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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1255130 | XP_003629427.1 | 98.611 | 72 | 1 | 0 | 1 | 72 | 1 | 72 | 1.16e-45 | 150 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1255130 | sp|F4JVB8|RADL1_ARATH | 66.154 | 65 | 21 | 1 | 5 | 68 | 14 | 78 | 1.39e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1255130 | G7LDY8 | 98.611 | 72 | 1 | 0 | 1 | 72 | 1 | 72 | 5.52e-46 | 150 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0621380 | Msa1255130 | 0.837291 | 5.667097e-57 | -8.615850e-47 |
| Msa0621390 | Msa1255130 | 0.880750 | 4.245190e-70 | -8.615850e-47 |
| Msa0621400 | Msa1255130 | 0.816693 | 4.848062e-52 | -8.615850e-47 |
| Msa0621410 | Msa1255130 | 0.887156 | 1.827001e-72 | -8.615850e-47 |
| Msa1255120 | Msa1255130 | 0.825602 | 4.286880e-54 | -8.615850e-47 |
| Msa1255130 | Msa1255140 | 0.901245 | 3.256620e-78 | -8.615850e-47 |
| Msa1255130 | Msa1295570 | 0.828233 | 1.007635e-54 | -8.615850e-47 |
| Msa1255130 | Msa1295580 | 0.890828 | 6.919030e-74 | -8.615850e-47 |
| Msa1255130 | Msa1295590 | 0.921911 | 1.946250e-88 | -8.615850e-47 |
| Msa1255130 | Msa1295600 | 0.802593 | 5.212069e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1255130 | MtrunA17_Chr8g0373111 | 98.611 | 72 | 1 | 0 | 1 | 72 | 1 | 72 | 1.06e-49 | 150 |
| Msa1255130 | MtrunA17_Chr8g0373121 | 98.611 | 72 | 1 | 0 | 1 | 72 | 1 | 72 | 1.06e-49 | 150 |
| Msa1255130 | MtrunA17_Chr8g0373131 | 97.222 | 72 | 2 | 0 | 1 | 72 | 1 | 72 | 3.36e-49 | 149 |
| Msa1255130 | MtrunA17_Chr5g0404301 | 82.258 | 62 | 11 | 0 | 3 | 64 | 2 | 63 | 1.06e-35 | 114 |
| Msa1255130 | MtrunA17_Chr8g0373101 | 68.571 | 70 | 21 | 1 | 1 | 70 | 1 | 69 | 3.10e-32 | 106 |
| Msa1255130 | MtrunA17_Chr3g0144631 | 64.615 | 65 | 22 | 1 | 5 | 68 | 16 | 80 | 1.12e-27 | 95.1 |
| Msa1255130 | MtrunA17_Chr1g0155181 | 55.224 | 67 | 29 | 1 | 2 | 67 | 4 | 70 | 6.04e-26 | 90.9 |
| Msa1255130 | MtrunA17_Chr6g0449111 | 57.576 | 66 | 27 | 1 | 2 | 66 | 7 | 72 | 2.73e-25 | 89.0 |
| Msa1255130 | MtrunA17_Chr5g0404101 | 54.688 | 64 | 28 | 1 | 5 | 67 | 19 | 82 | 1.38e-24 | 87.8 |
| Msa1255130 | MtrunA17_Chr3g0141601 | 55.072 | 69 | 30 | 1 | 2 | 69 | 4 | 72 | 6.39e-24 | 85.9 |
| Msa1255130 | MtrunA17_Chr3g0081631 | 55.072 | 69 | 29 | 1 | 2 | 68 | 7 | 75 | 8.47e-23 | 83.2 |
| Msa1255130 | MtrunA17_Chr7g0255841 | 59.016 | 61 | 24 | 1 | 8 | 67 | 15 | 75 | 3.53e-22 | 81.6 |
| Msa1255130 | MtrunA17_Chr5g0429521 | 54.930 | 71 | 31 | 1 | 1 | 70 | 25 | 95 | 7.70e-21 | 82.8 |
| Msa1255130 | MtrunA17_Chr3g0141641 | 55.385 | 65 | 28 | 1 | 4 | 67 | 2 | 66 | 6.53e-20 | 75.9 |
