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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0763040 | XP_003613209.1 | 99.539 | 217 | 1 | 0 | 1 | 217 | 1 | 217 | 5.91e-160 | 451 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0763040 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0763040 | G7K086 | 99.539 | 217 | 1 | 0 | 1 | 217 | 1 | 217 | 2.83e-160 | 451 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0763040 | 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 |
| Msa0763040 | Msa0805470 | 0.820092 | 8.231760e-53 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0763040 | MtrunA17_Chr5g0413381 | 99.482 | 193 | 1 | 0 | 1 | 193 | 1 | 193 | 2.46e-144 | 400 |
| Msa0763040 | MtrunA17_Chr4g0063931 | 49.686 | 159 | 58 | 4 | 12 | 162 | 14 | 158 | 9.90e-45 | 147 |
| Msa0763040 | MtrunA17_Chr2g0322221 | 51.250 | 160 | 62 | 4 | 12 | 162 | 12 | 164 | 5.24e-44 | 145 |
| Msa0763040 | MtrunA17_Chr4g0025361 | 48.701 | 154 | 66 | 3 | 12 | 162 | 9 | 152 | 9.54e-41 | 137 |
| Msa0763040 | MtrunA17_Chr4g0011841 | 50.000 | 156 | 70 | 2 | 14 | 162 | 25 | 179 | 5.43e-40 | 136 |
| Msa0763040 | MtrunA17_Chr4g0056521 | 51.553 | 161 | 64 | 5 | 12 | 162 | 18 | 174 | 1.75e-39 | 135 |
| Msa0763040 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0763040 | AT1G23420.1 | 55.947 | 227 | 85 | 4 | 2 | 217 | 9 | 231 | 4.37e-73 | 221 |
| Msa0763040 | AT1G23420.2 | 55.947 | 227 | 85 | 4 | 2 | 217 | 40 | 262 | 5.81e-73 | 222 |
| Msa0763040 | AT2G26580.2 | 50.327 | 153 | 60 | 3 | 12 | 162 | 9 | 147 | 2.76e-46 | 151 |
| Msa0763040 | AT2G26580.1 | 50.327 | 153 | 60 | 3 | 12 | 162 | 9 | 147 | 2.76e-46 | 151 |
| Msa0763040 | AT2G45190.1 | 46.061 | 165 | 79 | 1 | 8 | 162 | 19 | 183 | 1.05e-42 | 144 |
| Msa0763040 | AT1G08465.1 | 49.677 | 155 | 66 | 4 | 12 | 162 | 8 | 154 | 7.65e-41 | 137 |
| Msa0763040 | AT4G00180.1 | 45.810 | 179 | 71 | 5 | 8 | 162 | 19 | 195 | 8.36e-39 | 134 |
| Msa0763040 | AT4G00180.2 | 43.976 | 166 | 67 | 5 | 21 | 162 | 1 | 164 | 6.60e-30 | 110 |
| Msa0763040 | AT1G69180.1 | 40.385 | 156 | 73 | 4 | 12 | 163 | 19 | 158 | 5.99e-29 | 107 |
| Msa0763040 | 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:+21731308 | Msa0763040:intron |
| CATCACCTTTGCACTGAGTT+GGG | 0.247070 | 5_2:-21731565 | None:intergenic |
| GCTTCCTTGTGAGCCATATC+AGG | 0.254990 | 5_2:-21731346 | None:intergenic |
| ACTCATGATTACCATTAAAA+TGG | 0.296363 | 5_2:-21730573 | None:intergenic |
| CTTTCCAAGATGGAATTTCT+TGG | 0.337983 | 5_2:-21732242 | None:intergenic |
| GTCTTGTTTGCATCTTCATC+TGG | 0.344790 | 5_2:-21730968 | None:intergenic |
| GATGAGTAAGAGATGCTAAA+AGG | 0.346967 | 5_2:-21730809 | None:intergenic |
| TGTACATAGCATATCTGTTC+TGG | 0.364295 | 5_2:-21730533 | None:intergenic |
| GGTGTTCTTTGTCTCTTCTC+TGG | 0.372695 | 5_2:-21731175 | None:intergenic |
| TCATCACCTTTGCACTGAGT+TGG | 0.384038 | 5_2:-21731566 | None:intergenic |
