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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0115500 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0115500 | 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 |
|---|---|---|---|---|
| Msa0006880 | Msa0115500 | 0.818803 | 1.619675e-52 | -8.615850e-47 |
| Msa0033880 | Msa0115500 | 0.802046 | 6.755348e-49 | -8.615850e-47 |
| Msa0055150 | Msa0115500 | 0.800704 | 1.271920e-48 | -8.615850e-47 |
| Msa0100800 | Msa0115500 | 0.815113 | 1.091760e-51 | -8.615850e-47 |
| Msa0104610 | Msa0115500 | 0.800422 | 1.452294e-48 | -8.615850e-47 |
| Msa0108870 | Msa0115500 | 0.826309 | 2.911114e-54 | -8.615850e-47 |
| Msa0115500 | Msa0131450 | 0.801653 | 8.134375e-49 | -8.615850e-47 |
| Msa0115500 | Msa0177230 | 0.828573 | 8.337993e-55 | -8.615850e-47 |
| Msa0115500 | Msa0217740 | 0.937846 | 1.782425e-98 | -8.615850e-47 |
| Msa0115500 | Msa0239490 | 0.817284 | 3.570797e-52 | -8.615850e-47 |
| Msa0115500 | Msa0245850 | 0.800626 | 1.319274e-48 | -8.615850e-47 |
| Msa0115500 | Msa0291520 | 0.809262 | 2.064468e-50 | -8.615850e-47 |
| Msa0115500 | Msa0387470 | 0.801469 | 8.874159e-49 | -8.615850e-47 |
| Msa0115500 | Msa0474700 | 0.802473 | 5.518540e-49 | -8.615850e-47 |
| Msa0115500 | Msa0527910 | 0.836655 | 8.239700e-57 | -8.615850e-47 |
| Msa0115500 | Msa0546570 | 0.830848 | 2.330300e-55 | -8.615850e-47 |
| Msa0115500 | Msa0550570 | 0.802498 | 5.451478e-49 | -8.615850e-47 |
| Msa0115500 | Msa0580950 | 0.813160 | 2.945720e-51 | -8.615850e-47 |
| Msa0115500 | Msa0619920 | 0.813003 | 3.188619e-51 | -8.615850e-47 |
| Msa0115500 | Msa0651150 | 0.804272 | 2.339468e-49 | -8.615850e-47 |
| Msa0115500 | Msa0704800 | 0.814432 | 1.545472e-51 | -8.615850e-47 |
| Msa0115500 | Msa0724150 | 0.801491 | 8.782999e-49 | -8.615850e-47 |
| Msa0115500 | Msa0774750 | 0.802905 | 4.492873e-49 | -8.615850e-47 |
| Msa0115500 | Msa0781270 | 0.816307 | 5.915358e-52 | -8.615850e-47 |
| Msa0115500 | Msa0825270 | 0.800182 | 1.625046e-48 | -8.615850e-47 |
| Msa0115500 | Msa0981430 | 0.802937 | 4.425994e-49 | -8.615850e-47 |
| Msa0115500 | Msa1025940 | 0.819570 | 1.083753e-52 | -8.615850e-47 |
| Msa0115500 | Msa1083880 | 0.821201 | 4.578752e-53 | -8.615850e-47 |
| Msa0115500 | Msa1114040 | 0.815188 | 1.050529e-51 | -8.615850e-47 |
| Msa0115500 | Msa1203900 | 0.805360 | 1.385807e-49 | -8.615850e-47 |
| Msa0115500 | Msa1317270 | 0.842372 | 2.692358e-58 | -8.615850e-47 |
| Msa0115500 | Msa1408150 | 0.809397 | 1.931118e-50 | -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 | 1_3:+34370893 | Msa0115500:CDS |
| GTGTAAATGTTGAAGTTATT+TGG | 0.290656 | 1_3:+34370960 | Msa0115500:three_prime_UTR |
| TCTGAACTATTGTTGTTTGT+TGG | 0.354497 | 1_3:-34370731 | None:intergenic |
| TGGAAATTGCGACACTTAGA+AGG | 0.368870 | 1_3:+34370784 | Msa0115500:CDS |
| GTCAAATCATCATAAATTAC+AGG | 0.400432 | 1_3:+34371071 | Msa0115500:three_prime_UTR |
| TTGTTGTTTGTTGGATCTGT+TGG | 0.448449 | 1_3:-34370722 | None:intergenic |
| AGTGTTTATGTCTATTGTAA+TGG | 0.459087 | 1_3:+34370996 | Msa0115500:three_prime_UTR |
| CTTTCACACCAGAGACAATC+AGG | 0.460722 | 1_3:-34370489 | None:intergenic |
| TGCGACACTTAGAAGGACTA+TGG | 0.475465 | 1_3:+34370791 | Msa0115500:CDS |
| AATTCGCACCTGATTGTCTC+TGG | 0.481903 | 1_3:+34370481 | Msa0115500:CDS |
| ACATAAACACTTAATCTAAG+AGG | 0.513212 | 1_3:-34370984 | None:intergenic |
