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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0638460 | XP_003608377.2 | 99.359 | 156 | 1 | 0 | 1 | 156 | 109 | 264 | 8.17e-109 | 320 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0638460 | sp|O82225|GGP5_ARATH | 45.775 | 142 | 75 | 1 | 1 | 140 | 106 | 247 | 9.10e-40 | 137 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0613920 | Msa0638460 | 0.847340 | 1.230189e-59 | -8.615850e-47 |
| Msa0638460 | Msa0697080 | 0.841731 | 3.977613e-58 | -8.615850e-47 |
| Msa0559790 | Msa0638460 | 0.816114 | 6.533908e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0638460 | MtrunA17_Chr4g0049711 | 99.359 | 156 | 1 | 0 | 1 | 156 | 109 | 264 | 7.51e-113 | 320 |
| Msa0638460 | MtrunA17_Chr5g0437541 | 74.468 | 141 | 34 | 1 | 1 | 141 | 3 | 141 | 3.39e-74 | 218 |
| Msa0638460 | MtrunA17_Chr2g0279701 | 55.714 | 140 | 59 | 1 | 1 | 140 | 108 | 244 | 1.21e-47 | 154 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0638460 | AT2G23970.1 | 45.775 | 142 | 75 | 1 | 1 | 140 | 106 | 247 | 9.25e-41 | 137 |
| Msa0638460 | AT4G30550.1 | 41.549 | 142 | 80 | 1 | 1 | 139 | 108 | 249 | 9.48e-37 | 127 |
| Msa0638460 | AT4G30540.1 | 45.714 | 140 | 76 | 0 | 1 | 140 | 106 | 245 | 2.77e-35 | 123 |
| Msa0638460 | AT2G23960.1 | 40.000 | 140 | 82 | 1 | 1 | 138 | 105 | 244 | 4.17e-31 | 112 |
| Msa0638460 | AT4G30530.1 | 37.324 | 142 | 87 | 1 | 1 | 140 | 105 | 246 | 5.17e-29 | 107 |
| Msa0638460 | AT2G23960.2 | 42.308 | 104 | 58 | 1 | 1 | 102 | 105 | 208 | 3.15e-23 | 91.3 |
Find 61 sgRNAs with CRISPR-Local
Find 71 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTCTTCCATGCCTCCTTATC+TGG | 0.241065 | 4_3:-33963844 | None:intergenic |
| TAGATATGGAGATCACATTA+TGG | 0.306527 | 4_3:+33963566 | Msa0638460:CDS |
| AAGGGTACCACCACTAATTA+AGG | 0.317800 | 4_3:+33963983 | Msa0638460:three_prime_UTR |
| GGAATAGAAAATATAAATAT+TGG | 0.322855 | 4_3:+33963910 | Msa0638460:CDS |
| TGTTAATTTGATTAGATACT+TGG | 0.341295 | 4_3:+33963185 | None:intergenic |
| ATCCCTGTGGCATTGAATAA+TGG | 0.342555 | 4_3:-33963330 | None:intergenic |
| TGTGCTAAAGTACAAATTCA+TGG | 0.357071 | 4_3:+33964208 | Msa0638460:three_prime_UTR |
| TAGATACTTGGCCGTGCAAT+TGG | 0.364461 | 4_3:+33963197 | None:intergenic |
| GGAATTGAGATGTTTAGATA+TGG | 0.367188 | 4_3:+33963552 | Msa0638460:CDS |
| TCTCCAACTGGCTGGGACAT+TGG | 0.414581 | 4_3:+33963236 | Msa0638460:CDS |
| AGATATGGAGATCACATTAT+GGG | 0.414653 | 4_3:+33963567 | Msa0638460:CDS |
| GGTCGTTATTGTGAAAGAAA+TGG | 0.428460 | 4_3:+33963889 | Msa0638460:CDS |
| AATATTTACAATTTCACATC+AGG | 0.432082 | 4_3:-33964079 | None:intergenic |
| TGAATAATGGAAAGCTTCGT+TGG | 0.450003 | 4_3:-33963317 | None:intergenic |
| TTAATTAAGAAAATGTAGAA+AGG | 0.481066 | 4_3:+33964157 | Msa0638460:three_prime_UTR |
