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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0417090 | XP_024633697.1 | 78.205 | 78 | 11 | 1 | 1 | 72 | 96 | 173 | 3.33e-30 | 115 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0417090 | A0A396IUX7 | 78.205 | 78 | 11 | 1 | 1 | 72 | 195 | 272 | 1.08e-29 | 115 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0142220 | Msa0417090 | 0.800694 | 1.278256e-48 | -8.615850e-47 |
| Msa0153910 | Msa0417090 | 0.808886 | 2.484889e-50 | -8.615850e-47 |
| Msa0402290 | Msa0417090 | 0.802840 | 4.635499e-49 | -8.615850e-47 |
| Msa0417080 | Msa0417090 | 0.873377 | 1.541723e-67 | -8.615850e-47 |
| Msa0417090 | Msa0509440 | 0.830008 | 3.739235e-55 | -8.615850e-47 |
| Msa0417090 | Msa0766630 | 0.806949 | 6.417369e-50 | -8.615850e-47 |
| Msa0417090 | Msa0885280 | 0.826590 | 2.495291e-54 | -8.615850e-47 |
| Msa0417090 | Msa0885290 | 0.801988 | 6.942980e-49 | -8.615850e-47 |
| Msa0417090 | Msa0907260 | 0.816912 | 4.329614e-52 | -8.615850e-47 |
| Msa0417090 | Msa0956270 | 0.809459 | 1.873059e-50 | -8.615850e-47 |
| Msa0417090 | Msa1014540 | 0.801173 | 1.020306e-48 | -8.615850e-47 |
| Msa0417090 | Msa1079180 | 0.804580 | 2.017454e-49 | -8.615850e-47 |
| Msa0417090 | Msa1136090 | 0.809334 | 1.991765e-50 | -8.615850e-47 |
| Msa0417090 | Msa1160670 | 0.811660 | 6.266183e-51 | -8.615850e-47 |
| Msa0417090 | Msa1187950 | 0.802939 | 4.422736e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0417090 | MtrunA17_Chr3g0114381 | 78.205 | 78 | 11 | 1 | 1 | 72 | 195 | 272 | 2.08e-33 | 115 |
| Msa0417090 | MtrunA17_Chr8g0338801 | 66.667 | 78 | 20 | 1 | 1 | 72 | 159 | 236 | 1.29e-26 | 98.6 |
| Msa0417090 | MtrunA17_Chr8g0352221 | 68.831 | 77 | 18 | 1 | 2 | 72 | 878 | 954 | 2.61e-26 | 99.8 |
| Msa0417090 | MtrunA17_Chr8g0338931 | 64.103 | 78 | 22 | 1 | 1 | 72 | 98 | 175 | 1.39e-25 | 95.1 |
| Msa0417090 | MtrunA17_Chr8g0338841 | 67.606 | 71 | 20 | 1 | 1 | 71 | 404 | 471 | 2.72e-25 | 96.7 |
| Msa0417090 | MtrunA17_Chr8g0339031 | 65.278 | 72 | 23 | 1 | 1 | 72 | 967 | 1036 | 9.90e-23 | 89.7 |
| Msa0417090 | MtrunA17_Chr8g0370511 | 66.667 | 72 | 22 | 1 | 1 | 72 | 960 | 1029 | 2.80e-22 | 88.6 |
| Msa0417090 | MtrunA17_Chr2g0296451 | 61.111 | 72 | 18 | 1 | 1 | 72 | 479 | 540 | 1.99e-20 | 83.2 |
| Msa0417090 | MtrunA17_Chr7g0223531 | 52.326 | 86 | 27 | 1 | 1 | 72 | 976 | 1061 | 3.14e-19 | 79.7 |
| Msa0417090 | MtrunA17_Chr8g0338881 | 71.930 | 57 | 14 | 1 | 1 | 57 | 991 | 1045 | 3.57e-19 | 79.7 |
