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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0621400 | XP_003629427.1 | 97.222 | 72 | 2 | 0 | 1 | 72 | 1 | 72 | 1.16e-44 | 147 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0621400 | sp|F4JVB8|RADL1_ARATH | 66.154 | 65 | 21 | 1 | 5 | 68 | 14 | 78 | 1.55e-27 | 98.2 |
| 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 |
|---|---|---|---|---|
| Msa0621380 | Msa0621400 | 0.801615 | 8.283953e-49 | -8.615850e-47 |
| Msa0621390 | Msa0621400 | 0.828753 | 7.545235e-55 | -8.615850e-47 |
| Msa0621400 | Msa0621410 | 0.863126 | 3.108538e-64 | -8.615850e-47 |
| Msa0621400 | Msa1255130 | 0.816693 | 4.848062e-52 | -8.615850e-47 |
| Msa0621400 | Msa1255140 | 0.823179 | 1.592333e-53 | -8.615850e-47 |
| Msa0621400 | Msa1295580 | 0.840343 | 9.204624e-58 | -8.615850e-47 |
| Msa0621400 | Msa1295590 | 0.827160 | 1.823985e-54 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0621400 | MtrunA17_Chr8g0373111 | 97.222 | 72 | 2 | 0 | 1 | 72 | 1 | 72 | 1.07e-48 | 147 |
| Msa0621400 | MtrunA17_Chr8g0373121 | 97.222 | 72 | 2 | 0 | 1 | 72 | 1 | 72 | 1.07e-48 | 147 |
| Msa0621400 | MtrunA17_Chr8g0373131 | 95.833 | 72 | 3 | 0 | 1 | 72 | 1 | 72 | 3.44e-48 | 146 |
| Msa0621400 | MtrunA17_Chr5g0404301 | 82.258 | 62 | 11 | 0 | 3 | 64 | 2 | 63 | 1.34e-35 | 114 |
| Msa0621400 | MtrunA17_Chr8g0373101 | 69.565 | 69 | 20 | 1 | 1 | 69 | 1 | 68 | 4.40e-32 | 105 |
| Msa0621400 | MtrunA17_Chr3g0144631 | 64.615 | 65 | 22 | 1 | 5 | 68 | 16 | 80 | 1.84e-27 | 94.7 |
| Msa0621400 | MtrunA17_Chr6g0449111 | 58.571 | 70 | 27 | 2 | 2 | 70 | 7 | 75 | 6.07e-26 | 90.9 |
| Msa0621400 | MtrunA17_Chr1g0155181 | 55.224 | 67 | 29 | 1 | 2 | 67 | 4 | 70 | 8.11e-26 | 90.5 |
| Msa0621400 | MtrunA17_Chr5g0404101 | 54.688 | 64 | 28 | 1 | 5 | 67 | 19 | 82 | 1.49e-24 | 87.8 |
| Msa0621400 | MtrunA17_Chr3g0141601 | 55.072 | 69 | 30 | 1 | 2 | 69 | 4 | 72 | 7.78e-24 | 85.9 |
| Msa0621400 | MtrunA17_Chr3g0081631 | 55.072 | 69 | 29 | 1 | 2 | 68 | 7 | 75 | 1.09e-22 | 82.8 |
| Msa0621400 | MtrunA17_Chr7g0255841 | 58.065 | 62 | 25 | 1 | 7 | 67 | 14 | 75 | 5.07e-22 | 81.3 |
| Msa0621400 | MtrunA17_Chr5g0429521 | 55.072 | 69 | 30 | 1 | 1 | 68 | 25 | 93 | 1.84e-20 | 82.0 |
| Msa0621400 | MtrunA17_Chr3g0141641 | 55.385 | 65 | 28 | 1 | 4 | 67 | 2 | 66 | 9.57e-20 | 75.5 |
| Msa0621400 | MtrunA17_Chr3g0104071 | 54.412 | 68 | 30 | 1 | 2 | 68 | 40 | 107 | 1.17e-19 | 80.1 |
| Msa0621400 | MtrunA17_Chr7g0241761 | 52.174 | 69 | 32 | 1 | 2 | 69 | 32 | 100 | 1.36e-17 | 74.3 |
| Msa0621400 | MtrunA17_Chr8g0365011 | 43.836 | 73 | 40 | 1 | 1 | 72 | 4 | 76 | 2.08e-16 | 70.9 |
