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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0307350 | XP_003617275.1 | 99.522 | 209 | 1 | 0 | 1 | 209 | 1 | 209 | 5.02e-152 | 430 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| 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 |
|---|---|---|---|---|
| Msa0051480 | Msa0307350 | 0.800697 | 1.276100e-48 | -8.615850e-47 |
| Msa0146200 | Msa0307350 | 0.805106 | 1.566631e-49 | -8.615850e-47 |
| Msa0147790 | Msa0307350 | 0.806991 | 6.286865e-50 | -8.615850e-47 |
| Msa0162680 | Msa0307350 | 0.809024 | 2.321088e-50 | -8.615850e-47 |
| Msa0238710 | Msa0307350 | 0.803331 | 3.669139e-49 | -8.615850e-47 |
| Msa0306310 | Msa0307350 | 0.800960 | 1.127941e-48 | -8.615850e-47 |
| Msa0307350 | Msa0316470 | 0.822288 | 2.565937e-53 | -8.615850e-47 |
| Msa0307350 | Msa0332360 | 0.815519 | 8.869885e-52 | -8.615850e-47 |
| Msa0307350 | Msa0345980 | 0.803078 | 4.138158e-49 | -8.615850e-47 |
| Msa0307350 | Msa0393100 | 0.800782 | 1.226350e-48 | -8.615850e-47 |
| Msa0307350 | Msa0481770 | 0.801500 | 8.745482e-49 | -8.615850e-47 |
| Msa0307350 | Msa0488580 | 0.810291 | 1.239753e-50 | -8.615850e-47 |
| Msa0307350 | Msa0746340 | 0.809944 | 1.473022e-50 | -8.615850e-47 |
| Msa0307350 | Msa0816630 | 0.826179 | 3.127482e-54 | -8.615850e-47 |
| Msa0307350 | Msa0863940 | 0.822330 | 2.509762e-53 | -8.615850e-47 |
| Msa0307350 | Msa1224510 | 0.804783 | 1.829970e-49 | -8.615850e-47 |
| Msa0307350 | Msa1349830 | 0.808665 | 2.770262e-50 | -8.615850e-47 |
| Msa0307350 | Msa1369320 | 0.802435 | 5.618744e-49 | -8.615850e-47 |
| Msa0307350 | Msa1422230 | 0.809148 | 2.183700e-50 | -8.615850e-47 |
| Msa0307350 | Msa1453600 | 0.806517 | 7.916997e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0307350 | MtrunA17_Chr5g0441951 | 99.522 | 209 | 1 | 0 | 1 | 209 | 1 | 209 | 4.62e-156 | 430 |
| Msa0307350 | MtrunA17_Chr3g0094671 | 57.143 | 224 | 74 | 5 | 1 | 206 | 1 | 220 | 3.47e-79 | 236 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0307350 | AT5G12340.2 | 45.161 | 217 | 104 | 6 | 1 | 203 | 4 | 219 | 6.40e-57 | 180 |
| Msa0307350 | AT5G12340.1 | 45.161 | 217 | 104 | 6 | 1 | 203 | 1 | 216 | 6.73e-57 | 179 |
| Msa0307350 | AT1G28190.1 | 31.980 | 197 | 115 | 7 | 8 | 189 | 24 | 216 | 4.16e-18 | 80.5 |
Find 46 sgRNAs with CRISPR-Local
Find 51 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAATAGTGAAGCTCATATTT+TGG | 0.192859 | 2_4:+268449 | Msa0307350:CDS |
| AATAAATCTCCTATCAAATT+TGG | 0.198099 | 2_4:+268703 | Msa0307350:CDS |
| CATGCAGATTCATTCTTTAT+AGG | 0.237470 | 2_4:+268550 | Msa0307350:CDS |
| AATTTGATAGGAGATTTATT+AGG | 0.241649 | 2_4:-268700 | None:intergenic |
