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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0948960 | RHN51042.1 | 60.989 | 182 | 38 | 5 | 5 | 153 | 122 | 303 | 1.61e-57 | 192 |
| 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 |
|---|---|---|
| Msa0948960 | TF | B3 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0948960 | MtrunA17_Chr6g0464121 | 60.989 | 182 | 38 | 5 | 5 | 153 | 122 | 303 | 1.48e-61 | 192 |
| Msa0948960 | MtrunA17_Chr1g0154071 | 75.904 | 83 | 15 | 2 | 3 | 84 | 415 | 493 | 1.15e-36 | 131 |
| Msa0948960 | MtrunA17_Chr1g0154041 | 72.603 | 73 | 20 | 0 | 1 | 73 | 278 | 350 | 1.30e-33 | 124 |
| Msa0948960 | MtrunA17_Chr1g0154041 | 54.237 | 59 | 27 | 0 | 3 | 61 | 509 | 567 | 8.85e-16 | 73.2 |
| Msa0948960 | MtrunA17_Chr1g0154101 | 67.606 | 71 | 23 | 0 | 3 | 73 | 531 | 601 | 6.15e-30 | 114 |
| Msa0948960 | MtrunA17_Chr1g0154101 | 48.387 | 62 | 31 | 1 | 3 | 63 | 755 | 816 | 4.37e-13 | 65.5 |
| Msa0948960 | MtrunA17_Chr1g0154131 | 66.197 | 71 | 24 | 0 | 3 | 73 | 399 | 469 | 2.98e-29 | 110 |
| Msa0948960 | MtrunA17_Chr1g0154211 | 54.217 | 83 | 34 | 1 | 1 | 83 | 304 | 382 | 1.54e-26 | 102 |
| Msa0948960 | MtrunA17_Chr1g0154121 | 59.259 | 81 | 31 | 1 | 1 | 79 | 1 | 81 | 1.14e-24 | 91.3 |
| Msa0948960 | MtrunA17_Chr1g0154111 | 60.274 | 73 | 29 | 0 | 1 | 73 | 287 | 359 | 1.78e-24 | 98.2 |
| Msa0948960 | MtrunA17_Chr1g0154191 | 40.000 | 90 | 43 | 1 | 1 | 79 | 272 | 361 | 3.90e-14 | 68.2 |
| Msa0948960 | MtrunA17_Chr1g0154171 | 46.774 | 62 | 33 | 0 | 2 | 63 | 273 | 334 | 6.22e-14 | 67.8 |
| Msa0948960 | MtrunA17_Chr1g0154151 | 45.902 | 61 | 30 | 1 | 2 | 62 | 246 | 303 | 7.54e-13 | 64.7 |
| Msa0948960 | MtrunA17_Chr1g0154161 | 47.541 | 61 | 32 | 0 | 1 | 61 | 236 | 296 | 4.82e-12 | 62.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 22 sgRNAs with CRISPR-Local
Find 41 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATCTTTGTATTGCATTT+TGG | 0.202702 | 6_3:+34150432 | None:intergenic |
| GTCTCTTGTAGAATTAAAAT+TGG | 0.279531 | 6_3:-34149896 | Msa0948960:CDS |
| TAGCCCAAAGAAACTCCTTT+TGG | 0.289773 | 6_3:+34149923 | None:intergenic |
| AGTTCCAAAAGGAGTTTCTT+TGG | 0.291068 | 6_3:-34149927 | Msa0948960:CDS |
| GTTCCAAAAGGAGTTTCTTT+GGG | 0.373682 | 6_3:-34149926 | Msa0948960:CDS |
| GATATTACAAGATTAGAATA+TGG | 0.401562 | 6_3:-34150106 | Msa0948960:intron |
| GGCAATTTCCGTATTACTAG+TGG | 0.434450 | 6_3:-34150051 | Msa0948960:CDS |
| TGTCTGTGGCAATAGCATAA+AGG | 0.439722 | 6_3:-34150313 | Msa0948960:CDS |
| CTCCATTCCCACTAGTAATA+CGG | 0.441622 | 6_3:+34150043 | None:intergenic |
| TTGATTAAAGATTTGTGCAT+TGG | 0.450510 | 6_3:+34149871 | None:intergenic |
| TTCCGTATTACTAGTGGGAA+TGG | 0.476659 | 6_3:-34150045 | Msa0948960:CDS |