| Msa0417090 | MtrunA17_Chr5g0420341 | 56.944 | 72 | 21 | 1 | 1 | 72 | 961 | 1022 | 6.98e-19 | 78.6 |
| Msa0417090 | MtrunA17_Chr3g0085731 | 56.944 | 72 | 29 | 1 | 1 | 72 | 968 | 1037 | 1.17e-18 | 78.2 |
| Msa0417090 | MtrunA17_Chr8g0339021 | 59.155 | 71 | 19 | 1 | 1 | 71 | 950 | 1010 | 1.28e-18 | 77.8 |
| Msa0417090 | MtrunA17_Chr3g0085531 | 51.948 | 77 | 31 | 1 | 1 | 71 | 158 | 234 | 1.84e-18 | 77.0 |
| Msa0417090 | MtrunA17_Chr8g0338901 | 56.250 | 80 | 25 | 2 | 1 | 72 | 982 | 1059 | 4.04e-18 | 76.6 |
| Msa0417090 | MtrunA17_Chr5g0420331 | 55.556 | 72 | 22 | 1 | 1 | 72 | 961 | 1022 | 8.88e-18 | 75.5 |
| Msa0417090 | MtrunA17_Chr8g0339011 | 53.750 | 80 | 27 | 2 | 1 | 72 | 955 | 1032 | 2.38e-17 | 74.3 |
| Msa0417090 | MtrunA17_Chr8g0338981 | 52.857 | 70 | 31 | 1 | 1 | 70 | 959 | 1026 | 3.62e-17 | 73.9 |
| Msa0417090 | MtrunA17_Chr5g0414761 | 52.857 | 70 | 31 | 1 | 1 | 70 | 746 | 813 | 4.92e-17 | 73.6 |
| Msa0417090 | MtrunA17_Chr5g0430541 | 54.167 | 72 | 32 | 1 | 1 | 72 | 470 | 540 | 7.16e-16 | 70.1 |
| Msa0417090 | MtrunA17_Chr8g0343781 | 73.684 | 38 | 10 | 0 | 1 | 38 | 44 | 81 | 5.04e-13 | 58.2 |
| Msa0417090 | MtrunA17_Chr8g0352211 | 47.143 | 70 | 37 | 0 | 2 | 71 | 891 | 960 | 1.35e-12 | 60.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 19 sgRNAs with CRISPR-Local
Find 18 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGCTTCTACTTTCATGTTAT+AGG | 0.248652 | 3_2:+64201190 | None:intergenic |
| CTTCCGATCTTCATCATTAG+AGG | 0.251053 | 3_2:+64201399 | None:intergenic |
| TAAGGAGACGGCTGTTTATC+TGG | 0.336048 | 3_2:-64201305 | Msa0417090:CDS |
| TACTTTCATGTTATAGGTGA+TGG | 0.364191 | 3_2:+64201196 | None:intergenic |
| ACGGCTGTTTATCTGGTATA+TGG | 0.365310 | 3_2:-64201298 | Msa0417090:CDS |
| CAGTCAATTGCAATGGAAAT+TGG | 0.374164 | 3_2:-64201274 | Msa0417090:CDS |
| GTCATCAACTAACATGGAAT+TGG | 0.378019 | 3_2:-64201245 | Msa0417090:CDS |
| CAATTTCCATTGCAATTGAC+TGG | 0.436975 | 3_2:+64201275 | None:intergenic |
| TGAGCATGGATTGATTGTTA+AGG | 0.451330 | 3_2:-64201323 | Msa0417090:CDS |
| AAGATCTCCACTTCGTCGCC+AGG | 0.477857 | 3_2:+64201355 | None:intergenic |
| TGCATGTTCACTTCGGCTAA+CGG | 0.482492 | 3_2:+64201220 | None:intergenic |
| TGGATTGATTGTTAAGGAGA+CGG | 0.561564 | 3_2:-64201317 | Msa0417090:CDS |
| TGATGGTTGCATGTTCACTT+CGG | 0.572076 | 3_2:+64201213 | None:intergenic |
| TGTCCTCTAATGATGAAGAT+CGG | 0.587348 | 3_2:-64201402 | Msa0417090:CDS |
| TCTCAGACCTGGCGACGAAG+TGG | 0.587784 | 3_2:-64201362 | Msa0417090:CDS |
