Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0762990 | sp|Q9LDT3|YAB4_ARATH | 55.947 | 227 | 85 | 4 | 2 | 217 | 9 | 231 | 4.30e-72 | 221 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0762990 | G7K086 | 99.539 | 217 | 1 | 0 | 1 | 217 | 1 | 217 | 2.83e-160 | 451 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0762990 | TF | C2C2-YABBY |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0762990 | Msa0763040 | 0.978273 | 1.756482e-145 | -8.615850e-47 |
| Msa0762990 | Msa0805470 | 0.829156 | 6.027396e-55 | -8.615850e-47 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0762990 | MtrunA17_Chr5g0413381 | 99.482 | 193 | 1 | 0 | 1 | 193 | 1 | 193 | 2.46e-144 | 400 |
| Msa0762990 | MtrunA17_Chr4g0063931 | 49.686 | 159 | 58 | 4 | 12 | 162 | 14 | 158 | 9.90e-45 | 147 |
| Msa0762990 | MtrunA17_Chr2g0322221 | 51.250 | 160 | 62 | 4 | 12 | 162 | 12 | 164 | 5.24e-44 | 145 |
| Msa0762990 | MtrunA17_Chr4g0025361 | 48.701 | 154 | 66 | 3 | 12 | 162 | 9 | 152 | 9.54e-41 | 137 |
| Msa0762990 | MtrunA17_Chr4g0011841 | 50.000 | 156 | 70 | 2 | 14 | 162 | 25 | 179 | 5.43e-40 | 136 |
| Msa0762990 | MtrunA17_Chr4g0056521 | 51.553 | 161 | 64 | 5 | 12 | 162 | 18 | 174 | 1.75e-39 | 135 |
| Msa0762990 | MtrunA17_Chr5g0419871 | 37.662 | 154 | 69 | 2 | 12 | 157 | 17 | 151 | 2.02e-27 | 102 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0762990 | AT1G23420.1 | 55.947 | 227 | 85 | 4 | 2 | 217 | 9 | 231 | 4.37e-73 | 221 |
| Msa0762990 | AT1G23420.2 | 55.947 | 227 | 85 | 4 | 2 | 217 | 40 | 262 | 5.81e-73 | 222 |
| Msa0762990 | AT2G26580.2 | 50.327 | 153 | 60 | 3 | 12 | 162 | 9 | 147 | 2.76e-46 | 151 |
| Msa0762990 | AT2G26580.1 | 50.327 | 153 | 60 | 3 | 12 | 162 | 9 | 147 | 2.76e-46 | 151 |
| Msa0762990 | AT2G45190.1 | 46.061 | 165 | 79 | 1 | 8 | 162 | 19 | 183 | 1.05e-42 | 144 |
| Msa0762990 | AT1G08465.1 | 49.677 | 155 | 66 | 4 | 12 | 162 | 8 | 154 | 7.65e-41 | 137 |
| Msa0762990 | AT4G00180.1 | 45.810 | 179 | 71 | 5 | 8 | 162 | 19 | 195 | 8.36e-39 | 134 |
| Msa0762990 | AT4G00180.2 | 43.976 | 166 | 67 | 5 | 21 | 162 | 1 | 164 | 6.60e-30 | 110 |
| Msa0762990 | AT1G69180.1 | 40.385 | 156 | 73 | 4 | 12 | 163 | 19 | 158 | 5.99e-29 | 107 |
| Msa0762990 | AT2G45190.2 | 63.636 | 66 | 24 | 0 | 97 | 162 | 54 | 119 | 4.09e-25 | 97.1 |
Find 40 sgRNAs with CRISPR-Local
Find 82 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATGCAGAGAAGAGATTAAA+AGG | 0.220244 | 5_2:+21680159 | Msa0762990:intron |
