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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0784690 | RHN57155.1 | 51.773 | 141 | 16 | 1 | 2 | 90 | 864 | 1004 | 1.33e-31 | 127 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0784690 | A0A396I0E5 | 51.773 | 141 | 16 | 1 | 2 | 90 | 864 | 1004 | 6.34e-32 | 127 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0784660 | Msa0784690 | 0.814512 | 1.483502e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0784690 | MtrunA17_Chr5g0437331 | 51.773 | 141 | 16 | 1 | 2 | 90 | 864 | 1004 | 1.22e-35 | 127 |
| Msa0784690 | MtrunA17_Chr5g0436931 | 84.615 | 65 | 10 | 0 | 26 | 90 | 46 | 110 | 1.88e-32 | 108 |
| Msa0784690 | MtrunA17_Chr5g0436861 | 46.939 | 147 | 22 | 2 | 2 | 92 | 863 | 1009 | 1.02e-31 | 116 |
| Msa0784690 | MtrunA17_Chr2g0314031 | 44.928 | 138 | 29 | 1 | 2 | 92 | 859 | 996 | 5.54e-29 | 108 |
| Msa0784690 | MtrunA17_Chr5g0436911 | 68.657 | 67 | 21 | 0 | 26 | 92 | 225 | 291 | 1.19e-25 | 96.3 |
| Msa0784690 | MtrunA17_Chr5g0436911 | 69.231 | 39 | 12 | 0 | 1 | 39 | 113 | 151 | 2.59e-11 | 57.8 |
| Msa0784690 | MtrunA17_Chr3g0078621 | 65.672 | 67 | 23 | 0 | 26 | 92 | 29 | 95 | 6.99e-25 | 89.4 |
| Msa0784690 | MtrunA17_Chr2g0314001 | 40.816 | 147 | 31 | 2 | 2 | 92 | 863 | 1009 | 1.54e-24 | 95.9 |
| Msa0784690 | MtrunA17_Chr2g0314021 | 40.816 | 147 | 31 | 2 | 2 | 92 | 863 | 1009 | 6.77e-24 | 94.0 |
| Msa0784690 | MtrunA17_Chr1g0159871 | 59.036 | 83 | 32 | 1 | 12 | 92 | 854 | 936 | 7.89e-24 | 93.6 |
| Msa0784690 | MtrunA17_Chr7g0248261 | 65.672 | 67 | 23 | 0 | 26 | 92 | 894 | 960 | 1.77e-23 | 92.8 |
| Msa0784690 | MtrunA17_Chr5g0436871 | 67.742 | 62 | 20 | 0 | 31 | 92 | 150 | 211 | 7.25e-23 | 87.4 |
| Msa0784690 | MtrunA17_Chr5g0436871 | 86.207 | 29 | 4 | 0 | 2 | 30 | 65 | 93 | 8.73e-11 | 55.8 |
| Msa0784690 | MtrunA17_Chr5g0436851 | 62.121 | 66 | 25 | 0 | 26 | 91 | 90 | 155 | 2.84e-21 | 82.0 |
| Msa0784690 | MtrunA17_Chr1g0159881 | 74.074 | 54 | 14 | 0 | 31 | 84 | 416 | 469 | 1.04e-19 | 82.0 |
| Msa0784690 | MtrunA17_Chr5g0436841 | 69.355 | 62 | 14 | 1 | 31 | 92 | 994 | 1050 | 1.28e-19 | 81.6 |
| Msa0784690 | MtrunA17_Chr1g0159851 | 86.207 | 29 | 4 | 0 | 2 | 30 | 631 | 659 | 1.79e-11 | 58.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 15 sgRNAs with CRISPR-Local
Find 32 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGCTATTTCCTCCACAATTA+AGG | 0.194485 | 5_2:+69307770 | Msa0784690:CDS |
| TTGTAGTGTAGGCTTATTCA+TGG | 0.332362 | 5_2:+69307720 | None:intergenic |
| GCTATTTCCTCCACAATTAA+GGG | 0.354479 | 5_2:+69307771 | Msa0784690:CDS |
| CTAGTGATGTTTGCTAAAAT+AGG | 0.411044 | 5_2:+69308273 | Msa0784690:CDS |
| TCAAAGTAATAGTTACTAGC+AGG | 0.463666 | 5_2:-69308382 | None:intergenic |
| TCCACAATTAAGGGAACTAT+AGG | 0.464057 | 5_2:+69307780 | Msa0784690:CDS |
| TGTTGTGGAAAATAACATAA+AGG | 0.466962 | 5_2:+69308245 | Msa0784690:CDS |
| ATCTTTACTTGAATGTTCAG+TGG | 0.507976 | 5_2:-69307745 | None:intergenic |
| TCCTATAGTTCCCTTAATTG+TGG | 0.509703 | 5_2:-69307781 | None:intergenic |
| TGTGAGCATCCGATGAGTAA+AGG | 0.510232 | 5_2:-69308316 | None:intergenic |
| CTGAAGAATCCTTTACTCAT+CGG | 0.527182 | 5_2:+69308307 | Msa0784690:CDS |
| ACTATAGGATATATTCCTCC+AGG | 0.554528 | 5_2:+69307795 | Msa0784690:CDS |
| CAAAGTAATAGTTACTAGCA+GGG | 0.585610 | 5_2:-69308381 | None:intergenic |
| TATAGTTCCCTTAATTGTGG+AGG | 0.598360 | 5_2:-69307778 | None:intergenic |
| TGAAGATCAAACACATGTTG+TGG | 0.650303 | 5_2:+69308230 | Msa0784690:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CCACATGAAAAATATTTTAA+AGG | - | chr5_2:69307855-69307874 | None:intergenic | 20.0% |
