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.gene54324.t1 | XP_004297596.1 | 100 | 52 | 0 | 0 | 1 | 52 | 35 | 86 | 7.20E-23 | 115.5 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene54324.t1 | Q9M2F1 | 92.3 | 52 | 4 | 0 | 1 | 52 | 35 | 86 | 2.5e-24 | 111.7 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene54324.t1 | A0A5D2BH63 | 100.0 | 52 | 0 | 0 | 1 | 52 | 35 | 86 | 5.2e-23 | 115.5 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene057705 | MS.gene54324 | 0.801499 | 8.75E-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.gene54324.t1 | MTR_2g015680 | 100.000 | 52 | 0 | 0 | 1 | 52 | 35 | 86 | 1.34e-33 | 109 |
| MS.gene54324.t1 | MTR_2g029270 | 98.077 | 52 | 1 | 0 | 1 | 52 | 35 | 86 | 4.25e-33 | 108 |
| MS.gene54324.t1 | MTR_1g111970 | 98.077 | 52 | 1 | 0 | 1 | 52 | 35 | 86 | 4.25e-33 | 108 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene54324.t1 | AT3G61110 | 92.308 | 52 | 4 | 0 | 1 | 52 | 35 | 86 | 4.56e-32 | 105 |
| MS.gene54324.t1 | AT5G47930 | 96.000 | 50 | 2 | 0 | 1 | 50 | 35 | 84 | 1.63e-30 | 101 |
| MS.gene54324.t1 | AT2G45710 | 90.000 | 50 | 5 | 0 | 1 | 50 | 35 | 84 | 3.49e-29 | 98.6 |
| MS.gene54324.t1 | AT3G61111 | 75.000 | 52 | 13 | 0 | 1 | 52 | 35 | 86 | 1.59e-23 | 84.3 |
Find 18 sgRNAs with CRISPR-Local
Find 24 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAACAGAAGGATGCTCCTTT+AGG | 0.360674 | 2.3:+69669596 | MS.gene54324:CDS |
| ACCGTCTTGTGCCAGCCAAC+AGG | 0.416778 | 2.3:+69669559 | MS.gene54324:CDS |
| TTAGTCTCCCTTCTTCCTAA+AGG | 0.438236 | 2.3:-69669611 | None:intergenic |
| TTGCACGGCCACCTGTTGGC+TGG | 0.466909 | 2.3:-69669570 | None:intergenic |
| AGCCAACAGGTGGCCGTGCA+AGG | 0.485723 | 2.3:+69669572 | MS.gene54324:CDS |
| AGGATGCTCCTTTAGGAAGA+AGG | 0.507022 | 2.3:+69669603 | MS.gene54324:CDS |
| GGATGCTCCTTTAGGAAGAA+GGG | 0.515173 | 2.3:+69669604 | MS.gene54324:CDS |
| CTTACATATTGAAACAACCT+TGG | 0.524068 | 2.3:-69669255 | None:intergenic |
| TAGCCACTCTCAAACTGTTG+TGG | 0.528266 | 2.3:+69669519 | MS.gene54324:CDS |
| AGCCTTGCACGGCCACCTGT+TGG | 0.536283 | 2.3:-69669574 | None:intergenic |
| TTGCAGGATGTAAAATGCCA+AGG | 0.553924 | 2.3:+69669238 | MS.gene54324:intron |
| ATCCTTCTGTTAGCCTTGCA+CGG | 0.562687 | 2.3:-69669585 | None:intergenic |
| ACCTGTTGGCTGGCACAAGA+CGG | 0.579670 | 2.3:-69669560 | None:intergenic |
| GTCTTGTGCCAGCCAACAGG+TGG | 0.604328 | 2.3:+69669562 | MS.gene54324:CDS |
| GGCCGTGCAAGGCTAACAGA+AGG | 0.622759 | 2.3:+69669583 | MS.gene54324:CDS |
| TCTCAAACTGTTGTGGTGTG+CGG | 0.650676 | 2.3:+69669526 | MS.gene54324:CDS |
| TTGAGAGTGGCTAAAGACAG+TGG | 0.660753 | 2.3:-69669509 | None:intergenic |
| ACACCACAACAGTTTGAGAG+TGG | 0.672110 | 2.3:-69669522 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAAAATTTATAAGCAAAAT+AGG | - | chr2.3:69669474-69669493 | None:intergenic | 10.0% |
| !!! | TGCTTATAAATTTTTTATTT+TGG | + | chr2.3:69669478-69669497 | MS.gene54324:intron | 10.0% |
