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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0622710 | RHN82725.1 | 86.864 | 236 | 20 | 1 | 1 | 225 | 9 | 244 | 7.60e-135 | 389 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0622710 | sp|Q9LQQ0|DIR25_ARATH | 50.943 | 106 | 50 | 2 | 93 | 198 | 254 | 357 | 2.70e-23 | 99.8 |
| 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 |
|---|---|---|---|---|
| Msa0045680 | Msa0622710 | 0.873843 | 1.073658e-67 | -8.615850e-47 |
| Msa0622710 | Msa0623250 | 0.813324 | 2.710913e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0622710 | MtrunA17_Chr1g0212871 | 86.864 | 236 | 20 | 1 | 1 | 225 | 9 | 244 | 6.99e-139 | 389 |
| Msa0622710 | MtrunA17_Chr1g0212861 | 35.745 | 235 | 94 | 10 | 43 | 225 | 123 | 352 | 4.35e-24 | 98.2 |
| Msa0622710 | MtrunA17_Chr4g0030681 | 48.571 | 105 | 47 | 4 | 97 | 198 | 178 | 278 | 9.60e-23 | 93.6 |
| Msa0622710 | MtrunA17_Chr4g0030731 | 48.571 | 105 | 47 | 4 | 97 | 198 | 177 | 277 | 1.24e-22 | 93.6 |
| Msa0622710 | MtrunA17_Chr7g0221601 | 43.443 | 122 | 63 | 2 | 103 | 220 | 267 | 386 | 1.05e-21 | 92.0 |
| Msa0622710 | MtrunA17_Chr1g0169511 | 28.922 | 204 | 110 | 4 | 43 | 213 | 39 | 240 | 2.29e-16 | 75.5 |
| Msa0622710 | MtrunA17_Chr4g0030671 | 30.500 | 200 | 96 | 7 | 43 | 201 | 61 | 258 | 1.55e-15 | 73.6 |
| Msa0622710 | MtrunA17_Chr1g0169291 | 27.941 | 204 | 112 | 3 | 43 | 213 | 39 | 240 | 2.62e-15 | 72.8 |
| Msa0622710 | MtrunA17_Chr1g0169281 | 35.780 | 109 | 68 | 1 | 105 | 213 | 140 | 246 | 6.20e-14 | 68.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0622710 | AT2G28670.2 | 51.887 | 106 | 49 | 2 | 93 | 198 | 91 | 194 | 8.18e-25 | 97.8 |
| Msa0622710 | AT1G07730.2 | 50.943 | 106 | 50 | 2 | 93 | 198 | 254 | 357 | 2.74e-24 | 99.8 |
| Msa0622710 | AT2G28670.1 | 51.887 | 106 | 49 | 2 | 93 | 198 | 301 | 404 | 6.56e-24 | 99.0 |
| Msa0622710 | AT2G39430.1 | 31.646 | 237 | 103 | 9 | 43 | 223 | 87 | 320 | 4.58e-21 | 89.7 |
| Msa0622710 | AT3G55230.1 | 29.958 | 237 | 109 | 8 | 43 | 224 | 70 | 304 | 7.50e-20 | 86.3 |
| Msa0622710 | AT4G13580.1 | 32.447 | 188 | 100 | 4 | 43 | 211 | 53 | 232 | 1.21e-19 | 84.7 |
| Msa0622710 | AT3G24020.1 | 32.500 | 200 | 108 | 5 | 43 | 223 | 52 | 243 | 1.23e-19 | 84.7 |
Find 46 sgRNAs with CRISPR-Local
Find 66 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCATTTCAAGAGCTGGAATT+TGG | 0.209367 | 4_2:-75431690 | Msa0622710:CDS |
| AGCTGAGGAAAATTTGTTTA+TGG | 0.235026 | 4_2:+75431973 | None:intergenic |