| Msa1255130 | MtrunA17_Chr3g0104071 | 54.412 | 68 | 30 | 1 | 2 | 68 | 40 | 107 | 8.68e-20 | 80.1 |
| Msa1255130 | MtrunA17_Chr7g0241761 | 51.429 | 70 | 33 | 1 | 2 | 70 | 32 | 101 | 7.15e-18 | 75.1 |
| Msa1255130 | MtrunA17_Chr8g0365011 | 43.836 | 73 | 40 | 1 | 1 | 72 | 4 | 76 | 5.99e-17 | 72.4 |
| Msa1255130 | MtrunA17_Chr5g0436501 | 50.769 | 65 | 31 | 1 | 3 | 66 | 25 | 89 | 5.16e-16 | 69.7 |
| Msa1255130 | MtrunA17_Chr1g0194071 | 47.143 | 70 | 35 | 1 | 3 | 70 | 9 | 78 | 3.30e-15 | 63.9 |
| Msa1255130 | MtrunA17_Chr7g0270711 | 50.820 | 61 | 28 | 1 | 3 | 61 | 9 | 69 | 1.29e-14 | 62.4 |
| Msa1255130 | MtrunA17_Chr1g0162081 | 38.571 | 70 | 42 | 1 | 2 | 70 | 9 | 78 | 2.60e-14 | 65.1 |
| Msa1255130 | MtrunA17_Chr8g0364741 | 37.500 | 72 | 44 | 1 | 2 | 72 | 7 | 78 | 1.87e-13 | 60.5 |
| Msa1255130 | MtrunA17_Chr1g0210471 | 40.000 | 65 | 38 | 1 | 3 | 66 | 22 | 86 | 1.32e-11 | 57.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1255130 | AT4G39250.1 | 66.154 | 65 | 21 | 1 | 5 | 68 | 14 | 78 | 1.41e-28 | 98.2 |
| Msa1255130 | AT1G75250.2 | 62.687 | 67 | 24 | 1 | 3 | 68 | 10 | 76 | 4.76e-27 | 94.4 |
| Msa1255130 | AT1G75250.1 | 64.615 | 65 | 22 | 1 | 5 | 68 | 12 | 76 | 6.58e-27 | 94.7 |
| Msa1255130 | AT2G21650.1 | 56.522 | 69 | 29 | 1 | 5 | 72 | 14 | 82 | 8.41e-26 | 91.3 |
| Msa1255130 | AT1G19510.1 | 61.290 | 62 | 23 | 1 | 8 | 68 | 15 | 76 | 7.36e-24 | 86.3 |
| Msa1255130 | AT2G18328.1 | 55.385 | 65 | 27 | 2 | 8 | 71 | 14 | 77 | 1.04e-18 | 72.8 |
| Msa1255130 | AT2G38090.1 | 51.429 | 70 | 33 | 1 | 2 | 70 | 26 | 95 | 3.22e-18 | 76.3 |
| Msa1255130 | AT5G58900.1 | 52.174 | 69 | 32 | 1 | 2 | 69 | 31 | 99 | 1.33e-17 | 74.3 |
| Msa1255130 | AT4G36570.1 | 65.909 | 44 | 14 | 1 | 5 | 47 | 12 | 55 | 6.84e-16 | 65.1 |
| Msa1255130 | AT5G05790.2 | 45.714 | 70 | 37 | 1 | 2 | 70 | 28 | 97 | 9.27e-16 | 69.3 |
| Msa1255130 | AT5G05790.1 | 45.714 | 70 | 37 | 1 | 2 | 70 | 28 | 97 | 9.27e-16 | 69.3 |
| Msa1255130 | AT3G11280.2 | 49.206 | 63 | 31 | 1 | 5 | 66 | 33 | 95 | 2.42e-15 | 68.2 |
| Msa1255130 | AT3G11280.1 | 49.206 | 63 | 31 | 1 | 5 | 66 | 33 | 95 | 2.42e-15 | 68.2 |
| Msa1255130 | AT5G08520.1 | 47.826 | 69 | 35 | 1 | 5 | 72 | 12 | 80 | 3.62e-14 | 65.1 |
| Msa1255130 | AT5G04760.1 | 43.284 | 67 | 37 | 1 | 1 | 66 | 1 | 67 | 3.29e-13 | 61.6 |
| Msa1255130 | AT5G01200.1 | 45.070 | 71 | 37 | 2 | 4 | 72 | 29 | 99 | 1.61e-12 | 60.5 |
| Msa1255130 | AT1G49010.1 | 41.429 | 70 | 37 | 2 | 1 | 66 | 4 | 73 | 5.46e-12 | 59.3 |
Find 13 sgRNAs with CRISPR-Local
Find 14 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCAACATTGTGCCATCTTTC+AGG | 0.193556 | 8_2:-53523760 | None:intergenic |
| TGTAACGAGGAAAAGGGATA+TGG | 0.417505 | 8_2:-53523864 | None:intergenic |
