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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1323250 | XP_039686869.1 | 58.120 | 234 | 44 | 3 | 3 | 182 | 1 | 234 | 1.07e-79 | 253 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1323250 | sp|Q9SWG3|FAR1_ARATH | 31.405 | 242 | 102 | 4 | 5 | 182 | 8 | 249 | 3.25e-30 | 119 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1323250 | A0A2K3NBU0 | 54.825 | 228 | 52 | 2 | 6 | 182 | 3 | 230 | 1.99e-71 | 238 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1323250 | TF | FAR1 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1323250 | MtrunA17_Chr1g0207551 | 31.188 | 202 | 86 | 3 | 34 | 182 | 28 | 229 | 9.85e-26 | 103 |
| Msa1323250 | MtrunA17_Chr2g0329031 | 32.227 | 211 | 77 | 5 | 28 | 182 | 2 | 202 | 1.59e-23 | 97.1 |
| Msa1323250 | MtrunA17_Chr3g0080351 | 37.600 | 125 | 53 | 2 | 61 | 182 | 161 | 263 | 2.26e-22 | 93.6 |
| Msa1323250 | MtrunA17_Chr5g0448761 | 36.508 | 126 | 73 | 4 | 61 | 180 | 135 | 259 | 3.05e-18 | 81.6 |
| Msa1323250 | MtrunA17_Chr2g0296781 | 30.159 | 126 | 84 | 1 | 61 | 182 | 65 | 190 | 2.19e-13 | 67.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1323250 | AT4G15090.1 | 31.405 | 242 | 102 | 4 | 5 | 182 | 8 | 249 | 3.30e-31 | 119 |
| Msa1323250 | AT4G15090.5 | 31.405 | 242 | 102 | 4 | 5 | 182 | 8 | 249 | 3.30e-31 | 119 |
| Msa1323250 | AT4G15090.3 | 31.405 | 242 | 102 | 4 | 5 | 182 | 8 | 249 | 3.30e-31 | 119 |
| Msa1323250 | AT4G15090.2 | 31.405 | 242 | 102 | 4 | 5 | 182 | 8 | 249 | 3.30e-31 | 119 |
| Msa1323250 | AT4G15090.4 | 31.405 | 242 | 102 | 4 | 5 | 182 | 8 | 249 | 3.30e-31 | 119 |
| Msa1323250 | AT3G22170.2 | 35.766 | 137 | 62 | 2 | 50 | 182 | 144 | 258 | 3.99e-21 | 90.5 |
| Msa1323250 | AT3G22170.1 | 35.766 | 137 | 62 | 2 | 50 | 182 | 144 | 258 | 3.99e-21 | 90.5 |
| Msa1323250 | AT1G76320.2 | 37.795 | 127 | 68 | 3 | 61 | 182 | 66 | 186 | 4.71e-21 | 90.1 |
| Msa1323250 | AT1G76320.1 | 37.795 | 127 | 68 | 3 | 61 | 182 | 66 | 186 | 4.99e-21 | 90.1 |
| Msa1323250 | AT1G76320.4 | 37.795 | 127 | 68 | 3 | 61 | 182 | 66 | 186 | 4.99e-21 | 90.1 |
| Msa1323250 | AT1G76320.3 | 37.795 | 127 | 68 | 3 | 61 | 182 | 66 | 186 | 5.54e-21 | 90.1 |
| Msa1323250 | AT4G38180.1 | 37.600 | 125 | 72 | 3 | 61 | 180 | 148 | 271 | 4.36e-20 | 87.4 |
Find 26 sgRNAs with CRISPR-Local
Find 43 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTTGAAATATAGGAATTAA+TGG | 0.248279 | 8_4:-31458881 | None:intergenic |
| TTCATATCCTCCATATTGTT+TGG | 0.296308 | 8_4:+31458333 | None:intergenic |
| GCCACTCTGGCCAAACAATA+TGG | 0.314518 | 8_4:-31458343 | Msa1323250:CDS |
| TCGGCGTTTGACATTAGAAT+TGG | 0.337407 | 8_4:-31458264 | Msa1323250:CDS |
| TAATGAGTGTAGAATGAATA+AGG | 0.352050 | 8_4:+31458715 | None:intergenic |
| TCAATTGCATAAAAGAATCT+TGG | 0.356205 | 8_4:+31458191 | None:intergenic |
| TCAAATTCCATTCCAATGTA+TGG | 0.425126 | 8_4:+31458751 | None:intergenic |
| CGGCGTTTGACATTAGAATT+GGG | 0.436883 | 8_4:-31458263 | Msa1323250:CDS |
| AGAAAATAATGTGCATATGC+TGG | 0.444091 | 8_4:+31458448 | None:intergenic |
