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.gene39605.t1 | XP_013461819.1 | 95.5 | 88 | 2 | 1 | 1 | 88 | 1 | 86 | 6.00E-39 | 169.9 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene39605.t1 | Q9ZQB9 | 58.7 | 92 | 27 | 3 | 1 | 87 | 1 | 86 | 8.3e-21 | 100.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene39605.t1 | A0A072V1K1 | 95.5 | 88 | 2 | 1 | 1 | 88 | 1 | 86 | 4.4e-39 | 169.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050551 | MS.gene39605 | 0.819085 | 1.40E-52 | -1.69E-46 |
| MS.gene052516 | MS.gene39605 | 0.810981 | 8.80E-51 | -1.69E-46 |
| MS.gene053143 | MS.gene39605 | 0.807186 | 5.72E-50 | -1.69E-46 |
| MS.gene053144 | MS.gene39605 | 0.803467 | 3.44E-49 | -1.69E-46 |
| MS.gene055465 | MS.gene39605 | 0.817341 | 3.47E-52 | -1.69E-46 |
| MS.gene055469 | MS.gene39605 | 0.82876 | 7.52E-55 | -1.69E-46 |
| MS.gene056507 | MS.gene39605 | 0.815235 | 1.03E-51 | -1.69E-46 |
| MS.gene061006 | MS.gene39605 | 0.810088 | 1.37E-50 | -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.gene39605.t1 | MTR_3g103500 | 95.455 | 88 | 2 | 1 | 1 | 88 | 1 | 86 | 2.03e-54 | 176 |
| MS.gene39605.t1 | MTR_3g103500 | 95.455 | 88 | 2 | 1 | 1 | 88 | 1 | 86 | 1.11e-53 | 177 |
| MS.gene39605.t1 | MTR_3g109040 | 45.161 | 93 | 35 | 3 | 1 | 88 | 1 | 82 | 1.99e-18 | 79.0 |
| MS.gene39605.t1 | MTR_3g109040 | 46.914 | 81 | 30 | 2 | 10 | 88 | 2 | 71 | 5.75e-17 | 74.7 |
| MS.gene39605.t1 | MTR_4g006010 | 37.778 | 90 | 35 | 3 | 1 | 78 | 1 | 81 | 6.87e-11 | 57.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene39605.t1 | AT4G07960 | 58.696 | 92 | 27 | 3 | 1 | 87 | 1 | 86 | 2.16e-27 | 104 |
| MS.gene39605.t1 | AT4G07960 | 58.696 | 92 | 27 | 3 | 1 | 87 | 1 | 86 | 2.16e-27 | 104 |
| MS.gene39605.t1 | AT4G31590 | 50.538 | 93 | 30 | 3 | 1 | 88 | 1 | 82 | 8.35e-23 | 91.3 |
| MS.gene39605.t1 | AT2G24630 | 49.451 | 91 | 34 | 2 | 1 | 88 | 1 | 82 | 9.49e-22 | 88.6 |
| MS.gene39605.t1 | AT2G24630 | 49.451 | 91 | 34 | 2 | 1 | 88 | 1 | 82 | 9.49e-22 | 88.6 |
Find 21 sgRNAs with CRISPR-Local
Find 24 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAGCAGCTCTATGAGCTTTA+AGG | 0.164902 | 4.2:+24249147 | None:intergenic |
| AGTTCATCAATGTCCCAATT+TGG | 0.224089 | 4.2:+24249275 | None:intergenic |
| CAAATTGCTCCTGCATTGTT+TGG | 0.262621 | 4.2:-24249113 | MS.gene39605:CDS |
| AAATGGCACCTTTGTTCAAT+TGG | 0.282770 | 4.2:-24249349 | MS.gene39605:CDS |
| AATGGCACCTTTGTTCAATT+GGG | 0.361924 | 4.2:-24249348 | MS.gene39605:CDS |
| CTTAAAGCTCATAGAGCTGC+TGG | 0.464353 | 4.2:-24249146 | MS.gene39605:CDS |
| TCTTCAAGAGACAAAGGAAA+AGG | 0.476352 | 4.2:-24249203 | MS.gene39605:CDS |
| TGGGACATTGATGAACTTGA+AGG | 0.483005 | 4.2:-24249269 | MS.gene39605:CDS |
| AAAAGTAAATCTTCTTCTGA+AGG | 0.511562 | 4.2:+24249245 | None:intergenic |
| TTAGTTATCGACGGTGGTGT+TGG | 0.532054 | 4.2:-24249089 | MS.gene39605:CDS |
| TTGTTTGGTTTAGTTATCGA+CGG | 0.536069 | 4.2:-24249098 | MS.gene39605:CDS |
| GTTATCGACGGTGGTGTTGG+TGG | 0.546040 | 4.2:-24249086 | MS.gene39605:CDS |
| ATGGCACCTTTGTTCAATTG+GGG | 0.552161 | 4.2:-24249347 | MS.gene39605:CDS |
| AAAACGCTAAACAACTCACA+TGG | 0.573149 | 4.2:-24249178 | MS.gene39605:CDS |