| CATCACCTTTGCACTGAGTT+GGG | 0.247070 | 5_2:-21680416 | None:intergenic |
| GCTTCCTTGTGAGCCATATC+AGG | 0.254990 | 5_2:-21680197 | None:intergenic |
| ACTCATGATTACCATTAAAA+TGG | 0.296363 | 5_2:-21679424 | None:intergenic |
| CTTTCCAAGATGGAATTTCT+TGG | 0.337983 | 5_2:-21681093 | None:intergenic |
| GTCTTGTTTGCATCTTCATC+TGG | 0.344790 | 5_2:-21679819 | None:intergenic |
| GATGAGTAAGAGATGCTAAA+AGG | 0.346967 | 5_2:-21679660 | None:intergenic |
| TGTACATAGCATATCTGTTC+TGG | 0.364295 | 5_2:-21679384 | None:intergenic |
| GGTGTTCTTTGTCTCTTCTC+TGG | 0.372695 | 5_2:-21680026 | None:intergenic |
| TCATCACCTTTGCACTGAGT+TGG | 0.384038 | 5_2:-21680417 | None:intergenic |
| TATTCATTCATTCACTCAAA+TGG | 0.405002 | 5_2:-21681120 | None:intergenic |
| TTATTGACTACATTGCTGAT+TGG | 0.408933 | 5_2:-21679906 | None:intergenic |
| ATCACCTTTGCACTGAGTTG+GGG | 0.440172 | 5_2:-21680415 | None:intergenic |
| GATCCACAAATTGATCTGTC+TGG | 0.455209 | 5_2:-21680452 | None:intergenic |
| ACAAGGATTCCGTGGAAGAA+AGG | 0.512794 | 5_2:+21681068 | Msa0762990:CDS |
| AGCATCTCTTACTCATCTTG+AGG | 0.521370 | 5_2:+21679666 | Msa0762990:CDS |
| GGTACCAAGAAATTCCATCT+TGG | 0.522438 | 5_2:+21681089 | Msa0762990:CDS |
| ACAATCAGAATAAGTCATCA+TGG | 0.529221 | 5_2:-21679865 | None:intergenic |
| AAATGGTGTCCTTTCCAAGA+TGG | 0.529231 | 5_2:-21681103 | None:intergenic |
| TAGCCAGACAGATCAATTTG+TGG | 0.529249 | 5_2:+21680449 | Msa0762990:CDS |
| AGAAGAGATTAAAAGGCTAA+AGG | 0.529887 | 5_2:+21680166 | Msa0762990:CDS |
| ATATTAATTACTTGATGAAG+CGG | 0.533614 | 5_2:-21680061 | None:intergenic |
| TTCTTGGTACCTTTCTTCCA+CGG | 0.541076 | 5_2:-21681077 | None:intergenic |
| CTTCCTTGTGAGCCATATCA+GGG | 0.545406 | 5_2:-21680196 | None:intergenic |
| GAGATGCTAAAAGGTGGAAA+GGG | 0.553103 | 5_2:-21679651 | None:intergenic |
| AGAGATGCTAAAAGGTGGAA+AGG | 0.557063 | 5_2:-21679652 | None:intergenic |
| GAGTAAGAGATGCTAAAAGG+TGG | 0.562368 | 5_2:-21679657 | None:intergenic |
| ACCATTGTCAAACTGCTGCA+TGG | 0.563063 | 5_2:-21679562 | None:intergenic |
| CAGGTGAATGAAGAAGAACA+AGG | 0.564909 | 5_2:+21681051 | Msa0762990:intron |
| GAAGAAGAACAAGGATTCCG+TGG | 0.572480 | 5_2:+21681060 | Msa0762990:CDS |
| AAACCCTGATATGGCTCACA+AGG | 0.577441 | 5_2:+21680193 | Msa0762990:CDS |
| CAAGAAATTCCATCTTGGAA+AGG | 0.597804 | 5_2:+21681094 | Msa0762990:CDS |
| TCACCTTTGCACTGAGTTGG+GGG | 0.601505 | 5_2:-21680414 | None:intergenic |
