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.gene024806.t1 | XP_003610806.1 | 86.3 | 131 | 16 | 1 | 9 | 139 | 85 | 213 | 1.70E-55 | 225.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene024806.t1 | G7K545 | 86.3 | 131 | 16 | 1 | 9 | 139 | 85 | 213 | 1.2e-55 | 225.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene024806.t1 | TF | PLATZ |
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.gene024806.t1 | MTR_5g007230 | 94.656 | 131 | 5 | 1 | 9 | 139 | 85 | 213 | 1.15e-85 | 249 |
| MS.gene024806.t1 | MTR_4g078170 | 74.074 | 135 | 30 | 2 | 9 | 138 | 79 | 213 | 5.23e-67 | 202 |
| MS.gene024806.t1 | MTR_5g030130 | 70.149 | 134 | 33 | 2 | 9 | 135 | 99 | 232 | 4.10e-61 | 188 |
| MS.gene024806.t1 | MTR_8g066820 | 64.964 | 137 | 41 | 2 | 9 | 138 | 97 | 233 | 5.60e-55 | 172 |
| MS.gene024806.t1 | MTR_1g062160 | 52.672 | 131 | 57 | 3 | 9 | 134 | 72 | 202 | 8.15e-39 | 130 |
| MS.gene024806.t1 | MTR_7g102790 | 51.128 | 133 | 61 | 2 | 9 | 137 | 74 | 206 | 4.00e-36 | 123 |
| MS.gene024806.t1 | MTR_5g030130 | 79.688 | 64 | 13 | 0 | 9 | 72 | 99 | 162 | 1.81e-33 | 116 |
| MS.gene024806.t1 | MTR_4g116300 | 46.479 | 71 | 38 | 0 | 9 | 79 | 69 | 139 | 2.19e-16 | 73.2 |
| MS.gene024806.t1 | MTR_2g084510 | 28.902 | 173 | 75 | 5 | 9 | 133 | 69 | 241 | 3.39e-14 | 67.4 |
| MS.gene024806.t1 | MTR_2g060540 | 45.714 | 70 | 30 | 2 | 9 | 70 | 76 | 145 | 5.31e-14 | 65.1 |
| MS.gene024806.t1 | MTR_2g060500 | 41.667 | 72 | 34 | 1 | 9 | 72 | 76 | 147 | 7.96e-14 | 64.7 |
| MS.gene024806.t1 | MTR_4g094680 | 26.974 | 152 | 84 | 3 | 9 | 133 | 85 | 236 | 1.84e-13 | 65.1 |
| MS.gene024806.t1 | MTR_2g055210 | 41.429 | 70 | 40 | 1 | 9 | 78 | 165 | 233 | 5.08e-13 | 65.1 |
| MS.gene024806.t1 | MTR_2g084495 | 28.662 | 157 | 77 | 3 | 12 | 133 | 73 | 229 | 6.17e-13 | 63.5 |
| MS.gene024806.t1 | MTR_2g084525 | 42.105 | 76 | 36 | 2 | 9 | 76 | 70 | 145 | 2.13e-11 | 59.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene024806.t1 | AT1G32700 | 62.143 | 140 | 39 | 4 | 9 | 138 | 37 | 172 | 1.92e-48 | 154 |
| MS.gene024806.t1 | AT1G32700 | 62.143 | 140 | 39 | 4 | 9 | 138 | 76 | 211 | 3.21e-48 | 154 |
| MS.gene024806.t1 | AT4G17900 | 60.606 | 132 | 44 | 3 | 9 | 134 | 84 | 213 | 1.02e-47 | 153 |
| MS.gene024806.t1 | AT4G17900 | 61.194 | 134 | 40 | 4 | 9 | 134 | 98 | 227 | 1.74e-47 | 153 |
| MS.gene024806.t1 | AT5G46710 | 52.239 | 134 | 55 | 4 | 9 | 133 | 76 | 209 | 5.14e-38 | 128 |
| MS.gene024806.t1 | AT5G46710 | 52.239 | 134 | 55 | 4 | 9 | 133 | 92 | 225 | 9.24e-38 | 128 |
| MS.gene024806.t1 | AT1G21000 | 45.509 | 167 | 49 | 5 | 9 | 133 | 77 | 243 | 1.72e-35 | 122 |
| MS.gene024806.t1 | AT1G21000 | 45.509 | 167 | 49 | 5 | 9 | 133 | 80 | 246 | 2.17e-35 | 122 |
