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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1252630 | KEH20243.1 | 72.619 | 84 | 12 | 1 | 1 | 73 | 1 | 84 | 8.27e-36 | 125 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1252630 | A0A072TTQ9 | 72.619 | 84 | 12 | 1 | 1 | 73 | 1 | 84 | 3.95e-36 | 125 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0177550 | Msa1252630 | 0.813427 | 2.573680e-51 | -8.615850e-47 |
| Msa1061670 | Msa1252630 | 0.807511 | 4.877670e-50 | -8.615850e-47 |
| Msa1106960 | Msa1252630 | 0.810667 | 1.028396e-50 | -8.615850e-47 |
| Msa0259110 | Msa1252630 | 0.835058 | 2.092829e-56 | -8.615850e-47 |
| Msa0259300 | Msa1252630 | 0.800435 | 1.443482e-48 | -8.615850e-47 |
| Msa0342130 | Msa1252630 | 0.831077 | 2.048219e-55 | -8.615850e-47 |
| Msa0342160 | Msa1252630 | 0.813609 | 2.346762e-51 | -8.615850e-47 |
| Msa1199110 | Msa1252630 | 0.800772 | 1.232242e-48 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1252630 | MtrunA17_Chr8g0368881 | 72.619 | 84 | 12 | 1 | 1 | 73 | 1 | 84 | 7.61e-40 | 125 |
| Msa1252630 | MtrunA17_Chr4g0019001 | 52.703 | 74 | 31 | 2 | 1 | 73 | 1 | 71 | 8.82e-21 | 77.4 |
| Msa1252630 | MtrunA17_Chr4g0019021 | 36.792 | 106 | 33 | 4 | 1 | 73 | 1 | 105 | 1.78e-13 | 59.7 |
| Msa1252630 | MtrunA17_Chr4g0018961 | 40.000 | 85 | 29 | 3 | 1 | 73 | 1 | 75 | 4.64e-13 | 58.2 |
| Msa1252630 | MtrunA17_Chr4g0018981 | 43.023 | 86 | 28 | 5 | 1 | 73 | 1 | 78 | 2.28e-12 | 56.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 21 sgRNAs with CRISPR-Local
Find 26 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTAAGAAGTGCTCCCTTATT+TGG | 0.192670 | 8_2:+49613661 | Msa1252630:CDS |
| AAACGAGAACCAACCAAATA+AGG | 0.224741 | 8_2:-49613674 | None:intergenic |
| CCTCTCTTACATCGTTGATC+TGG | 0.247600 | 8_2:-49613935 | None:intergenic |
| TGTAGTTTCAGAAGAAATAA+TGG | 0.295791 | 8_2:+49613889 | Msa1252630:intron |
| GAAAGCCTTATCAAAGATAA+TGG | 0.392698 | 8_2:-49614024 | None:intergenic |
| GTAGTTTCAGAAGAAATAAT+GGG | 0.401758 | 8_2:+49613890 | Msa1252630:intron |
| CTCTCTTACATCGTTGATCT+GGG | 0.408001 | 8_2:-49613934 | None:intergenic |
| TGCCACCATTATCTTTGATA+AGG | 0.416108 | 8_2:+49614019 | Msa1252630:exon |
| AACGAGAACCAACCAAATAA+GGG | 0.429145 | 8_2:-49613673 | None:intergenic |
| TTATTTGATGCCTTGCGATC+GGG | 0.437566 | 8_2:-49613989 | None:intergenic |
| TTTCTTGTGTTACAATTTCA+CGG | 0.454188 | 8_2:+49614043 | Msa1252630:three_prime_UTR |
| GAAGTGCTCCCTTATTTGGT+TGG | 0.463673 | 8_2:+49613665 | Msa1252630:CDS |
| ATTATTTGATGCCTTGCGAT+CGG | 0.486623 | 8_2:-49613990 | None:intergenic |
| TGAAGTTATGCCCGATCGCA+AGG | 0.538497 | 8_2:+49613979 | Msa1252630:CDS |
| AAAGACACATTGATTAGATG+TGG | 0.542737 | 8_2:+49614082 | Msa1252630:three_prime_UTR |
| GAATCAACGACAATGTTCCT+TGG | 0.556002 | 8_2:-49613718 | None:intergenic |
| CAAAGATAATGGTGGCAACG+TGG | 0.632142 | 8_2:-49614013 | None:intergenic |
| CCAGATCAACGATGTAAGAG+AGG | 0.635234 | 8_2:+49613935 | Msa1252630:CDS |
| AAGACACATTGATTAGATGT+GGG | 0.642402 | 8_2:+49614083 | Msa1252630:three_prime_UTR |
| TATGCTGAGTTTATCTGCCA+AGG | 0.643448 | 8_2:+49613701 | Msa1252630:CDS |
| AGCCTTATCAAAGATAATGG+TGG | 0.676453 | 8_2:-49614021 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AACTACAAAATAATAAATAT+TGG | - | chr8_2:49613876-49613895 | None:intergenic | 10.0% |