| AATTCTTCTTCAAGAGACAA+AGG | 0.578590 | 4.2:-24249209 | MS.gene39605:CDS |
| TTCGCACCCCAATTGAACAA+AGG | 0.603697 | 4.2:+24249341 | None:intergenic |
| ATAACTAAACCAAACAATGC+AGG | 0.606605 | 4.2:+24249104 | None:intergenic |
| TTTGGTTTAGTTATCGACGG+TGG | 0.654964 | 4.2:-24249095 | MS.gene39605:CDS |
| AAACGCTAAACAACTCACAT+GGG | 0.684108 | 4.2:-24249177 | MS.gene39605:CDS |
| GGTGCGAAAGAAAGTCACAA+AGG | 0.727517 | 4.2:-24249326 | MS.gene39605:CDS |
| AAGTCACAAAGGAACACCAG+TGG | 0.729436 | 4.2:-24249315 | MS.gene39605:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AAAAATGGAGAATCCAAATT+GGG | - | chr4.2:24249132-24249151 | MS.gene39605:CDS | 25.0% |
| ! | AAAAGTAAATCTTCTTCTGA+AGG | + | chr4.2:24249178-24249197 | None:intergenic | 25.0% |
| ! | TAAAAATGGAGAATCCAAAT+TGG | - | chr4.2:24249131-24249150 | MS.gene39605:CDS | 25.0% |
| !!! | TCTCTTGAAGAAGAATTTTT+TGG | + | chr4.2:24249208-24249227 | None:intergenic | 25.0% |
| AATTCTTCTTCAAGAGACAA+AGG | - | chr4.2:24249211-24249230 | MS.gene39605:CDS | 30.0% | |
| ATAACTAAACCAAACAATGC+AGG | + | chr4.2:24249319-24249338 | None:intergenic | 30.0% | |
| ! | TTGTTTGGTTTAGTTATCGA+CGG | - | chr4.2:24249322-24249341 | MS.gene39605:CDS | 30.0% |
| AAAACGCTAAACAACTCACA+TGG | - | chr4.2:24249242-24249261 | MS.gene39605:CDS | 35.0% | |
| AAACGCTAAACAACTCACAT+GGG | - | chr4.2:24249243-24249262 | MS.gene39605:CDS | 35.0% | |
| AACACCAGTGGTTGTAAAAA+TGG | - | chr4.2:24249117-24249136 | MS.gene39605:CDS | 35.0% | |
| AGTTCATCAATGTCCCAATT+TGG | + | chr4.2:24249148-24249167 | None:intergenic | 35.0% | |
| TCTTCAAGAGACAAAGGAAA+AGG | - | chr4.2:24249217-24249236 | MS.gene39605:CDS | 35.0% | |
| !! | TTCTCCATTTTTACAACCAC+TGG | + | chr4.2:24249124-24249143 | None:intergenic | 35.0% |
| ATGGCACCTTTGTTCAATTG+GGG | - | chr4.2:24249073-24249092 | MS.gene39605:CDS | 40.0% | |
| CAAATTGCTCCTGCATTGTT+TGG | - | chr4.2:24249307-24249326 | MS.gene39605:CDS | 40.0% | |
| TGGGACATTGATGAACTTGA+AGG | - | chr4.2:24249151-24249170 | MS.gene39605:CDS | 40.0% | |
| ! | TTTGGTTTAGTTATCGACGG+TGG | - | chr4.2:24249325-24249344 | MS.gene39605:CDS | 40.0% |
| AAGTCACAAAGGAACACCAG+TGG | - | chr4.2:24249105-24249124 | MS.gene39605:CDS | 45.0% | |
| CAGCAGCTCTATGAGCTTTA+AGG | + | chr4.2:24249276-24249295 | None:intergenic | 45.0% | |
| CTTAAAGCTCATAGAGCTGC+TGG | - | chr4.2:24249274-24249293 | MS.gene39605:CDS | 45.0% | |
| GGTGCGAAAGAAAGTCACAA+AGG | - | chr4.2:24249094-24249113 | MS.gene39605:CDS | 45.0% | |
| TTAGTTATCGACGGTGGTGT+TGG | - | chr4.2:24249331-24249350 | MS.gene39605:CDS | 45.0% | |
| TTCGCACCCCAATTGAACAA+AGG | + | chr4.2:24249082-24249101 | None:intergenic | 45.0% | |
| ! | GTTATCGACGGTGGTGTTGG+TGG | - | chr4.2:24249334-24249353 | MS.gene39605:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.2 | gene | 24249073 | 24249369 | 24249073 | ID=MS.gene39605 |
| chr4.2 | mRNA | 24249073 | 24249369 | 24249073 | ID=MS.gene39605.t1;Parent=MS.gene39605 |
| chr4.2 | exon | 24249073 | 24249369 | 24249073 | ID=MS.gene39605.t1.exon1;Parent=MS.gene39605.t1 |
| chr4.2 | CDS | 24249073 | 24249369 | 24249073 | ID=cds.MS.gene39605.t1;Parent=MS.gene39605.t1 |
| Gene Sequence |
| Protein sequence |
