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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0944830 | KEH25614.1 | 94.915 | 118 | 6 | 0 | 18 | 135 | 105 | 222 | 4.23e-72 | 225 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0944830 | sp|Q5VR89|SIP11_ORYSJ | 64.557 | 79 | 28 | 0 | 29 | 107 | 115 | 193 | 3.21e-31 | 114 |
| 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 |
|---|---|---|---|---|
| Msa0115190 | Msa0944830 | 0.805550 | 1.264878e-49 | -8.615850e-47 |
| Msa0118540 | Msa0944830 | 0.800989 | 1.112485e-48 | -8.615850e-47 |
| Msa0638540 | Msa0944830 | 0.807301 | 5.404709e-50 | -8.615850e-47 |
| Msa0340690 | Msa0944830 | 0.801097 | 1.057189e-48 | -8.615850e-47 |
| Msa0340710 | Msa0944830 | 0.803668 | 3.123510e-49 | -8.615850e-47 |
| Msa0545080 | Msa0944830 | 0.802351 | 5.845394e-49 | -8.615850e-47 |
| Msa0944830 | Msa0944870 | 0.933684 | 1.288456e-95 | -8.615850e-47 |
| Msa0944830 | Msa1206290 | 0.806487 | 8.033868e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0944830 | MtrunA17_Chr6g0461681 | 86.667 | 105 | 9 | 1 | 18 | 117 | 105 | 209 | 2.54e-57 | 178 |
| Msa0944830 | MtrunA17_Chr7g0252841 | 70.130 | 77 | 23 | 0 | 31 | 107 | 119 | 195 | 8.90e-33 | 115 |
| Msa0944830 | MtrunA17_Chr4g0024851 | 55.556 | 90 | 40 | 0 | 18 | 107 | 100 | 189 | 1.25e-32 | 115 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0944830 | AT3G04090.1 | 62.338 | 77 | 29 | 0 | 31 | 107 | 110 | 186 | 8.28e-31 | 110 |
| Msa0944830 | AT5G18290.2 | 52.564 | 78 | 36 | 1 | 31 | 107 | 112 | 189 | 7.52e-21 | 85.1 |
| Msa0944830 | AT5G18290.1 | 52.564 | 78 | 36 | 1 | 31 | 107 | 112 | 189 | 7.52e-21 | 85.1 |
Find 26 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCAATCATGTGACTATATTT+TGG | 0.205285 | 6_3:+21882132 | None:intergenic |
| CCTCATGTGTTTCAGTATAC+TGG | 0.250711 | 6_3:-21881858 | Msa0944830:CDS |
| GGCTGGTGCTAAGGCAATTA+AGG | 0.306023 | 6_3:-21882166 | Msa0944830:CDS |
| TTGAAGGTTGATTTGCATAC+TGG | 0.359493 | 6_3:-21882099 | Msa0944830:CDS |
| CATATGACAATTGTAGTTGC+AGG | 0.385525 | 6_3:-21882312 | Msa0944830:CDS |
| AGTTATGTTACACAGGCATT+AGG | 0.415587 | 6_3:-21882195 | Msa0944830:CDS |
| GATTGGAGGACCTGCTTTGA+AGG | 0.430772 | 6_3:-21882115 | Msa0944830:CDS |
| CCAAAATATAGTCACATGAT+TGG | 0.450400 | 6_3:-21882132 | Msa0944830:CDS |
| ACTAGGATAGGATTCATTGA+TGG | 0.482882 | 6_3:+21881928 | None:intergenic |
| GATAGGATTCATTGATGGTC+CGG | 0.492962 | 6_3:+21881933 | None:intergenic |
| AGGTGCAGTGGCTGGTGCTA+AGG | 0.499134 | 6_3:-21882175 | Msa0944830:CDS |
| AATGAATCACTTACTAGGAT+AGG | 0.501347 | 6_3:+21881916 | None:intergenic |
| TGCAAATCAACCTTCAAAGC+AGG | 0.540861 | 6_3:+21882105 | None:intergenic |
| AATCATAGCTACGGTCGACA+CGG | 0.578906 | 6_3:+21881975 | None:intergenic |
| CAGGCATTAGGTGCAGTGGC+TGG | 0.583997 | 6_3:-21882183 | Msa0944830:CDS |
| CATACTGGAGCTATTGCAGA+AGG | 0.585895 | 6_3:-21882084 | Msa0944830:CDS |
| GTTCTCTTCATCTTGCTCAG+AGG | 0.586421 | 6_3:-21882033 | Msa0944830:CDS |
| ATATGACAATTGTAGTTGCA+GGG | 0.588248 | 6_3:-21882311 | Msa0944830:CDS |
| AAATATAGTCACATGATTGG+AGG | 0.596252 | 6_3:-21882129 | Msa0944830:CDS |
| TACACAGGCATTAGGTGCAG+TGG | 0.609819 | 6_3:-21882187 | Msa0944830:CDS |
| ACCGATGAGAATCATAGCTA+CGG | 0.619659 | 6_3:+21881966 | None:intergenic |
| ACCGTAGCTATGATTCTCAT+CGG | 0.620550 | 6_3:-21881967 | Msa0944830:CDS |
| CTCATCGGTTCTGCTTACAC+CGG | 0.636201 | 6_3:-21881952 | Msa0944830:CDS |
| ATTAACGAGTTATGTTACAC+AGG | 0.653317 | 6_3:-21882202 | Msa0944830:CDS |