| MS.gene024806.t1 | AT1G76590 | 43.293 | 164 | 54 | 3 | 9 | 133 | 82 | 245 | 2.72e-34 | 120 |
| MS.gene024806.t1 | AT1G43000 | 41.259 | 143 | 65 | 3 | 9 | 132 | 80 | 222 | 9.14e-27 | 100 |
| MS.gene024806.t1 | AT1G43000 | 41.259 | 143 | 65 | 3 | 9 | 132 | 73 | 215 | 9.79e-27 | 99.8 |
| MS.gene024806.t1 | AT2G27930 | 39.416 | 137 | 57 | 3 | 9 | 135 | 72 | 192 | 1.19e-24 | 93.6 |
| MS.gene024806.t1 | AT2G27930 | 39.416 | 137 | 57 | 3 | 9 | 135 | 72 | 192 | 1.19e-24 | 93.6 |
| MS.gene024806.t1 | AT2G27930 | 39.416 | 137 | 57 | 3 | 9 | 135 | 69 | 189 | 2.84e-24 | 92.8 |
| MS.gene024806.t1 | AT2G27930 | 39.416 | 137 | 57 | 3 | 9 | 135 | 69 | 189 | 2.84e-24 | 92.8 |
| MS.gene024806.t1 | AT5G46710 | 64.062 | 64 | 22 | 1 | 9 | 71 | 92 | 155 | 5.29e-24 | 91.3 |
| MS.gene024806.t1 | AT2G27930 | 56.944 | 72 | 22 | 1 | 9 | 71 | 69 | 140 | 5.25e-21 | 83.6 |
| MS.gene024806.t1 | AT2G27930 | 56.944 | 72 | 22 | 1 | 9 | 71 | 69 | 140 | 5.25e-21 | 83.6 |
| MS.gene024806.t1 | AT2G12646 | 45.070 | 71 | 39 | 0 | 9 | 79 | 66 | 136 | 6.27e-17 | 74.7 |
| MS.gene024806.t1 | AT2G12646 | 45.070 | 71 | 39 | 0 | 9 | 79 | 69 | 139 | 6.73e-17 | 74.7 |
| MS.gene024806.t1 | AT2G12646 | 45.070 | 71 | 39 | 0 | 9 | 79 | 69 | 139 | 6.73e-17 | 74.7 |
| MS.gene024806.t1 | AT1G31040 | 30.247 | 162 | 75 | 5 | 9 | 133 | 82 | 242 | 5.20e-14 | 67.0 |
| MS.gene024806.t1 | AT3G60670 | 46.032 | 63 | 34 | 0 | 9 | 71 | 70 | 132 | 6.53e-14 | 66.6 |
Find 29 sgRNAs with CRISPR-Local
Find 68 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTTTAAGTATTTAGTAAATA+AGG | 0.240485 | 5.4:-2682357 | None:intergenic |
| TTCACAGACATGGCAAATAT+TGG | 0.300856 | 5.4:-2681507 | None:intergenic |
| TATTTATTTACTCAGATAGT+TGG | 0.359410 | 5.4:+2682145 | MS.gene024806:intron |
| TCATTCACCTACTGCTCCCT+TGG | 0.389190 | 5.4:+2681545 | MS.gene024806:CDS |
| CTACTGCTCCCTTGGTTGTA+AGG | 0.404328 | 5.4:+2681553 | MS.gene024806:CDS |
| TGACTTTCATAAAATATAAG+AGG | 0.429405 | 5.4:+2681151 | MS.gene024806:CDS |
| TTTCTTCTGGAATTTCTTGG+AGG | 0.443249 | 5.4:-2682170 | None:intergenic |
| AAAAGTTAAGTGAGAGAGAT+GGG | 0.446555 | 5.4:+2682194 | MS.gene024806:CDS |
| TTGTAAGGTGGCGGTGTTGA+AGG | 0.453737 | 5.4:-2682283 | None:intergenic |
| GTTCCACATAGAGCTCCAAT+AGG | 0.475327 | 5.4:+2682328 | MS.gene024806:CDS |
| TTCCACATAGAGCTCCAATA+GGG | 0.487236 | 5.4:+2682329 | MS.gene024806:CDS |
| GTGACACCTTTGCCAGGCTT+AGG | 0.508847 | 5.4:-2681485 | None:intergenic |
| CCTTTGCCAGGCTTAGGCTG+AGG | 0.513021 | 5.4:-2681479 | None:intergenic |
| ATATTGGTGACACCTTTGCC+AGG | 0.513857 | 5.4:-2681491 | None:intergenic |
| AGTGAGAGAGATGGGTCAGA+TGG | 0.523449 | 5.4:+2682202 | MS.gene024806:CDS |