| TATTCATTCATTCACTCAAA+TGG | 0.405002 | 5_2:-21732269 | None:intergenic |
| TTATTGACTACATTGCTGAT+TGG | 0.408933 | 5_2:-21731055 | None:intergenic |
| ATCACCTTTGCACTGAGTTG+GGG | 0.440172 | 5_2:-21731564 | None:intergenic |
| GATCCACAAATTGATCTGTC+TGG | 0.455209 | 5_2:-21731601 | None:intergenic |
| ACAAGGATTCCGTGGAAGAA+AGG | 0.512794 | 5_2:+21732217 | Msa0763040:CDS |
| AGCATCTCTTACTCATCTTG+AGG | 0.521370 | 5_2:+21730815 | Msa0763040:CDS |
| GGTACCAAGAAATTCCATCT+TGG | 0.522438 | 5_2:+21732238 | Msa0763040:CDS |
| ACAATCAGAATAAGTCATCA+TGG | 0.529221 | 5_2:-21731014 | None:intergenic |
| AAATGGTGTCCTTTCCAAGA+TGG | 0.529231 | 5_2:-21732252 | None:intergenic |
| TAGCCAGACAGATCAATTTG+TGG | 0.529249 | 5_2:+21731598 | Msa0763040:CDS |
| AGAAGAGATTAAAAGGCTAA+AGG | 0.529887 | 5_2:+21731315 | Msa0763040:CDS |
| ATATTAATTACTTGATGAAG+CGG | 0.533614 | 5_2:-21731210 | None:intergenic |
| TTCTTGGTACCTTTCTTCCA+CGG | 0.541076 | 5_2:-21732226 | None:intergenic |
| CTTCCTTGTGAGCCATATCA+GGG | 0.545406 | 5_2:-21731345 | None:intergenic |
| GAGATGCTAAAAGGTGGAAA+GGG | 0.553103 | 5_2:-21730800 | None:intergenic |
| AGAGATGCTAAAAGGTGGAA+AGG | 0.557063 | 5_2:-21730801 | None:intergenic |
| GAGTAAGAGATGCTAAAAGG+TGG | 0.562368 | 5_2:-21730806 | None:intergenic |
| ACCATTGTCAAACTGCTGCA+TGG | 0.563063 | 5_2:-21730711 | None:intergenic |
| CAGGTGAATGAAGAAGAACA+AGG | 0.564909 | 5_2:+21732200 | Msa0763040:intron |
| GAAGAAGAACAAGGATTCCG+TGG | 0.572480 | 5_2:+21732209 | Msa0763040:CDS |
| AAACCCTGATATGGCTCACA+AGG | 0.577441 | 5_2:+21731342 | Msa0763040:CDS |
| CAAGAAATTCCATCTTGGAA+AGG | 0.597804 | 5_2:+21732243 | Msa0763040:CDS |
| TCACCTTTGCACTGAGTTGG+GGG | 0.601505 | 5_2:-21731563 | None:intergenic |
| GATGACTTATTCTGATTGTG+AGG | 0.620697 | 5_2:+21731018 | Msa0763040:CDS |
| TCCATGCAGCAGTTTGACAA+TGG | 0.655787 | 5_2:+21730710 | Msa0763040:CDS |
| CAGATATGCTATGTACAATG+TGG | 0.657256 | 5_2:+21730539 | Msa0763040:CDS |
| ATGAAGCGGTTATAAGCTGA+TGG | 0.663979 | 5_2:-21731196 | None:intergenic |
| TGTGGATCTTGACTCCCAAG+TGG | 0.667148 | 5_2:+21731616 | Msa0763040:CDS |
| ATGCAGCAGTTTGACAATGG+TGG | 0.669140 | 5_2:+21730713 | Msa0763040:CDS |
| ATGGTGGTGACAGTAAGATG+TGG | 0.764759 | 5_2:+21730729 | Msa0763040:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTATTTTTTAATTTTCAG+TGG | + | chr5_2:21731531-21731550 | Msa0763040:intron | 10.0% |
| !!! | TTTATTTTTTAATTTTCAGT+GGG | + | chr5_2:21731532-21731551 | Msa0763040:intron | 10.0% |
| !! | TGAAAATGAAAACAAAAAAT+AGG | - | chr5_2:21730642-21730661 | None:intergenic | 15.0% |
| !! | AAAGAAAATAAACAAAGTAT+TGG | - | chr5_2:21730862-21730881 | None:intergenic | 15.0% |
| !!! | TTGTTTATTTTCTTTTAGTT+AGG | + | chr5_2:21730867-21730886 | Msa0763040:intron | 15.0% |
| !!! | TATAGGAAATTTTATAAGAT+TGG | + | chr5_2:21731479-21731498 | Msa0763040:intron | 15.0% |