| Msa0621400 | MtrunA17_Chr5g0436501 | 50.769 | 65 | 31 | 1 | 3 | 66 | 25 | 89 | 5.90e-16 | 69.3 |
| Msa0621400 | MtrunA17_Chr7g0270711 | 45.714 | 70 | 36 | 1 | 3 | 70 | 9 | 78 | 1.11e-14 | 62.4 |
| Msa0621400 | MtrunA17_Chr1g0194071 | 52.542 | 59 | 26 | 1 | 3 | 59 | 9 | 67 | 1.52e-14 | 62.4 |
| Msa0621400 | MtrunA17_Chr1g0162081 | 39.130 | 69 | 41 | 1 | 2 | 69 | 9 | 77 | 4.63e-14 | 64.3 |
| Msa0621400 | MtrunA17_Chr8g0364741 | 37.500 | 72 | 44 | 1 | 2 | 72 | 7 | 78 | 5.64e-13 | 59.3 |
| Msa0621400 | MtrunA17_Chr1g0210471 | 40.000 | 65 | 38 | 1 | 3 | 66 | 22 | 86 | 1.59e-11 | 57.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0621400 | AT4G39250.1 | 66.154 | 65 | 21 | 1 | 5 | 68 | 14 | 78 | 1.57e-28 | 98.2 |
| Msa0621400 | AT1G75250.2 | 64.615 | 65 | 22 | 1 | 5 | 68 | 12 | 76 | 6.48e-27 | 94.0 |
| Msa0621400 | AT1G75250.1 | 64.615 | 65 | 22 | 1 | 5 | 68 | 12 | 76 | 8.19e-27 | 94.7 |
| Msa0621400 | AT2G21650.1 | 58.462 | 65 | 26 | 1 | 5 | 68 | 14 | 78 | 6.44e-25 | 89.0 |
| Msa0621400 | AT1G19510.1 | 61.290 | 62 | 23 | 1 | 8 | 68 | 15 | 76 | 1.10e-23 | 85.9 |
| Msa0621400 | AT5G58900.1 | 52.857 | 70 | 32 | 1 | 2 | 70 | 31 | 100 | 1.29e-18 | 77.0 |
| Msa0621400 | AT2G38090.1 | 52.174 | 69 | 32 | 1 | 2 | 69 | 26 | 94 | 5.92e-18 | 75.5 |
| Msa0621400 | AT2G18328.1 | 53.226 | 62 | 28 | 1 | 8 | 68 | 14 | 75 | 6.18e-18 | 70.9 |
| Msa0621400 | AT4G36570.1 | 65.909 | 44 | 14 | 1 | 5 | 47 | 12 | 55 | 7.63e-16 | 65.1 |
| Msa0621400 | AT5G05790.2 | 45.588 | 68 | 36 | 1 | 2 | 68 | 28 | 95 | 1.77e-15 | 68.6 |
| Msa0621400 | AT5G05790.1 | 45.588 | 68 | 36 | 1 | 2 | 68 | 28 | 95 | 1.77e-15 | 68.6 |
| Msa0621400 | AT3G11280.2 | 49.206 | 63 | 31 | 1 | 5 | 66 | 33 | 95 | 2.68e-15 | 67.8 |
| Msa0621400 | AT3G11280.1 | 49.206 | 63 | 31 | 1 | 5 | 66 | 33 | 95 | 2.68e-15 | 67.8 |
| Msa0621400 | AT5G08520.1 | 49.231 | 65 | 32 | 1 | 5 | 68 | 12 | 76 | 5.38e-14 | 64.7 |
| Msa0621400 | AT5G04760.1 | 43.284 | 67 | 37 | 1 | 1 | 66 | 1 | 67 | 3.77e-13 | 61.6 |
| Msa0621400 | AT5G01200.1 | 45.070 | 71 | 37 | 2 | 4 | 72 | 29 | 99 | 2.57e-12 | 60.1 |
| Msa0621400 | AT1G49010.1 | 41.429 | 70 | 37 | 2 | 1 | 66 | 4 | 73 | 4.61e-12 | 59.3 |
Find 15 sgRNAs with CRISPR-Local
Find 14 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCAACATTGTGCCATCTTTC+TGG | 0.106622 | 4_2:-73480561 | None:intergenic |
| TATATTATACCTTAGGAGTT+GGG | 0.354809 | 4_2:-73480696 | None:intergenic |
| TGTAACGAGGAAAAGGGATA+TGG | 0.417505 | 4_2:-73480665 | None:intergenic |
| TACGTTGAACATCTTCTTTG+AGG | 0.435409 | 4_2:-73480632 | None:intergenic |