| CCAGTATACTGAAACACATG+AGG | 0.664351 | 6_3:+21881858 | None:intergenic |
| GTCTTCATGAACTCACTACG+AGG | 0.738023 | 6_3:+21882009 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | GAAAAAATGAATCACTTACT+AGG | + | chr6_3:21882250-21882269 | None:intergenic | 25.0% |
| ! | ACCAATGATAACATGAAAAA+CGG | + | chr6_3:21882278-21882297 | None:intergenic | 25.0% |
| ATTAACGAGTTATGTTACAC+AGG | - | chr6_3:21881956-21881975 | Msa0944830:CDS | 30.0% | |
| !! | ATCATGTGACTATATTTTGG+TGG | + | chr6_3:21882026-21882045 | None:intergenic | 30.0% |
| ! | CCAATCATGTGACTATATTT+TGG | + | chr6_3:21882029-21882048 | None:intergenic | 30.0% |
| CCAAAATATAGTCACATGAT+TGG | - | chr6_3:21882026-21882045 | Msa0944830:CDS | 30.0% | |
| AAATATAGTCACATGATTGG+AGG | - | chr6_3:21882029-21882048 | Msa0944830:CDS | 30.0% | |
| AATGAATCACTTACTAGGAT+AGG | + | chr6_3:21882245-21882264 | None:intergenic | 30.0% | |
| AGTTATGTTACACAGGCATT+AGG | - | chr6_3:21881963-21881982 | Msa0944830:CDS | 35.0% | |
| !! | TTGAAGGTTGATTTGCATAC+TGG | - | chr6_3:21882059-21882078 | Msa0944830:CDS | 35.0% |
| ACTAGGATAGGATTCATTGA+TGG | + | chr6_3:21882233-21882252 | None:intergenic | 35.0% | |
| !!! | GCCGTTTTTCATGTTATCAT+TGG | - | chr6_3:21882274-21882293 | Msa0944830:intron | 35.0% |
| !! | GCTTAACTTGTGACTTGTGT+TGG | - | chr6_3:21881869-21881888 | Msa0944830:CDS | 40.0% |
| TGCAAATCAACCTTCAAAGC+AGG | + | chr6_3:21882056-21882075 | None:intergenic | 40.0% | |
| ACCGTAGCTATGATTCTCAT+CGG | - | chr6_3:21882191-21882210 | Msa0944830:CDS | 40.0% | |
| ACCGATGAGAATCATAGCTA+CGG | + | chr6_3:21882195-21882214 | None:intergenic | 40.0% | |
| ! | GATAGGATTCATTGATGGTC+CGG | + | chr6_3:21882228-21882247 | None:intergenic | 40.0% |
| CCAGTATACTGAAACACATG+AGG | + | chr6_3:21882303-21882322 | None:intergenic | 40.0% | |
| CCTCATGTGTTTCAGTATAC+TGG | - | chr6_3:21882300-21882319 | Msa0944830:intron | 40.0% | |
| CATACTGGAGCTATTGCAGA+AGG | - | chr6_3:21882074-21882093 | Msa0944830:CDS | 45.0% | |
| GTTCTCTTCATCTTGCTCAG+AGG | - | chr6_3:21882125-21882144 | Msa0944830:CDS | 45.0% | |
| GTCTTCATGAACTCACTACG+AGG | + | chr6_3:21882152-21882171 | None:intergenic | 45.0% | |
| AATCATAGCTACGGTCGACA+CGG | + | chr6_3:21882186-21882205 | None:intergenic | 45.0% | |
| TACACAGGCATTAGGTGCAG+TGG | - | chr6_3:21881971-21881990 | Msa0944830:CDS | 50.0% | |
| ! | GGCTGGTGCTAAGGCAATTA+AGG | - | chr6_3:21881992-21882011 | Msa0944830:CDS | 50.0% |
| GATTGGAGGACCTGCTTTGA+AGG | - | chr6_3:21882043-21882062 | Msa0944830:CDS | 50.0% | |
| !! | CTCATCGGTTCTGCTTACAC+CGG | - | chr6_3:21882206-21882225 | Msa0944830:CDS | 50.0% |
| CAGGCATTAGGTGCAGTGGC+TGG | - | chr6_3:21881975-21881994 | Msa0944830:CDS | 60.0% | |
| ! | AGGTGCAGTGGCTGGTGCTA+AGG | - | chr6_3:21881983-21882002 | Msa0944830:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_3 | gene | 21881849 | 21882331 | 21881849 | ID=Msa0944830;Name=Msa0944830 |
| chr6_3 | mRNA | 21881849 | 21882331 | 21881849 | ID=Msa0944830-mRNA-1;Parent=Msa0944830;Name=Msa0944830-mRNA-1;_AED=0.21;_eAED=0.21;_QI=0|0|0|0.5|0|0|2|0|135 |
| chr6_3 | exon | 21882303 | 21882331 | 21882303 | ID=Msa0944830-mRNA-1:exon:6526;Parent=Msa0944830-mRNA-1 |
| chr6_3 | exon | 21881849 | 21882227 | 21881849 | ID=Msa0944830-mRNA-1:exon:6525;Parent=Msa0944830-mRNA-1 |
| chr6_3 | CDS | 21882303 | 21882331 | 21882303 | ID=Msa0944830-mRNA-1:cds;Parent=Msa0944830-mRNA-1 |
| chr6_3 | CDS | 21881849 | 21882227 | 21881849 | ID=Msa0944830-mRNA-1:cds;Parent=Msa0944830-mRNA-1 |
| Gene Sequence |
| Protein sequence |