| !! | ATATTAATTACTTGATGAAG+CGG | - | chr5_2:21731213-21731232 | None:intergenic | 20.0% |
| !!! | TATTAAAACTTGCTATAAGT+AGG | + | chr5_2:21731755-21731774 | Msa0763040:intron | 20.0% |
| !!! | CGAAGCATAATATTTTTAAA+AGG | - | chr5_2:21732002-21732021 | None:intergenic | 20.0% |
| !! | ATTCTGCAATACCATTTTAA+TGG | + | chr5_2:21730562-21730581 | Msa0763040:CDS | 25.0% |
| ! | ACTCATGATTACCATTAAAA+TGG | - | chr5_2:21730576-21730595 | None:intergenic | 25.0% |
| ! | CTTCTTAAGTTCATCATATT+TGG | + | chr5_2:21730608-21730627 | Msa0763040:intron | 25.0% |
| ! | TCAACTCATTTGAAAACTAT+AGG | + | chr5_2:21731462-21731481 | Msa0763040:intron | 25.0% |
| ! | TGGTGAATTATTCATAATCT+TGG | + | chr5_2:21731499-21731518 | Msa0763040:intron | 25.0% |
| ! | TATAGATTACAAAAACAGGT+AGG | - | chr5_2:21732141-21732160 | None:intergenic | 25.0% |
| ACAATCAGAATAAGTCATCA+TGG | - | chr5_2:21731017-21731036 | None:intergenic | 30.0% | |
| ! | TTATTGACTACATTGCTGAT+TGG | - | chr5_2:21731058-21731077 | None:intergenic | 30.0% |
| AATGCAGAGAAGAGATTAAA+AGG | + | chr5_2:21731308-21731327 | Msa0763040:intron | 30.0% | |
| AGAAGAGATTAAAAGGCTAA+AGG | + | chr5_2:21731315-21731334 | Msa0763040:CDS | 30.0% | |
| !!! | TAGCTAGTTAGTTTTGAACA+TGG | - | chr5_2:21731437-21731456 | None:intergenic | 30.0% |
| AGTAGGAGATTCTTTAGATT+TGG | + | chr5_2:21731772-21731791 | Msa0763040:intron | 30.0% | |
| GTCTCTTTCTTTATATCACA+TGG | + | chr5_2:21731821-21731840 | Msa0763040:intron | 30.0% | |
| TATCACATGGTGAATAGTAA+AGG | + | chr5_2:21731834-21731853 | Msa0763040:intron | 30.0% | |
| ACTTTATATCCTCATCTTGT+TGG | + | chr5_2:21731883-21731902 | Msa0763040:intron | 30.0% | |
| TAAAAGGCTATGTCAAATGA+CGG | - | chr5_2:21731986-21732005 | None:intergenic | 30.0% | |
| ! | AAAACAGGTAGGTTTTTCTT+TGG | - | chr5_2:21732130-21732149 | None:intergenic | 30.0% |
| !! | GTTCTGGAAGATCAAAAAGA+TGG | - | chr5_2:21730520-21730539 | None:intergenic | 35.0% |
| TGTACATAGCATATCTGTTC+TGG | - | chr5_2:21730536-21730555 | None:intergenic | 35.0% | |
| CAGATATGCTATGTACAATG+TGG | + | chr5_2:21730539-21730558 | Msa0763040:CDS | 35.0% | |
| GATGAGTAAGAGATGCTAAA+AGG | - | chr5_2:21730812-21730831 | None:intergenic | 35.0% | |
| GATGACTTATTCTGATTGTG+AGG | + | chr5_2:21731018-21731037 | Msa0763040:CDS | 35.0% | |
| AAAGGCTAAAAACCCTGATA+TGG | + | chr5_2:21731333-21731352 | Msa0763040:CDS | 35.0% | |
| GTACAGCTGCAAAAAATGTA+AGG | + | chr5_2:21731374-21731393 | Msa0763040:intron | 35.0% | |
| !! | TGTTTTTACCTCAGCTTCAT+GGG | - | chr5_2:21731645-21731664 | None:intergenic | 35.0% |
| !! | ATGTTTTTACCTCAGCTTCA+TGG | - | chr5_2:21731646-21731665 | None:intergenic | 35.0% |
| CGGCTATAGATTACAAAAAC+AGG | - | chr5_2:21732145-21732164 | None:intergenic | 35.0% | |
| GTTCTTGCAATTGTCAAGTA+CGG | - | chr5_2:21732165-21732184 | None:intergenic | 35.0% | |
| CTTTCCAAGATGGAATTTCT+TGG | - | chr5_2:21732245-21732264 | None:intergenic | 35.0% | |