| GATGACTTATTCTGATTGTG+AGG | 0.620697 | 5_2:+21679869 | Msa0762990:CDS |
| TCCATGCAGCAGTTTGACAA+TGG | 0.655787 | 5_2:+21679561 | Msa0762990:CDS |
| CAGATATGCTATGTACAATG+TGG | 0.657256 | 5_2:+21679390 | Msa0762990:CDS |
| ATGAAGCGGTTATAAGCTGA+TGG | 0.663979 | 5_2:-21680047 | None:intergenic |
| TGTGGATCTTGACTCCCAAG+TGG | 0.667148 | 5_2:+21680467 | Msa0762990:CDS |
| ATGCAGCAGTTTGACAATGG+TGG | 0.669140 | 5_2:+21679564 | Msa0762990:CDS |
| ATGGTGGTGACAGTAAGATG+TGG | 0.764759 | 5_2:+21679580 | Msa0762990:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTATTTTTTAATTTTCAG+TGG | + | chr5_2:21680382-21680401 | Msa0762990:intron | 10.0% |
| !!! | TTTATTTTTTAATTTTCAGT+GGG | + | chr5_2:21680383-21680402 | Msa0762990:intron | 10.0% |
| !! | TGAAAATGAAAACAAAAAAT+AGG | - | chr5_2:21679493-21679512 | None:intergenic | 15.0% |
| !! | AAAGAAAATAAACAAAGTAT+TGG | - | chr5_2:21679713-21679732 | None:intergenic | 15.0% |
| !!! | TTGTTTATTTTCTTTTAGTT+AGG | + | chr5_2:21679718-21679737 | Msa0762990:intron | 15.0% |
| !!! | TATAGGAAATTTTATAAGAT+TGG | + | chr5_2:21680330-21680349 | Msa0762990:intron | 15.0% |
| !! | ATATTAATTACTTGATGAAG+CGG | - | chr5_2:21680064-21680083 | None:intergenic | 20.0% |
| !!! | TATTAAAACTTGCTATAAGT+AGG | + | chr5_2:21680606-21680625 | Msa0762990:intron | 20.0% |
| !!! | CGAAGCATAATATTTTTAAA+AGG | - | chr5_2:21680853-21680872 | None:intergenic | 20.0% |
| !! | ATTCTGCAATACCATTTTAA+TGG | + | chr5_2:21679413-21679432 | Msa0762990:CDS | 25.0% |
| ! | ACTCATGATTACCATTAAAA+TGG | - | chr5_2:21679427-21679446 | None:intergenic | 25.0% |
| ! | CTTCTTAAGTTCATCATATT+TGG | + | chr5_2:21679459-21679478 | Msa0762990:intron | 25.0% |
| ! | TCAACTCATTTGAAAACTAT+AGG | + | chr5_2:21680313-21680332 | Msa0762990:intron | 25.0% |
| ! | TGGTGAATTATTCATAATCT+TGG | + | chr5_2:21680350-21680369 | Msa0762990:intron | 25.0% |
| ! | TATAGATTACAAAAACAGGT+AGG | - | chr5_2:21680992-21681011 | None:intergenic | 25.0% |
| ACAATCAGAATAAGTCATCA+TGG | - | chr5_2:21679868-21679887 | None:intergenic | 30.0% | |
| ! | TTATTGACTACATTGCTGAT+TGG | - | chr5_2:21679909-21679928 | None:intergenic | 30.0% |
| AATGCAGAGAAGAGATTAAA+AGG | + | chr5_2:21680159-21680178 | Msa0762990:intron | 30.0% | |
| AGAAGAGATTAAAAGGCTAA+AGG | + | chr5_2:21680166-21680185 | Msa0762990:CDS | 30.0% | |
| !!! | TAGCTAGTTAGTTTTGAACA+TGG | - | chr5_2:21680288-21680307 | None:intergenic | 30.0% |
| AGTAGGAGATTCTTTAGATT+TGG | + | chr5_2:21680623-21680642 | Msa0762990:intron | 30.0% | |
