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.gene05222.t1 | XP_003620169.1 | 96.1 | 203 | 8 | 0 | 1 | 203 | 1 | 203 | 8.20E-107 | 396.4 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene05222.t1 | Q9LMU2 | 50.8 | 187 | 77 | 7 | 19 | 203 | 22 | 195 | 1.6e-42 | 174.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene05222.t1 | G7KKP1 | 96.1 | 203 | 8 | 0 | 1 | 203 | 1 | 203 | 5.9e-107 | 396.4 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene05222 | MS.gene05224 | 0.801695 | 7.98E-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.gene05222.t1 | MTR_6g078070 | 96.059 | 203 | 8 | 0 | 1 | 203 | 1 | 203 | 6.17e-143 | 396 |
| MS.gene05222.t1 | MTR_6g078100 | 80.583 | 206 | 36 | 2 | 1 | 203 | 1 | 205 | 1.06e-113 | 323 |
| MS.gene05222.t1 | MTR_6g078290 | 41.860 | 215 | 106 | 8 | 1 | 201 | 1 | 210 | 9.94e-44 | 145 |
| MS.gene05222.t1 | MTR_7g037410 | 42.391 | 184 | 96 | 6 | 23 | 203 | 26 | 202 | 3.85e-36 | 125 |
| MS.gene05222.t1 | MTR_6g078120 | 40.933 | 193 | 99 | 7 | 21 | 203 | 26 | 213 | 1.70e-34 | 122 |
| MS.gene05222.t1 | MTR_6g078140 | 40.415 | 193 | 100 | 7 | 21 | 203 | 26 | 213 | 3.63e-33 | 118 |
| MS.gene05222.t1 | MTR_6g078040 | 65.169 | 89 | 26 | 3 | 93 | 177 | 1 | 88 | 3.36e-30 | 107 |
| MS.gene05222.t1 | MTR_6g078280 | 36.923 | 195 | 104 | 7 | 21 | 203 | 25 | 212 | 6.83e-30 | 110 |
| MS.gene05222.t1 | MTR_6g078250 | 39.429 | 175 | 94 | 7 | 24 | 191 | 25 | 194 | 5.74e-28 | 104 |
| MS.gene05222.t1 | MTR_6g078260 | 32.961 | 179 | 109 | 6 | 26 | 203 | 31 | 199 | 4.73e-23 | 92.0 |
| MS.gene05222.t1 | MTR_6g065460 | 34.742 | 213 | 120 | 9 | 1 | 203 | 1 | 204 | 2.40e-21 | 87.8 |
| MS.gene05222.t1 | MTR_3g106585 | 33.508 | 191 | 102 | 8 | 21 | 203 | 24 | 197 | 1.59e-20 | 85.5 |
| MS.gene05222.t1 | MTR_2g072980 | 32.020 | 203 | 123 | 8 | 5 | 203 | 8 | 199 | 5.23e-20 | 84.0 |
| MS.gene05222.t1 | MTR_3g106620 | 33.333 | 189 | 103 | 9 | 23 | 203 | 26 | 199 | 2.29e-19 | 82.4 |
| MS.gene05222.t1 | MTR_2g073010 | 31.633 | 196 | 117 | 8 | 11 | 203 | 17 | 198 | 3.40e-18 | 79.0 |
| MS.gene05222.t1 | MTR_0100s0150 | 31.401 | 207 | 120 | 11 | 7 | 202 | 5 | 200 | 8.49e-18 | 78.2 |
| MS.gene05222.t1 | MTR_0302s0030 | 31.220 | 205 | 124 | 10 | 7 | 202 | 5 | 201 | 2.06e-17 | 77.0 |
| MS.gene05222.t1 | MTR_3g463590 | 33.333 | 144 | 93 | 2 | 19 | 162 | 22 | 162 | 3.21e-17 | 77.0 |
| MS.gene05222.t1 | MTR_6g059680 | 34.595 | 185 | 114 | 6 | 22 | 203 | 28 | 208 | 9.86e-17 | 75.9 |
| MS.gene05222.t1 | MTR_6g059650 | 31.720 | 186 | 118 | 7 | 20 | 202 | 22 | 201 | 1.80e-16 | 74.7 |
