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.gene067543.t1 | XP_013461367.1 | 85.9 | 64 | 9 | 0 | 1 | 64 | 1 | 64 | 2.70E-24 | 120.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene067543.t1 | Q6R0C4 | 74.5 | 51 | 13 | 0 | 14 | 64 | 3 | 53 | 5.6e-18 | 90.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene067543.t1 | A0A072V0T7 | 85.9 | 64 | 9 | 0 | 1 | 64 | 1 | 64 | 2.0e-24 | 120.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene067543.t1 | TF | MYB-related |
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.gene067543.t1 | MTR_3g089045 | 85.938 | 64 | 9 | 0 | 1 | 64 | 1 | 64 | 3.59e-34 | 117 |
| MS.gene067543.t1 | MTR_7g086960 | 68.519 | 54 | 17 | 0 | 11 | 64 | 84 | 137 | 5.07e-23 | 89.4 |
| MS.gene067543.t1 | MTR_6g074860 | 72.549 | 51 | 14 | 0 | 14 | 64 | 2 | 52 | 2.14e-22 | 85.9 |
| MS.gene067543.t1 | MTR_4g082040 | 72.222 | 54 | 15 | 0 | 11 | 64 | 100 | 153 | 2.85e-22 | 87.8 |
| MS.gene067543.t1 | MTR_5g041570 | 70.370 | 54 | 16 | 0 | 11 | 64 | 129 | 182 | 4.91e-22 | 87.0 |
| MS.gene067543.t1 | MTR_6g027370 | 53.731 | 67 | 28 | 1 | 1 | 64 | 81 | 147 | 7.88e-20 | 80.5 |
| MS.gene067543.t1 | MTR_6g027340 | 64.583 | 48 | 17 | 0 | 17 | 64 | 17 | 64 | 2.09e-19 | 77.4 |
| MS.gene067543.t1 | MTR_6g027360 | 64.583 | 48 | 17 | 0 | 17 | 64 | 79 | 126 | 3.99e-19 | 78.2 |
| MS.gene067543.t1 | MTR_6g015455 | 54.167 | 48 | 22 | 0 | 17 | 64 | 6 | 53 | 6.34e-14 | 64.3 |
| MS.gene067543.t1 | MTR_4g019370 | 58.333 | 48 | 20 | 0 | 17 | 64 | 39 | 86 | 1.11e-13 | 63.5 |
| MS.gene067543.t1 | MTR_5g016510 | 54.167 | 48 | 22 | 0 | 17 | 64 | 6 | 53 | 1.78e-13 | 62.8 |
| MS.gene067543.t1 | MTR_4g094982 | 54.167 | 48 | 22 | 0 | 17 | 64 | 6 | 53 | 2.60e-13 | 62.0 |
| MS.gene067543.t1 | MTR_3g463400 | 56.250 | 48 | 21 | 0 | 17 | 64 | 134 | 181 | 5.19e-13 | 61.6 |
| MS.gene067543.t1 | MTR_5g070020 | 56.250 | 48 | 21 | 0 | 17 | 64 | 123 | 170 | 6.24e-13 | 61.6 |
| MS.gene067543.t1 | MTR_5g082910 | 52.083 | 48 | 23 | 0 | 17 | 64 | 20 | 67 | 1.43e-12 | 60.1 |
| MS.gene067543.t1 | MTR_3g101290 | 54.167 | 48 | 22 | 0 | 17 | 64 | 38 | 85 | 6.29e-12 | 58.2 |
| MS.gene067543.t1 | MTR_4g105660 | 46.667 | 60 | 32 | 0 | 5 | 64 | 169 | 228 | 1.14e-11 | 58.2 |
| MS.gene067543.t1 | MTR_5g049190 | 54.167 | 48 | 22 | 0 | 17 | 64 | 20 | 67 | 1.91e-11 | 57.0 |
| MS.gene067543.t1 | MTR_7g035350 | 50.000 | 46 | 23 | 0 | 19 | 64 | 228 | 273 | 7.83e-11 | 55.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene067543.t1 | AT1G73410 | 76.471 | 51 | 12 | 0 | 14 | 64 | 4 | 54 | 5.42e-24 | 89.4 |
| MS.gene067543.t1 | AT1G73410 | 76.471 | 51 | 12 | 0 | 14 | 64 | 4 | 54 | 1.54e-23 | 89.0 |
| MS.gene067543.t1 | AT1G17950 | 74.510 | 51 | 13 | 0 | 14 | 64 | 3 | 53 | 3.97e-23 | 87.8 |
| MS.gene067543.t1 | AT1G69560 | 75.000 | 52 | 13 | 0 | 13 | 64 | 104 | 155 | 5.52e-22 | 86.3 |
| MS.gene067543.t1 | AT1G69560 | 75.000 | 52 | 13 | 0 | 13 | 64 | 120 | 171 | 7.00e-22 | 86.3 |