| GTCTCTTTCTTTATATCACA+TGG | + | chr5_2:21680672-21680691 | Msa0762990:intron | 30.0% | |
| TATCACATGGTGAATAGTAA+AGG | + | chr5_2:21680685-21680704 | Msa0762990:intron | 30.0% | |
| ACTTTATATCCTCATCTTGT+TGG | + | chr5_2:21680734-21680753 | Msa0762990:intron | 30.0% | |
| TAAAAGGCTATGTCAAATGA+CGG | - | chr5_2:21680837-21680856 | None:intergenic | 30.0% | |
| ! | AAAACAGGTAGGTTTTTCTT+TGG | - | chr5_2:21680981-21681000 | None:intergenic | 30.0% |
| !! | GTTCTGGAAGATCAAAAAGA+TGG | - | chr5_2:21679371-21679390 | None:intergenic | 35.0% |
| TGTACATAGCATATCTGTTC+TGG | - | chr5_2:21679387-21679406 | None:intergenic | 35.0% | |
| CAGATATGCTATGTACAATG+TGG | + | chr5_2:21679390-21679409 | Msa0762990:CDS | 35.0% | |
| GATGAGTAAGAGATGCTAAA+AGG | - | chr5_2:21679663-21679682 | None:intergenic | 35.0% | |
| GATGACTTATTCTGATTGTG+AGG | + | chr5_2:21679869-21679888 | Msa0762990:CDS | 35.0% | |
| AAAGGCTAAAAACCCTGATA+TGG | + | chr5_2:21680184-21680203 | Msa0762990:CDS | 35.0% | |
| GTACAGCTGCAAAAAATGTA+AGG | + | chr5_2:21680225-21680244 | Msa0762990:intron | 35.0% | |
| !! | TGTTTTTACCTCAGCTTCAT+GGG | - | chr5_2:21680496-21680515 | None:intergenic | 35.0% |
| !! | ATGTTTTTACCTCAGCTTCA+TGG | - | chr5_2:21680497-21680516 | None:intergenic | 35.0% |
| CGGCTATAGATTACAAAAAC+AGG | - | chr5_2:21680996-21681015 | None:intergenic | 35.0% | |
| GTTCTTGCAATTGTCAAGTA+CGG | - | chr5_2:21681016-21681035 | None:intergenic | 35.0% | |
| CTTTCCAAGATGGAATTTCT+TGG | - | chr5_2:21681096-21681115 | None:intergenic | 35.0% | |
| CAAGAAATTCCATCTTGGAA+AGG | + | chr5_2:21681094-21681113 | Msa0762990:CDS | 35.0% | |
| TCGTTTCAATTGTGTGATGC+AGG | + | chr5_2:21679531-21679550 | Msa0762990:intron | 40.0% | |
| GAGATGCTAAAAGGTGGAAA+GGG | - | chr5_2:21679654-21679673 | None:intergenic | 40.0% | |
| AGAGATGCTAAAAGGTGGAA+AGG | - | chr5_2:21679655-21679674 | None:intergenic | 40.0% | |
| GAGTAAGAGATGCTAAAAGG+TGG | - | chr5_2:21679660-21679679 | None:intergenic | 40.0% | |
| AGCATCTCTTACTCATCTTG+AGG | + | chr5_2:21679666-21679685 | Msa0762990:CDS | 40.0% | |
| !! | GTCTTGTTTGCATCTTCATC+TGG | - | chr5_2:21679822-21679841 | None:intergenic | 40.0% |
| ATGAAGCGGTTATAAGCTGA+TGG | - | chr5_2:21680050-21680069 | None:intergenic | 40.0% | |
| TAGCCAGACAGATCAATTTG+TGG | + | chr5_2:21680449-21680468 | Msa0762990:CDS | 40.0% | |
| GATCCACAAATTGATCTGTC+TGG | - | chr5_2:21680455-21680474 | None:intergenic | 40.0% | |
