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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0441490 | XP_013459208.1 | 90.909 | 275 | 21 | 1 | 1 | 271 | 1 | 275 | 3.45e-173 | 489 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0441490 | A0A072UTD1 | 90.909 | 275 | 21 | 1 | 1 | 271 | 1 | 275 | 1.65e-173 | 489 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0441490 | TF | C2H2 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0441490 | MtrunA17_Chr3g0079131 | 90.909 | 275 | 21 | 1 | 1 | 271 | 1 | 275 | 3.17e-177 | 489 |
| Msa0441490 | MtrunA17_Chr3g0079061 | 62.909 | 275 | 98 | 2 | 1 | 271 | 1 | 275 | 6.81e-114 | 328 |
| Msa0441490 | MtrunA17_Chr3g0079091 | 63.277 | 177 | 61 | 2 | 1 | 173 | 1 | 177 | 2.30e-63 | 196 |
| Msa0441490 | MtrunA17_Chr4g0018761 | 28.731 | 268 | 153 | 7 | 3 | 265 | 4 | 238 | 1.94e-24 | 98.6 |
| Msa0441490 | MtrunA17_Chr7g0231181 | 24.383 | 324 | 177 | 9 | 4 | 269 | 2 | 315 | 1.04e-12 | 67.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0441490 | AT3G60580.1 | 28.214 | 280 | 139 | 11 | 7 | 262 | 5 | 246 | 1.52e-11 | 63.9 |
Find 26 sgRNAs with CRISPR-Local
Find 88 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CGGTCGTAGACAATTTAATT+TGG | 0.242247 | 3_3:+9879090 | Msa0441490:CDS |
| AACAATCTATCTGAAGAAAT+TGG | 0.300908 | 3_3:+9879415 | Msa0441490:CDS |
| TGAGAATACACAAGTTAAAT+TGG | 0.302912 | 3_3:+9879189 | Msa0441490:CDS |
| ATACTATAGTGAGAAGAAAA+AGG | 0.312924 | 3_3:+9879291 | Msa0441490:CDS |
| TAAATTGGTGTATAGTGATT+TGG | 0.323391 | 3_3:+9879204 | Msa0441490:CDS |
| CTATTATTTGTGTGAATGAA+TGG | 0.399412 | 3_3:+9879251 | Msa0441490:CDS |
| TCACGTGCTTGGTTGTTGAT+TGG | 0.399497 | 3_3:-9878875 | None:intergenic |
| TATCATACCCTTGTAAACTT+TGG | 0.406116 | 3_3:+9879010 | Msa0441490:CDS |
| TCTGAAGAAATTGGTATAAG+TGG | 0.426032 | 3_3:+9879424 | Msa0441490:CDS |
| AATAGAGAGAGTTTGATGTT+TGG | 0.448411 | 3_3:-9878915 | None:intergenic |
| TACAGAAGCTGCTGAAACAT+TGG | 0.473334 | 3_3:+9879228 | Msa0441490:CDS |
| TATTCTTACCAAAGTTTACA+AGG | 0.477139 | 3_3:-9879018 | None:intergenic |
| TCACAAGTGCACATATTGCT+TGG | 0.480968 | 3_3:+9879477 | Msa0441490:CDS |
| CAATGCTTTCCCATTAGAAA+AGG | 0.484168 | 3_3:-9878801 | None:intergenic |
| AAGATCGAAGATTATGCATA+GGG | 0.485747 | 3_3:-9878973 | None:intergenic |
| TGTACTTGAGGAACACAAAA+CGG | 0.523616 | 3_3:+9879519 | Msa0441490:CDS |
| CAACTGAGTGTTCACGTGCT+TGG | 0.533072 | 3_3:-9878886 | None:intergenic |
| TGAATCTGATCATGTACTTG+AGG | 0.537940 | 3_3:+9879507 | Msa0441490:CDS |
| ATAATCTTCGATCTTTGAAG+AGG | 0.557615 | 3_3:+9878981 | Msa0441490:CDS |
| AAAGATCGAAGATTATGCAT+AGG | 0.557994 | 3_3:-9878974 | None:intergenic |
| AGAAATTGGTATAAGTGGAA+AGG | 0.574832 | 3_3:+9879429 | Msa0441490:CDS |
| AGAGAATACAATATTTAATG+TGG | 0.614916 | 3_3:+9879117 | Msa0441490:CDS |
| TGTGGCTGAAGAAAATGAAG+AGG | 0.616323 | 3_3:+9879135 | Msa0441490:CDS |
