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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0217740 | KEH18365.1 | 59.091 | 88 | 15 | 3 | 1 | 87 | 30 | 97 | 4.69e-19 | 85.9 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0217740 | A0A072TXY0 | 59.091 | 88 | 15 | 3 | 1 | 87 | 30 | 97 | 2.24e-19 | 85.9 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0100800 | Msa0217740 | 0.812969 | 3.244434e-51 | -8.615850e-47 |
| Msa0108870 | Msa0217740 | 0.801120 | 1.046070e-48 | -8.615850e-47 |
| Msa0115500 | Msa0217740 | 0.937846 | 1.782425e-98 | -8.615850e-47 |
| Msa0126360 | Msa0217740 | 0.820795 | 5.680193e-53 | -8.615850e-47 |
| Msa0131450 | Msa0217740 | 0.813099 | 3.038638e-51 | -8.615850e-47 |
| Msa0177230 | Msa0217740 | 0.814198 | 1.740331e-51 | -8.615850e-47 |
| Msa0217740 | Msa0239490 | 0.816720 | 4.781558e-52 | -8.615850e-47 |
| Msa0217740 | Msa0419520 | 0.800234 | 1.585911e-48 | -8.615850e-47 |
| Msa0217740 | Msa0527910 | 0.815158 | 1.067089e-51 | -8.615850e-47 |
| Msa0217740 | Msa0546570 | 0.825564 | 4.376565e-54 | -8.615850e-47 |
| Msa0217740 | Msa0603670 | 0.807109 | 5.934237e-50 | -8.615850e-47 |
| Msa0217740 | Msa0619920 | 0.801989 | 6.940017e-49 | -8.615850e-47 |
| Msa0217740 | Msa0896290 | 0.806463 | 8.127227e-50 | -8.615850e-47 |
| Msa0217740 | Msa1083880 | 0.803408 | 3.536598e-49 | -8.615850e-47 |
| Msa0217740 | Msa1317270 | 0.824013 | 1.015933e-53 | -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 |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 16 sgRNAs with CRISPR-Local
Find 23 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTAATTATCATGTGCCTTT+TGG | 0.284727 | 2_1:-64701432 | Msa0217740:CDS |
| GTGTAAATGTTGAAGTTATT+TGG | 0.290656 | 2_1:-64701365 | Msa0217740:three_prime_UTR |
| TCTGAACTATTGTTGTTTGT+TGG | 0.354497 | 2_1:+64701594 | None:intergenic |
| TGGAAATTGCGACACTTAGA+AGG | 0.368870 | 2_1:-64701541 | Msa0217740:CDS |
| GTCAAATCATCATAAATTGC+AGG | 0.439062 | 2_1:-64701254 | Msa0217740:three_prime_UTR |
| TTGTTGTTTGTTGGATCTGT+TGG | 0.448449 | 2_1:+64701603 | None:intergenic |
| AGTGTTTATGTCTATTGTAA+TGG | 0.459087 | 2_1:-64701329 | Msa0217740:three_prime_UTR |
| CTTTCACACCAGAGACAATC+AGG | 0.460722 | 2_1:+64701837 | None:intergenic |
| TGCGACACTTAGAAGGACTA+TGG | 0.475465 | 2_1:-64701534 | Msa0217740:CDS |
| AATTCGCACCTGATTGTCTC+TGG | 0.481903 | 2_1:-64701845 | Msa0217740:CDS |
| ACATAAACACTTAATCTAAG+AGG | 0.513212 | 2_1:+64701341 | None:intergenic |
| AGAATGTGTCGAGAAGGAAA+TGG | 0.537490 | 2_1:-64701561 | Msa0217740:CDS |
| ATGTAGAGAATGTGTCGAGA+AGG | 0.597119 | 2_1:-64701567 | Msa0217740:CDS |
| ATCATAAATTGCAGGATGAG+CGG | 0.606170 | 2_1:-64701246 | Msa0217740:three_prime_UTR |
| AGGACTATGGTGAAGATGCA+TGG | 0.669626 | 2_1:-64701521 | Msa0217740:CDS |
| TAGGCTCGTAGAATTGATTG+TGG | 0.686326 | 2_1:-64701659 | Msa0217740:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAACAAAGGAAAAAAATTAT+GGG | - | chr2_1:64701309-64701328 | Msa0217740:three_prime_UTR | 15.0% |