| TTTCCATTATTCAATGCCAC+AGG | 0.486719 | 4_3:+33963327 | Msa0638460:CDS |
| TGAAGGAGAAGGCTGGTATG+TGG | 0.491137 | 4_3:+33963818 | Msa0638460:CDS |
| AAAGAAATCCCAAATTCAAA+AGG | 0.492126 | 4_3:-33964136 | None:intergenic |
| AAGGTGACTCGATCTCCAAC+TGG | 0.496252 | 4_3:+33963224 | Msa0638460:CDS |
| TGACTCGATCTCCAACTGGC+TGG | 0.497560 | 4_3:+33963228 | Msa0638460:CDS |
| GACTCGATCTCCAACTGGCT+GGG | 0.497877 | 4_3:+33963229 | Msa0638460:CDS |
| TCTAAAGTAGGAATCGTGTA+TGG | 0.498414 | 4_3:+33963941 | Msa0638460:exon |
| TTGGTGGTATATTCTAAAGT+AGG | 0.501303 | 4_3:+33963929 | Msa0638460:exon |
| GCAATCACTTCAGCCTTGGC+AGG | 0.507796 | 4_3:-33963513 | None:intergenic |
| TGCTATGAGATTGAAGGAGA+AGG | 0.513622 | 4_3:+33963807 | Msa0638460:CDS |
| GACAAAGGAGATGGCAAAGA+GGG | 0.513633 | 4_3:-33963281 | None:intergenic |
| AGGGTGATAATGTTATGTTT+CGG | 0.519404 | 4_3:-33963262 | None:intergenic |
| ATACTTGGCCGTGCAATTGG+AGG | 0.519944 | 4_3:+33963200 | Msa0638460:CDS |
| TGGTATGTGGGAGCCAGATA+AGG | 0.526816 | 4_3:+33963831 | Msa0638460:CDS |
| ATTGCTAAATCAGATAAGAC+TGG | 0.527568 | 4_3:+33963531 | Msa0638460:CDS |
| TTTAGCAATCACTTCAGCCT+TGG | 0.530782 | 4_3:-33963517 | None:intergenic |
| TAGAGTACTCAGGATGACCT+TGG | 0.533908 | 4_3:-33963593 | None:intergenic |
| TATTCAATGCCACAGGGATG+AGG | 0.540762 | 4_3:+33963334 | Msa0638460:CDS |
| AACACATGCATCTAGCTAGC+TGG | 0.545938 | 4_3:-33964019 | None:intergenic |
| TGAAATTTCGCTGAATAAGA+CGG | 0.555005 | 4_3:-33963641 | None:intergenic |
| ATAGAAAATATAAATATTGG+TGG | 0.558147 | 4_3:+33963913 | Msa0638460:CDS |
| GCTAAGAGAGCTACCTGCCA+AGG | 0.562053 | 4_3:+33963500 | Msa0638460:intron |
| TCAAGAGAAGACAAAGGAGA+TGG | 0.563452 | 4_3:-33963290 | None:intergenic |
| ACTATGCATCAGCTTCCTCA+AGG | 0.566000 | 4_3:+33963867 | Msa0638460:CDS |
| ACACCAATGTCCCAGCCAGT+TGG | 0.568855 | 4_3:-33963239 | None:intergenic |
| ATGTGCCACACCTTAATTAG+TGG | 0.570972 | 4_3:-33963993 | None:intergenic |
| GAAGGAGAAGGCTGGTATGT+GGG | 0.577034 | 4_3:+33963819 | Msa0638460:CDS |
| TGGCCGTGCAATTGGAGGGA+AGG | 0.591128 | 4_3:+33963205 | Msa0638460:CDS |
| TACTTGGCCGTGCAATTGGA+GGG | 0.593875 | 4_3:+33963201 | Msa0638460:CDS |
| GATCACATTATGGGAATCCA+AGG | 0.596532 | 4_3:+33963576 | Msa0638460:CDS |
| ATGAGATTGAAGGAGAAGGC+TGG | 0.598435 | 4_3:+33963811 | Msa0638460:CDS |
| AGACAAAGGAGATGGCAAAG+AGG | 0.600946 | 4_3:-33963282 | None:intergenic |
| AAAAGTTAATAGGAAACTAA+GGG | 0.606602 | 4_3:+33963965 | Msa0638460:three_prime_UTR |
| TCACCTTCCCTCCAATTGCA+CGG | 0.609277 | 4_3:-33963208 | None:intergenic |
| TTCCATTATTCAATGCCACA+GGG | 0.610578 | 4_3:+33963328 | Msa0638460:CDS |
| GGGAGCCAGATAAGGAGGCA+TGG | 0.620410 | 4_3:+33963839 | Msa0638460:CDS |
| TAAGAAAATGTAGAAAGGCG+TGG | 0.624356 | 4_3:+33964162 | Msa0638460:three_prime_UTR |