| ATTCTTACCAAAGTTTACAA+GGG | 0.625545 | 3_3:-9879017 | None:intergenic |
| TCTAATGGGAAAGCATTGGG+AGG | 0.669450 | 3_3:+9878806 | Msa0441490:CDS |
| GAATGAATGGAAACAAGTTG+AGG | 0.698163 | 3_3:+9879264 | Msa0441490:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATAGATTGTTATTTTTCTTA+TGG | - | chr3_3:9879405-9879424 | None:intergenic | 15.0% |
| !!! | ATAGATTGTTATTTTTCTTA+TGG | - | chr3_3:9879405-9879424 | None:intergenic | 15.0% |
| !! | AGAGAATACAATATTTAATG+TGG | + | chr3_3:9879117-9879136 | Msa0441490:CDS | 20.0% |
| !! | AGAGAATACAATATTTAATG+TGG | + | chr3_3:9879117-9879136 | Msa0441490:CDS | 20.0% |
| ! | ATTCTTACCAAAGTTTACAA+GGG | - | chr3_3:9879020-9879039 | None:intergenic | 25.0% |
| ! | TATTCTTACCAAAGTTTACA+AGG | - | chr3_3:9879021-9879040 | None:intergenic | 25.0% |
| ! | TGAGAATACACAAGTTAAAT+TGG | + | chr3_3:9879189-9879208 | Msa0441490:CDS | 25.0% |
| ! | TAAATTGGTGTATAGTGATT+TGG | + | chr3_3:9879204-9879223 | Msa0441490:CDS | 25.0% |
| ! | CTATTATTTGTGTGAATGAA+TGG | + | chr3_3:9879251-9879270 | Msa0441490:CDS | 25.0% |
| ! | ATACTATAGTGAGAAGAAAA+AGG | + | chr3_3:9879291-9879310 | Msa0441490:CDS | 25.0% |
| ! | AAGAAAAAGGTTAGTGAAAA+TGG | + | chr3_3:9879304-9879323 | Msa0441490:CDS | 25.0% |
| ! | AACAATCTATCTGAAGAAAT+TGG | + | chr3_3:9879415-9879434 | Msa0441490:CDS | 25.0% |
| ! | ATTCTTACCAAAGTTTACAA+GGG | - | chr3_3:9879020-9879039 | None:intergenic | 25.0% |
| ! | TATTCTTACCAAAGTTTACA+AGG | - | chr3_3:9879021-9879040 | None:intergenic | 25.0% |
| ! | TGAGAATACACAAGTTAAAT+TGG | + | chr3_3:9879189-9879208 | Msa0441490:CDS | 25.0% |
| ! | TAAATTGGTGTATAGTGATT+TGG | + | chr3_3:9879204-9879223 | Msa0441490:CDS | 25.0% |
| ! | CTATTATTTGTGTGAATGAA+TGG | + | chr3_3:9879251-9879270 | Msa0441490:CDS | 25.0% |
| ! | ATACTATAGTGAGAAGAAAA+AGG | + | chr3_3:9879291-9879310 | Msa0441490:CDS | 25.0% |
| ! | AAGAAAAAGGTTAGTGAAAA+TGG | + | chr3_3:9879304-9879323 | Msa0441490:CDS | 25.0% |
| ! | AACAATCTATCTGAAGAAAT+TGG | + | chr3_3:9879415-9879434 | Msa0441490:CDS | 25.0% |
| ! | TGTAACAAGTCCTTTTCTAA+TGG | + | chr3_3:9878791-9878810 | Msa0441490:CDS | 30.0% |
| ! | GTAACAAGTCCTTTTCTAAT+GGG | + | chr3_3:9878792-9878811 | Msa0441490:CDS | 30.0% |
| !!! | TTTTCTAATGGGAAAGCATT+GGG | + | chr3_3:9878803-9878822 | Msa0441490:CDS | 30.0% |
| !! | TGTTGATTGGAGATTTTAGA+GGG | - | chr3_3:9878865-9878884 | None:intergenic | 30.0% |
| !! | TTGTTGATTGGAGATTTTAG+AGG | - | chr3_3:9878866-9878885 | None:intergenic | 30.0% |
| AATAGAGAGAGTTTGATGTT+TGG | - | chr3_3:9878918-9878937 | None:intergenic | 30.0% | |
| !! | TTTTGGATTGGAAATTGATG+AGG | - | chr3_3:9878951-9878970 | None:intergenic | 30.0% |
| !!! | AGATTATGCATAGGGTTTTT+TGG | - | chr3_3:9878968-9878987 | None:intergenic | 30.0% |
| AAGATCGAAGATTATGCATA+GGG | - | chr3_3:9878976-9878995 | None:intergenic | 30.0% | |
