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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0353250 | PNX54969.1 | 79.688 | 64 | 13 | 0 | 2 | 65 | 5 | 68 | 1.26e-26 | 102 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0353250 | A0A2K3JLR2 | 79.688 | 64 | 13 | 0 | 2 | 65 | 5 | 68 | 6.00e-27 | 102 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0353250 | Msa0399880 | 0.865126 | 7.401038e-65 | -8.615850e-47 |
| Msa0353250 | Msa0447040 | 0.832252 | 1.051294e-55 | -8.615850e-47 |
| Msa0353250 | Msa0494560 | 0.814536 | 1.465873e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0353250 | MtrunA17_Chr3g0088011 | 79.688 | 64 | 13 | 0 | 2 | 65 | 3 | 66 | 1.28e-30 | 101 |
| Msa0353250 | MtrunA17_Chr3g0088251 | 79.688 | 64 | 13 | 0 | 2 | 65 | 3 | 66 | 3.36e-30 | 100 |
| Msa0353250 | MtrunA17_Chr3g0088031 | 80.328 | 61 | 12 | 0 | 5 | 65 | 1 | 61 | 5.27e-30 | 100 |
| Msa0353250 | MtrunA17_Chr3g0087981 | 75.000 | 64 | 16 | 0 | 2 | 65 | 5 | 68 | 1.06e-29 | 99.4 |
| Msa0353250 | MtrunA17_Chr3g0088021 | 78.125 | 64 | 14 | 0 | 2 | 65 | 3 | 66 | 1.53e-29 | 99.0 |
| Msa0353250 | MtrunA17_Chr3g0087921 | 82.812 | 64 | 9 | 2 | 2 | 65 | 6 | 67 | 3.76e-27 | 93.2 |
| Msa0353250 | MtrunA17_Chr3g0087931 | 80.952 | 63 | 10 | 2 | 3 | 65 | 7 | 67 | 6.16e-27 | 92.4 |
| Msa0353250 | MtrunA17_Chr3g0088081 | 93.846 | 65 | 4 | 0 | 1 | 65 | 1 | 65 | 7.02e-24 | 84.7 |
| Msa0353250 | MtrunA17_Chr3g0088071 | 79.688 | 64 | 13 | 0 | 2 | 65 | 3 | 66 | 2.11e-23 | 83.6 |
| Msa0353250 | MtrunA17_Chr3g0088271 | 83.077 | 65 | 11 | 0 | 1 | 65 | 1 | 65 | 4.84e-23 | 82.8 |
| Msa0353250 | MtrunA17_Chr3g0087911 | 91.111 | 45 | 4 | 0 | 21 | 65 | 23 | 67 | 6.87e-22 | 79.7 |
| Msa0353250 | MtrunA17_Chr3g0088041 | 88.636 | 44 | 5 | 0 | 22 | 65 | 23 | 66 | 5.75e-21 | 77.4 |
| Msa0353250 | MtrunA17_Chr3g0087941 | 84.091 | 44 | 7 | 0 | 22 | 65 | 25 | 68 | 1.55e-19 | 73.9 |
| Msa0353250 | MtrunA17_Chr3g0088001 | 85.714 | 42 | 6 | 0 | 24 | 65 | 26 | 67 | 1.87e-19 | 73.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 18 sgRNAs with CRISPR-Local
Find 18 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACAAATTCAGTTGCTATGAT+TGG | 0.314744 | 3_1:-23045395 | Msa0353250:CDS |
| CCCTCGTTGGCTCCGGCACC+AGG | 0.346432 | 3_1:-23045446 | Msa0353250:CDS |
| GGTCCCGATGCTGGTGCTGC+TGG | 0.375754 | 3_1:-23045425 | Msa0353250:CDS |
| CTTCACAGCAGCCGTGGCTT+CGG | 0.419788 | 3_1:-23045483 | Msa0353250:CDS |
| CCGGCACCAGGTCCCGATGC+TGG | 0.434291 | 3_1:-23045434 | Msa0353250:CDS |
| AGTTGCTATGATTGGAGCTT+CGG | 0.447713 | 3_1:-23045387 | Msa0353250:CDS |
| GATCCAGCAGCACCAGCATC+GGG | 0.449538 | 3_1:+23045422 | None:intergenic |
| TCTTAATTAGTTCTTGAAGA+TGG | 0.464203 | 3_1:+23045346 | None:intergenic |
| CCAGCATCGGGACCTGGTGC+CGG | 0.481084 | 3_1:+23045434 | None:intergenic |