| ! | TTTTTACCTCAGCTTCATGG+GGG | - | chr5_2:21680494-21680513 | None:intergenic | 40.0% |
| ! | GTTTTTACCTCAGCTTCATG+GGG | - | chr5_2:21680495-21680514 | None:intergenic | 40.0% |
| GGTATAGTCCATGCATTCAA+TGG | + | chr5_2:21680706-21680725 | Msa0762990:intron | 40.0% | |
| AGTCTTTGCCATTGAATGCA+TGG | - | chr5_2:21680717-21680736 | None:intergenic | 40.0% | |
| GATTGGAAACCAACAAGATG+AGG | - | chr5_2:21680746-21680765 | None:intergenic | 40.0% | |
| TGGATCAATGTCATGCTGAT+TGG | - | chr5_2:21680763-21680782 | None:intergenic | 40.0% | |
| ATGACATTGATCCACCAAAC+TGG | + | chr5_2:21680769-21680788 | Msa0762990:intron | 40.0% | |
| TCTGCAAGAACTTTCCAGTT+TGG | - | chr5_2:21680786-21680805 | None:intergenic | 40.0% | |
| !! | GAACTGCATCATCACTTTTC+AGG | + | chr5_2:21681032-21681051 | Msa0762990:intron | 40.0% |
| CAGGTGAATGAAGAAGAACA+AGG | + | chr5_2:21681051-21681070 | Msa0762990:intron | 40.0% | |
| TTCTTGGTACCTTTCTTCCA+CGG | - | chr5_2:21681080-21681099 | None:intergenic | 40.0% | |
| GGTACCAAGAAATTCCATCT+TGG | + | chr5_2:21681089-21681108 | Msa0762990:CDS | 40.0% | |
| AAATGGTGTCCTTTCCAAGA+TGG | - | chr5_2:21681106-21681125 | None:intergenic | 40.0% | |
| TCCATGCAGCAGTTTGACAA+TGG | + | chr5_2:21679561-21679580 | Msa0762990:CDS | 45.0% | |
| ACCATTGTCAAACTGCTGCA+TGG | - | chr5_2:21679565-21679584 | None:intergenic | 45.0% | |
| ATGCAGCAGTTTGACAATGG+TGG | + | chr5_2:21679564-21679583 | Msa0762990:CDS | 45.0% | |
| ! | ATGGTGGTGACAGTAAGATG+TGG | + | chr5_2:21679580-21679599 | Msa0762990:CDS | 45.0% |
| GGTGTTCTTTGTCTCTTCTC+TGG | - | chr5_2:21680029-21680048 | None:intergenic | 45.0% | |
| AAACCCTGATATGGCTCACA+AGG | + | chr5_2:21680193-21680212 | Msa0762990:CDS | 45.0% | |
| CTTCCTTGTGAGCCATATCA+GGG | - | chr5_2:21680199-21680218 | None:intergenic | 45.0% | |
| ATCACCTTTGCACTGAGTTG+GGG | - | chr5_2:21680418-21680437 | None:intergenic | 45.0% | |
| CATCACCTTTGCACTGAGTT+GGG | - | chr5_2:21680419-21680438 | None:intergenic | 45.0% | |
| TCATCACCTTTGCACTGAGT+TGG | - | chr5_2:21680420-21680439 | None:intergenic | 45.0% | |
| GGCACTGTGTGCATTTATAG+TGG | + | chr5_2:21680644-21680663 | Msa0762990:intron | 45.0% | |
| GCAAGAACTTTCCAGTTTGG+TGG | - | chr5_2:21680783-21680802 | None:intergenic | 45.0% | |
| GAAGAAGAACAAGGATTCCG+TGG | + | chr5_2:21681060-21681079 | Msa0762990:CDS | 45.0% | |
| ACAAGGATTCCGTGGAAGAA+AGG | + | chr5_2:21681068-21681087 | Msa0762990:CDS | 45.0% | |