| !! | ATAAATATTGGAAATACTAT+TGG | - | chr8_2:49613864-49613883 | None:intergenic | 15.0% |
| !! | TAATAAATTAATGCAATGAG+AGG | - | chr8_2:49613782-49613801 | None:intergenic | 20.0% |
| !!! | AATCAATGTGTCTTTTATTT+GGG | - | chr8_2:49614077-49614096 | None:intergenic | 20.0% |
| !!! | TAATCAATGTGTCTTTTATT+TGG | - | chr8_2:49614078-49614097 | None:intergenic | 20.0% |
| ! | TACTATTGGAAATACTTGTT+TGG | - | chr8_2:49613850-49613869 | None:intergenic | 25.0% |
| ! | TGTAGTTTCAGAAGAAATAA+TGG | + | chr8_2:49613889-49613908 | Msa1252630:intron | 25.0% |
| ! | GTAGTTTCAGAAGAAATAAT+GGG | + | chr8_2:49613890-49613909 | Msa1252630:intron | 25.0% |
| ! | TTTCTTGTGTTACAATTTCA+CGG | + | chr8_2:49614043-49614062 | Msa1252630:three_prime_UTR | 25.0% |
| ! | GAAAGCCTTATCAAAGATAA+TGG | - | chr8_2:49614027-49614046 | None:intergenic | 30.0% |
| ! | AAAGACACATTGATTAGATG+TGG | + | chr8_2:49614082-49614101 | Msa1252630:three_prime_UTR | 30.0% |
| AACGAGAACCAACCAAATAA+GGG | - | chr8_2:49613676-49613695 | None:intergenic | 35.0% | |
| AAACGAGAACCAACCAAATA+AGG | - | chr8_2:49613677-49613696 | None:intergenic | 35.0% | |
| ATTATTTGATGCCTTGCGAT+CGG | - | chr8_2:49613993-49614012 | None:intergenic | 35.0% | |
| TGCCACCATTATCTTTGATA+AGG | + | chr8_2:49614019-49614038 | Msa1252630:exon | 35.0% | |
| ! | AGCCTTATCAAAGATAATGG+TGG | - | chr8_2:49614024-49614043 | None:intergenic | 35.0% |
| !! | CTAAGAAGTGCTCCCTTATT+TGG | + | chr8_2:49613661-49613680 | Msa1252630:CDS | 40.0% |
| TATGCTGAGTTTATCTGCCA+AGG | + | chr8_2:49613701-49613720 | Msa1252630:CDS | 40.0% | |
| GAATCAACGACAATGTTCCT+TGG | - | chr8_2:49613721-49613740 | None:intergenic | 40.0% | |
| CTCTCTTACATCGTTGATCT+GGG | - | chr8_2:49613937-49613956 | None:intergenic | 40.0% | |
| TTATTTGATGCCTTGCGATC+GGG | - | chr8_2:49613992-49614011 | None:intergenic | 40.0% | |
| ! | GAAGTGCTCCCTTATTTGGT+TGG | + | chr8_2:49613665-49613684 | Msa1252630:CDS | 45.0% |
| CCTCTCTTACATCGTTGATC+TGG | - | chr8_2:49613938-49613957 | None:intergenic | 45.0% | |
| CCAGATCAACGATGTAAGAG+AGG | + | chr8_2:49613935-49613954 | Msa1252630:CDS | 45.0% | |
| ! | CAAAGATAATGGTGGCAACG+TGG | - | chr8_2:49614016-49614035 | None:intergenic | 45.0% |
| TGAAGTTATGCCCGATCGCA+AGG | + | chr8_2:49613979-49613998 | Msa1252630:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_2 | gene | 49613654 | 49614105 | 49613654 | ID=Msa1252630;Name=Msa1252630 |
| chr8_2 | mRNA | 49613654 | 49614105 | 49613654 | ID=Msa1252630-mRNA-1;Parent=Msa1252630;Name=Msa1252630-mRNA-1;_AED=0.15;_eAED=0.15;_QI=0|0|0.5|1|0|0|2|69|73 |
| chr8_2 | exon | 49613654 | 49613732 | 49613654 | ID=Msa1252630-mRNA-1:exon:15065;Parent=Msa1252630-mRNA-1 |
| chr8_2 | exon | 49613894 | 49614105 | 49613894 | ID=Msa1252630-mRNA-1:exon:15066;Parent=Msa1252630-mRNA-1 |
| chr8_2 | CDS | 49613654 | 49613732 | 49613654 | ID=Msa1252630-mRNA-1:cds;Parent=Msa1252630-mRNA-1 |
| chr8_2 | CDS | 49613894 | 49614036 | 49613894 | ID=Msa1252630-mRNA-1:cds;Parent=Msa1252630-mRNA-1 |
| chr8_2 | three_prime_UTR | 49614037 | 49614105 | 49614037 | ID=Msa1252630-mRNA-1:three_prime_utr;Parent=Msa1252630-mRNA-1 |
| Gene Sequence |
| Protein sequence |
