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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0171020 | XP_024637191.1 | 95.283 | 106 | 5 | 0 | 1 | 106 | 1 | 106 | 3.03e-71 | 217 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0171020 | sp|Q9T096|YIPL6_ARATH | 69.231 | 104 | 32 | 0 | 1 | 104 | 1 | 104 | 3.92e-53 | 164 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0171020 | A0A396JQD0 | 95.283 | 106 | 5 | 0 | 1 | 106 | 1 | 106 | 1.45e-71 | 217 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0031050 | Msa0171020 | 0.875851 | 2.223979e-68 | -8.615850e-47 |
| Msa0031090 | Msa0171020 | 0.850477 | 1.656263e-60 | -8.615850e-47 |
| Msa0078430 | Msa0171020 | 0.879413 | 1.271257e-69 | -8.615850e-47 |
| Msa0118380 | Msa0171020 | 0.815867 | 7.418107e-52 | -8.615850e-47 |
| Msa0126090 | Msa0171020 | 0.892873 | 1.061816e-74 | -8.615850e-47 |
| Msa0139720 | Msa0171020 | -0.803315 | 3.696379e-49 | -8.615850e-47 |
| Msa0171020 | Msa0182930 | 0.802157 | 6.408744e-49 | -8.615850e-47 |
| Msa0171020 | Msa0282170 | 0.817505 | 3.184382e-52 | -8.615850e-47 |
| Msa0171020 | Msa0398730 | 0.802539 | 5.347216e-49 | -8.615850e-47 |
| Msa0171020 | Msa0419970 | 0.800888 | 1.166554e-48 | -8.615850e-47 |
| Msa0171020 | Msa0462590 | 0.802204 | 6.268690e-49 | -8.615850e-47 |
| Msa0171020 | Msa0466060 | 0.803902 | 2.792805e-49 | -8.615850e-47 |
| Msa0171020 | Msa0555950 | 0.801372 | 9.286854e-49 | -8.615850e-47 |
| Msa0171020 | Msa0610370 | 0.806095 | 9.716879e-50 | -8.615850e-47 |
| Msa0171020 | Msa0714600 | 0.802246 | 6.143391e-49 | -8.615850e-47 |
| Msa0171020 | Msa0734660 | 0.812062 | 5.122059e-51 | -8.615850e-47 |
| Msa0171020 | Msa0773610 | 0.813002 | 3.189946e-51 | -8.615850e-47 |
| Msa0171020 | Msa0776220 | 0.816577 | 5.148601e-52 | -8.615850e-47 |
| Msa0171020 | Msa0854120 | 0.807597 | 4.676847e-50 | -8.615850e-47 |
| Msa0171020 | Msa0870620 | 0.811342 | 7.344343e-51 | -8.615850e-47 |
| Msa0171020 | Msa0951710 | 0.800435 | 1.443381e-48 | -8.615850e-47 |
| Msa0171020 | Msa1132560 | -0.806291 | 8.834957e-50 | -8.615850e-47 |
| Msa0171020 | Msa1187520 | 0.822003 | 2.987737e-53 | -8.615850e-47 |
| Msa0171020 | Msa1199560 | 0.800258 | 1.568156e-48 | -8.615850e-47 |
| Msa0171020 | Msa1282920 | 0.827064 | 1.922765e-54 | -8.615850e-47 |
| Msa0171020 | Msa1342430 | 0.806287 | 8.850787e-50 | -8.615850e-47 |
| Msa0171020 | Msa1435370 | 0.802228 | 6.198881e-49 | -8.615850e-47 |
| Msa0171020 | Msa1440910 | 0.800085 | 1.700320e-48 | -8.615850e-47 |
| Msa0171020 | Msa1450020 | 0.813606 | 2.350952e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0171020 | MtrunA17_Chr1g0188931 | 95.283 | 106 | 5 | 0 | 1 | 106 | 1 | 106 | 2.78e-75 | 217 |
| Msa0171020 | MtrunA17_Chr3g0127211 | 74.286 | 105 | 27 | 0 | 1 | 105 | 1 | 105 | 6.48e-56 | 168 |