| GATGGCCATGGTAGTGATTA+GGG | 0.312185 | 4_2:+75431930 | None:intergenic |
| GTTTGAGTTGATTGTGGAAT+TGG | 0.329326 | 4_2:+75431762 | None:intergenic |
| TGATGGCCATGGTAGTGATT+AGG | 0.343261 | 4_2:+75431929 | None:intergenic |
| GAGTCACATGTTGCAGTTAT+TGG | 0.351309 | 4_2:-75431465 | Msa0622710:CDS |
| CTTCTCTTCTAGCAATTGTC+AGG | 0.383847 | 4_2:-75432015 | Msa0622710:CDS |
| GGAATTGGAATCCCTCCATT+TGG | 0.399195 | 4_2:+75431777 | None:intergenic |
| GTTAAGGTTGTGGATAAAGT+AGG | 0.408640 | 4_2:-75431402 | Msa0622710:CDS |
| GTAGGGTCTAGTACAGTAGA+AGG | 0.416844 | 4_2:-75431384 | Msa0622710:CDS |
| GGAAAGTACCATGGTGCTAA+TGG | 0.420735 | 4_2:-75431435 | Msa0622710:CDS |
| TCTTGAAATGCTGCTCTAGT+AGG | 0.424130 | 4_2:+75431702 | None:intergenic |
| TGAAGGGTGGGTATGAAGAC+GGG | 0.437856 | 4_2:-75431524 | Msa0622710:CDS |
| TAATGGCTATGCTGTTGTTA+AGG | 0.440993 | 4_2:-75431418 | Msa0622710:CDS |
| ACACTTGATCTTTCCACCAT+TGG | 0.449523 | 4_2:-75431735 | Msa0622710:CDS |
| GTTGCAGTTATTGGTGGTAC+TGG | 0.455685 | 4_2:-75431456 | Msa0622710:CDS |
| TTGAAGGGTGGGTATGAAGA+CGG | 0.463306 | 4_2:-75431525 | Msa0622710:CDS |
| TGCTAGAAGAGAAGGGAGAT+TGG | 0.464219 | 4_2:+75432024 | None:intergenic |
| CTATGCTGTTGTTAAGGTTG+TGG | 0.492544 | 4_2:-75431412 | Msa0622710:CDS |
| CTGACAATTGCTAGAAGAGA+AGG | 0.504357 | 4_2:+75432016 | None:intergenic |
| TAGAGCAGCATTTCAAGAGC+TGG | 0.504564 | 4_2:-75431697 | Msa0622710:CDS |
| GACGAGGAACTACTAGTTGA+AGG | 0.506266 | 4_2:-75431651 | Msa0622710:CDS |
| TATGTAGCTAGTGAAGAGGA+TGG | 0.509172 | 4_2:-75431582 | Msa0622710:CDS |
| GTTTGTGTTTGAGTTGATTG+TGG | 0.515184 | 4_2:+75431756 | None:intergenic |
| TTAAGGTTGTGGATAAAGTA+GGG | 0.516469 | 4_2:-75431401 | Msa0622710:CDS |
| TCACTGTCATAGCAACCATA+TGG | 0.517871 | 4_2:+75431553 | None:intergenic |
| GAAGATGAACTAAAGAAACT+TGG | 0.528902 | 4_2:-75431621 | Msa0622710:CDS |
| ATTGGAATCCCTCCATTTGG+AGG | 0.538267 | 4_2:+75431780 | None:intergenic |
| CCATGGTAGTGATTAGGGGT+TGG | 0.550854 | 4_2:+75431935 | None:intergenic |
| AGAGGATGGAAGTAGCCATA+TGG | 0.562281 | 4_2:-75431568 | Msa0622710:CDS |
| ATGTTATTCTATGATGGCCA+TGG | 0.591384 | 4_2:+75431918 | None:intergenic |
| GGTGTATGTAGCTAGTGAAG+AGG | 0.591556 | 4_2:-75431586 | Msa0622710:CDS |
| TAAAATACACGTCATACAGA+AGG | 0.595028 | 4_2:+75431340 | None:intergenic |
| TCACATGTTGCAGTTATTGG+TGG | 0.626055 | 4_2:-75431462 | Msa0622710:CDS |
| AAGAAACTTGGAAAAGCACA+AGG | 0.629760 | 4_2:-75431609 | Msa0622710:CDS |
| TGACAATTGCTAGAAGAGAA+GGG | 0.634492 | 4_2:+75432017 | None:intergenic |