| GCATGGCAAACCATCATTTC+AGG | 0.257274 | 2_4:-268532 | None:intergenic |
| GTTTCTTCAATCTCAGCCTT+TGG | 0.289384 | 2_4:+268670 | Msa0307350:CDS |
| CAATGGAAGGGTGGTTATTA+AGG | 0.314334 | 2_4:+268756 | Msa0307350:CDS |
| TTCATAACTGGTCTCATCTA+TGG | 0.330358 | 2_4:+268790 | Msa0307350:CDS |
| AAGCATAAGTTCATCATCTA+TGG | 0.331093 | 2_4:-268593 | None:intergenic |
| ATTTGATAGGAGATTTATTA+GGG | 0.342798 | 2_4:-268699 | None:intergenic |
| TCTATGGATAAAACTGGAAT+TGG | 0.343829 | 2_4:-268577 | None:intergenic |
| GGACACTTTCCAAATTTGAT+AGG | 0.346156 | 2_4:-268712 | None:intergenic |
| TCATCATCTATGGATAAAAC+TGG | 0.368150 | 2_4:-268583 | None:intergenic |
| GACAAAGAGATGAATAATAA+TGG | 0.383011 | 2_4:+268814 | Msa0307350:CDS |
| TGAAGCACTTGTGAAGTCTA+AGG | 0.390685 | 2_4:+268891 | Msa0307350:CDS |
| CACCATGTAGGTTCATAGAA+TGG | 0.422599 | 2_4:+268968 | Msa0307350:CDS |
| GTCATGCCTGAGTTCATAAC+TGG | 0.429481 | 2_4:+268778 | Msa0307350:CDS |
| TCAATAGCAAAACGGTCAAT+AGG | 0.432890 | 2_4:-268637 | None:intergenic |
| CTTAATAACCACCCTTCCAT+TGG | 0.438233 | 2_4:-268755 | None:intergenic |
| ACCTAAGCTTGAAACTATTA+CGG | 0.439428 | 2_4:+268927 | Msa0307350:CDS |
| GAACCTTTCAAGTATTCAAA+AGG | 0.440181 | 2_4:-268733 | None:intergenic |
| CTATTACGGAATACAAGGTT+AGG | 0.448385 | 2_4:+268941 | Msa0307350:CDS |
| ACTTGTGAAGTCTAAGGATC+AGG | 0.453382 | 2_4:+268897 | Msa0307350:CDS |
| TCCGTAATAGTTTCAAGCTT+AGG | 0.455784 | 2_4:-268928 | None:intergenic |
| GTTTGAATTCCCTGAAATGA+TGG | 0.466091 | 2_4:+268522 | Msa0307350:CDS |
| ATATTCTAGTACAATTCCAT+TGG | 0.480545 | 2_4:-269006 | None:intergenic |
| TGAAGTCTAAGGATCAGGTT+TGG | 0.504412 | 2_4:+268902 | Msa0307350:CDS |
| ACTTGAAAGGTTCCAATGGA+AGG | 0.512308 | 2_4:+268743 | Msa0307350:CDS |
| TTGAAAGGAAAACATATAGC+TGG | 0.514354 | 2_4:+268490 | Msa0307350:CDS |
| CATGGCAAACCATCATTTCA+GGG | 0.514889 | 2_4:-268531 | None:intergenic |
| TTCCATTCTATGAACCTACA+TGG | 0.528445 | 2_4:-268970 | None:intergenic |
| ATAGATGATGAACTTATGCT+TGG | 0.532191 | 2_4:+268595 | Msa0307350:CDS |
| TGAAACTATTACGGAATACA+AGG | 0.550666 | 2_4:+268936 | Msa0307350:CDS |
| GTCAATAGGTAGAACAAAGT+AGG | 0.570944 | 2_4:-268623 | None:intergenic |
| TTTATTAGGGCAAGATCCAA+AGG | 0.577719 | 2_4:-268686 | None:intergenic |
| AATGGAACATCTTATAGCAA+CGG | 0.589229 | 2_4:+268832 | Msa0307350:CDS |
| TCAACTCAGGAGTACTACAA+AGG | 0.592292 | 2_4:-268858 | None:intergenic |
| GGAACATCAAGATCATTGAA+AGG | 0.592545 | 2_4:+268475 | Msa0307350:CDS |
| ATGAGACCAGTTATGAACTC+AGG | 0.594937 | 2_4:-268784 | None:intergenic |
| TGAGATTGAAGAAACAGAGA+GGG | 0.597783 | 2_4:-268662 | None:intergenic |