| Msa0171020 | MtrunA17_Chr8g0346501 | 64.706 | 102 | 36 | 0 | 1 | 102 | 1 | 102 | 9.15e-48 | 148 |
| Msa0171020 | MtrunA17_Chr2g0316921 | 50.526 | 95 | 47 | 0 | 8 | 102 | 12 | 106 | 1.39e-34 | 115 |
| Msa0171020 | MtrunA17_Chr3g0113291 | 47.872 | 94 | 49 | 0 | 8 | 101 | 35 | 128 | 1.06e-32 | 111 |
| Msa0171020 | MtrunA17_Chr8g0360291 | 46.392 | 97 | 52 | 0 | 8 | 104 | 12 | 108 | 4.80e-32 | 108 |
| Msa0171020 | MtrunA17_Chr5g0436971 | 46.809 | 94 | 50 | 0 | 8 | 101 | 12 | 105 | 2.05e-31 | 107 |
| Msa0171020 | MtrunA17_Chr7g0242231 | 48.936 | 94 | 48 | 0 | 9 | 102 | 13 | 106 | 8.29e-30 | 103 |
| Msa0171020 | MtrunA17_Chr4g0046851 | 45.263 | 95 | 52 | 0 | 8 | 102 | 12 | 106 | 8.38e-30 | 103 |
| Msa0171020 | MtrunA17_Chr1g0188951 | 65.079 | 63 | 22 | 0 | 44 | 106 | 1 | 63 | 1.30e-26 | 93.2 |
| Msa0171020 | MtrunA17_Chr2g0316891 | 46.154 | 65 | 35 | 0 | 40 | 104 | 42 | 106 | 5.35e-21 | 80.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0171020 | AT4G27745.2 | 69.231 | 104 | 32 | 0 | 1 | 104 | 1 | 104 | 3.98e-54 | 164 |
| Msa0171020 | AT4G27745.3 | 69.231 | 104 | 32 | 0 | 1 | 104 | 1 | 104 | 3.98e-54 | 164 |
| Msa0171020 | AT4G27745.1 | 69.231 | 104 | 32 | 0 | 1 | 104 | 1 | 104 | 3.98e-54 | 164 |
| Msa0171020 | AT4G27745.4 | 69.231 | 104 | 32 | 0 | 1 | 104 | 1 | 104 | 3.98e-54 | 164 |
| Msa0171020 | AT5G53940.1 | 46.392 | 97 | 52 | 0 | 8 | 104 | 12 | 108 | 6.67e-34 | 114 |
| Msa0171020 | AT4G27740.1 | 47.872 | 94 | 49 | 0 | 10 | 103 | 10 | 103 | 7.18e-33 | 110 |
| Msa0171020 | AT3G11230.1 | 47.872 | 94 | 49 | 0 | 8 | 101 | 12 | 105 | 4.94e-31 | 107 |
| Msa0171020 | AT3G11230.4 | 48.352 | 91 | 47 | 0 | 8 | 98 | 12 | 102 | 1.36e-30 | 105 |
| Msa0171020 | AT3G11230.2 | 47.872 | 94 | 49 | 0 | 8 | 101 | 45 | 138 | 1.73e-30 | 106 |
| Msa0171020 | AT2G40110.1 | 45.745 | 94 | 51 | 0 | 8 | 101 | 12 | 105 | 4.82e-30 | 104 |
| Msa0171020 | AT3G11230.3 | 49.438 | 89 | 45 | 0 | 10 | 98 | 47 | 135 | 5.32e-30 | 104 |
| Msa0171020 | AT3G08990.2 | 46.809 | 94 | 50 | 0 | 9 | 102 | 13 | 106 | 7.94e-30 | 103 |
| Msa0171020 | AT3G08990.1 | 46.809 | 94 | 50 | 0 | 9 | 102 | 13 | 106 | 7.94e-30 | 103 |
| Msa0171020 | AT3G08990.3 | 46.809 | 94 | 50 | 0 | 9 | 102 | 13 | 106 | 7.94e-30 | 103 |
| Msa0171020 | AT2G40110.2 | 45.055 | 91 | 50 | 0 | 8 | 98 | 12 | 102 | 2.13e-29 | 102 |
| Msa0171020 | AT3G55890.4 | 45.745 | 94 | 51 | 0 | 8 | 101 | 12 | 105 | 3.82e-29 | 102 |
| Msa0171020 | AT3G55890.1 | 45.745 | 94 | 51 | 0 | 8 | 101 | 12 | 105 | 3.82e-29 | 102 |
| Msa0171020 | AT3G55890.3 | 46.067 | 89 | 48 | 0 | 9 | 97 | 13 | 101 | 8.64e-29 | 100 |
| Msa0171020 | AT3G55890.2 | 46.067 | 89 | 48 | 0 | 9 | 97 | 13 | 101 | 8.64e-29 | 100 |
| Msa0171020 | AT2G40110.4 | 41.667 | 72 | 42 | 0 | 8 | 79 | 12 | 83 | 1.41e-20 | 79.3 |
| Msa0171020 | AT2G40110.3 | 41.667 | 72 | 42 | 0 | 8 | 79 | 12 | 83 | 1.41e-20 | 79.3 |
Find 20 sgRNAs with CRISPR-Local