| GAATTAATGGAAGTTGTTGA+TGG | 0.448629 | 8_4:-31458868 | Msa1323250:CDS |
| AATGATGACAATGTTATTGA+TGG | 0.455364 | 8_4:-31458844 | Msa1323250:CDS |
| AGAATGATTCATGTACGGTT+GGG | 0.505397 | 8_4:-31458789 | Msa1323250:CDS |
| AATTAATGGAAGTTGTTGAT+GGG | 0.547188 | 8_4:-31458867 | Msa1323250:CDS |
| ATTGAAACTATGCAAGATGT+TGG | 0.548761 | 8_4:-31458388 | Msa1323250:CDS |
| TCCATATTGTTTGGCCAGAG+TGG | 0.548986 | 8_4:+31458342 | None:intergenic |
| GGGAGATGCAAATGCAATGT+TGG | 0.559895 | 8_4:-31458243 | Msa1323250:CDS |
| GAGAATGATTCATGTACGGT+TGG | 0.560679 | 8_4:-31458790 | Msa1323250:CDS |
| AAGCAAAATTTATGCCACTC+TGG | 0.565072 | 8_4:-31458356 | Msa1323250:CDS |
| GATAGAGCCATACATTGGAA+TGG | 0.572004 | 8_4:-31458758 | Msa1323250:CDS |
| AGAAATCATTTAGATATAGT+CGG | 0.576258 | 8_4:-31458283 | Msa1323250:CDS |
| TTGTTTAAAGGTGGAATGTG+AGG | 0.581351 | 8_4:-31458551 | Msa1323250:intron |
| CTAATGATAGAGCCATACAT+TGG | 0.590833 | 8_4:-31458763 | Msa1323250:CDS |
| TGTTGAGAATGATTCATGTA+CGG | 0.602674 | 8_4:-31458794 | Msa1323250:CDS |
| ATGATTCATGTACGGTTGGG+AGG | 0.609038 | 8_4:-31458786 | Msa1323250:CDS |
| ATGATGACAATGTTATTGAT+GGG | 0.630031 | 8_4:-31458843 | Msa1323250:CDS |
| ACTCTGGCCAAACAATATGG+AGG | 0.695583 | 8_4:-31458340 | Msa1323250:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | CGTATTAAAAAAAATTGTGA+TGG | - | chr8_4:31458517-31458536 | Msa1323250:CDS | 20.0% |
| !!! | AAAAAAATTGTGATGGAAAA+TGG | - | chr8_4:31458524-31458543 | Msa1323250:CDS | 20.0% |
| !! | AGAAATCATTTAGATATAGT+CGG | - | chr8_4:31458754-31458773 | Msa1323250:CDS | 20.0% |
| !!! | ATTCTTTTATGCAATTGATT+TGG | - | chr8_4:31458851-31458870 | Msa1323250:CDS | 20.0% |
| ! | AATTAATGGAAGTTGTTGAT+GGG | - | chr8_4:31458170-31458189 | Msa1323250:CDS | 25.0% |
| ! | AATGATGACAATGTTATTGA+TGG | - | chr8_4:31458193-31458212 | Msa1323250:CDS | 25.0% |
| ! | ATGATGACAATGTTATTGAT+GGG | - | chr8_4:31458194-31458213 | Msa1323250:CDS | 25.0% |
| ! | TAATGAGTGTAGAATGAATA+AGG | + | chr8_4:31458325-31458344 | None:intergenic | 25.0% |
| ! | TATGGAGGATATGAAAAAAT+TGG | - | chr8_4:31458712-31458731 | Msa1323250:CDS | 25.0% |
| ! | TCAATTGCATAAAAGAATCT+TGG | + | chr8_4:31458849-31458868 | None:intergenic | 25.0% |
| GAATTAATGGAAGTTGTTGA+TGG | - | chr8_4:31458169-31458188 | Msa1323250:CDS | 30.0% | |
| TGTTGAGAATGATTCATGTA+CGG | - | chr8_4:31458243-31458262 | Msa1323250:CDS | 30.0% | |
| TCAAATTCCATTCCAATGTA+TGG | + | chr8_4:31458289-31458308 | None:intergenic | 30.0% | |
| TAAAATTAGTCGTCGTTCAA+AGG | - | chr8_4:31458373-31458392 | Msa1323250:CDS | 30.0% | |
| AAATTTGCGTCGTTGTTTAA+AGG | - | chr8_4:31458474-31458493 | Msa1323250:CDS | 30.0% | |
| AGAAAATAATGTGCATATGC+TGG | + | chr8_4:31458592-31458611 | None:intergenic | 30.0% | |
| ! | CATTATTTTCTTTGCCATAG+AGG | - | chr8_4:31458601-31458620 | Msa1323250:intron | 30.0% |
| !!! | GAGTTTTATTGATTCCTCTA+TGG | + | chr8_4:31458618-31458637 | None:intergenic | 30.0% |
| ATTGAAACTATGCAAGATGT+TGG | - | chr8_4:31458649-31458668 | Msa1323250:intron | 30.0% | |