| AGGAAAAGAGAAACCAATGG+TGG | 0.644162 | 4_2:+75431722 | None:intergenic |
| AGTAGGAAAAGAGAAACCAA+TGG | 0.647659 | 4_2:+75431719 | None:intergenic |
| CCAACCCCTAATCACTACCA+TGG | 0.665385 | 4_2:-75431935 | Msa0622710:CDS |
| GAAACTTGGAAAAGCACAAG+GGG | 0.665476 | 4_2:-75431607 | Msa0622710:CDS |
| CAGCATAGCCATTAGCACCA+TGG | 0.679074 | 4_2:+75431427 | None:intergenic |
| ATGGCCATGGTAGTGATTAG+GGG | 0.679512 | 4_2:+75431931 | None:intergenic |
| AGAAACTTGGAAAAGCACAA+GGG | 0.691717 | 4_2:-75431608 | Msa0622710:CDS |
| ATTACCAAGAGTTCTAGCTG+AGG | 0.711799 | 4_2:+75431958 | None:intergenic |
| ATCAGTAACATCGATCGACG+AGG | 0.719628 | 4_2:-75431667 | Msa0622710:CDS |
| GGTGGTACTGGAAAGTACCA+TGG | 0.742516 | 4_2:-75431444 | Msa0622710:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTAAAAATGTTATTCTATGA+TGG | + | chr4_2:75431454-75431473 | None:intergenic | 15.0% |
| ! | TCTGTATTAATATTAGGACT+AGG | + | chr4_2:75431503-75431522 | None:intergenic | 25.0% |
| ! | GGTTTCTCTGTATTAATATT+AGG | + | chr4_2:75431509-75431528 | None:intergenic | 25.0% |
| ! | AGCTGAGGAAAATTTGTTTA+TGG | + | chr4_2:75431393-75431412 | None:intergenic | 30.0% |
| GAAGATGAACTAAAGAAACT+TGG | - | chr4_2:75431742-75431761 | Msa0622710:CDS | 30.0% | |
| !! | TATGACAGTGAGTATTTTGA+AGG | - | chr4_2:75431822-75431841 | Msa0622710:CDS | 30.0% |
| !! | ATGACAGTGAGTATTTTGAA+GGG | - | chr4_2:75431823-75431842 | Msa0622710:CDS | 30.0% |
| TTAAGGTTGTGGATAAAGTA+GGG | - | chr4_2:75431962-75431981 | Msa0622710:CDS | 30.0% | |
| TAAAATACACGTCATACAGA+AGG | + | chr4_2:75432026-75432045 | None:intergenic | 30.0% | |
| TGACAATTGCTAGAAGAGAA+GGG | + | chr4_2:75431349-75431368 | None:intergenic | 35.0% | |
| ATGTTATTCTATGATGGCCA+TGG | + | chr4_2:75431448-75431467 | None:intergenic | 35.0% | |
| !! | TTGATTTGTGACCTTAGTAG+TGG | + | chr4_2:75431534-75431553 | None:intergenic | 35.0% |
| ! | TTACCTTTTCCAAAACCTCT+AGG | - | chr4_2:75431554-75431573 | Msa0622710:CDS | 35.0% |
| !!! | AATCCTAGAGGTTTTGGAAA+AGG | + | chr4_2:75431560-75431579 | None:intergenic | 35.0% |
| ! | AGGAAAAATCCTAGAGGTTT+TGG | + | chr4_2:75431566-75431585 | None:intergenic | 35.0% |
| ATTTGGAGGAAAAATCCTAG+AGG | + | chr4_2:75431572-75431591 | None:intergenic | 35.0% | |
| !! | TCTAGGATTTTTCCTCCAAA+TGG | - | chr4_2:75431571-75431590 | Msa0622710:CDS | 35.0% |
| !! | GTTTGAGTTGATTGTGGAAT+TGG | + | chr4_2:75431604-75431623 | None:intergenic | 35.0% |
| !! | GTTTGTGTTTGAGTTGATTG+TGG | + | chr4_2:75431610-75431629 | None:intergenic | 35.0% |