Find 68 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTGAGAAGTCTAAAATTGTT+AGG | 0.250834 | 1_4:-55523547 | Msa0171020:CDS |
| ATGAATTCCATGTCTACTTT+TGG | 0.252538 | 1_4:+55523686 | None:intergenic |
| ATATAATTTCAGGGAAGAAA+TGG | 0.360217 | 1_4:-55523752 | Msa0171020:intron |
| TTTGAAATGGAGAGTTTCAT+TGG | 0.374840 | 1_4:-55524280 | None:intergenic |
| CATGCAATGAATGTCACAAT+AGG | 0.409276 | 1_4:-55523710 | Msa0171020:CDS |
| TGAGAAGTCTAAAATTGTTA+GGG | 0.424108 | 1_4:-55523546 | Msa0171020:CDS |
| AGTAAACATCAGCAATTGTA+TGG | 0.440083 | 1_4:+55523654 | None:intergenic |
| TTGAAATAATATCATCATGA+AGG | 0.440185 | 1_4:+55524215 | None:intergenic |
| ATGCAATGAATGTCACAATA+GGG | 0.486721 | 1_4:-55523709 | Msa0171020:CDS |
| TGAAATAATATCATCATGAA+GGG | 0.490512 | 1_4:+55524216 | None:intergenic |
| TGTGACTGCAATCAAGTGCT+TGG | 0.515226 | 1_4:-55523629 | Msa0171020:CDS |
| ACTGCAATCAAGTGCTTGGT+TGG | 0.543372 | 1_4:-55523625 | Msa0171020:CDS |
| TGAGAGAGTGTTCACCTGAA+AGG | 0.545507 | 1_4:+55524189 | None:intergenic |
| TTTCAGGGAAGAAATGGAAG+AGG | 0.547363 | 1_4:-55523746 | Msa0171020:intron |
| GAAGTTTGAGAGAGTCTATG+AGG | 0.548405 | 1_4:-55523603 | Msa0171020:CDS |
| GTAGACATGGAATTCATGAC+AGG | 0.597395 | 1_4:-55523680 | Msa0171020:CDS |
| TGAGGAAACTCAAAAGTACA+AGG | 0.598867 | 1_4:-55523585 | Msa0171020:CDS |
| AATAGGGCCAAAAGTAGACA+TGG | 0.602332 | 1_4:-55523693 | Msa0171020:CDS |
| GAAACTCAAAAGTACAAGGA+AGG | 0.606538 | 1_4:-55523581 | Msa0171020:CDS |
| TATCATCATGAAGGGCAACA+TGG | 0.616437 | 1_4:+55524224 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAATTATATATAAATGAACT+TGG | + | chr1_4:55524046-55524065 | None:intergenic | 10.0% |
| !! | TTCATTTATATATAATTTCA+GGG | - | chr1_4:55524048-55524067 | Msa0171020:intron | 10.0% |
| !! | AAATTATATATAAATGAACT+TGG | + | chr1_4:55524046-55524065 | None:intergenic | 10.0% |
| !! | TTCATTTATATATAATTTCA+GGG | - | chr1_4:55524048-55524067 | Msa0171020:intron | 10.0% |
| !!! | GTATCAAAAATTCTTTAAAA+TGG | + | chr1_4:55523763-55523782 | None:intergenic | 15.0% |
| !!! | TATAAGAACGTTATATATTT+TGG | - | chr1_4:55523968-55523987 | Msa0171020:intron | 15.0% |
| !! | CAATTTATAATAACATGTTT+AGG | - | chr1_4:55524004-55524023 | Msa0171020:intron | 15.0% |
| !! | GTTCATTTATATATAATTTC+AGG | - | chr1_4:55524047-55524066 | Msa0171020:intron | 15.0% |
| !!! | GTATCAAAAATTCTTTAAAA+TGG | + | chr1_4:55523763-55523782 | None:intergenic | 15.0% |
| !!! | TATAAGAACGTTATATATTT+TGG | - | chr1_4:55523968-55523987 | Msa0171020:intron | 15.0% |
| !! | CAATTTATAATAACATGTTT+AGG | - | chr1_4:55524004-55524023 | Msa0171020:intron | 15.0% |
| !! | GTTCATTTATATATAATTTC+AGG | - | chr1_4:55524047-55524066 | Msa0171020:intron | 15.0% |
| !! | TGAAATAATATCATCATGAA+GGG | + | chr1_4:55523596-55523615 | None:intergenic | 20.0% |
| !! | TTGAAATAATATCATCATGA+AGG | + | chr1_4:55523597-55523616 | None:intergenic | 20.0% |