| MS.gene05222.t1 | MTR_6g059530 | 33.014 | 209 | 120 | 10 | 1 | 203 | 1 | 195 | 2.29e-16 | 74.3 |
| MS.gene05222.t1 | MTR_7g108815 | 29.469 | 207 | 124 | 11 | 7 | 202 | 5 | 200 | 3.24e-16 | 73.9 |
| MS.gene05222.t1 | MTR_6g059410 | 33.014 | 209 | 119 | 11 | 1 | 203 | 1 | 194 | 1.06e-15 | 72.4 |
| MS.gene05222.t1 | MTR_3g014870 | 30.049 | 203 | 125 | 8 | 8 | 202 | 9 | 202 | 3.51e-15 | 71.2 |
| MS.gene05222.t1 | MTR_6g059730 | 32.075 | 212 | 127 | 8 | 1 | 203 | 1 | 204 | 3.62e-15 | 71.2 |
| MS.gene05222.t1 | MTR_3g014820 | 30.049 | 203 | 125 | 8 | 8 | 202 | 9 | 202 | 6.51e-15 | 70.5 |
| MS.gene05222.t1 | MTR_8g461050 | 31.068 | 206 | 123 | 12 | 7 | 202 | 5 | 201 | 1.29e-14 | 69.7 |
| MS.gene05222.t1 | MTR_0211s0080 | 30.244 | 205 | 122 | 10 | 7 | 202 | 5 | 197 | 1.59e-14 | 69.3 |
| MS.gene05222.t1 | MTR_6g009650 | 30.918 | 207 | 127 | 9 | 5 | 203 | 4 | 202 | 9.77e-14 | 67.4 |
| MS.gene05222.t1 | MTR_6g009563 | 31.250 | 208 | 126 | 10 | 5 | 203 | 4 | 203 | 4.05e-13 | 65.9 |
| MS.gene05222.t1 | MTR_8g060550 | 28.205 | 195 | 121 | 10 | 6 | 190 | 4 | 189 | 4.38e-13 | 65.5 |
| MS.gene05222.t1 | MTR_8g461690 | 28.205 | 195 | 121 | 10 | 6 | 190 | 4 | 189 | 4.38e-13 | 65.5 |
| MS.gene05222.t1 | MTR_6g059760 | 30.952 | 210 | 124 | 10 | 1 | 200 | 1 | 199 | 2.16e-12 | 63.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene05222.t1 | AT1G17860 | 47.596 | 208 | 91 | 9 | 1 | 203 | 1 | 195 | 4.22e-53 | 169 |
| MS.gene05222.t1 | AT1G73260 | 34.634 | 205 | 126 | 5 | 2 | 203 | 6 | 205 | 4.08e-29 | 108 |
| MS.gene05222.t1 | AT1G73325 | 33.645 | 214 | 120 | 8 | 1 | 203 | 1 | 203 | 9.35e-23 | 91.7 |
Find 43 sgRNAs with CRISPR-Local
Find 53 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CATTTAGGGTTGTGTTTAAA+AGG | 0.160681 | 6.2:-77598790 | MS.gene05222:CDS |
| GTGATCAAATTCCATCATTT+AGG | 0.169249 | 6.2:-77598805 | MS.gene05222:CDS |
| ACACCTTGTTTGGCATTATA+AGG | 0.235051 | 6.2:+77599118 | None:intergenic |
| GTATGGCAACTGTTGGTAAT+TGG | 0.271386 | 6.2:-77598958 | MS.gene05222:CDS |
| GCTTCTCTTGAACAACATAA+AGG | 0.342977 | 6.2:+77599176 | None:intergenic |
| TGATCAAATTCCATCATTTA+GGG | 0.346172 | 6.2:-77598804 | MS.gene05222:CDS |
| AGTTAGAATCACACCTTGTT+TGG | 0.357038 | 6.2:+77599108 | None:intergenic |
| CAAACTTTGTGTAGGGAACT+AGG | 0.366708 | 6.2:-77598869 | MS.gene05222:CDS |
| CTTCTCTTGAACAACATAAA+GGG | 0.369437 | 6.2:+77599177 | None:intergenic |
| AGGGTTGTTTGTTGATGATA+AGG | 0.370874 | 6.2:-77598849 | MS.gene05222:CDS |
| AATGTCCTCAAACACAAGTT+TGG | 0.377880 | 6.2:-77599045 | MS.gene05222:CDS |