| CAAAATTGCTAAGAGGAGGA+AGG | 0.525337 | 5.4:+2682303 | MS.gene024806:CDS |
| GAAAGGCCTCAGCCTAAGCC+TGG | 0.525826 | 5.4:+2681473 | MS.gene024806:CDS |
| AGATTGTGTTCTTGAATGAA+AGG | 0.538525 | 5.4:+2681456 | MS.gene024806:CDS |
| CACCTTACAAAATTGCTAAG+AGG | 0.547965 | 5.4:+2682296 | MS.gene024806:CDS |
| GAAGGCTTCGTTCACAGACA+TGG | 0.567153 | 5.4:-2681517 | None:intergenic |
| AAAATTGCTAAGAGGAGGAA+GGG | 0.570406 | 5.4:+2682304 | MS.gene024806:CDS |
| CTTACAACCAAGGGAGCAGT+AGG | 0.590242 | 5.4:-2681552 | None:intergenic |
| CCTCAGCCTAAGCCTGGCAA+AGG | 0.590940 | 5.4:+2681479 | MS.gene024806:CDS |
| AATGCATACCTTACAACCAA+GGG | 0.611602 | 5.4:-2681561 | None:intergenic |
| CTTACAAAATTGCTAAGAGG+AGG | 0.624645 | 5.4:+2682299 | MS.gene024806:CDS |
| AGTAGGTGAATGAATCAAGA+AGG | 0.627686 | 5.4:-2681535 | None:intergenic |
| TCCACATAGAGCTCCAATAG+GGG | 0.638714 | 5.4:+2682330 | MS.gene024806:CDS |
| CCACATAGAGCTCCAATAGG+GGG | 0.648093 | 5.4:+2682331 | MS.gene024806:CDS |
| CAATGCATACCTTACAACCA+AGG | 0.674127 | 5.4:-2681562 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | CAAAATAAAAATTTGAAAAA+TGG | - | chr5.4:2682121-2682140 | None:intergenic | 10.0% |
| !!! | ATTTTACACTCAATTTTTAT+TGG | + | chr5.4:2681808-2681827 | MS.gene024806:intron | 15.0% |
| !!! | TTTTAAATCAATTTTGTAAG+AGG | - | chr5.4:2681191-2681210 | None:intergenic | 15.0% |
| !! | AATGTTTGCATACTTATTAT+AGG | - | chr5.4:2681904-2681923 | None:intergenic | 20.0% |
| !! | ACCACATATATGATATAATA+TGG | + | chr5.4:2681287-2681306 | MS.gene024806:intron | 20.0% |
| !! | CCACATATATGATATAATAT+GGG | + | chr5.4:2681288-2681307 | MS.gene024806:intron | 20.0% |
| !! | TATTTATTTACTCAGATAGT+TGG | + | chr5.4:2682145-2682164 | MS.gene024806:intron | 20.0% |
| !! | TGACTTTCATAAAATATAAG+AGG | + | chr5.4:2681151-2681170 | MS.gene024806:CDS | 20.0% |
| !!! | ATGTTATACTTACTTTTTCA+AGG | - | chr5.4:2681949-2681968 | None:intergenic | 20.0% |
| !!! | TAATAAGTATGCAAACATTT+TGG | + | chr5.4:2681905-2681924 | MS.gene024806:intron | 20.0% |
| !!! | TGTTATACTTACTTTTTCAA+GGG | - | chr5.4:2681948-2681967 | None:intergenic | 20.0% |
| ! | CCCATATTATATCATATATG+TGG | - | chr5.4:2681291-2681310 | None:intergenic | 25.0% |
| ! | GAGTTAATTAACACTCAAAT+TGG | + | chr5.4:2681972-2681991 | MS.gene024806:intron | 25.0% |
| ! | GTCTTCAAAATTGTATTCAT+GGG | + | chr5.4:2681994-2682013 | MS.gene024806:intron | 25.0% |
| ! | TCTAGGTAACGTTTAATATT+AGG | + | chr5.4:2681871-2681890 | MS.gene024806:intron | 25.0% |
| ! | TTCATATCATGATGTGATAA+GGG | + | chr5.4:2681370-2681389 | MS.gene024806:intron | 25.0% |
| !! | TTCTTGTTTGATAGATAAGA+AGG | + | chr5.4:2681345-2681364 | MS.gene024806:intron | 25.0% |