| AAAGATCGAAGATTATGCAT+AGG | - | chr3_3:9878977-9878996 | None:intergenic | 30.0% | |
| ! | ATAATCTTCGATCTTTGAAG+AGG | + | chr3_3:9878981-9879000 | Msa0441490:CDS | 30.0% |
| TATCATACCCTTGTAAACTT+TGG | + | chr3_3:9879010-9879029 | Msa0441490:CDS | 30.0% | |
| TCTGAAGAAATTGGTATAAG+TGG | + | chr3_3:9879424-9879443 | Msa0441490:CDS | 30.0% | |
| AGAAATTGGTATAAGTGGAA+AGG | + | chr3_3:9879429-9879448 | Msa0441490:CDS | 30.0% | |
| ! | TGGGTTAGAATCAGAAAAAT+TGG | - | chr3_3:9879554-9879573 | None:intergenic | 30.0% |
| ! | TGTAACAAGTCCTTTTCTAA+TGG | + | chr3_3:9878791-9878810 | Msa0441490:CDS | 30.0% |
| ! | GTAACAAGTCCTTTTCTAAT+GGG | + | chr3_3:9878792-9878811 | Msa0441490:CDS | 30.0% |
| !!! | TTTTCTAATGGGAAAGCATT+GGG | + | chr3_3:9878803-9878822 | Msa0441490:CDS | 30.0% |
| !! | TGTTGATTGGAGATTTTAGA+GGG | - | chr3_3:9878865-9878884 | None:intergenic | 30.0% |
| !! | TTGTTGATTGGAGATTTTAG+AGG | - | chr3_3:9878866-9878885 | None:intergenic | 30.0% |
| AATAGAGAGAGTTTGATGTT+TGG | - | chr3_3:9878918-9878937 | None:intergenic | 30.0% | |
| !! | TTTTGGATTGGAAATTGATG+AGG | - | chr3_3:9878951-9878970 | None:intergenic | 30.0% |
| !!! | AGATTATGCATAGGGTTTTT+TGG | - | chr3_3:9878968-9878987 | None:intergenic | 30.0% |
| AAGATCGAAGATTATGCATA+GGG | - | chr3_3:9878976-9878995 | None:intergenic | 30.0% | |
| AAAGATCGAAGATTATGCAT+AGG | - | chr3_3:9878977-9878996 | None:intergenic | 30.0% | |
| ! | ATAATCTTCGATCTTTGAAG+AGG | + | chr3_3:9878981-9879000 | Msa0441490:CDS | 30.0% |
| TATCATACCCTTGTAAACTT+TGG | + | chr3_3:9879010-9879029 | Msa0441490:CDS | 30.0% | |
| TCTGAAGAAATTGGTATAAG+TGG | + | chr3_3:9879424-9879443 | Msa0441490:CDS | 30.0% | |
| AGAAATTGGTATAAGTGGAA+AGG | + | chr3_3:9879429-9879448 | Msa0441490:CDS | 30.0% | |
| ! | TGGGTTAGAATCAGAAAAAT+TGG | - | chr3_3:9879554-9879573 | None:intergenic | 30.0% |
| CAATGCTTTCCCATTAGAAA+AGG | - | chr3_3:9878804-9878823 | None:intergenic | 35.0% | |
| !! | CTTTTCTAATGGGAAAGCAT+TGG | + | chr3_3:9878802-9878821 | Msa0441490:CDS | 35.0% |
| ! | TAGCTAAGTGAGTTTTCATG+TGG | - | chr3_3:9878832-9878851 | None:intergenic | 35.0% |
| !!! | ATGCATAGGGTTTTTTGGAT+TGG | - | chr3_3:9878963-9878982 | None:intergenic | 35.0% |
| ! | TCTTTTCCAAAAAACCCAAC+TGG | + | chr3_3:9879052-9879071 | Msa0441490:CDS | 35.0% |
| ! | CTTTTTCCAGTTGGGTTTTT+TGG | - | chr3_3:9879061-9879080 | None:intergenic | 35.0% |
| ! | GTTTCGATCTTTTTCCAGTT+GGG | - | chr3_3:9879069-9879088 | None:intergenic | 35.0% |
| CGGTCGTAGACAATTTAATT+TGG | + | chr3_3:9879090-9879109 | Msa0441490:CDS | 35.0% | |
| GAATGAATGGAAACAAGTTG+AGG | + | chr3_3:9879264-9879283 | Msa0441490:CDS | 35.0% | |
| TGAATCTGATCATGTACTTG+AGG | + | chr3_3:9879507-9879526 | Msa0441490:CDS | 35.0% | |
| TGTACTTGAGGAACACAAAA+CGG | + | chr3_3:9879519-9879538 | Msa0441490:CDS | 35.0% | |