| GGAAGTTCAAGAGAAGACAA+AGG | 0.628531 | 4_3:-33963296 | None:intergenic |
| CTATGCATCAGCTTCCTCAA+GGG | 0.636887 | 4_3:+33963868 | Msa0638460:CDS |
| AGAATGTCTTTAGAGTACTC+AGG | 0.643445 | 4_3:-33963603 | None:intergenic |
| TATGTGGGAGCCAGATAAGG+AGG | 0.645828 | 4_3:+33963834 | Msa0638460:CDS |
| TGCCACACCTTAATTAGTGG+TGG | 0.659942 | 4_3:-33963990 | None:intergenic |
| TATTCAGCGAAATTTCATCA+CGG | 0.662548 | 4_3:+33963647 | Msa0638460:CDS |
| TACCACCACTAATTAAGGTG+TGG | 0.665052 | 4_3:+33963988 | Msa0638460:three_prime_UTR |
| TTTCACAATAACGACCCTTG+AGG | 0.678121 | 4_3:-33963882 | None:intergenic |
| GTACACACACCTCATCCCTG+TGG | 0.760386 | 4_3:-33963343 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATGATAATGTTAATTTAATA+AGG | - | chr4_3:33963384-33963403 | None:intergenic | 10.0% |
| !! | ATAAATAAATGAAGTAATAA+AGG | - | chr4_3:33963688-33963707 | None:intergenic | 10.0% |
| !! | TATTACTTCATTTATTTATT+TGG | + | chr4_3:33963689-33963708 | Msa0638460:intron | 10.0% |
| !! | TTAATCGTAATTAAATTTAC+TGG | + | chr4_3:33963761-33963780 | Msa0638460:intron | 15.0% |
| !! | GGAATAGAAAATATAAATAT+TGG | + | chr4_3:33963910-33963929 | Msa0638460:CDS | 15.0% |
| !! | ATAGAAAATATAAATATTGG+TGG | + | chr4_3:33963913-33963932 | Msa0638460:CDS | 15.0% |
| !! | TTAATTAAGAAAATGTAGAA+AGG | + | chr4_3:33964157-33964176 | Msa0638460:three_prime_UTR | 15.0% |
| !!! | TTTTTTTTTAATCATAGCAC+AGG | + | chr4_3:33963426-33963445 | Msa0638460:intron | 20.0% |
| !!! | TCTTGATATATTTCTTCTTT+TGG | + | chr4_3:33963464-33963483 | Msa0638460:intron | 20.0% |
| !! | AAAAAGTTAATAGGAAACTA+AGG | + | chr4_3:33963964-33963983 | Msa0638460:three_prime_UTR | 20.0% |
| !! | AAAAGTTAATAGGAAACTAA+GGG | + | chr4_3:33963965-33963984 | Msa0638460:three_prime_UTR | 20.0% |
| !! | AATATTTACAATTTCACATC+AGG | - | chr4_3:33964082-33964101 | None:intergenic | 20.0% |
| ! | GAAGTAATAAAGGAAAATGA+TGG | - | chr4_3:33963678-33963697 | None:intergenic | 25.0% |
| !!! | AAATTTTGCTATGAGATTGA+AGG | + | chr4_3:33963801-33963820 | Msa0638460:CDS | 25.0% |
| !! | AGTTTTCTTCCTTTTGAATT+TGG | + | chr4_3:33964127-33964146 | Msa0638460:three_prime_UTR | 25.0% |
| !! | GTTTTCTTCCTTTTGAATTT+GGG | + | chr4_3:33964128-33964147 | Msa0638460:three_prime_UTR | 25.0% |
| ! | AAAGAAATCCCAAATTCAAA+AGG | - | chr4_3:33964139-33964158 | None:intergenic | 25.0% |
| ! | AGGGTGATAATGTTATGTTT+CGG | - | chr4_3:33963265-33963284 | None:intergenic | 30.0% |
| ATTGCTAAATCAGATAAGAC+TGG | + | chr4_3:33963531-33963550 | Msa0638460:CDS | 30.0% | |
| GGAATTGAGATGTTTAGATA+TGG | + | chr4_3:33963552-33963571 | Msa0638460:CDS | 30.0% | |
| TAGATATGGAGATCACATTA+TGG | + | chr4_3:33963566-33963585 | Msa0638460:CDS | 30.0% | |