| !!! | AGAAATTTTTGGACATAACA+GGG | + | chr5.4:2681405-2681424 | MS.gene024806:CDS | 25.0% |
| !!! | CACTTAACTTTTTTTTCTTC+TGG | - | chr5.4:2682186-2682205 | None:intergenic | 25.0% |
| !!! | TGAAAGCAATTTTAACTTGA+TGG | - | chr5.4:2681601-2681620 | None:intergenic | 25.0% |
| !!! | TTTTTCAAGGGAAACAAATA+GGG | - | chr5.4:2681936-2681955 | None:intergenic | 25.0% |
| !!! | TTTTTTCTTCTGGAATTTCT+TGG | - | chr5.4:2682176-2682195 | None:intergenic | 25.0% |
| AAAAAGTTAAGTGAGAGAGA+TGG | + | chr5.4:2682193-2682212 | MS.gene024806:CDS | 30.0% | |
| AAAAGTTAAGTGAGAGAGAT+GGG | + | chr5.4:2682194-2682213 | MS.gene024806:CDS | 30.0% | |
| ACCAAAACATTAACACATAC+AGG | - | chr5.4:2681783-2681802 | None:intergenic | 30.0% | |
| AGATTGTGTTCTTGAATGAA+AGG | + | chr5.4:2681456-2681475 | MS.gene024806:CDS | 30.0% | |
| CTTCATATCATGATGTGATA+AGG | + | chr5.4:2681369-2681388 | MS.gene024806:intron | 30.0% | |
| GGTCTTCAAAATTGTATTCA+TGG | + | chr5.4:2681993-2682012 | MS.gene024806:intron | 30.0% | |
| ! | TCCTGTATGTGTTAATGTTT+TGG | + | chr5.4:2681779-2681798 | MS.gene024806:intron | 30.0% |
| !! | CAGAAATTTTTGGACATAAC+AGG | + | chr5.4:2681404-2681423 | MS.gene024806:CDS | 30.0% |
| !! | GAAATTTTTGGACATAACAG+GGG | + | chr5.4:2681406-2681425 | MS.gene024806:CDS | 30.0% |
| !! | GTCTGAGATACAGAAATTTT+TGG | + | chr5.4:2681394-2681413 | MS.gene024806:CDS | 30.0% |
| !!! | ATTTTAACTTGATGGAGAGT+TGG | - | chr5.4:2681593-2681612 | None:intergenic | 30.0% |
| !!! | CTTTTTCAAGGGAAACAAAT+AGG | - | chr5.4:2681937-2681956 | None:intergenic | 30.0% |
| !!! | TTTTAACTTGATGGAGAGTT+GGG | - | chr5.4:2681592-2681611 | None:intergenic | 30.0% |
| AAAATTGCTAAGAGGAGGAA+GGG | + | chr5.4:2682304-2682323 | MS.gene024806:CDS | 35.0% | |
| AACGTTACCTAGATTGTTTG+AGG | - | chr5.4:2681864-2681883 | None:intergenic | 35.0% | |
| AATGCATACCTTACAACCAA+GGG | - | chr5.4:2681564-2681583 | None:intergenic | 35.0% | |
| AGTAGGTGAATGAATCAAGA+AGG | - | chr5.4:2681538-2681557 | None:intergenic | 35.0% | |
| CACCTTACAAAATTGCTAAG+AGG | + | chr5.4:2682296-2682315 | MS.gene024806:CDS | 35.0% | |
| CTTACAAAATTGCTAAGAGG+AGG | + | chr5.4:2682299-2682318 | MS.gene024806:CDS | 35.0% | |
| TTCACAGACATGGCAAATAT+TGG | - | chr5.4:2681510-2681529 | None:intergenic | 35.0% | |
| ! | CTCCTCTTAGCAATTTTGTA+AGG | - | chr5.4:2682301-2682320 | None:intergenic | 35.0% |
| ! | CTCTTAGCAATTTTGTAAGG+TGG | - | chr5.4:2682298-2682317 | None:intergenic | 35.0% |
| ! | TTAGCAATTTTGTAAGGTGG+CGG | - | chr5.4:2682295-2682314 | None:intergenic | 35.0% |
| !! | TTTCTTCTGGAATTTCTTGG+AGG | - | chr5.4:2682173-2682192 | None:intergenic | 35.0% |
| CAAAATTGCTAAGAGGAGGA+AGG | + | chr5.4:2682303-2682322 | MS.gene024806:CDS | 40.0% | |