| !! | TATTATTTCAAAAACCTTTC+AGG | - | chr1_4:55523606-55523625 | Msa0171020:CDS | 20.0% |
| !! | AAAGAATACAAATCAAATGT+AGG | + | chr1_4:55523705-55523724 | None:intergenic | 20.0% |
| !!! | ATACAATGAAAGTATGAAAA+TGG | + | chr1_4:55523789-55523808 | None:intergenic | 20.0% |
| !! | TGAAATAATATCATCATGAA+GGG | + | chr1_4:55523596-55523615 | None:intergenic | 20.0% |
| !! | TTGAAATAATATCATCATGA+AGG | + | chr1_4:55523597-55523616 | None:intergenic | 20.0% |
| !! | TATTATTTCAAAAACCTTTC+AGG | - | chr1_4:55523606-55523625 | Msa0171020:CDS | 20.0% |
| !! | AAAGAATACAAATCAAATGT+AGG | + | chr1_4:55523705-55523724 | None:intergenic | 20.0% |
| !!! | ATACAATGAAAGTATGAAAA+TGG | + | chr1_4:55523789-55523808 | None:intergenic | 20.0% |
| ! | TTCCAAATCTTAATAGAGAA+AGG | + | chr1_4:55523646-55523665 | None:intergenic | 25.0% |
| ! | TCACAAAAGTTGTCTAAAAA+TGG | - | chr1_4:55523864-55523883 | Msa0171020:intron | 25.0% |
| ! | ATATAATTTCAGGGAAGAAA+TGG | - | chr1_4:55524057-55524076 | Msa0171020:intron | 25.0% |
| !! | TTGAGAAGTCTAAAATTGTT+AGG | - | chr1_4:55524262-55524281 | Msa0171020:CDS | 25.0% |
| !! | TGAGAAGTCTAAAATTGTTA+GGG | - | chr1_4:55524263-55524282 | Msa0171020:CDS | 25.0% |
| ! | TTCCAAATCTTAATAGAGAA+AGG | + | chr1_4:55523646-55523665 | None:intergenic | 25.0% |
| ! | TCACAAAAGTTGTCTAAAAA+TGG | - | chr1_4:55523864-55523883 | Msa0171020:intron | 25.0% |
| ! | ATATAATTTCAGGGAAGAAA+TGG | - | chr1_4:55524057-55524076 | Msa0171020:intron | 25.0% |
| !! | TTGAGAAGTCTAAAATTGTT+AGG | - | chr1_4:55524262-55524281 | Msa0171020:CDS | 25.0% |
| !! | TGAGAAGTCTAAAATTGTTA+GGG | - | chr1_4:55524263-55524282 | Msa0171020:CDS | 25.0% |
| CACCTTTCTCTATTAAGATT+TGG | - | chr1_4:55523641-55523660 | Msa0171020:CDS | 30.0% | |
| ATCAACACAGTATAAACATG+TGG | - | chr1_4:55523675-55523694 | Msa0171020:CDS | 30.0% | |
| ! | GCACATGTGTTAGAATTTTT+GGG | + | chr1_4:55523939-55523958 | None:intergenic | 30.0% |
| ! | TGCACATGTGTTAGAATTTT+TGG | + | chr1_4:55523940-55523959 | None:intergenic | 30.0% |
| ATGCAATGAATGTCACAATA+GGG | - | chr1_4:55524100-55524119 | Msa0171020:intron | 30.0% | |
| ! | ATGAATTCCATGTCTACTTT+TGG | + | chr1_4:55524126-55524145 | None:intergenic | 30.0% |
| AGTAAACATCAGCAATTGTA+TGG | + | chr1_4:55524158-55524177 | None:intergenic | 30.0% | |
| CACCTTTCTCTATTAAGATT+TGG | - | chr1_4:55523641-55523660 | Msa0171020:CDS | 30.0% | |
| ATCAACACAGTATAAACATG+TGG | - | chr1_4:55523675-55523694 | Msa0171020:CDS | 30.0% | |
| ! | GCACATGTGTTAGAATTTTT+GGG | + | chr1_4:55523939-55523958 | None:intergenic | 30.0% |
| ! | TGCACATGTGTTAGAATTTT+TGG | + | chr1_4:55523940-55523959 | None:intergenic | 30.0% |
| ATGCAATGAATGTCACAATA+GGG | - | chr1_4:55524100-55524119 | Msa0171020:intron | 30.0% | |
| ! | ATGAATTCCATGTCTACTTT+TGG | + | chr1_4:55524126-55524145 | None:intergenic | 30.0% |