| AGTAGGAAAAGAGAAACCAA+TGG | + | chr4_2:75431647-75431666 | None:intergenic | 35.0% | |
| ! | AAGAAACTTGGAAAAGCACA+AGG | - | chr4_2:75431754-75431773 | Msa0622710:CDS | 35.0% |
| ! | AGAAACTTGGAAAAGCACAA+GGG | - | chr4_2:75431755-75431774 | Msa0622710:CDS | 35.0% |
| !!! | TGAGACTTTTTGGAGTTCAT+AGG | - | chr4_2:75431863-75431882 | Msa0622710:intron | 35.0% |
| TAATGGCTATGCTGTTGTTA+AGG | - | chr4_2:75431945-75431964 | Msa0622710:CDS | 35.0% | |
| GTTAAGGTTGTGGATAAAGT+AGG | - | chr4_2:75431961-75431980 | Msa0622710:CDS | 35.0% | |
| CTGACAATTGCTAGAAGAGA+AGG | + | chr4_2:75431350-75431369 | None:intergenic | 40.0% | |
| CTTCTCTTCTAGCAATTGTC+AGG | - | chr4_2:75431348-75431367 | Msa0622710:CDS | 40.0% | |
| ! | TTTTCCTCAGCTAGAACTCT+TGG | - | chr4_2:75431401-75431420 | Msa0622710:CDS | 40.0% |
| ! | ATTACCAAGAGTTCTAGCTG+AGG | + | chr4_2:75431408-75431427 | None:intergenic | 40.0% |
| AGAGAAACCTTCCACTACTA+AGG | - | chr4_2:75431520-75431539 | Msa0622710:CDS | 40.0% | |
| ! | TTTGTGACCTTAGTAGTGGA+AGG | + | chr4_2:75431530-75431549 | None:intergenic | 40.0% |
| ! | AGGATTTTTCCTCCAAATGG+AGG | - | chr4_2:75431574-75431593 | Msa0622710:CDS | 40.0% |
| ! | GGATTTTTCCTCCAAATGGA+GGG | - | chr4_2:75431575-75431594 | Msa0622710:CDS | 40.0% |
| ACACTTGATCTTTCCACCAT+TGG | - | chr4_2:75431628-75431647 | Msa0622710:CDS | 40.0% | |
| AGGAAAAGAGAAACCAATGG+TGG | + | chr4_2:75431644-75431663 | None:intergenic | 40.0% | |
| TCTTGAAATGCTGCTCTAGT+AGG | + | chr4_2:75431664-75431683 | None:intergenic | 40.0% | |
| GCATTTCAAGAGCTGGAATT+TGG | - | chr4_2:75431673-75431692 | Msa0622710:CDS | 40.0% | |
| ! | GAAACTTGGAAAAGCACAAG+GGG | - | chr4_2:75431756-75431775 | Msa0622710:CDS | 40.0% |
| TATGTAGCTAGTGAAGAGGA+TGG | - | chr4_2:75431781-75431800 | Msa0622710:CDS | 40.0% | |
| TCACTGTCATAGCAACCATA+TGG | + | chr4_2:75431813-75431832 | None:intergenic | 40.0% | |
| !! | ACAGTGAGTATTTTGAAGGG+TGG | - | chr4_2:75431826-75431845 | Msa0622710:intron | 40.0% |
| !! | CAGTGAGTATTTTGAAGGGT+GGG | - | chr4_2:75431827-75431846 | Msa0622710:intron | 40.0% |
| GAGTCACATGTTGCAGTTAT+TGG | - | chr4_2:75431898-75431917 | Msa0622710:CDS | 40.0% | |
| TCACATGTTGCAGTTATTGG+TGG | - | chr4_2:75431901-75431920 | Msa0622710:CDS | 40.0% | |
| CTATGCTGTTGTTAAGGTTG+TGG | - | chr4_2:75431951-75431970 | Msa0622710:CDS | 40.0% | |
| TGCTAGAAGAGAAGGGAGAT+TGG | + | chr4_2:75431342-75431361 | None:intergenic | 45.0% | |