| AGATATGGAGATCACATTAT+GGG | + | chr4_3:33963567-33963586 | Msa0638460:CDS | 30.0% | |
| TGAAATTTCGCTGAATAAGA+CGG | - | chr4_3:33963644-33963663 | None:intergenic | 30.0% | |
| TATTCAGCGAAATTTCATCA+CGG | + | chr4_3:33963647-33963666 | Msa0638460:CDS | 30.0% | |
| !! | TTGGTGGTATATTCTAAAGT+AGG | + | chr4_3:33963929-33963948 | Msa0638460:exon | 30.0% |
| CGTGTATGGAAAAAGTTAAT+AGG | + | chr4_3:33963955-33963974 | Msa0638460:three_prime_UTR | 30.0% | |
| ! | TGAATAATGGAAAGCTTCGT+TGG | - | chr4_3:33963320-33963339 | None:intergenic | 35.0% |
| TTTCCATTATTCAATGCCAC+AGG | + | chr4_3:33963327-33963346 | Msa0638460:CDS | 35.0% | |
| TTCCATTATTCAATGCCACA+GGG | + | chr4_3:33963328-33963347 | Msa0638460:CDS | 35.0% | |
| !! | AGAATGTCTTTAGAGTACTC+AGG | - | chr4_3:33963606-33963625 | None:intergenic | 35.0% |
| ! | TTACTGGCTAATGTAATGAC+AGG | + | chr4_3:33963777-33963796 | Msa0638460:intron | 35.0% |
| GGTCGTTATTGTGAAAGAAA+TGG | + | chr4_3:33963889-33963908 | Msa0638460:CDS | 35.0% | |
| ! | TCTAAAGTAGGAATCGTGTA+TGG | + | chr4_3:33963941-33963960 | Msa0638460:exon | 35.0% |
| TAAGAAAATGTAGAAAGGCG+TGG | + | chr4_3:33964162-33964181 | Msa0638460:three_prime_UTR | 35.0% | |
| TCAAGAGAAGACAAAGGAGA+TGG | - | chr4_3:33963293-33963312 | None:intergenic | 40.0% | |
| GGAAGTTCAAGAGAAGACAA+AGG | - | chr4_3:33963299-33963318 | None:intergenic | 40.0% | |
| ! | ATCCCTGTGGCATTGAATAA+TGG | - | chr4_3:33963333-33963352 | None:intergenic | 40.0% |
| TTTAGCAATCACTTCAGCCT+TGG | - | chr4_3:33963520-33963539 | None:intergenic | 40.0% | |
| GATCACATTATGGGAATCCA+AGG | + | chr4_3:33963576-33963595 | Msa0638460:CDS | 40.0% | |
| TGCTATGAGATTGAAGGAGA+AGG | + | chr4_3:33963807-33963826 | Msa0638460:CDS | 40.0% | |
| TTTCACAATAACGACCCTTG+AGG | - | chr4_3:33963885-33963904 | None:intergenic | 40.0% | |
| !! | AAGGGTACCACCACTAATTA+AGG | + | chr4_3:33963983-33964002 | Msa0638460:three_prime_UTR | 40.0% |
| TACCACCACTAATTAAGGTG+TGG | + | chr4_3:33963988-33964007 | Msa0638460:three_prime_UTR | 40.0% | |
| ATGTGCCACACCTTAATTAG+TGG | - | chr4_3:33963996-33964015 | None:intergenic | 40.0% | |
| GACAAAGGAGATGGCAAAGA+GGG | - | chr4_3:33963284-33963303 | None:intergenic | 45.0% | |
| AGACAAAGGAGATGGCAAAG+AGG | - | chr4_3:33963285-33963304 | None:intergenic | 45.0% | |
| TATTCAATGCCACAGGGATG+AGG | + | chr4_3:33963334-33963353 | Msa0638460:CDS | 45.0% | |
| ! | TAGAGTACTCAGGATGACCT+TGG | - | chr4_3:33963596-33963615 | None:intergenic | 45.0% |
| ATGAGATTGAAGGAGAAGGC+TGG | + | chr4_3:33963811-33963830 | Msa0638460:CDS | 45.0% | |
| ACTATGCATCAGCTTCCTCA+AGG | + | chr4_3:33963867-33963886 | Msa0638460:CDS | 45.0% | |
| CTATGCATCAGCTTCCTCAA+GGG | + | chr4_3:33963868-33963887 | Msa0638460:CDS | 45.0% | |
| TGCCACACCTTAATTAGTGG+TGG | - | chr4_3:33963993-33964012 | None:intergenic | 45.0% | |