| !!! | CCTTTAAAATATTTTTCATG+TGG | + | chr5_2:69307852-69307871 | Msa0784690:intron | 20.0% |
| !!! | CACTTTTTAATATAATGAGA+AGG | - | chr5_2:69307926-69307945 | None:intergenic | 20.0% |
| !! | TTAGAAAAGAAATTAACGAA+TGG | - | chr5_2:69307992-69308011 | None:intergenic | 20.0% |
| ! | ACTATATCAAGAATTTCTTC+TGG | - | chr5_2:69308183-69308202 | None:intergenic | 25.0% |
| ! | AGAAGAAATTCTTGATATAG+TGG | + | chr5_2:69308182-69308201 | Msa0784690:intron | 25.0% |
| ! | TGTTGTGGAAAATAACATAA+AGG | + | chr5_2:69308245-69308264 | Msa0784690:CDS | 25.0% |
| ATCTTTACTTGAATGTTCAG+TGG | - | chr5_2:69307748-69307767 | None:intergenic | 30.0% | |
| ATCATAGAAAGAACTTTACC+TGG | - | chr5_2:69307816-69307835 | None:intergenic | 30.0% | |
| GAGAAGGCTAATAAAATTGT+GGG | - | chr5_2:69307910-69307929 | None:intergenic | 30.0% | |
| TGAGAAGGCTAATAAAATTG+TGG | - | chr5_2:69307911-69307930 | None:intergenic | 30.0% | |
| !! | GTTGTTGTTTGAATAGAGTA+TGG | + | chr5_2:69308018-69308037 | Msa0784690:intron | 30.0% |
| ! | TAGCTATAGATATCTCCTTT+TGG | - | chr5_2:69308063-69308082 | None:intergenic | 30.0% |
| AAAGGAGATATCTATAGCTA+TGG | + | chr5_2:69308063-69308082 | Msa0784690:intron | 30.0% | |
| TCACAAAAGATGTTATCTGT+TGG | - | chr5_2:69308123-69308142 | None:intergenic | 30.0% | |
| ! | CTAGTGATGTTTGCTAAAAT+AGG | + | chr5_2:69308273-69308292 | Msa0784690:CDS | 30.0% |
| ! | AGCTATTTCCTCCACAATTA+AGG | + | chr5_2:69307770-69307789 | Msa0784690:CDS | 35.0% |
| ! | GCTATTTCCTCCACAATTAA+GGG | + | chr5_2:69307771-69307790 | Msa0784690:CDS | 35.0% |
| TATAGTTCCCTTAATTGTGG+AGG | - | chr5_2:69307781-69307800 | None:intergenic | 35.0% | |
| TCCACAATTAAGGGAACTAT+AGG | + | chr5_2:69307780-69307799 | Msa0784690:CDS | 35.0% | |
| TCCTATAGTTCCCTTAATTG+TGG | - | chr5_2:69307784-69307803 | None:intergenic | 35.0% | |
| ACTATAGGATATATTCCTCC+AGG | + | chr5_2:69307795-69307814 | Msa0784690:CDS | 35.0% | |
| ATAGAAAGAACTTTACCTGG+AGG | - | chr5_2:69307813-69307832 | None:intergenic | 35.0% | |
| GAGACAAAGATAAAGGCAAA+AGG | - | chr5_2:69307888-69307907 | None:intergenic | 35.0% | |
| ATTGTGGGAGACAAAGATAA+AGG | - | chr5_2:69307895-69307914 | None:intergenic | 35.0% | |
| TGAATAGAGTATGGATCAAG+TGG | + | chr5_2:69308027-69308046 | Msa0784690:intron | 35.0% | |
| TGAAGATCAAACACATGTTG+TGG | + | chr5_2:69308230-69308249 | Msa0784690:CDS | 35.0% | |
| CTGAAGAATCCTTTACTCAT+CGG | + | chr5_2:69308307-69308326 | Msa0784690:CDS | 35.0% | |
| AGAGTATGGATCAAGTGGTT+TGG | + | chr5_2:69308032-69308051 | Msa0784690:intron | 40.0% | |
| !! | AGTGGTTTGGTATCACCAAA+AGG | + | chr5_2:69308045-69308064 | Msa0784690:intron | 40.0% |
| CTTCTGTTAGAGATGCTTAC+TGG | + | chr5_2:69308090-69308109 | Msa0784690:intron | 40.0% | |
| TGTGAGCATCCGATGAGTAA+AGG | - | chr5_2:69308319-69308338 | None:intergenic | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_2 | gene | 69307726 | 69308389 | 69307726 | ID=Msa0784690;Name=Msa0784690 |
| chr5_2 | mRNA | 69307726 | 69308389 | 69307726 | ID=Msa0784690-mRNA-1;Parent=Msa0784690;Name=Msa0784690-mRNA-1;_AED=0.20;_eAED=0.20;_QI=0|0|0|1|1|1|2|0|92 |
| chr5_2 | exon | 69307726 | 69307816 | 69307726 | ID=Msa0784690-mRNA-1:exon:20855;Parent=Msa0784690-mRNA-1 |
| chr5_2 | exon | 69308202 | 69308389 | 69308202 | ID=Msa0784690-mRNA-1:exon:20856;Parent=Msa0784690-mRNA-1 |
| chr5_2 | CDS | 69307726 | 69307816 | 69307726 | ID=Msa0784690-mRNA-1:cds;Parent=Msa0784690-mRNA-1 |
| chr5_2 | CDS | 69308202 | 69308389 | 69308202 | ID=Msa0784690-mRNA-1:cds;Parent=Msa0784690-mRNA-1 |
| Gene Sequence |
| Protein sequence |