| !!! | ATTGATCGTATTTTTTATAA+TGG | + | chr2.3:69669346-69669365 | MS.gene54324:intron | 15.0% |
| ! | GTTAGTCATACATACAATAT+AGG | - | chr2.3:69669426-69669445 | None:intergenic | 25.0% |
| !!! | TTGTTTTTCTCTTTATTTGC+AGG | + | chr2.3:69669222-69669241 | MS.gene54324:intron | 25.0% |
| CTTACATATTGAAACAACCT+TGG | - | chr2.3:69669258-69669277 | None:intergenic | 30.0% | |
| ! | GGTTGTTTCAATATGTAAGT+TGG | + | chr2.3:69669259-69669278 | MS.gene54324:intron | 30.0% |
| TAACAGAAGGATGCTCCTTT+AGG | + | chr2.3:69669596-69669615 | MS.gene54324:CDS | 40.0% | |
| TTAGTCTCCCTTCTTCCTAA+AGG | - | chr2.3:69669614-69669633 | None:intergenic | 40.0% | |
| TTGCAGGATGTAAAATGCCA+AGG | + | chr2.3:69669238-69669257 | MS.gene54324:intron | 40.0% | |
| ACACCACAACAGTTTGAGAG+TGG | - | chr2.3:69669525-69669544 | None:intergenic | 45.0% | |
| TAGCCACTCTCAAACTGTTG+TGG | + | chr2.3:69669519-69669538 | MS.gene54324:CDS | 45.0% | |
| TCTCAAACTGTTGTGGTGTG+CGG | + | chr2.3:69669526-69669545 | MS.gene54324:CDS | 45.0% | |
| TTGAGAGTGGCTAAAGACAG+TGG | - | chr2.3:69669512-69669531 | None:intergenic | 45.0% | |
| ! | AGGATGCTCCTTTAGGAAGA+AGG | + | chr2.3:69669603-69669622 | MS.gene54324:CDS | 45.0% |
| ! | GGATGCTCCTTTAGGAAGAA+GGG | + | chr2.3:69669604-69669623 | MS.gene54324:CDS | 45.0% |
| !! | ATCCTTCTGTTAGCCTTGCA+CGG | - | chr2.3:69669588-69669607 | None:intergenic | 45.0% |
| ! | ACCTGTTGGCTGGCACAAGA+CGG | - | chr2.3:69669563-69669582 | None:intergenic | 55.0% |
| ACCGTCTTGTGCCAGCCAAC+AGG | + | chr2.3:69669559-69669578 | MS.gene54324:CDS | 60.0% | |
| GGCCGTGCAAGGCTAACAGA+AGG | + | chr2.3:69669583-69669602 | MS.gene54324:CDS | 60.0% | |
| GTCTTGTGCCAGCCAACAGG+TGG | + | chr2.3:69669562-69669581 | MS.gene54324:CDS | 60.0% | |
| AGCCAACAGGTGGCCGTGCA+AGG | + | chr2.3:69669572-69669591 | MS.gene54324:CDS | 65.0% | |
| AGCCTTGCACGGCCACCTGT+TGG | - | chr2.3:69669577-69669596 | None:intergenic | 65.0% | |
| TTGCACGGCCACCTGTTGGC+TGG | - | chr2.3:69669573-69669592 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2.3 | gene | 69669127 | 69669633 | 69669127 | ID=MS.gene54324 |
| chr2.3 | mRNA | 69669127 | 69669633 | 69669127 | ID=MS.gene54324.t1;Parent=MS.gene54324 |
| chr2.3 | exon | 69669127 | 69669129 | 69669127 | ID=MS.gene54324.t1.exon1;Parent=MS.gene54324.t1 |
| chr2.3 | CDS | 69669127 | 69669129 | 69669127 | ID=cds.MS.gene54324.t1;Parent=MS.gene54324.t1 |
| chr2.3 | exon | 69669244 | 69669272 | 69669244 | ID=MS.gene54324.t1.exon2;Parent=MS.gene54324.t1 |
| chr2.3 | CDS | 69669244 | 69669272 | 69669244 | ID=cds.MS.gene54324.t1;Parent=MS.gene54324.t1 |
| chr2.3 | exon | 69669507 | 69669633 | 69669507 | ID=MS.gene54324.t1.exon3;Parent=MS.gene54324.t1 |
| chr2.3 | CDS | 69669507 | 69669633 | 69669507 | ID=cds.MS.gene54324.t1;Parent=MS.gene54324.t1 |
| Gene Sequence |
| Protein sequence |