| !!! | CATAATTTTTTTCCTTTGTT+TGG | + | chr2_1:64701310-64701329 | None:intergenic | 20.0% |
| !! | CAAACAAAGGAAAAAAATTA+TGG | - | chr2_1:64701308-64701327 | Msa0217740:three_prime_UTR | 20.0% |
| !!! | ATTTTGTTTATTCTTTGTGT+AGG | - | chr2_1:64701416-64701435 | Msa0217740:CDS | 20.0% |
| !! | TTTAATTATCATGTGCCTTT+TGG | - | chr2_1:64701662-64701681 | Msa0217740:intron | 25.0% |
| ! | GTGTAAATGTTGAAGTTATT+TGG | - | chr2_1:64701729-64701748 | Msa0217740:intron | 25.0% |
| ! | ACATAAACACTTAATCTAAG+AGG | + | chr2_1:64701756-64701775 | None:intergenic | 25.0% |
| ! | AGTGTTTATGTCTATTGTAA+TGG | - | chr2_1:64701765-64701784 | Msa0217740:intron | 25.0% |
| TTACAAAGATGTCCAAACAA+AGG | - | chr2_1:64701295-64701314 | Msa0217740:three_prime_UTR | 30.0% | |
| !! | TGGGATTTTAGAAACTTTTG+TGG | - | chr2_1:64701328-64701347 | Msa0217740:three_prime_UTR | 30.0% |
| !! | TCTGAACTATTGTTGTTTGT+TGG | + | chr2_1:64701503-64701522 | None:intergenic | 30.0% |
| ! | ACATCAACATTTTCACCAAA+AGG | + | chr2_1:64701680-64701699 | None:intergenic | 30.0% |
| GTCAAATCATCATAAATTGC+AGG | - | chr2_1:64701840-64701859 | Msa0217740:CDS | 30.0% | |
| !! | TTGTTGTTTGTTGGATCTGT+TGG | + | chr2_1:64701494-64701513 | None:intergenic | 35.0% |
| TAGGCTCGTAGAATTGATTG+TGG | - | chr2_1:64701435-64701454 | Msa0217740:CDS | 40.0% | |
| ATGTAGAGAATGTGTCGAGA+AGG | - | chr2_1:64701527-64701546 | Msa0217740:CDS | 40.0% | |
| AGAATGTGTCGAGAAGGAAA+TGG | - | chr2_1:64701533-64701552 | Msa0217740:CDS | 40.0% | |
| TGGAAATTGCGACACTTAGA+AGG | - | chr2_1:64701553-64701572 | Msa0217740:CDS | 40.0% | |
| AATTCGCACCTGATTGTCTC+TGG | - | chr2_1:64701249-64701268 | Msa0217740:three_prime_UTR | 45.0% | |
| CTTTCACACCAGAGACAATC+AGG | + | chr2_1:64701260-64701279 | None:intergenic | 45.0% | |
| !!! | GTGGCTGCAGTTTTTTTGAC+TGG | - | chr2_1:64701454-64701473 | Msa0217740:CDS | 45.0% |
| TGCGACACTTAGAAGGACTA+TGG | - | chr2_1:64701560-64701579 | Msa0217740:CDS | 45.0% | |
| AGGACTATGGTGAAGATGCA+TGG | - | chr2_1:64701573-64701592 | Msa0217740:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 64701246 | 64701870 | 64701246 | ID=Msa0217740;Name=Msa0217740 |
| chr2_1 | mRNA | 64701246 | 64701870 | 64701246 | ID=Msa0217740-mRNA-1;Parent=Msa0217740;Name=Msa0217740-mRNA-1;_AED=0.16;_eAED=0.19;_QI=0|0|0.5|1|0|0.5|2|169|100 |
| chr2_1 | exon | 64701246 | 64701678 | 64701246 | ID=Msa0217740-mRNA-1:exon:17997;Parent=Msa0217740-mRNA-1 |
| chr2_1 | exon | 64701832 | 64701870 | 64701832 | ID=Msa0217740-mRNA-1:exon:17996;Parent=Msa0217740-mRNA-1 |
| chr2_1 | CDS | 64701832 | 64701870 | 64701832 | ID=Msa0217740-mRNA-1:cds;Parent=Msa0217740-mRNA-1 |
| chr2_1 | CDS | 64701415 | 64701678 | 64701415 | ID=Msa0217740-mRNA-1:cds;Parent=Msa0217740-mRNA-1 |
| chr2_1 | three_prime_UTR | 64701246 | 64701414 | 64701246 | ID=Msa0217740-mRNA-1:three_prime_utr;Parent=Msa0217740-mRNA-1 |
| Gene Sequence |
| Protein sequence |