| CAAGAAATTCCATCTTGGAA+AGG | + | chr5_2:21732243-21732262 | Msa0763040:CDS | 35.0% | |
| TCGTTTCAATTGTGTGATGC+AGG | + | chr5_2:21730680-21730699 | Msa0763040:intron | 40.0% | |
| GAGATGCTAAAAGGTGGAAA+GGG | - | chr5_2:21730803-21730822 | None:intergenic | 40.0% | |
| AGAGATGCTAAAAGGTGGAA+AGG | - | chr5_2:21730804-21730823 | None:intergenic | 40.0% | |
| GAGTAAGAGATGCTAAAAGG+TGG | - | chr5_2:21730809-21730828 | None:intergenic | 40.0% | |
| AGCATCTCTTACTCATCTTG+AGG | + | chr5_2:21730815-21730834 | Msa0763040:CDS | 40.0% | |
| !! | GTCTTGTTTGCATCTTCATC+TGG | - | chr5_2:21730971-21730990 | None:intergenic | 40.0% |
| ATGAAGCGGTTATAAGCTGA+TGG | - | chr5_2:21731199-21731218 | None:intergenic | 40.0% | |
| TAGCCAGACAGATCAATTTG+TGG | + | chr5_2:21731598-21731617 | Msa0763040:CDS | 40.0% | |
| GATCCACAAATTGATCTGTC+TGG | - | chr5_2:21731604-21731623 | None:intergenic | 40.0% | |
| ! | TTTTTACCTCAGCTTCATGG+GGG | - | chr5_2:21731643-21731662 | None:intergenic | 40.0% |
| ! | GTTTTTACCTCAGCTTCATG+GGG | - | chr5_2:21731644-21731663 | None:intergenic | 40.0% |
| GGTATAGTCCATGCATTCAA+TGG | + | chr5_2:21731855-21731874 | Msa0763040:intron | 40.0% | |
| AGTCTTTGCCATTGAATGCA+TGG | - | chr5_2:21731866-21731885 | None:intergenic | 40.0% | |
| GATTGGAAACCAACAAGATG+AGG | - | chr5_2:21731895-21731914 | None:intergenic | 40.0% | |
| TGGATCAATGTCATGCTGAT+TGG | - | chr5_2:21731912-21731931 | None:intergenic | 40.0% | |
| ATGACATTGATCCACCAAAC+TGG | + | chr5_2:21731918-21731937 | Msa0763040:intron | 40.0% | |
| TCTGCAAGAACTTTCCAGTT+TGG | - | chr5_2:21731935-21731954 | None:intergenic | 40.0% | |
| !! | GAACTGCATCATCACTTTTC+AGG | + | chr5_2:21732181-21732200 | Msa0763040:intron | 40.0% |
| CAGGTGAATGAAGAAGAACA+AGG | + | chr5_2:21732200-21732219 | Msa0763040:intron | 40.0% | |
| TTCTTGGTACCTTTCTTCCA+CGG | - | chr5_2:21732229-21732248 | None:intergenic | 40.0% | |
| GGTACCAAGAAATTCCATCT+TGG | + | chr5_2:21732238-21732257 | Msa0763040:CDS | 40.0% | |
| AAATGGTGTCCTTTCCAAGA+TGG | - | chr5_2:21732255-21732274 | None:intergenic | 40.0% | |
| TCCATGCAGCAGTTTGACAA+TGG | + | chr5_2:21730710-21730729 | Msa0763040:CDS | 45.0% | |
| ACCATTGTCAAACTGCTGCA+TGG | - | chr5_2:21730714-21730733 | None:intergenic | 45.0% | |
| ATGCAGCAGTTTGACAATGG+TGG | + | chr5_2:21730713-21730732 | Msa0763040:CDS | 45.0% | |
| ! | ATGGTGGTGACAGTAAGATG+TGG | + | chr5_2:21730729-21730748 | Msa0763040:CDS | 45.0% |
| GGTGTTCTTTGTCTCTTCTC+TGG | - | chr5_2:21731178-21731197 | None:intergenic | 45.0% | |
| AAACCCTGATATGGCTCACA+AGG | + | chr5_2:21731342-21731361 | Msa0763040:CDS | 45.0% | |
| CTTCCTTGTGAGCCATATCA+GGG | - | chr5_2:21731348-21731367 | None:intergenic | 45.0% | |
| ATCACCTTTGCACTGAGTTG+GGG | - | chr5_2:21731567-21731586 | None:intergenic | 45.0% | |
| CATCACCTTTGCACTGAGTT+GGG | - | chr5_2:21731568-21731587 | None:intergenic | 45.0% | |