| TCAATTGCAATGGAAATTGG+AGG | 0.591095 | 3_2:-64201271 | Msa0417090:CDS |
| ATATGGCCAGTCAATTGCAA+TGG | 0.602335 | 3_2:-64201281 | Msa0417090:CDS |
| AGGTGAGTCATCAACTAACA+TGG | 0.619281 | 3_2:-64201251 | Msa0417090:CDS |
| GTAACATCAAATCTCAGACC+TGG | 0.661268 | 3_2:-64201373 | Msa0417090:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TGTCCTCTAATGATGAAGAT+CGG | - | chr3_2:64201202-64201221 | Msa0417090:CDS | 35.0% | |
| ! | ATCTTTGTAGCTTTTGAGCA+TGG | - | chr3_2:64201267-64201286 | Msa0417090:CDS | 35.0% |
| ! | TGAGCATGGATTGATTGTTA+AGG | - | chr3_2:64201281-64201300 | Msa0417090:CDS | 35.0% |
| TGGATTGATTGTTAAGGAGA+CGG | - | chr3_2:64201287-64201306 | Msa0417090:CDS | 35.0% | |
| CAATTTCCATTGCAATTGAC+TGG | + | chr3_2:64201332-64201351 | None:intergenic | 35.0% | |
| CAGTCAATTGCAATGGAAAT+TGG | - | chr3_2:64201330-64201349 | Msa0417090:CDS | 35.0% | |
| TCAATTGCAATGGAAATTGG+AGG | - | chr3_2:64201333-64201352 | Msa0417090:CDS | 35.0% | |
| GTCATCAACTAACATGGAAT+TGG | - | chr3_2:64201359-64201378 | Msa0417090:CDS | 35.0% | |
| CTTCCGATCTTCATCATTAG+AGG | + | chr3_2:64201208-64201227 | None:intergenic | 40.0% | |
| GTAACATCAAATCTCAGACC+TGG | - | chr3_2:64201231-64201250 | Msa0417090:CDS | 40.0% | |
| ACGGCTGTTTATCTGGTATA+TGG | - | chr3_2:64201306-64201325 | Msa0417090:CDS | 40.0% | |
| ATATGGCCAGTCAATTGCAA+TGG | - | chr3_2:64201323-64201342 | Msa0417090:CDS | 40.0% | |
| AGGTGAGTCATCAACTAACA+TGG | - | chr3_2:64201353-64201372 | Msa0417090:CDS | 40.0% | |
| TGATGGTTGCATGTTCACTT+CGG | + | chr3_2:64201394-64201413 | None:intergenic | 40.0% | |
| TAAGGAGACGGCTGTTTATC+TGG | - | chr3_2:64201299-64201318 | Msa0417090:CDS | 45.0% | |
| TGCATGTTCACTTCGGCTAA+CGG | + | chr3_2:64201387-64201406 | None:intergenic | 45.0% | |
| AAGATCTCCACTTCGTCGCC+AGG | + | chr3_2:64201252-64201271 | None:intergenic | 55.0% | |
| TCTCAGACCTGGCGACGAAG+TGG | - | chr3_2:64201242-64201261 | Msa0417090:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_2 | gene | 64201201 | 64201425 | 64201201 | ID=Msa0417090;Name=Msa0417090 |
| chr3_2 | mRNA | 64201201 | 64201425 | 64201201 | ID=Msa0417090-mRNA-1;Parent=Msa0417090;Name=Msa0417090-mRNA-1;_AED=0.47;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|74 |
| chr3_2 | exon | 64201201 | 64201425 | 64201201 | ID=Msa0417090-mRNA-1:exon:14233;Parent=Msa0417090-mRNA-1 |
| chr3_2 | CDS | 64201201 | 64201425 | 64201201 | ID=Msa0417090-mRNA-1:cds;Parent=Msa0417090-mRNA-1 |
| Gene Sequence |
| Protein sequence |