| AGAATGTGTCGAGAAGGAAA+TGG | 0.537490 | 1_3:+34370764 | Msa0115500:CDS |
| ATGTAGAGAATGTGTCGAGA+AGG | 0.597119 | 1_3:+34370758 | Msa0115500:CDS |
| ATCATAAATTACAGGATGAG+CGG | 0.616631 | 1_3:+34371079 | Msa0115500:three_prime_UTR |
| AGGACTATGGTGAAGATGCA+TGG | 0.669626 | 1_3:+34370804 | Msa0115500:CDS |
| TAGGCTCGTAGAATTGATTG+TGG | 0.686326 | 1_3:+34370666 | Msa0115500:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAACAAAGGAAAAAAATTAT+GGG | + | chr1_3:34370541-34370560 | Msa0115500:intron | 15.0% |
| !!! | ATTTTTTTTATTCTTTGTGT+AGG | + | chr1_3:34370647-34370666 | Msa0115500:intron | 15.0% |
| !!! | CATAATTTTTTTCCTTTGTT+TGG | - | chr1_3:34370542-34370561 | None:intergenic | 20.0% |
| !! | CAAACAAAGGAAAAAAATTA+TGG | + | chr1_3:34370540-34370559 | Msa0115500:intron | 20.0% |
| !! | TTTAATTATCATGTGCCTTT+TGG | + | chr1_3:34370893-34370912 | Msa0115500:CDS | 25.0% |
| ! | GTGTAAATGTTGAAGTTATT+TGG | + | chr1_3:34370960-34370979 | Msa0115500:three_prime_UTR | 25.0% |
| ! | ACATAAACACTTAATCTAAG+AGG | - | chr1_3:34370987-34371006 | None:intergenic | 25.0% |
| ! | AGTGTTTATGTCTATTGTAA+TGG | + | chr1_3:34370996-34371015 | Msa0115500:three_prime_UTR | 25.0% |
| ! | GTCAAATCATCATAAATTAC+AGG | + | chr1_3:34371071-34371090 | Msa0115500:three_prime_UTR | 25.0% |
| TTACAAAGATGTCCAAACAA+AGG | + | chr1_3:34370527-34370546 | Msa0115500:intron | 30.0% | |
| !! | ATGGGATTTTAGAAACTTTG+TGG | + | chr1_3:34370559-34370578 | Msa0115500:intron | 30.0% |
| !! | TCTGAACTATTGTTGTTTGT+TGG | - | chr1_3:34370734-34370753 | None:intergenic | 30.0% |
| ! | ACATCAACATTTTCACCAAA+AGG | - | chr1_3:34370911-34370930 | None:intergenic | 30.0% |
| !! | TTGTTGTTTGTTGGATCTGT+TGG | - | chr1_3:34370725-34370744 | None:intergenic | 35.0% |
| TAGGCTCGTAGAATTGATTG+TGG | + | chr1_3:34370666-34370685 | Msa0115500:intron | 40.0% | |
| ATGTAGAGAATGTGTCGAGA+AGG | + | chr1_3:34370758-34370777 | Msa0115500:CDS | 40.0% | |
| AGAATGTGTCGAGAAGGAAA+TGG | + | chr1_3:34370764-34370783 | Msa0115500:CDS | 40.0% | |
| TGGAAATTGCGACACTTAGA+AGG | + | chr1_3:34370784-34370803 | Msa0115500:CDS | 40.0% | |
| AATTCGCACCTGATTGTCTC+TGG | + | chr1_3:34370481-34370500 | Msa0115500:CDS | 45.0% | |
| CTTTCACACCAGAGACAATC+AGG | - | chr1_3:34370492-34370511 | None:intergenic | 45.0% | |
| !!! | GTGGCTGCAGTTTTTTTGAC+TGG | + | chr1_3:34370685-34370704 | Msa0115500:CDS | 45.0% |
| TGCGACACTTAGAAGGACTA+TGG | + | chr1_3:34370791-34370810 | Msa0115500:CDS | 45.0% | |
| AGGACTATGGTGAAGATGCA+TGG | + | chr1_3:34370804-34370823 | Msa0115500:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_3 | gene | 34370478 | 34371101 | 34370478 | ID=Msa0115500;Name=Msa0115500 |
| chr1_3 | mRNA | 34370478 | 34371101 | 34370478 | ID=Msa0115500-mRNA-1;Parent=Msa0115500;Name=Msa0115500-mRNA-1;_AED=0.16;_eAED=0.19;_QI=0|0|0.5|1|0|0.5|2|169|100 |
| chr1_3 | exon | 34370478 | 34370516 | 34370478 | ID=Msa0115500-mRNA-1:exon:10822;Parent=Msa0115500-mRNA-1 |
| chr1_3 | exon | 34370669 | 34371101 | 34370669 | ID=Msa0115500-mRNA-1:exon:10823;Parent=Msa0115500-mRNA-1 |
| chr1_3 | CDS | 34370478 | 34370516 | 34370478 | ID=Msa0115500-mRNA-1:cds;Parent=Msa0115500-mRNA-1 |
| chr1_3 | CDS | 34370669 | 34370932 | 34370669 | ID=Msa0115500-mRNA-1:cds;Parent=Msa0115500-mRNA-1 |
| chr1_3 | three_prime_UTR | 34370933 | 34371101 | 34370933 | ID=Msa0115500-mRNA-1:three_prime_utr;Parent=Msa0115500-mRNA-1 |
| Gene Sequence |
| Protein sequence |