| TACGTTGAACATCTTCTTTG+AGG | 0.435409 | 8_2:-53523831 | None:intergenic |
| ATCAACAAATGGCAACCTCT+TGG | 0.450563 | 8_2:+53523680 | None:intergenic |
| CAAACTGTTTGAACAAGCAT+TGG | 0.467435 | 8_2:+53523717 | Msa1255130:CDS |
| CACAATGTTGCCAAAGTGGT+TGG | 0.534351 | 8_2:+53523772 | Msa1255130:CDS |
| TGGCAACCTCTTGGACTGCA+AGG | 0.539984 | 8_2:+53523689 | Msa1255130:CDS |
| ATAGAGAAACTCCTGAAAGA+TGG | 0.546752 | 8_2:+53523749 | Msa1255130:CDS |
| AAAACTAACACCAACTCCTA+AGG | 0.547909 | 8_2:+53523886 | Msa1255130:CDS |
| ATATATTATACCTTAGGAGT+TGG | 0.560505 | 8_2:-53523896 | None:intergenic |
| GTTCTGCCTTGCAGTCCAAG+AGG | 0.596751 | 8_2:-53523695 | None:intergenic |
| ATGGCACAATGTTGCCAAAG+TGG | 0.642850 | 8_2:+53523768 | Msa1255130:CDS |
| GATGTTCAACGTATTGAGCG+TGG | 0.669371 | 8_2:+53523841 | Msa1255130:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TAGTTTTGTAACGAGGAAAA+GGG | - | chr8_2:53523873-53523892 | None:intergenic | 30.0% |
| !!! | TTAGTTTTGTAACGAGGAAA+AGG | - | chr8_2:53523874-53523893 | None:intergenic | 30.0% |
| CAAACTGTTTGAACAAGCAT+TGG | + | chr8_2:53523717-53523736 | Msa1255130:CDS | 35.0% | |
| ATAGAGAAACTCCTGAAAGA+TGG | + | chr8_2:53523749-53523768 | Msa1255130:CDS | 35.0% | |
| !! | AACTGATTTTCCAACCACTT+TGG | - | chr8_2:53523785-53523804 | None:intergenic | 35.0% |
| TACGTTGAACATCTTCTTTG+AGG | - | chr8_2:53523834-53523853 | None:intergenic | 35.0% | |
| !!! | TTGGTGTTAGTTTTGTAACG+AGG | - | chr8_2:53523880-53523899 | None:intergenic | 35.0% |
| TGTAACGAGGAAAAGGGATA+TGG | - | chr8_2:53523867-53523886 | None:intergenic | 40.0% | |
| GCAACATTGTGCCATCTTTC+AGG | - | chr8_2:53523763-53523782 | None:intergenic | 45.0% | |
| ATGGCACAATGTTGCCAAAG+TGG | + | chr8_2:53523768-53523787 | Msa1255130:CDS | 45.0% | |
| CACAATGTTGCCAAAGTGGT+TGG | + | chr8_2:53523772-53523791 | Msa1255130:CDS | 45.0% | |
| GATGTTCAACGTATTGAGCG+TGG | + | chr8_2:53523841-53523860 | Msa1255130:CDS | 45.0% | |
| TGGCAACCTCTTGGACTGCA+AGG | + | chr8_2:53523689-53523708 | Msa1255130:CDS | 55.0% | |
| GTTCTGCCTTGCAGTCCAAG+AGG | - | chr8_2:53523698-53523717 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_2 | gene | 53523688 | 53523906 | 53523688 | ID=Msa1255130;Name=Msa1255130 |
| chr8_2 | mRNA | 53523688 | 53523906 | 53523688 | ID=Msa1255130-mRNA-1;Parent=Msa1255130;Name=Msa1255130-mRNA-1;_AED=0.38;_eAED=0.38;_QI=0|-1|0|1|-1|1|1|0|72 |
| chr8_2 | exon | 53523688 | 53523906 | 53523688 | ID=Msa1255130-mRNA-1:exon:16577;Parent=Msa1255130-mRNA-1 |
| chr8_2 | CDS | 53523688 | 53523906 | 53523688 | ID=Msa1255130-mRNA-1:cds;Parent=Msa1255130-mRNA-1 |
| Gene Sequence |
| Protein sequence |