| ! | ATGGCCATGGTAGTGATTAG+GGG | + | chr4_2:75431435-75431454 | None:intergenic | 45.0% |
| ! | GATGGCCATGGTAGTGATTA+GGG | + | chr4_2:75431436-75431455 | None:intergenic | 45.0% |
| ! | TGATGGCCATGGTAGTGATT+AGG | + | chr4_2:75431437-75431456 | None:intergenic | 45.0% |
| ATTGGAATCCCTCCATTTGG+AGG | + | chr4_2:75431586-75431605 | None:intergenic | 45.0% | |
| GGAATTGGAATCCCTCCATT+TGG | + | chr4_2:75431589-75431608 | None:intergenic | 45.0% | |
| TAGAGCAGCATTTCAAGAGC+TGG | - | chr4_2:75431666-75431685 | Msa0622710:CDS | 45.0% | |
| ATCAGTAACATCGATCGACG+AGG | - | chr4_2:75431696-75431715 | Msa0622710:CDS | 45.0% | |
| GACGAGGAACTACTAGTTGA+AGG | - | chr4_2:75431712-75431731 | Msa0622710:CDS | 45.0% | |
| GGTGTATGTAGCTAGTGAAG+AGG | - | chr4_2:75431777-75431796 | Msa0622710:CDS | 45.0% | |
| AGAGGATGGAAGTAGCCATA+TGG | - | chr4_2:75431795-75431814 | Msa0622710:CDS | 45.0% | |
| TTGAAGGGTGGGTATGAAGA+CGG | - | chr4_2:75431838-75431857 | Msa0622710:intron | 45.0% | |
| !!! | GAAGACGGGTTGAGACTTTT+TGG | - | chr4_2:75431853-75431872 | Msa0622710:intron | 45.0% |
| ! | GTTGCAGTTATTGGTGGTAC+TGG | - | chr4_2:75431907-75431926 | Msa0622710:CDS | 45.0% |
| !! | GGAAAGTACCATGGTGCTAA+TGG | - | chr4_2:75431928-75431947 | Msa0622710:CDS | 45.0% |
| GTAGGGTCTAGTACAGTAGA+AGG | - | chr4_2:75431979-75431998 | Msa0622710:CDS | 45.0% | |
| ! | CCATGGTAGTGATTAGGGGT+TGG | + | chr4_2:75431431-75431450 | None:intergenic | 50.0% |
| CCAACCCCTAATCACTACCA+TGG | - | chr4_2:75431428-75431447 | Msa0622710:CDS | 50.0% | |
| TGAAGGGTGGGTATGAAGAC+GGG | - | chr4_2:75431839-75431858 | Msa0622710:intron | 50.0% | |
| !! | GGTGGTACTGGAAAGTACCA+TGG | - | chr4_2:75431919-75431938 | Msa0622710:CDS | 50.0% |
| CAGCATAGCCATTAGCACCA+TGG | + | chr4_2:75431939-75431958 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_2 | gene | 75431335 | 75432050 | 75431335 | ID=Msa0622710;Name=Msa0622710 |
| chr4_2 | mRNA | 75431335 | 75432050 | 75431335 | ID=Msa0622710-mRNA-1;Parent=Msa0622710;Name=Msa0622710-mRNA-1;_AED=0.31;_eAED=0.32;_QI=0|0|0|1|0|0|2|0|225 |
| chr4_2 | exon | 75431882 | 75432050 | 75431882 | ID=Msa0622710-mRNA-1:exon:22908;Parent=Msa0622710-mRNA-1 |
| chr4_2 | exon | 75431335 | 75431843 | 75431335 | ID=Msa0622710-mRNA-1:exon:22907;Parent=Msa0622710-mRNA-1 |
| chr4_2 | CDS | 75431882 | 75432050 | 75431882 | ID=Msa0622710-mRNA-1:cds;Parent=Msa0622710-mRNA-1 |
| chr4_2 | CDS | 75431335 | 75431843 | 75431335 | ID=Msa0622710-mRNA-1:cds;Parent=Msa0622710-mRNA-1 |
| Gene Sequence |
| Protein sequence |
