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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0296790 | XP_003596650.1 | 100.000 | 114 | 0 | 0 | 1 | 114 | 1 | 114 | 1.43e-78 | 236 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0296790 | sp|Q0D5W6|SUI1_ORYSJ | 89.565 | 115 | 11 | 1 | 1 | 114 | 1 | 115 | 4.66e-72 | 213 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000910 | Msa0296790 | 0.880478 | 5.313253e-70 | -8.615850e-47 |
| Msa0001450 | Msa0296790 | 0.858967 | 5.724474e-63 | -8.615850e-47 |
| Msa0001830 | Msa0296790 | 0.804973 | 1.670241e-49 | -8.615850e-47 |
| Msa0002560 | Msa0296790 | 0.832583 | 8.702496e-56 | -8.615850e-47 |
| Msa0003220 | Msa0296790 | 0.822119 | 2.808566e-53 | -8.615850e-47 |
| Msa0003270 | Msa0296790 | 0.817651 | 2.952854e-52 | -8.615850e-47 |
| Msa0004540 | Msa0296790 | 0.813211 | 2.870698e-51 | -8.615850e-47 |
| Msa0004840 | Msa0296790 | 0.815637 | 8.346357e-52 | -8.615850e-47 |
| Msa0007850 | Msa0296790 | 0.822535 | 2.249037e-53 | -8.615850e-47 |
| Msa0008090 | Msa0296790 | 0.850917 | 1.245321e-60 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0296790 | MtrunA17_Chr2g0319561 | 100.000 | 114 | 0 | 0 | 1 | 114 | 1 | 114 | 1.32e-82 | 236 |
| Msa0296790 | MtrunA17_Chr4g0024171 | 87.719 | 114 | 13 | 1 | 1 | 114 | 1 | 113 | 2.92e-72 | 210 |
| Msa0296790 | MtrunA17_Chr3g0098971 | 77.193 | 114 | 24 | 1 | 1 | 114 | 1 | 112 | 3.05e-60 | 180 |
| Msa0296790 | MtrunA17_Chr5g0444201 | 72.973 | 111 | 28 | 1 | 4 | 114 | 2 | 110 | 1.47e-55 | 168 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0296790 | AT4G27130.1 | 86.842 | 114 | 14 | 1 | 1 | 114 | 1 | 113 | 1.01e-71 | 209 |
| Msa0296790 | AT5G54760.2 | 85.965 | 114 | 15 | 1 | 1 | 114 | 1 | 113 | 5.04e-71 | 207 |
| Msa0296790 | AT5G54760.4 | 85.965 | 114 | 15 | 1 | 1 | 114 | 1 | 113 | 5.04e-71 | 207 |
| Msa0296790 | AT5G54760.3 | 85.965 | 114 | 15 | 1 | 1 | 114 | 1 | 113 | 5.04e-71 | 207 |
| Msa0296790 | AT5G54760.1 | 85.965 | 114 | 15 | 1 | 1 | 114 | 1 | 113 | 5.04e-71 | 207 |
| Msa0296790 | AT1G54290.1 | 85.088 | 114 | 16 | 1 | 1 | 114 | 1 | 113 | 2.56e-70 | 206 |
| Msa0296790 | AT5G54940.1 | 74.561 | 114 | 27 | 1 | 1 | 114 | 1 | 112 | 3.07e-58 | 175 |
| Msa0296790 | AT5G54940.3 | 74.561 | 114 | 27 | 1 | 1 | 114 | 1 | 112 | 3.07e-58 | 175 |
| Msa0296790 | AT5G54940.2 | 74.561 | 114 | 27 | 1 | 1 | 114 | 1 | 112 | 3.07e-58 | 175 |
Find 54 sgRNAs with CRISPR-Local
Find 232 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGCTTGACAACTGTCCA+GGG | 0.558576 | 2_3:+50343981 | Msa0296790:CDS |
| AAGAATAGAAACCCTAAAAT+TGG | 0.267545 | 2_3:-50341851 | None:intergenic |
| AAGGAGCATATTAAAATTCA+TGG | 0.292939 | 2_3:+50345197 | Msa0296790:CDS |
| AATGCTGAGGACGCCGGTGC+TGG | 0.285317 | 2_3:+50343909 | Msa0296790:CDS |
| AATTATAGGTTTGAGCTATC+TGG | 0.291587 | 2_3:+50342867 | Msa0296790:intron |
| ACAAGTGTTAAAGTTGTATC+TGG | 0.320511 | 2_3:+50345241 | Msa0296790:three_prime_UTR |
| ACAGGCTGGAATCGTGAAGA+AGG | 0.545416 | 2_3:+50345178 | Msa0296790:intron |
| ACAGTTGTGATGCAGTATTA+TGG | 0.339469 | 2_3:+50345327 | Msa0296790:three_prime_UTR |
| ACGCATCGAAACCCTAATCT+AGG | 0.432304 | 2_3:+50341894 | Msa0296790:five_prime_UTR |