| GCAGCACCAGCATCGGGACC+TGG | 0.523593 | 3_1:+23045428 | None:intergenic |
| CCTCAGTCCCTCGTTGGCTC+CGG | 0.529105 | 3_1:-23045453 | Msa0353250:CDS |
| TCAAGACCTCAGTCCCTCGT+TGG | 0.572881 | 3_1:-23045459 | Msa0353250:CDS |
| AGATCCAGCAGCACCAGCAT+CGG | 0.601129 | 3_1:+23045421 | None:intergenic |
| CGTTGTCTTCACAGCAGCCG+TGG | 0.602291 | 3_1:-23045489 | Msa0353250:CDS |
| GAGGTCTTGAGCCGAAGCCA+CGG | 0.614751 | 3_1:+23045472 | None:intergenic |
| CCGGAGCCAACGAGGGACTG+AGG | 0.619509 | 3_1:+23045453 | None:intergenic |
| CCTGGTGCCGGAGCCAACGA+GGG | 0.645258 | 3_1:+23045446 | None:intergenic |
| ACCTGGTGCCGGAGCCAACG+AGG | 0.656634 | 3_1:+23045445 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ACAAATTCAGTTGCTATGAT+TGG | - | chr3_1:23045484-23045503 | Msa0353250:CDS | 30.0% | |
| GAAGACAACGACGAAAAAGA+AGG | + | chr3_1:23045380-23045399 | None:intergenic | 40.0% | |
| AGTTGCTATGATTGGAGCTT+CGG | - | chr3_1:23045492-23045511 | Msa0353250:CDS | 40.0% | |
| TCAAGACCTCAGTCCCTCGT+TGG | - | chr3_1:23045420-23045439 | Msa0353250:CDS | 55.0% | |
| AGATCCAGCAGCACCAGCAT+CGG | + | chr3_1:23045461-23045480 | None:intergenic | 55.0% | |
| CGTTGTCTTCACAGCAGCCG+TGG | - | chr3_1:23045390-23045409 | Msa0353250:CDS | 60.0% | |
| CTTCACAGCAGCCGTGGCTT+CGG | - | chr3_1:23045396-23045415 | Msa0353250:CDS | 60.0% | |
| GAGGTCTTGAGCCGAAGCCA+CGG | + | chr3_1:23045410-23045429 | None:intergenic | 60.0% | |
| GATCCAGCAGCACCAGCATC+GGG | + | chr3_1:23045460-23045479 | None:intergenic | 60.0% | |
| !! | CCTCAGTCCCTCGTTGGCTC+CGG | - | chr3_1:23045426-23045445 | Msa0353250:CDS | 65.0% |
| CCGGAGCCAACGAGGGACTG+AGG | + | chr3_1:23045429-23045448 | None:intergenic | 70.0% | |
| ! | CCTGGTGCCGGAGCCAACGA+GGG | + | chr3_1:23045436-23045455 | None:intergenic | 70.0% |
| ! | ACCTGGTGCCGGAGCCAACG+AGG | + | chr3_1:23045437-23045456 | None:intergenic | 70.0% |
| ! | CCAGCATCGGGACCTGGTGC+CGG | + | chr3_1:23045448-23045467 | None:intergenic | 70.0% |
| ! | GCAGCACCAGCATCGGGACC+TGG | + | chr3_1:23045454-23045473 | None:intergenic | 70.0% |
| !! | GGTCCCGATGCTGGTGCTGC+TGG | - | chr3_1:23045454-23045473 | Msa0353250:CDS | 70.0% |
| !! | CCCTCGTTGGCTCCGGCACC+AGG | - | chr3_1:23045433-23045452 | Msa0353250:CDS | 75.0% |
| CCGGCACCAGGTCCCGATGC+TGG | - | chr3_1:23045445-23045464 | Msa0353250:CDS | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 23045352 | 23045549 | 23045352 | ID=Msa0353250;Name=Msa0353250 |
| chr3_1 | mRNA | 23045352 | 23045549 | 23045352 | ID=Msa0353250-mRNA-1;Parent=Msa0353250;Name=Msa0353250-mRNA-1;_AED=0.35;_eAED=0.36;_QI=0|-1|0|1|-1|1|1|0|65 |
| chr3_1 | exon | 23045352 | 23045549 | 23045352 | ID=Msa0353250-mRNA-1:exon:5191;Parent=Msa0353250-mRNA-1 |
| chr3_1 | CDS | 23045352 | 23045549 | 23045352 | ID=Msa0353250-mRNA-1:cds;Parent=Msa0353250-mRNA-1 |
| Gene Sequence |
| Protein sequence |