| AACACATGCATCTAGCTAGC+TGG | - | chr4_3:33964022-33964041 | None:intergenic | 45.0% | |
| ATACTTGGCCGTGCAATTGG+AGG | + | chr4_3:33963200-33963219 | Msa0638460:CDS | 50.0% | |
| TACTTGGCCGTGCAATTGGA+GGG | + | chr4_3:33963201-33963220 | Msa0638460:CDS | 50.0% | |
| TCACCTTCCCTCCAATTGCA+CGG | - | chr4_3:33963211-33963230 | None:intergenic | 50.0% | |
| AAGGTGACTCGATCTCCAAC+TGG | + | chr4_3:33963224-33963243 | Msa0638460:CDS | 50.0% | |
| TGAAGGAGAAGGCTGGTATG+TGG | + | chr4_3:33963818-33963837 | Msa0638460:CDS | 50.0% | |
| GAAGGAGAAGGCTGGTATGT+GGG | + | chr4_3:33963819-33963838 | Msa0638460:CDS | 50.0% | |
| TGGTATGTGGGAGCCAGATA+AGG | + | chr4_3:33963831-33963850 | Msa0638460:CDS | 50.0% | |
| TATGTGGGAGCCAGATAAGG+AGG | + | chr4_3:33963834-33963853 | Msa0638460:CDS | 50.0% | |
| CTCTTCCATGCCTCCTTATC+TGG | - | chr4_3:33963847-33963866 | None:intergenic | 50.0% | |
| TGACTCGATCTCCAACTGGC+TGG | + | chr4_3:33963228-33963247 | Msa0638460:CDS | 55.0% | |
| GACTCGATCTCCAACTGGCT+GGG | + | chr4_3:33963229-33963248 | Msa0638460:CDS | 55.0% | |
| TCTCCAACTGGCTGGGACAT+TGG | + | chr4_3:33963236-33963255 | Msa0638460:CDS | 55.0% | |
| ACACCAATGTCCCAGCCAGT+TGG | - | chr4_3:33963242-33963261 | None:intergenic | 55.0% | |
| GTACACACACCTCATCCCTG+TGG | - | chr4_3:33963346-33963365 | None:intergenic | 55.0% | |
| GCTAAGAGAGCTACCTGCCA+AGG | + | chr4_3:33963500-33963519 | Msa0638460:intron | 55.0% | |
| GCAATCACTTCAGCCTTGGC+AGG | - | chr4_3:33963516-33963535 | None:intergenic | 55.0% | |
| TGGCCGTGCAATTGGAGGGA+AGG | + | chr4_3:33963205-33963224 | Msa0638460:CDS | 60.0% | |
| GGGAGCCAGATAAGGAGGCA+TGG | + | chr4_3:33963839-33963858 | Msa0638460:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 33963200 | 33964227 | 33963200 | ID=Msa0638460;Name=Msa0638460 |
| chr4_3 | mRNA | 33963200 | 33964227 | 33963200 | ID=Msa0638460-mRNA-1;Parent=Msa0638460;Name=Msa0638460-mRNA-1;_AED=0.10;_eAED=0.10;_QI=0|1|0.66|1|1|1|3|282|156 |
| chr4_3 | exon | 33963200 | 33963355 | 33963200 | ID=Msa0638460-mRNA-1:exon:7657;Parent=Msa0638460-mRNA-1 |
| chr4_3 | exon | 33963501 | 33963668 | 33963501 | ID=Msa0638460-mRNA-1:exon:7658;Parent=Msa0638460-mRNA-1 |
| chr4_3 | exon | 33963799 | 33964227 | 33963799 | ID=Msa0638460-mRNA-1:exon:7659;Parent=Msa0638460-mRNA-1 |
| chr4_3 | CDS | 33963200 | 33963355 | 33963200 | ID=Msa0638460-mRNA-1:cds;Parent=Msa0638460-mRNA-1 |
| chr4_3 | CDS | 33963501 | 33963668 | 33963501 | ID=Msa0638460-mRNA-1:cds;Parent=Msa0638460-mRNA-1 |
| chr4_3 | CDS | 33963799 | 33963945 | 33963799 | ID=Msa0638460-mRNA-1:cds;Parent=Msa0638460-mRNA-1 |
| chr4_3 | three_prime_UTR | 33963946 | 33964227 | 33963946 | ID=Msa0638460-mRNA-1:three_prime_utr;Parent=Msa0638460-mRNA-1 |
| Gene Sequence |
| Protein sequence |