| CAATGCTTTCCCATTAGAAA+AGG | - | chr3_3:9878804-9878823 | None:intergenic | 35.0% | |
| !! | CTTTTCTAATGGGAAAGCAT+TGG | + | chr3_3:9878802-9878821 | Msa0441490:CDS | 35.0% |
| ! | TAGCTAAGTGAGTTTTCATG+TGG | - | chr3_3:9878832-9878851 | None:intergenic | 35.0% |
| !!! | ATGCATAGGGTTTTTTGGAT+TGG | - | chr3_3:9878963-9878982 | None:intergenic | 35.0% |
| ! | TCTTTTCCAAAAAACCCAAC+TGG | + | chr3_3:9879052-9879071 | Msa0441490:CDS | 35.0% |
| ! | CTTTTTCCAGTTGGGTTTTT+TGG | - | chr3_3:9879061-9879080 | None:intergenic | 35.0% |
| ! | GTTTCGATCTTTTTCCAGTT+GGG | - | chr3_3:9879069-9879088 | None:intergenic | 35.0% |
| CGGTCGTAGACAATTTAATT+TGG | + | chr3_3:9879090-9879109 | Msa0441490:CDS | 35.0% | |
| GAATGAATGGAAACAAGTTG+AGG | + | chr3_3:9879264-9879283 | Msa0441490:CDS | 35.0% | |
| TGAATCTGATCATGTACTTG+AGG | + | chr3_3:9879507-9879526 | Msa0441490:CDS | 35.0% | |
| TGTACTTGAGGAACACAAAA+CGG | + | chr3_3:9879519-9879538 | Msa0441490:CDS | 35.0% | |
| ! | CGTTTCGATCTTTTTCCAGT+TGG | - | chr3_3:9879070-9879089 | None:intergenic | 40.0% |
| ACTGGAAAAAGATCGAAACG+CGG | + | chr3_3:9879070-9879089 | Msa0441490:CDS | 40.0% | |
| TGTGGCTGAAGAAAATGAAG+AGG | + | chr3_3:9879135-9879154 | Msa0441490:CDS | 40.0% | |
| TACAGAAGCTGCTGAAACAT+TGG | + | chr3_3:9879228-9879247 | Msa0441490:CDS | 40.0% | |
| TCACAAGTGCACATATTGCT+TGG | + | chr3_3:9879477-9879496 | Msa0441490:CDS | 40.0% | |
| ! | CGTTTCGATCTTTTTCCAGT+TGG | - | chr3_3:9879070-9879089 | None:intergenic | 40.0% |
| ACTGGAAAAAGATCGAAACG+CGG | + | chr3_3:9879070-9879089 | Msa0441490:CDS | 40.0% | |
| TGTGGCTGAAGAAAATGAAG+AGG | + | chr3_3:9879135-9879154 | Msa0441490:CDS | 40.0% | |
| TACAGAAGCTGCTGAAACAT+TGG | + | chr3_3:9879228-9879247 | Msa0441490:CDS | 40.0% | |
| TCACAAGTGCACATATTGCT+TGG | + | chr3_3:9879477-9879496 | Msa0441490:CDS | 40.0% | |
| !! | TCTAATGGGAAAGCATTGGG+AGG | + | chr3_3:9878806-9878825 | Msa0441490:CDS | 45.0% |
| TCACGTGCTTGGTTGTTGAT+TGG | - | chr3_3:9878878-9878897 | None:intergenic | 45.0% | |
| !! | TCTAATGGGAAAGCATTGGG+AGG | + | chr3_3:9878806-9878825 | Msa0441490:CDS | 45.0% |
| TCACGTGCTTGGTTGTTGAT+TGG | - | chr3_3:9878878-9878897 | None:intergenic | 45.0% | |
| CAACTGAGTGTTCACGTGCT+TGG | - | chr3_3:9878889-9878908 | None:intergenic | 50.0% | |
| CAACTGAGTGTTCACGTGCT+TGG | - | chr3_3:9878889-9878908 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 9878761 | 9879576 | 9878761 | ID=Msa0441490;Name=Msa0441490 |
| chr3_3 | mRNA | 9878761 | 9879576 | 9878761 | ID=Msa0441490-mRNA-1;Parent=Msa0441490;Name=Msa0441490-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|271 |
| chr3_3 | exon | 9878761 | 9879576 | 9878761 | ID=Msa0441490-mRNA-1:exon:2048;Parent=Msa0441490-mRNA-1 |
| chr3_3 | CDS | 9878761 | 9879576 | 9878761 | ID=Msa0441490-mRNA-1:cds;Parent=Msa0441490-mRNA-1 |
| Gene Sequence |
| Protein sequence |