| MS.gene067543.t1 | AT1G26780 | 79.167 | 48 | 10 | 0 | 17 | 64 | 99 | 146 | 9.45e-22 | 84.7 |
| MS.gene067543.t1 | AT4G33450 | 69.231 | 52 | 16 | 0 | 13 | 64 | 16 | 67 | 2.50e-21 | 83.2 |
| MS.gene067543.t1 | AT1G26780 | 79.167 | 48 | 10 | 0 | 17 | 64 | 99 | 146 | 2.53e-21 | 84.7 |
| MS.gene067543.t1 | AT5G17800 | 65.455 | 55 | 19 | 0 | 10 | 64 | 87 | 141 | 6.58e-21 | 83.2 |
| MS.gene067543.t1 | AT3G29020 | 62.963 | 54 | 20 | 0 | 11 | 64 | 60 | 113 | 9.33e-21 | 81.6 |
| MS.gene067543.t1 | AT3G29020 | 62.963 | 54 | 20 | 0 | 11 | 64 | 62 | 115 | 3.10e-20 | 81.3 |
| MS.gene067543.t1 | AT5G67300 | 54.167 | 48 | 22 | 0 | 17 | 64 | 7 | 54 | 6.13e-13 | 61.2 |
| MS.gene067543.t1 | AT5G39700 | 50.000 | 56 | 28 | 0 | 9 | 64 | 49 | 104 | 1.42e-12 | 59.3 |
| MS.gene067543.t1 | AT3G50060 | 52.083 | 48 | 23 | 0 | 17 | 64 | 7 | 54 | 2.74e-12 | 59.7 |
| MS.gene067543.t1 | AT5G40360 | 52.083 | 48 | 23 | 0 | 17 | 64 | 159 | 206 | 3.31e-12 | 59.7 |
| MS.gene067543.t1 | AT3G27785 | 52.083 | 48 | 23 | 0 | 17 | 64 | 190 | 237 | 5.24e-12 | 58.9 |
| MS.gene067543.t1 | AT2G39880 | 52.830 | 53 | 25 | 0 | 12 | 64 | 46 | 98 | 1.30e-11 | 57.8 |
| MS.gene067543.t1 | AT5G58850 | 52.083 | 48 | 23 | 0 | 17 | 64 | 106 | 153 | 1.66e-11 | 57.8 |
| MS.gene067543.t1 | AT2G23290 | 50.000 | 48 | 24 | 0 | 17 | 64 | 14 | 61 | 2.47e-11 | 57.0 |
| MS.gene067543.t1 | AT3G09230 | 52.083 | 48 | 23 | 0 | 17 | 64 | 56 | 103 | 2.51e-11 | 57.0 |
| MS.gene067543.t1 | AT4G37260 | 50.000 | 48 | 24 | 0 | 17 | 64 | 14 | 61 | 3.38e-11 | 56.6 |
| MS.gene067543.t1 | AT5G11050 | 52.083 | 48 | 23 | 0 | 17 | 64 | 106 | 153 | 3.74e-11 | 56.6 |
| MS.gene067543.t1 | AT3G09370 | 52.083 | 48 | 23 | 0 | 17 | 64 | 144 | 191 | 4.81e-11 | 56.2 |
| MS.gene067543.t1 | AT3G09370 | 52.083 | 48 | 23 | 0 | 17 | 64 | 136 | 183 | 5.10e-11 | 56.2 |
| MS.gene067543.t1 | AT3G09370 | 52.083 | 48 | 23 | 0 | 17 | 64 | 131 | 178 | 5.20e-11 | 56.2 |
| MS.gene067543.t1 | AT5G11510 | 50.000 | 48 | 24 | 0 | 17 | 64 | 82 | 129 | 7.70e-11 | 55.8 |
| MS.gene067543.t1 | AT5G11510 | 50.000 | 48 | 24 | 0 | 17 | 64 | 82 | 129 | 8.09e-11 | 55.8 |
| MS.gene067543.t1 | AT5G11510 | 50.000 | 48 | 24 | 0 | 17 | 64 | 82 | 129 | 8.36e-11 | 55.5 |
| MS.gene067543.t1 | AT5G11510 | 50.000 | 48 | 24 | 0 | 17 | 64 | 82 | 129 | 8.36e-11 | 55.5 |
| MS.gene067543.t1 | AT5G11510 | 50.000 | 48 | 24 | 0 | 17 | 64 | 82 | 129 | 8.36e-11 | 55.5 |
Find 11 sgRNAs with CRISPR-Local
Find 21 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACAATATGGTGCTCAAAAT+TGG | 0.232647 | 3.2:-26078563 | MS.gene067543:CDS |
| CCTCAACTTGTTGAACAATA+TGG | 0.300197 | 3.2:-26078576 | MS.gene067543:CDS |
| TAGGGAAACGTTGTAGGTTG+AGG | 0.463106 | 3.2:-26078284 | MS.gene067543:CDS |
| AACTTGTAGGGAAACGTTGT+AGG | 0.477303 | 3.2:-26078290 | MS.gene067543:intron |
| AGAGTTGTCCATGTGGTCAC+TGG | 0.512701 | 3.2:-26078623 | MS.gene067543:CDS |
| GTGACCACATGGACAACTCT+TGG | 0.543251 | 3.2:+26078626 | None:intergenic |