| ATCAACAAATGGCAACCTCT+TGG | 0.450563 | 4_2:+73480481 | None:intergenic |
| CAAACTGTTTGAACAAGCAT+TGG | 0.467435 | 4_2:+73480518 | Msa0621400:CDS |
| ATATATTATACCTTAGGAGT+TGG | 0.518768 | 4_2:-73480697 | None:intergenic |
| CACAATGTTGCCAAAGTGGT+TGG | 0.534351 | 4_2:+73480573 | Msa0621400:CDS |
| TGGCAACCTCTTGGACTGCA+AGG | 0.539984 | 4_2:+73480490 | Msa0621400:CDS |
| AAAACTAACCCCAACTCCTA+AGG | 0.547909 | 4_2:+73480687 | Msa0621400:CDS |
| ATATTATACCTTAGGAGTTG+GGG | 0.548128 | 4_2:-73480695 | None:intergenic |
| ATAGAGAAACTCCAGAAAGA+TGG | 0.558722 | 4_2:+73480550 | Msa0621400:CDS |
| GTTCTGCCTTGCAGTCCAAG+AGG | 0.596751 | 4_2:-73480496 | None:intergenic |
| ATGGCACAATGTTGCCAAAG+TGG | 0.642850 | 4_2:+73480569 | Msa0621400:CDS |
| GATGTTCAACGTATTGAGCG+TGG | 0.669371 | 4_2:+73480642 | Msa0621400:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TAGTTTTGTAACGAGGAAAA+GGG | - | chr4_2:73480674-73480693 | None:intergenic | 30.0% |
| !!! | TTAGTTTTGTAACGAGGAAA+AGG | - | chr4_2:73480675-73480694 | None:intergenic | 30.0% |
| CAAACTGTTTGAACAAGCAT+TGG | + | chr4_2:73480518-73480537 | Msa0621400:CDS | 35.0% | |
| ATAGAGAAACTCCAGAAAGA+TGG | + | chr4_2:73480550-73480569 | Msa0621400:CDS | 35.0% | |
| !! | AACTGATTTTCCAACCACTT+TGG | - | chr4_2:73480586-73480605 | None:intergenic | 35.0% |
| TACGTTGAACATCTTCTTTG+AGG | - | chr4_2:73480635-73480654 | None:intergenic | 35.0% | |
| TGTAACGAGGAAAAGGGATA+TGG | - | chr4_2:73480668-73480687 | None:intergenic | 40.0% | |
| !!! | TTGGGGTTAGTTTTGTAACG+AGG | - | chr4_2:73480681-73480700 | None:intergenic | 40.0% |
| GCAACATTGTGCCATCTTTC+TGG | - | chr4_2:73480564-73480583 | None:intergenic | 45.0% | |
| ATGGCACAATGTTGCCAAAG+TGG | + | chr4_2:73480569-73480588 | Msa0621400:CDS | 45.0% | |
| CACAATGTTGCCAAAGTGGT+TGG | + | chr4_2:73480573-73480592 | Msa0621400:CDS | 45.0% | |
| GATGTTCAACGTATTGAGCG+TGG | + | chr4_2:73480642-73480661 | Msa0621400:CDS | 45.0% | |
| TGGCAACCTCTTGGACTGCA+AGG | + | chr4_2:73480490-73480509 | Msa0621400:CDS | 55.0% | |
| GTTCTGCCTTGCAGTCCAAG+AGG | - | chr4_2:73480499-73480518 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_2 | gene | 73480489 | 73480707 | 73480489 | ID=Msa0621400;Name=Msa0621400 |
| chr4_2 | mRNA | 73480489 | 73480707 | 73480489 | ID=Msa0621400-mRNA-1;Parent=Msa0621400;Name=Msa0621400-mRNA-1;_AED=0.45;_eAED=0.45;_QI=0|-1|0|1|-1|1|1|0|72 |
| chr4_2 | exon | 73480489 | 73480707 | 73480489 | ID=Msa0621400-mRNA-1:exon:22070;Parent=Msa0621400-mRNA-1 |
| chr4_2 | CDS | 73480489 | 73480707 | 73480489 | ID=Msa0621400-mRNA-1:cds;Parent=Msa0621400-mRNA-1 |
| Gene Sequence |
| Protein sequence |