| AGTAAACATCAGCAATTGTA+TGG | + | chr1_4:55524158-55524177 | None:intergenic | 30.0% | |
| CATGCAATGAATGTCACAAT+AGG | - | chr1_4:55524099-55524118 | Msa0171020:intron | 35.0% | |
| ! | TGAGGAAACTCAAAAGTACA+AGG | - | chr1_4:55524224-55524243 | Msa0171020:CDS | 35.0% |
| ! | GAAACTCAAAAGTACAAGGA+AGG | - | chr1_4:55524228-55524247 | Msa0171020:CDS | 35.0% |
| CATGCAATGAATGTCACAAT+AGG | - | chr1_4:55524099-55524118 | Msa0171020:intron | 35.0% | |
| ! | TGAGGAAACTCAAAAGTACA+AGG | - | chr1_4:55524224-55524243 | Msa0171020:CDS | 35.0% |
| ! | GAAACTCAAAAGTACAAGGA+AGG | - | chr1_4:55524228-55524247 | Msa0171020:CDS | 35.0% |
| TATCATCATGAAGGGCAACA+TGG | + | chr1_4:55523588-55523607 | None:intergenic | 40.0% | |
| TTTCAGGGAAGAAATGGAAG+AGG | - | chr1_4:55524063-55524082 | Msa0171020:intron | 40.0% | |
| AATAGGGCCAAAAGTAGACA+TGG | - | chr1_4:55524116-55524135 | Msa0171020:intron | 40.0% | |
| GTAGACATGGAATTCATGAC+AGG | - | chr1_4:55524129-55524148 | Msa0171020:intron | 40.0% | |
| GAAGTTTGAGAGAGTCTATG+AGG | - | chr1_4:55524206-55524225 | Msa0171020:CDS | 40.0% | |
| TATCATCATGAAGGGCAACA+TGG | + | chr1_4:55523588-55523607 | None:intergenic | 40.0% | |
| TTTCAGGGAAGAAATGGAAG+AGG | - | chr1_4:55524063-55524082 | Msa0171020:intron | 40.0% | |
| AATAGGGCCAAAAGTAGACA+TGG | - | chr1_4:55524116-55524135 | Msa0171020:intron | 40.0% | |
| GTAGACATGGAATTCATGAC+AGG | - | chr1_4:55524129-55524148 | Msa0171020:intron | 40.0% | |
| GAAGTTTGAGAGAGTCTATG+AGG | - | chr1_4:55524206-55524225 | Msa0171020:CDS | 40.0% | |
| !! | TGAGAGAGTGTTCACCTGAA+AGG | + | chr1_4:55523623-55523642 | None:intergenic | 45.0% |
| TGTGACTGCAATCAAGTGCT+TGG | - | chr1_4:55524180-55524199 | Msa0171020:intron | 45.0% | |
| ACTGCAATCAAGTGCTTGGT+TGG | - | chr1_4:55524184-55524203 | Msa0171020:intron | 45.0% | |
| !! | TGAGAGAGTGTTCACCTGAA+AGG | + | chr1_4:55523623-55523642 | None:intergenic | 45.0% |
| TGTGACTGCAATCAAGTGCT+TGG | - | chr1_4:55524180-55524199 | Msa0171020:intron | 45.0% | |
| ACTGCAATCAAGTGCTTGGT+TGG | - | chr1_4:55524184-55524203 | Msa0171020:intron | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_4 | gene | 55523535 | 55524296 | 55523535 | ID=Msa0171020;Name=Msa0171020 |
| chr1_4 | mRNA | 55523535 | 55524296 | 55523535 | ID=Msa0171020-mRNA-1;Parent=Msa0171020;Name=Msa0171020-mRNA-1;_AED=0.41;_eAED=0.41;_QI=0|0|0|1|1|1|2|0|106 |
| chr1_4 | exon | 55524204 | 55524296 | 55524204 | ID=Msa0171020-mRNA-1:exon:16654;Parent=Msa0171020-mRNA-1 |
| chr1_4 | exon | 55523535 | 55523762 | 55523535 | ID=Msa0171020-mRNA-1:exon:16653;Parent=Msa0171020-mRNA-1 |
| chr1_4 | CDS | 55524204 | 55524296 | 55524204 | ID=Msa0171020-mRNA-1:cds;Parent=Msa0171020-mRNA-1 |
| chr1_4 | CDS | 55523535 | 55523762 | 55523535 | ID=Msa0171020-mRNA-1:cds;Parent=Msa0171020-mRNA-1 |
| Gene Sequence |
| Protein sequence |