| CTATAAAGAATGAATCTGCA+TGG | 0.598159 | 2_4:-268549 | None:intergenic |
| GAATACTTGAAAGGTTCCAA+TGG | 0.604457 | 2_4:+268739 | Msa0307350:CDS |
| CTTGAAAGGTTCCAATGGAA+GGG | 0.607365 | 2_4:+268744 | Msa0307350:CDS |
| AGAGGGTGTCAATAGCAAAA+CGG | 0.607923 | 2_4:-268645 | None:intergenic |
| GAAAGGTTCCAATGGAAGGG+TGG | 0.636346 | 2_4:+268747 | Msa0307350:CDS |
| CTGAGATTGAAGAAACAGAG+AGG | 0.666850 | 2_4:-268663 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATTTGATAGGAGATTTATTA+GGG | - | chr2_4:268702-268721 | None:intergenic | 20.0% |
| !! | AATTTGATAGGAGATTTATT+AGG | - | chr2_4:268703-268722 | None:intergenic | 20.0% |
| !! | AATAAATCTCCTATCAAATT+TGG | + | chr2_4:268703-268722 | Msa0307350:CDS | 20.0% |
| !! | AATAGTGAAGCTCATATTTT+GGG | + | chr2_4:268450-268469 | Msa0307350:CDS | 25.0% |
| ! | GACAAAGAGATGAATAATAA+TGG | + | chr2_4:268814-268833 | Msa0307350:CDS | 25.0% |
| !!! | TCATAATGTTTTTTCAACTC+AGG | - | chr2_4:268874-268893 | None:intergenic | 25.0% |
| ! | CAATAGTGAAGCTCATATTT+TGG | + | chr2_4:268449-268468 | Msa0307350:CDS | 30.0% |
| TTGAAAGGAAAACATATAGC+TGG | + | chr2_4:268490-268509 | Msa0307350:CDS | 30.0% | |
| CTATAAAGAATGAATCTGCA+TGG | - | chr2_4:268552-268571 | None:intergenic | 30.0% | |
| CATGCAGATTCATTCTTTAT+AGG | + | chr2_4:268550-268569 | Msa0307350:CDS | 30.0% | |
| TCTATGGATAAAACTGGAAT+TGG | - | chr2_4:268580-268599 | None:intergenic | 30.0% | |
| TCATCATCTATGGATAAAAC+TGG | - | chr2_4:268586-268605 | None:intergenic | 30.0% | |
| AAGCATAAGTTCATCATCTA+TGG | - | chr2_4:268596-268615 | None:intergenic | 30.0% | |
| ATAGATGATGAACTTATGCT+TGG | + | chr2_4:268595-268614 | Msa0307350:CDS | 30.0% | |
| ! | TGTCCTTTTGAATACTTGAA+AGG | + | chr2_4:268730-268749 | Msa0307350:CDS | 30.0% |
| ! | GAACCTTTCAAGTATTCAAA+AGG | - | chr2_4:268736-268755 | None:intergenic | 30.0% |
| AATGGAACATCTTATAGCAA+CGG | + | chr2_4:268832-268851 | Msa0307350:CDS | 30.0% | |
| ACCTAAGCTTGAAACTATTA+CGG | + | chr2_4:268927-268946 | Msa0307350:CDS | 30.0% | |
| TGAAACTATTACGGAATACA+AGG | + | chr2_4:268936-268955 | Msa0307350:CDS | 30.0% | |
| GGAACATCAAGATCATTGAA+AGG | + | chr2_4:268475-268494 | Msa0307350:CDS | 35.0% | |
| GTTTGAATTCCCTGAAATGA+TGG | + | chr2_4:268522-268541 | Msa0307350:CDS | 35.0% | |
| GTCAATAGGTAGAACAAAGT+AGG | - | chr2_4:268626-268645 | None:intergenic | 35.0% | |
| TCAATAGCAAAACGGTCAAT+AGG | - | chr2_4:268640-268659 | None:intergenic | 35.0% | |
| TGAGATTGAAGAAACAGAGA+GGG | - | chr2_4:268665-268684 | None:intergenic | 35.0% | |
| TTTATTAGGGCAAGATCCAA+AGG | - | chr2_4:268689-268708 | None:intergenic | 35.0% | |
| GGACACTTTCCAAATTTGAT+AGG | - | chr2_4:268715-268734 | None:intergenic | 35.0% | |