| TCATCACCTTTGCACTGAGT+TGG | - | chr5_2:21731569-21731588 | None:intergenic | 45.0% | |
| GGCACTGTGTGCATTTATAG+TGG | + | chr5_2:21731793-21731812 | Msa0763040:intron | 45.0% | |
| GCAAGAACTTTCCAGTTTGG+TGG | - | chr5_2:21731932-21731951 | None:intergenic | 45.0% | |
| GAAGAAGAACAAGGATTCCG+TGG | + | chr5_2:21732209-21732228 | Msa0763040:CDS | 45.0% | |
| ACAAGGATTCCGTGGAAGAA+AGG | + | chr5_2:21732217-21732236 | Msa0763040:CDS | 45.0% | |
| GCTTCCTTGTGAGCCATATC+AGG | - | chr5_2:21731349-21731368 | None:intergenic | 50.0% | |
| ! | TCACCTTTGCACTGAGTTGG+GGG | - | chr5_2:21731566-21731585 | None:intergenic | 50.0% |
| TGTGGATCTTGACTCCCAAG+TGG | + | chr5_2:21731616-21731635 | Msa0763040:CDS | 50.0% | |
| TGTCCCCCAACTCAGTGCAA+AGG | + | chr5_2:21731560-21731579 | Msa0763040:CDS | 55.0% | |
| AGCTTCATGGGGGTCCACTT+GGG | - | chr5_2:21731633-21731652 | None:intergenic | 55.0% | |
| CAGCTTCATGGGGGTCCACT+TGG | - | chr5_2:21731634-21731653 | None:intergenic | 60.0% | |
| AGTGGACCCCCATGAAGCTG+AGG | + | chr5_2:21731634-21731653 | Msa0763040:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_2 | gene | 21730503 | 21732280 | 21730503 | ID=Msa0763040;Name=Msa0763040 |
| chr5_2 | mRNA | 21730503 | 21732280 | 21730503 | ID=Msa0763040-mRNA-1;Parent=Msa0763040;Name=Msa0763040-mRNA-1;_AED=0.16;_eAED=0.16;_QI=0|0.66|0.42|1|1|1|7|0|217 |
| chr5_2 | exon | 21730503 | 21730583 | 21730503 | ID=Msa0763040-mRNA-1:exon:9032;Parent=Msa0763040-mRNA-1 |
| chr5_2 | exon | 21730702 | 21730836 | 21730702 | ID=Msa0763040-mRNA-1:exon:9033;Parent=Msa0763040-mRNA-1 |
| chr5_2 | exon | 21730950 | 21731079 | 21730950 | ID=Msa0763040-mRNA-1:exon:9034;Parent=Msa0763040-mRNA-1 |
| chr5_2 | exon | 21731173 | 21731221 | 21731173 | ID=Msa0763040-mRNA-1:exon:9035;Parent=Msa0763040-mRNA-1 |
| chr5_2 | exon | 21731315 | 21731390 | 21731315 | ID=Msa0763040-mRNA-1:exon:9036;Parent=Msa0763040-mRNA-1 |
| chr5_2 | exon | 21731551 | 21731655 | 21731551 | ID=Msa0763040-mRNA-1:exon:9037;Parent=Msa0763040-mRNA-1 |
| chr5_2 | exon | 21732203 | 21732280 | 21732203 | ID=Msa0763040-mRNA-1:exon:9038;Parent=Msa0763040-mRNA-1 |
| chr5_2 | CDS | 21730503 | 21730583 | 21730503 | ID=Msa0763040-mRNA-1:cds;Parent=Msa0763040-mRNA-1 |
| chr5_2 | CDS | 21730702 | 21730836 | 21730702 | ID=Msa0763040-mRNA-1:cds;Parent=Msa0763040-mRNA-1 |
| chr5_2 | CDS | 21730950 | 21731079 | 21730950 | ID=Msa0763040-mRNA-1:cds;Parent=Msa0763040-mRNA-1 |
| chr5_2 | CDS | 21731173 | 21731221 | 21731173 | ID=Msa0763040-mRNA-1:cds;Parent=Msa0763040-mRNA-1 |
| chr5_2 | CDS | 21731315 | 21731390 | 21731315 | ID=Msa0763040-mRNA-1:cds;Parent=Msa0763040-mRNA-1 |
| chr5_2 | CDS | 21731551 | 21731655 | 21731551 | ID=Msa0763040-mRNA-1:cds;Parent=Msa0763040-mRNA-1 |
| chr5_2 | CDS | 21732203 | 21732280 | 21732203 | ID=Msa0763040-mRNA-1:cds;Parent=Msa0763040-mRNA-1 |
| Gene Sequence |
| Protein sequence |