| ATAATTTGAAGGGAGAACAC+TGG | 0.530376 | 6_3:-34150404 | Msa0948960:CDS |
| AGAATATGGAGATTAGATGA+TGG | 0.552827 | 6_3:-34150092 | Msa0948960:CDS |
| GTCACTCTCTGTGTGGAGGA+TGG | 0.556909 | 6_3:-34150344 | Msa0948960:CDS |
| TGTGGCAATAGCATAAAGGT+TGG | 0.581798 | 6_3:-34150309 | Msa0948960:CDS |
| AATTTCACAAGAGTTCCAAA+AGG | 0.582344 | 6_3:-34149938 | Msa0948960:CDS |
| CTAGTAATACGGAAATTGCC+AGG | 0.591441 | 6_3:+34150054 | None:intergenic |
| GCAATTTCCGTATTACTAGT+GGG | 0.598580 | 6_3:-34150050 | Msa0948960:CDS |
| GATAGAAGACTACTATACAT+TGG | 0.621077 | 6_3:-34149988 | Msa0948960:CDS |
| TGGTATTGTTGTACACTACC+TGG | 0.653625 | 6_3:-34150072 | Msa0948960:CDS |
| ACAAGTCACTCTCTGTGTGG+AGG | 0.681594 | 6_3:-34150348 | Msa0948960:CDS |
| CATACAAGTCACTCTCTGTG+TGG | 0.695813 | 6_3:-34150351 | Msa0948960:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTTTTCTTCATAATTTGAA+GGG | - | chr6_3:34149900-34149919 | Msa0948960:CDS | 15.0% |
| !!! | AAAATCTTTGTATTGCATTT+TGG | + | chr6_3:34149885-34149904 | None:intergenic | 20.0% |
| !!! | GATTTTTCTTCATAATTTGA+AGG | - | chr6_3:34149899-34149918 | Msa0948960:CDS | 20.0% |
| !! | GATATTACAAGATTAGAATA+TGG | - | chr6_3:34150208-34150227 | Msa0948960:intron | 20.0% |
| ! | GTCTCTTGTAGAATTAAAAT+TGG | - | chr6_3:34150418-34150437 | Msa0948960:CDS | 25.0% |
| ! | TTGATTAAAGATTTGTGCAT+TGG | + | chr6_3:34150446-34150465 | None:intergenic | 25.0% |
| AGAATATGGAGATTAGATGA+TGG | - | chr6_3:34150222-34150241 | Msa0948960:intron | 30.0% | |
| GATAGAAGACTACTATACAT+TGG | - | chr6_3:34150326-34150345 | Msa0948960:CDS | 30.0% | |
| AATTTCACAAGAGTTCCAAA+AGG | - | chr6_3:34150376-34150395 | Msa0948960:CDS | 30.0% | |
| ATAATTTGAAGGGAGAACAC+TGG | - | chr6_3:34149910-34149929 | Msa0948960:CDS | 35.0% | |
| ! | TCTTTTCTAACCTCAGCAAT+GGG | + | chr6_3:34150077-34150096 | None:intergenic | 35.0% |
| ! | ATCTTTTCTAACCTCAGCAA+TGG | + | chr6_3:34150078-34150097 | None:intergenic | 35.0% |
| TGCTGAGGTTAGAAAAGATT+TGG | - | chr6_3:34150079-34150098 | Msa0948960:CDS | 35.0% | |
| TGTAATATCACCAACACTGA+AGG | + | chr6_3:34150197-34150216 | None:intergenic | 35.0% | |
| GCAATTTCCGTATTACTAGT+GGG | - | chr6_3:34150264-34150283 | Msa0948960:CDS | 35.0% | |
| AGTTCCAAAAGGAGTTTCTT+TGG | - | chr6_3:34150387-34150406 | Msa0948960:CDS | 35.0% | |
| GTTCCAAAAGGAGTTTCTTT+GGG | - | chr6_3:34150388-34150407 | Msa0948960:CDS | 35.0% | |
| ! | GGATGGATAGATTTTGTCTG+TGG | - | chr6_3:34149987-34150006 | Msa0948960:CDS | 40.0% |
| TGTCTGTGGCAATAGCATAA+AGG | - | chr6_3:34150001-34150020 | Msa0948960:intron | 40.0% | |
| TGTGGCAATAGCATAAAGGT+TGG | - | chr6_3:34150005-34150024 | Msa0948960:intron | 40.0% | |
| ! | ATTTTGTGTTCCCATTGCTG+AGG | - | chr6_3:34150064-34150083 | Msa0948960:CDS | 40.0% |