| GAATACTTGAAAGGTTCCAA+TGG | + | chr2_4:268739-268758 | Msa0307350:CDS | 35.0% | |
| ! | TTCATAACTGGTCTCATCTA+TGG | + | chr2_4:268790-268809 | Msa0307350:CDS | 35.0% |
| TCCGTAATAGTTTCAAGCTT+AGG | - | chr2_4:268931-268950 | None:intergenic | 35.0% | |
| CTATTACGGAATACAAGGTT+AGG | + | chr2_4:268941-268960 | Msa0307350:CDS | 35.0% | |
| TTCCATTCTATGAACCTACA+TGG | - | chr2_4:268973-268992 | None:intergenic | 35.0% | |
| GAAAGAAAAAGAGAAGCCAA+TGG | + | chr2_4:268990-269009 | Msa0307350:CDS | 35.0% | |
| !! | GTGAAGCTCATATTTTGGGA+AGG | + | chr2_4:268454-268473 | Msa0307350:CDS | 40.0% |
| CATGGCAAACCATCATTTCA+GGG | - | chr2_4:268534-268553 | None:intergenic | 40.0% | |
| !! | AGAGGGTGTCAATAGCAAAA+CGG | - | chr2_4:268648-268667 | None:intergenic | 40.0% |
| CTGAGATTGAAGAAACAGAG+AGG | - | chr2_4:268666-268685 | None:intergenic | 40.0% | |
| GTTTCTTCAATCTCAGCCTT+TGG | + | chr2_4:268670-268689 | Msa0307350:CDS | 40.0% | |
| ACTTGAAAGGTTCCAATGGA+AGG | + | chr2_4:268743-268762 | Msa0307350:CDS | 40.0% | |
| CTTGAAAGGTTCCAATGGAA+GGG | + | chr2_4:268744-268763 | Msa0307350:CDS | 40.0% | |
| CTTAATAACCACCCTTCCAT+TGG | - | chr2_4:268758-268777 | None:intergenic | 40.0% | |
| CAATGGAAGGGTGGTTATTA+AGG | + | chr2_4:268756-268775 | Msa0307350:CDS | 40.0% | |
| ATGAGACCAGTTATGAACTC+AGG | - | chr2_4:268787-268806 | None:intergenic | 40.0% | |
| !! | TCAACTCAGGAGTACTACAA+AGG | - | chr2_4:268861-268880 | None:intergenic | 40.0% |
| ! | TGAAGCACTTGTGAAGTCTA+AGG | + | chr2_4:268891-268910 | Msa0307350:CDS | 40.0% |
| ACTTGTGAAGTCTAAGGATC+AGG | + | chr2_4:268897-268916 | Msa0307350:CDS | 40.0% | |
| TGAAGTCTAAGGATCAGGTT+TGG | + | chr2_4:268902-268921 | Msa0307350:CDS | 40.0% | |
| ! | AGGTTAGGTTTTCACCATGT+AGG | + | chr2_4:268956-268975 | Msa0307350:CDS | 40.0% |
| CACCATGTAGGTTCATAGAA+TGG | + | chr2_4:268968-268987 | Msa0307350:CDS | 40.0% | |
| GCATGGCAAACCATCATTTC+AGG | - | chr2_4:268535-268554 | None:intergenic | 45.0% | |
| GTCATGCCTGAGTTCATAAC+TGG | + | chr2_4:268778-268797 | Msa0307350:CDS | 45.0% | |
| GAAAGGTTCCAATGGAAGGG+TGG | + | chr2_4:268747-268766 | Msa0307350:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_4 | gene | 268394 | 269023 | 268394 | ID=Msa0307350;Name=Msa0307350 |
| chr2_4 | mRNA | 268394 | 269023 | 268394 | ID=Msa0307350-mRNA-1;Parent=Msa0307350;Name=Msa0307350-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|209 |
| chr2_4 | exon | 268394 | 269023 | 268394 | ID=Msa0307350-mRNA-1:exon:53;Parent=Msa0307350-mRNA-1 |
| chr2_4 | CDS | 268394 | 269023 | 268394 | ID=Msa0307350-mRNA-1:cds;Parent=Msa0307350-mRNA-1 |
| Gene Sequence |
| Protein sequence |