| GCTTCCTTGTGAGCCATATC+AGG | - | chr5_2:21680200-21680219 | None:intergenic | 50.0% | |
| ! | TCACCTTTGCACTGAGTTGG+GGG | - | chr5_2:21680417-21680436 | None:intergenic | 50.0% |
| TGTGGATCTTGACTCCCAAG+TGG | + | chr5_2:21680467-21680486 | Msa0762990:CDS | 50.0% | |
| TGTCCCCCAACTCAGTGCAA+AGG | + | chr5_2:21680411-21680430 | Msa0762990:CDS | 55.0% | |
| AGCTTCATGGGGGTCCACTT+GGG | - | chr5_2:21680484-21680503 | None:intergenic | 55.0% | |
| CAGCTTCATGGGGGTCCACT+TGG | - | chr5_2:21680485-21680504 | None:intergenic | 60.0% | |
| AGTGGACCCCCATGAAGCTG+AGG | + | chr5_2:21680485-21680504 | Msa0762990:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_2 | gene | 21679354 | 21681131 | 21679354 | ID=Msa0762990;Name=Msa0762990 |
| chr5_2 | mRNA | 21679354 | 21681131 | 21679354 | ID=Msa0762990-mRNA-1;Parent=Msa0762990;Name=Msa0762990-mRNA-1;_AED=0.16;_eAED=0.16;_QI=0|0.66|0.42|1|1|1|7|0|217 |
| chr5_2 | exon | 21679354 | 21679434 | 21679354 | ID=Msa0762990-mRNA-1:exon:9004;Parent=Msa0762990-mRNA-1 |
| chr5_2 | exon | 21679553 | 21679687 | 21679553 | ID=Msa0762990-mRNA-1:exon:9005;Parent=Msa0762990-mRNA-1 |
| chr5_2 | exon | 21679801 | 21679930 | 21679801 | ID=Msa0762990-mRNA-1:exon:9006;Parent=Msa0762990-mRNA-1 |
| chr5_2 | exon | 21680024 | 21680072 | 21680024 | ID=Msa0762990-mRNA-1:exon:9007;Parent=Msa0762990-mRNA-1 |
| chr5_2 | exon | 21680166 | 21680241 | 21680166 | ID=Msa0762990-mRNA-1:exon:9008;Parent=Msa0762990-mRNA-1 |
| chr5_2 | exon | 21680402 | 21680506 | 21680402 | ID=Msa0762990-mRNA-1:exon:9009;Parent=Msa0762990-mRNA-1 |
| chr5_2 | exon | 21681054 | 21681131 | 21681054 | ID=Msa0762990-mRNA-1:exon:9010;Parent=Msa0762990-mRNA-1 |
| chr5_2 | CDS | 21679354 | 21679434 | 21679354 | ID=Msa0762990-mRNA-1:cds;Parent=Msa0762990-mRNA-1 |
| chr5_2 | CDS | 21679553 | 21679687 | 21679553 | ID=Msa0762990-mRNA-1:cds;Parent=Msa0762990-mRNA-1 |
| chr5_2 | CDS | 21679801 | 21679930 | 21679801 | ID=Msa0762990-mRNA-1:cds;Parent=Msa0762990-mRNA-1 |
| chr5_2 | CDS | 21680024 | 21680072 | 21680024 | ID=Msa0762990-mRNA-1:cds;Parent=Msa0762990-mRNA-1 |
| chr5_2 | CDS | 21680166 | 21680241 | 21680166 | ID=Msa0762990-mRNA-1:cds;Parent=Msa0762990-mRNA-1 |
| chr5_2 | CDS | 21680402 | 21680506 | 21680402 | ID=Msa0762990-mRNA-1:cds;Parent=Msa0762990-mRNA-1 |
| chr5_2 | CDS | 21681054 | 21681131 | 21681054 | ID=Msa0762990-mRNA-1:cds;Parent=Msa0762990-mRNA-1 |
| Gene Sequence |
| Protein sequence |