| AGAAACCCTAAAATTGGATA+AGG | 0.468111 | 2_3:-50341845 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AGAAACCCTAAAATTGGATA+AGG | - | chr2_3:50341848-50341867 | None:intergenic | 30.0% | |
| GAAATTATCCATGCTTATTG+TGG | + | chr2_3:50342690-50342709 | Msa0296790:intron | 30.0% | |
| AATTATAGGTTTGAGCTATC+TGG | + | chr2_3:50342867-50342886 | Msa0296790:intron | 30.0% | |
| TCAATTATACTGTGTACTGT+TGG | + | chr2_3:50343065-50343084 | Msa0296790:intron | 30.0% | |
| CAATTATACTGTGTACTGTT+GGG | + | chr2_3:50343066-50343085 | Msa0296790:intron | 30.0% | |
| GAATTTACTAGTCAATTGTC+AGG | - | chr2_3:50343178-50343197 | None:intergenic | 30.0% | |
| ATATGATATATGACTCCTGT+GGG | + | chr2_3:50343849-50343868 | Msa0296790:intron | 30.0% | |
| TACAACAAAACTCCTTCTTA+AGG | - | chr2_3:50344046-50344065 | None:intergenic | 30.0% | |
| ATTCATTACCTGGACTAAAA+AGG | - | chr2_3:50344222-50344241 | None:intergenic | 30.0% | |
| AATGAATGACTTCACATCTT+TGG | + | chr2_3:50344235-50344254 | Msa0296790:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_3 | gene | 50341806 | 50345574 | 50341806 | ID=Msa0296790;Name=Msa0296790 |
| chr2_3 | mRNA | 50341806 | 50345574 | 50341806 | ID=Msa0296790-mRNA-1;Parent=Msa0296790;Name=Msa0296790-mRNA-1;_AED=0.07;_eAED=0.07;_QI=165|1|1|1|0.25|0.4|5|348|114 |
| chr2_3 | exon | 50341806 | 50341921 | 50341806 | ID=Msa0296790-mRNA-1:exon:15803;Parent=Msa0296790-mRNA-1 |
| chr2_3 | exon | 50342875 | 50342960 | 50342875 | ID=Msa0296790-mRNA-1:exon:15804;Parent=Msa0296790-mRNA-1 |
| chr2_3 | exon | 50343892 | 50344100 | 50343892 | ID=Msa0296790-mRNA-1:exon:15805;Parent=Msa0296790-mRNA-1 |
| chr2_3 | exon | 50344179 | 50344232 | 50344179 | ID=Msa0296790-mRNA-1:exon:15806;Parent=Msa0296790-mRNA-1 |
| chr2_3 | exon | 50345182 | 50345574 | 50345182 | ID=Msa0296790-mRNA-1:exon:15807;Parent=Msa0296790-mRNA-1 |
| chr2_3 | five_prime_UTR | 50341806 | 50341921 | 50341806 | ID=Msa0296790-mRNA-1:five_prime_utr;Parent=Msa0296790-mRNA-1 |
| chr2_3 | five_prime_UTR | 50342875 | 50342923 | 50342875 | ID=Msa0296790-mRNA-1:five_prime_utr;Parent=Msa0296790-mRNA-1 |
| chr2_3 | CDS | 50342924 | 50342960 | 50342924 | ID=Msa0296790-mRNA-1:cds;Parent=Msa0296790-mRNA-1 |
| chr2_3 | CDS | 50343892 | 50344100 | 50343892 | ID=Msa0296790-mRNA-1:cds;Parent=Msa0296790-mRNA-1 |
| chr2_3 | CDS | 50344179 | 50344232 | 50344179 | ID=Msa0296790-mRNA-1:cds;Parent=Msa0296790-mRNA-1 |
| chr2_3 | CDS | 50345182 | 50345226 | 50345182 | ID=Msa0296790-mRNA-1:cds;Parent=Msa0296790-mRNA-1 |
| chr2_3 | three_prime_UTR | 50345227 | 50345574 | 50345227 | ID=Msa0296790-mRNA-1:three_prime_utr;Parent=Msa0296790-mRNA-1 |
| Gene Sequence |
>Msa0296790 ATGTCTGAATTAGACGCACAAATTCCTACTGCCTACGATCCTTTTGCTGAGGCAAATGCTGAGGACGCCGGTGCTGGGTCATCAAAGGAGTACGTCCATATTCGTATACAGCAGCGAAATGGTAGAAAAAGCTTGACAACTGTCCAGGGATTGAAGAAAGAATTCAGTTACAACAAGATTCTGAAAGACCTTAAGAAGGAGTTTTGTTGTAATGGTACAGTTGTCCAGGACCCAGAGCAAGGACAGGTTATTCAACTTCAAGGCGATCAGAGGAAAAATGTGTCTACCTTTTTAGTCCAGGCTGGAATCGTGAAGAAGGAGCATATTAAAATTCATGGTTTCTGA |
| Protein sequence |
>Msa0296790 MSELDAQIPTAYDPFAEANAEDAGAGSSKEYVHIRIQQRNGRKSLTTVQGLKKEFSYNKILKDLKKEFCCNGTVVQDPEQGQVIQLQGDQRKNVSTFLVQAGIVKKEHIKIHGF* |