| CAATGCATACCTTACAACCA+AGG | - | chr5.4:2681565-2681584 | None:intergenic | 40.0% | |
| GTTGTTGCCTCAAACAATCT+AGG | + | chr5.4:2681854-2681873 | MS.gene024806:intron | 40.0% | |
| TTCCACATAGAGCTCCAATA+GGG | + | chr5.4:2682329-2682348 | MS.gene024806:CDS | 40.0% | |
| TTTCTCATCGAACATGTGTC+TGG | + | chr5.4:2681641-2681660 | MS.gene024806:intron | 40.0% | |
| GTTCCACATAGAGCTCCAAT+AGG | + | chr5.4:2682328-2682347 | MS.gene024806:CDS | 45.0% | |
| TAAATAAGGCCTCCCCCTAT+TGG | - | chr5.4:2682346-2682365 | None:intergenic | 45.0% | |
| TCCACATAGAGCTCCAATAG+GGG | + | chr5.4:2682330-2682349 | MS.gene024806:CDS | 45.0% | |
| ! | ATATTGGTGACACCTTTGCC+AGG | - | chr5.4:2681494-2681513 | None:intergenic | 45.0% |
| AGTGAGAGAGATGGGTCAGA+TGG | + | chr5.4:2682202-2682221 | MS.gene024806:CDS | 50.0% | |
| CCACATAGAGCTCCAATAGG+GGG | + | chr5.4:2682331-2682350 | MS.gene024806:CDS | 50.0% | |
| CTACTGCTCCCTTGGTTGTA+AGG | + | chr5.4:2681553-2681572 | MS.gene024806:CDS | 50.0% | |
| CTTACAACCAAGGGAGCAGT+AGG | - | chr5.4:2681555-2681574 | None:intergenic | 50.0% | |
| GAAGGCTTCGTTCACAGACA+TGG | - | chr5.4:2681520-2681539 | None:intergenic | 50.0% | |
| TCATTCACCTACTGCTCCCT+TGG | + | chr5.4:2681545-2681564 | MS.gene024806:CDS | 50.0% | |
| ! | TTGTAAGGTGGCGGTGTTGA+AGG | - | chr5.4:2682286-2682305 | None:intergenic | 50.0% |
| CATAGAGCTCCAATAGGGGG+AGG | + | chr5.4:2682334-2682353 | MS.gene024806:CDS | 55.0% | |
| CCCCCTATTGGAGCTCTATG+TGG | - | chr5.4:2682334-2682353 | None:intergenic | 55.0% | |
| GTGACACCTTTGCCAGGCTT+AGG | - | chr5.4:2681488-2681507 | None:intergenic | 55.0% | |
| CCTCAGCCTAAGCCTGGCAA+AGG | + | chr5.4:2681479-2681498 | MS.gene024806:CDS | 60.0% | |
| CCTTTGCCAGGCTTAGGCTG+AGG | - | chr5.4:2681482-2681501 | None:intergenic | 60.0% | |
| GAAAGGCCTCAGCCTAAGCC+TGG | + | chr5.4:2681473-2681492 | MS.gene024806:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.4 | gene | 2681147 | 2682369 | 2681147 | ID=MS.gene024806 |
| chr5.4 | mRNA | 2681147 | 2682369 | 2681147 | ID=MS.gene024806.t1;Parent=MS.gene024806 |
| chr5.4 | exon | 2681147 | 2681172 | 2681147 | ID=MS.gene024806.t1.exon1;Parent=MS.gene024806.t1 |
| chr5.4 | CDS | 2681147 | 2681172 | 2681147 | ID=cds.MS.gene024806.t1;Parent=MS.gene024806.t1 |
| chr5.4 | exon | 2681391 | 2681574 | 2681391 | ID=MS.gene024806.t1.exon2;Parent=MS.gene024806.t1 |
| chr5.4 | CDS | 2681391 | 2681574 | 2681391 | ID=cds.MS.gene024806.t1;Parent=MS.gene024806.t1 |
| chr5.4 | exon | 2682160 | 2682369 | 2682160 | ID=MS.gene024806.t1.exon3;Parent=MS.gene024806.t1 |
| chr5.4 | CDS | 2682160 | 2682369 | 2682160 | ID=cds.MS.gene024806.t1;Parent=MS.gene024806.t1 |
| Gene Sequence |
| Protein sequence |
