905698 | 67906648 | 67905698 | ID=MS.gene42493.t1.exon1;Parent=MS.gene42493.t1 |
| chr6.1 | CDS | 67905698 | 67906648 | 67905698 | ID=cds.MS.gene42493.t1;Parent=MS.gene42493.t1 |
| Gene Sequence |
| Protein sequence |