| TTCATATCCTCCATATTGTT+TGG | + | chr8_4:31458707-31458726 | None:intergenic | 30.0% | |
| AGAATGATTCATGTACGGTT+GGG | - | chr8_4:31458248-31458267 | Msa1323250:CDS | 35.0% | |
| CTAATGATAGAGCCATACAT+TGG | - | chr8_4:31458274-31458293 | Msa1323250:CDS | 35.0% | |
| ACTTATGCTTGCACAAGATA+AGG | - | chr8_4:31458427-31458446 | Msa1323250:CDS | 35.0% | |
| CTTATGCTTGCACAAGATAA+GGG | - | chr8_4:31458428-31458447 | Msa1323250:CDS | 35.0% | |
| TTGTTTAAAGGTGGAATGTG+AGG | - | chr8_4:31458486-31458505 | Msa1323250:CDS | 35.0% | |
| CTGGAAAAAGCTCATGATTA+TGG | + | chr8_4:31458573-31458592 | None:intergenic | 35.0% | |
| AAGCAAAATTTATGCCACTC+TGG | - | chr8_4:31458681-31458700 | Msa1323250:intron | 35.0% | |
| GAGAATGATTCATGTACGGT+TGG | - | chr8_4:31458247-31458266 | Msa1323250:CDS | 40.0% | |
| GATAGAGCCATACATTGGAA+TGG | - | chr8_4:31458279-31458298 | Msa1323250:CDS | 40.0% | |
| ATTACGCTGTCTGTTGGATT+TGG | - | chr8_4:31458341-31458360 | Msa1323250:CDS | 40.0% | |
| TTACGCTGTCTGTTGGATTT+GGG | - | chr8_4:31458342-31458361 | Msa1323250:CDS | 40.0% | |
| TTTGCGTCGTTGTTTAAAGG+TGG | - | chr8_4:31458477-31458496 | Msa1323250:CDS | 40.0% | |
| TCGGCGTTTGACATTAGAAT+TGG | - | chr8_4:31458773-31458792 | Msa1323250:CDS | 40.0% | |
| CGGCGTTTGACATTAGAATT+GGG | - | chr8_4:31458774-31458793 | Msa1323250:CDS | 40.0% | |
| ATGATTCATGTACGGTTGGG+AGG | - | chr8_4:31458251-31458270 | Msa1323250:CDS | 45.0% | |
| ACACTCATTACGCTGTCTGT+TGG | - | chr8_4:31458335-31458354 | Msa1323250:CDS | 45.0% | |
| ! | ACGACGCAAATTTTGTGCAG+TGG | + | chr8_4:31458467-31458486 | None:intergenic | 45.0% |
| TCCATATTGTTTGGCCAGAG+TGG | + | chr8_4:31458698-31458717 | None:intergenic | 45.0% | |
| ACTCTGGCCAAACAATATGG+AGG | - | chr8_4:31458697-31458716 | Msa1323250:intron | 45.0% | |
| GGGAGATGCAAATGCAATGT+TGG | - | chr8_4:31458794-31458813 | Msa1323250:CDS | 45.0% | |
| GCACAAGATAAGGGAAGACG+CGG | - | chr8_4:31458437-31458456 | Msa1323250:CDS | 50.0% | |
| CACAAGATAAGGGAAGACGC+GGG | - | chr8_4:31458438-31458457 | Msa1323250:CDS | 50.0% | |
| GCCACTCTGGCCAAACAATA+TGG | - | chr8_4:31458694-31458713 | Msa1323250:intron | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_4 | gene | 31458169 | 31458890 | 31458169 | ID=Msa1323250;Name=Msa1323250 |
| chr8_4 | mRNA | 31458169 | 31458890 | 31458169 | ID=Msa1323250-mRNA-1;Parent=Msa1323250;Name=Msa1323250-mRNA-1;_AED=0.25;_eAED=0.26;_QI=0|0|0|0.66|0|0|3|0|187 |
| chr8_4 | exon | 31458711 | 31458890 | 31458711 | ID=Msa1323250-mRNA-1:exon:10243;Parent=Msa1323250-mRNA-1 |
| chr8_4 | exon | 31458326 | 31458563 | 31458326 | ID=Msa1323250-mRNA-1:exon:10242;Parent=Msa1323250-mRNA-1 |
| chr8_4 | exon | 31458169 | 31458314 | 31458169 | ID=Msa1323250-mRNA-1:exon:10241;Parent=Msa1323250-mRNA-1 |
| chr8_4 | CDS | 31458711 | 31458890 | 31458711 | ID=Msa1323250-mRNA-1:cds;Parent=Msa1323250-mRNA-1 |
| chr8_4 | CDS | 31458326 | 31458563 | 31458326 | ID=Msa1323250-mRNA-1:cds;Parent=Msa1323250-mRNA-1 |
| chr8_4 | CDS | 31458169 | 31458314 | 31458169 | ID=Msa1323250-mRNA-1:cds;Parent=Msa1323250-mRNA-1 |
| Gene Sequence |
| Protein sequence |