| TTACCAACAGTTGCCATACT+TGG | 0.386300 | 6.2:+77598962 | None:intergenic |
| CAACATAAAGGGGACATGTT+TGG | 0.398228 | 6.2:+77599188 | None:intergenic |
| AGCTTCCAAACTTGTGTTTG+AGG | 0.408512 | 6.2:+77599040 | None:intergenic |
| GATGGAAAATGCTAAGACTA+AGG | 0.440045 | 6.2:+77599366 | None:intergenic |
| GGGTTGTTTGTTGATGATAA+GGG | 0.441383 | 6.2:-77598848 | MS.gene05222:CDS |
| TGACATTTGCAAGCTTCAGC+AGG | 0.445231 | 6.2:+77598890 | None:intergenic |
| TTAAACACAACCCTAAATGA+TGG | 0.447080 | 6.2:+77598794 | None:intergenic |
| TGTAGAAGGTAATCCAAGTA+TGG | 0.452203 | 6.2:-77598975 | MS.gene05222:CDS |
| GATATGTCAAGAACTGGTTC+AGG | 0.463395 | 6.2:+77599307 | None:intergenic |
| GAACCAGTTCTTGACATATC+AGG | 0.472479 | 6.2:-77599304 | MS.gene05222:CDS |
| ATTTAGGGTTGTGTTTAAAA+GGG | 0.479397 | 6.2:-77598789 | MS.gene05222:CDS |
| TTGCCTGATATGTCAAGAAC+TGG | 0.485875 | 6.2:+77599301 | None:intergenic |
| GCAAATGTCAAACTTTGTGT+AGG | 0.501531 | 6.2:-77598877 | MS.gene05222:CDS |
| CAAATGTCAAACTTTGTGTA+GGG | 0.511038 | 6.2:-77598876 | MS.gene05222:CDS |
| TTACCAGTCATAAGAGGTAA+AGG | 0.515215 | 6.2:-77599247 | MS.gene05222:CDS |
| TCAGGCAAACAAGTAACAAC+CGG | 0.524378 | 6.2:-77599286 | MS.gene05222:CDS |
| TGCAATAGTTATGCAAATGA+AGG | 0.528236 | 6.2:+77599333 | None:intergenic |
| TTAAAGAGTTGACATGGGTG+TGG | 0.531877 | 6.2:-77599015 | MS.gene05222:CDS |
| GAGAAGCTTGAAGTAAAGAA+TGG | 0.531990 | 6.2:-77599160 | MS.gene05222:CDS |
| AAACTTTGTGTAGGGAACTA+GGG | 0.532296 | 6.2:-77598868 | MS.gene05222:CDS |
| AGCTTCTTAAAGAGTTGACA+TGG | 0.538933 | 6.2:-77599021 | MS.gene05222:CDS |
| ATTTGATCACTAAGAGCTAA+GGG | 0.541643 | 6.2:+77598818 | None:intergenic |
| AATTTGATCACTAAGAGCTA+AGG | 0.548702 | 6.2:+77598817 | None:intergenic |
| GTCATAAGAGGTAAAGGTGG+TGG | 0.556783 | 6.2:-77599241 | MS.gene05222:CDS |
| CCACCTTTACCTCTTATGAC+TGG | 0.557512 | 6.2:+77599244 | None:intergenic |
| TTCTCTTGAACAACATAAAG+GGG | 0.573118 | 6.2:+77599178 | None:intergenic |
| AATCCAAGTATGGCAACTGT+TGG | 0.585675 | 6.2:-77598965 | MS.gene05222:CDS |
| GACATTTGCAAGCTTCAGCA+GGG | 0.629034 | 6.2:+77598891 | None:intergenic |
| ACACCTTATAATGCCAAACA+AGG | 0.638761 | 6.2:-77599121 | MS.gene05222:CDS |
| CCAGTCATAAGAGGTAAAGG+TGG | 0.660270 | 6.2:-77599244 | MS.gene05222:CDS |
| GGTTTAACAGTTGCAAACCA+TGG | 0.676406 | 6.2:-77599220 | MS.gene05222:CDS |
| GCTTCTTAAAGAGTTGACAT+GGG | 0.687892 | 6.2:-77599020 | MS.gene05222:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TAAAATATAGTATTTTACAC+CGG | + | chr6.2:77598893-77598912 | None:intergenic | 15.0% |