| GAGGTTAGAAAAGATTTGGC+TGG | - | chr6_3:34150083-34150102 | Msa0948960:CDS | 40.0% | |
| ACATGTAGCTTTCACACACT+TGG | - | chr6_3:34150171-34150190 | Msa0948960:intron | 40.0% | |
| TGGTATTGTTGTACACTACC+TGG | - | chr6_3:34150242-34150261 | Msa0948960:intron | 40.0% | |
| CTAGTAATACGGAAATTGCC+AGG | + | chr6_3:34150263-34150282 | None:intergenic | 40.0% | |
| GGCAATTTCCGTATTACTAG+TGG | - | chr6_3:34150263-34150282 | Msa0948960:CDS | 40.0% | |
| TTCCGTATTACTAGTGGGAA+TGG | - | chr6_3:34150269-34150288 | Msa0948960:CDS | 40.0% | |
| CTCCATTCCCACTAGTAATA+CGG | + | chr6_3:34150274-34150293 | None:intergenic | 40.0% | |
| ! | TAGCCCAAAGAAACTCCTTT+TGG | + | chr6_3:34150394-34150413 | None:intergenic | 40.0% |
| CATACAAGTCACTCTCTGTG+TGG | - | chr6_3:34149963-34149982 | Msa0948960:CDS | 45.0% | |
| TTCAGTGCTTCCTCATATGC+AGG | + | chr6_3:34150111-34150130 | None:intergenic | 45.0% | |
| AATGCAGATCTTCCTACACG+TGG | - | chr6_3:34150129-34150148 | Msa0948960:intron | 45.0% | |
| ATGCAGATCTTCCTACACGT+GGG | - | chr6_3:34150130-34150149 | Msa0948960:intron | 45.0% | |
| ACAAGTCACTCTCTGTGTGG+AGG | - | chr6_3:34149966-34149985 | Msa0948960:CDS | 50.0% | |
| AGATCTTCCTACACGTGGGT+GGG | - | chr6_3:34150134-34150153 | Msa0948960:intron | 50.0% | |
| ! | ACACACTTGGCCTTCAGTGT+TGG | - | chr6_3:34150184-34150203 | Msa0948960:intron | 50.0% |
| GTCACTCTCTGTGTGGAGGA+TGG | - | chr6_3:34149970-34149989 | Msa0948960:CDS | 55.0% | |
| TTGGCTGGCACCTGCATATG+AGG | - | chr6_3:34150098-34150117 | Msa0948960:CDS | 55.0% | |
| CAGATCTTCCTACACGTGGG+TGG | - | chr6_3:34150133-34150152 | Msa0948960:intron | 55.0% | |
| GATCTTCCTACACGTGGGTG+GGG | - | chr6_3:34150135-34150154 | Msa0948960:intron | 55.0% | |
| TCTTAACCCCACCCACGTGT+AGG | + | chr6_3:34150144-34150163 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_3 | gene | 34149870 | 34150466 | 34149870 | ID=Msa0948960;Name=Msa0948960 |
| chr6_3 | mRNA | 34149870 | 34150466 | 34149870 | ID=Msa0948960-mRNA-1;Parent=Msa0948960;Name=Msa0948960-mRNA-1;_AED=0.27;_eAED=0.47;_QI=0|0|0|1|0|0.33|3|0|153 |
| chr6_3 | exon | 34150251 | 34150466 | 34150251 | ID=Msa0948960-mRNA-1:exon:8747;Parent=Msa0948960-mRNA-1 |
| chr6_3 | exon | 34150020 | 34150117 | 34150020 | ID=Msa0948960-mRNA-1:exon:8746;Parent=Msa0948960-mRNA-1 |
| chr6_3 | exon | 34149870 | 34150014 | 34149870 | ID=Msa0948960-mRNA-1:exon:8745;Parent=Msa0948960-mRNA-1 |
| chr6_3 | CDS | 34150251 | 34150466 | 34150251 | ID=Msa0948960-mRNA-1:cds;Parent=Msa0948960-mRNA-1 |
| chr6_3 | CDS | 34150020 | 34150117 | 34150020 | ID=Msa0948960-mRNA-1:cds;Parent=Msa0948960-mRNA-1 |
| chr6_3 | CDS | 34149870 | 34150014 | 34149870 | ID=Msa0948960-mRNA-1:cds;Parent=Msa0948960-mRNA-1 |
| Gene Sequence |
| Protein sequence |