| CCATATTGTTCAACAAGTTG+AGG | 0.564383 | 3.2:+26078576 | None:intergenic |
| GGAAACGTTGTAGGTTGAGG+TGG | 0.592608 | 3.2:-26078281 | MS.gene067543:CDS |
| GCGGGTCGCCAGTGACCACA+TGG | 0.607822 | 3.2:+26078615 | None:intergenic |
| ACTTCCATAATCCATATGGA+GGG | 0.628080 | 3.2:-26078672 | None:intergenic |
| GATACCAAGAGTTGTCCATG+TGG | 0.733953 | 3.2:-26078630 | MS.gene067543:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATGAATTTGAAAATTAAATA+AGG | + | chr3.2:26078468-26078487 | None:intergenic | 10.0% |
| !! | AATTTGAAAATTAAATAAGG+AGG | + | chr3.2:26078465-26078484 | None:intergenic | 15.0% |
| !! | AATATTACATAATACATACC+TGG | + | chr3.2:26078410-26078429 | None:intergenic | 20.0% |
| !!! | ATTTTTTCCTTTTAACTTGT+AGG | - | chr3.2:26078614-26078633 | MS.gene067543:CDS | 20.0% |
| !!! | TTTTTTCCTTTTAACTTGTA+GGG | - | chr3.2:26078615-26078634 | MS.gene067543:CDS | 20.0% |
| AACAATATGGTGCTCAAAAT+TGG | - | chr3.2:26078354-26078373 | MS.gene067543:intron | 30.0% | |
| ACGTTTCCCTACAAGTTAAA+AGG | + | chr3.2:26078624-26078643 | None:intergenic | 35.0% | |
| CCATATTGTTCAACAAGTTG+AGG | + | chr3.2:26078344-26078363 | None:intergenic | 35.0% | |
| TCAACTGCTGAAAAACTTCA+AGG | - | chr3.2:26078380-26078399 | MS.gene067543:intron | 35.0% | |
| ! | AGGAAGTTTTTCATCTTCAG+CGG | + | chr3.2:26078324-26078343 | None:intergenic | 35.0% |
| !! | CCTCAACTTGTTGAACAATA+TGG | - | chr3.2:26078341-26078360 | MS.gene067543:intron | 35.0% |
| AACTTGTAGGGAAACGTTGT+AGG | - | chr3.2:26078627-26078646 | MS.gene067543:CDS | 40.0% | |
| GAAAAACTTCAAGGAAGACC+AGG | - | chr3.2:26078389-26078408 | MS.gene067543:intron | 40.0% | |
| ! | GGAAGTTTTTCATCTTCAGC+GGG | + | chr3.2:26078323-26078342 | None:intergenic | 40.0% |
| GATACCAAGAGTTGTCCATG+TGG | - | chr3.2:26078287-26078306 | MS.gene067543:intron | 45.0% | |
| TAGGGAAACGTTGTAGGTTG+AGG | - | chr3.2:26078633-26078652 | MS.gene067543:CDS | 45.0% | |
| !! | TATTATGTAATATTAATTAA+AGG | - | chr3.2:26078416-26078435 | MS.gene067543:intron | 5.0% |
| AGAGTTGTCCATGTGGTCAC+TGG | - | chr3.2:26078294-26078313 | MS.gene067543:intron | 50.0% | |
| GTGACCACATGGACAACTCT+TGG | + | chr3.2:26078294-26078313 | None:intergenic | 50.0% | |
| ! | GGAAACGTTGTAGGTTGAGG+TGG | - | chr3.2:26078636-26078655 | MS.gene067543:CDS | 50.0% |
| GCGGGTCGCCAGTGACCACA+TGG | + | chr3.2:26078305-26078324 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.2 | gene | 26078260 | 26078679 | 26078260 | ID=MS.gene067543 |
| chr3.2 | mRNA | 26078260 | 26078679 | 26078260 | ID=MS.gene067543.t1;Parent=MS.gene067543 |
| chr3.2 | exon | 26078529 | 26078679 | 26078529 | ID=MS.gene067543.t1.exon1;Parent=MS.gene067543.t1 |
| chr3.2 | CDS | 26078529 | 26078679 | 26078529 | ID=cds.MS.gene067543.t1;Parent=MS.gene067543.t1 |
| chr3.2 | exon | 26078260 | 26078303 | 26078260 | ID=MS.gene067543.t1.exon2;Parent=MS.gene067543.t1 |
| chr3.2 | CDS | 26078260 | 26078303 | 26078260 | ID=cds.MS.gene067543.t1;Parent=MS.gene067543.t1 |
| Gene Sequence |
| Protein sequence |