| !!! | ACATTTAGTTTTTGTTACAA+AGG | + | chr6.2:77599097-77599116 | None:intergenic | 20.0% |
| ! | TGATCAAATTCCATCATTTA+GGG | - | chr6.2:77599353-77599372 | MS.gene05222:CDS | 25.0% |
| !! | ATTTAGGGTTGTGTTTAAAA+GGG | - | chr6.2:77599368-77599387 | MS.gene05222:CDS | 25.0% |
| !! | TATATTTTACCAGTCATAAG+AGG | - | chr6.2:77598904-77598923 | MS.gene05222:CDS | 25.0% |
| AATGAAGGCTAAAAAGATGA+TGG | + | chr6.2:77598812-77598831 | None:intergenic | 30.0% | |
| AATTTGATCACTAAGAGCTA+AGG | + | chr6.2:77599343-77599362 | None:intergenic | 30.0% | |
| ATTTGATCACTAAGAGCTAA+GGG | + | chr6.2:77599342-77599361 | None:intergenic | 30.0% | |
| CAAATGTCAAACTTTGTGTA+GGG | - | chr6.2:77599281-77599300 | MS.gene05222:CDS | 30.0% | |
| CTTCTCTTGAACAACATAAA+GGG | + | chr6.2:77598983-77599002 | None:intergenic | 30.0% | |
| GTGATCAAATTCCATCATTT+AGG | - | chr6.2:77599352-77599371 | MS.gene05222:CDS | 30.0% | |
| TGCAATAGTTATGCAAATGA+AGG | + | chr6.2:77598827-77598846 | None:intergenic | 30.0% | |
| TTAAACACAACCCTAAATGA+TGG | + | chr6.2:77599366-77599385 | None:intergenic | 30.0% | |
| TTCTCTTGAACAACATAAAG+GGG | + | chr6.2:77598982-77599001 | None:intergenic | 30.0% | |
| ! | CATTTAGGGTTGTGTTTAAA+AGG | - | chr6.2:77599367-77599386 | MS.gene05222:CDS | 30.0% |
| AAACTTTGTGTAGGGAACTA+GGG | - | chr6.2:77599289-77599308 | MS.gene05222:CDS | 35.0% | |
| AATGTCCTCAAACACAAGTT+TGG | - | chr6.2:77599112-77599131 | MS.gene05222:CDS | 35.0% | |
| ACACCTTATAATGCCAAACA+AGG | - | chr6.2:77599036-77599055 | MS.gene05222:CDS | 35.0% | |
| AGCTTCTTAAAGAGTTGACA+TGG | - | chr6.2:77599136-77599155 | MS.gene05222:CDS | 35.0% | |
| AGTTAGAATCACACCTTGTT+TGG | + | chr6.2:77599052-77599071 | None:intergenic | 35.0% | |
| GAGAAGCTTGAAGTAAAGAA+TGG | - | chr6.2:77598997-77599016 | MS.gene05222:CDS | 35.0% | |
| GATGGAAAATGCTAAGACTA+AGG | + | chr6.2:77598794-77598813 | None:intergenic | 35.0% | |
| GCAAATGTCAAACTTTGTGT+AGG | - | chr6.2:77599280-77599299 | MS.gene05222:CDS | 35.0% | |
| GCTTCTCTTGAACAACATAA+AGG | + | chr6.2:77598984-77599003 | None:intergenic | 35.0% | |
| GCTTCTTAAAGAGTTGACAT+GGG | - | chr6.2:77599137-77599156 | MS.gene05222:CDS | 35.0% | |
| TGTAGAAGGTAATCCAAGTA+TGG | - | chr6.2:77599182-77599201 | MS.gene05222:CDS | 35.0% | |
| TTACCAGTCATAAGAGGTAA+AGG | - | chr6.2:77598910-77598929 | MS.gene05222:CDS | 35.0% | |
| ! | ACACCTTGTTTGGCATTATA+AGG | + | chr6.2:77599042-77599061 | None:intergenic | 35.0% |
| !! | AGGGTTGTTTGTTGATGATA+AGG | - | chr6.2:77599308-77599327 | MS.gene05222:CDS | 35.0% |
| !! | ATGTTTGGTTGTTTTCACCA+TGG | + | chr6.2:77598957-77598976 | None:intergenic | 35.0% |
| !! | GGGTTGTTTGTTGATGATAA+GGG | - | chr6.2:77599309-77599328 | MS.gene05222:CDS | 35.0% |
| AATCCAAGTATGGCAACTGT+TGG | - | chr6.2:77599192-77599211 | MS.gene05222:CDS | 40.0% | |
| AGCTTCCAAACTTGTGTTTG+AGG | + | chr6.2:77599120-77599139 | None:intergenic | 40.0% | |
| CAAACTTTGTGTAGGGAACT+AGG | - | chr6.2:77599288-77599307 | MS.gene05222:CDS | 40.0% | |
| CAACATAAAGGGGACATGTT+TGG | + | chr6.2:77598972-77598991 | None:intergenic | 40.0% | |
| GAACCAGTTCTTGACATATC+AGG | - | chr6.2:77598853-77598872 | MS.gene05222:CDS | 40.0% | |
| GGTTTAACAGTTGCAAACCA+TGG | - | chr6.2:77598937-77598956 | MS.gene05222:CDS | 40.0% | |
| TCAGGCAAACAAGTAACAAC+CGG | - | chr6.2:77598871-77598890 | MS.gene05222:CDS | 40.0% | |
| TTAAAGAGTTGACATGGGTG+TGG | - | chr6.2:77599142-77599161 | MS.gene05222:CDS | 40.0% | |
| TTACCAACAGTTGCCATACT+TGG | + | chr6.2:77599198-77599217 | None:intergenic | 40.0% | |
| TTGCCTGATATGTCAAGAAC+TGG | + | chr6.2:77598859-77598878 | None:intergenic | 40.0% | |
| ! | GATATGTCAAGAACTGGTTC+AGG | + | chr6.2:77598853-77598872 | None:intergenic | 40.0% |
| !! | GTATGGCAACTGTTGGTAAT+TGG | - | chr6.2:77599199-77599218 | MS.gene05222:CDS | 40.0% |
| CCACCTTTACCTCTTATGAC+TGG | + | chr6.2:77598916-77598935 | None:intergenic | 45.0% | |
| CCAGTCATAAGAGGTAAAGG+TGG | - | chr6.2:77598913-77598932 | MS.gene05222:CDS | 45.0% | |
| GACATTTGCAAGCTTCAGCA+GGG | + | chr6.2:77599269-77599288 | None:intergenic | 45.0% | |
| GTCATAAGAGGTAAAGGTGG+TGG | - | chr6.2:77598916-77598935 | MS.gene05222:CDS | 45.0% | |
| TGACATTTGCAAGCTTCAGC+AGG | + | chr6.2:77599270-77599289 | None:intergenic | 45.0% | |
| !!! | GGGTGTGGTTTTTAGCTACA+GGG | - | chr6.2:77599157-77599176 | MS.gene05222:CDS | 45.0% |
| !!! | GGTGTGGTTTTTAGCTACAG+GGG | - | chr6.2:77599158-77599177 | MS.gene05222:CDS | 45.0% |
| !!! | GTGTGGTTTTTAGCTACAGG+GGG | - | chr6.2:77599159-77599178 | MS.gene05222:CDS | 45.0% |
| !!! | TGGGTGTGGTTTTTAGCTAC+AGG | - | chr6.2:77599156-77599175 | MS.gene05222:CDS | 45.0% |
| ! | TTAGCTACAGGGGGTGTAGA+AGG | - | chr6.2:77599168-77599187 | MS.gene05222:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6.2 | gene | 77598784 | 77599395 | 77598784 | ID=MS.gene05222 |
| chr6.2 | mRNA | 77598784 | 77599395 | 77598784 | ID=MS.gene05222.t1;Parent=MS.gene05222 |
| chr6.2 | exon | 77598784 | 77599395 | 77598784 | ID=MS.gene05222.t1.exon1;Parent=MS.gene05222.t1 |
| chr6.2 | CDS | 77598784 | 77599395 | 77598784 | ID=cds.MS.gene05222.t1;Parent=MS.gene05222.t1 |
| Gene Sequence |
| Protein sequence |
