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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0528710 | KEH28745.1 | 89.610 | 77 | 8 | 0 | 14 | 90 | 19 | 95 | 3.82e-42 | 143 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0528710 | A0A072US92 | 89.610 | 77 | 8 | 0 | 14 | 90 | 19 | 95 | 1.82e-42 | 143 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0043980 | Msa0528710 | 0.801310 | 9.565206e-49 | -8.615850e-47 |
| Msa0528710 | Msa0548240 | 0.800989 | 1.112313e-48 | -8.615850e-47 |
| Msa0528710 | Msa0610130 | 0.800111 | 1.679910e-48 | -8.615850e-47 |
| Msa0528710 | Msa0610430 | 0.804900 | 1.729946e-49 | -8.615850e-47 |
| Msa0528710 | Msa0820850 | 0.805793 | 1.124374e-49 | -8.615850e-47 |
| Msa0528710 | Msa0849030 | 0.802319 | 5.936580e-49 | -8.615850e-47 |
| Msa0528710 | Msa0932830 | 0.800983 | 1.115767e-48 | -8.615850e-47 |
| Msa0528710 | Msa1109680 | 0.804974 | 1.669495e-49 | -8.615850e-47 |
| Msa0528710 | Msa1167340 | 0.813425 | 2.576264e-51 | -8.615850e-47 |
| Msa0528710 | Msa1254730 | 0.801211 | 1.002279e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0528710 | MtrunA17_Chr4g0004031 | 88.636 | 44 | 5 | 0 | 47 | 90 | 1 | 44 | 7.29e-22 | 80.1 |
| Msa0528710 | MtrunA17_Chr3g0089751 | 53.226 | 62 | 27 | 1 | 31 | 90 | 1 | 62 | 1.02e-18 | 72.8 |
| Msa0528710 | MtrunA17_Chr2g0279841 | 51.562 | 64 | 29 | 1 | 26 | 87 | 141 | 204 | 2.11e-15 | 68.9 |
| Msa0528710 | MtrunA17_Chr6g0477251 | 50.909 | 55 | 27 | 0 | 33 | 87 | 447 | 501 | 6.63e-14 | 65.5 |
| Msa0528710 | MtrunA17_Chr1g0162271 | 40.541 | 74 | 40 | 1 | 17 | 90 | 28 | 97 | 9.51e-14 | 61.2 |
| Msa0528710 | MtrunA17_Chr1g0196291 | 46.552 | 58 | 31 | 0 | 33 | 90 | 50 | 107 | 9.51e-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 22 sgRNAs with CRISPR-Local
Find 23 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTTGATGCTGCTTGCTTTAC+AGG | 0.073277 | 4_1:-1653905 | Msa0528710:CDS |
| TGCTTTACAGGTGGTATAAC+TGG | 0.286866 | 4_1:-1653893 | Msa0528710:CDS |
| TTATGAAATATGATGTTAAT+AGG | 0.310176 | 4_1:-1653991 | Msa0528710:CDS |
| GAACATAATGATTTATTTGT+TGG | 0.330173 | 4_1:+1653948 | None:intergenic |
| CCAGTGTCGGCGGAAGCACT+TGG | 0.388532 | 4_1:-1653794 | Msa0528710:CDS |
| AAATATGATGTTAATAGGTA+TGG | 0.419315 | 4_1:-1653986 | Msa0528710:CDS |
| CGGAAGCACTTGGGGTTAGA+TGG | 0.424659 | 4_1:-1653784 | Msa0528710:CDS |
| CCAAGTGCTTCCGCCGACAC+TGG | 0.481678 | 4_1:+1653794 | None:intergenic |
| CGACACTGGATCAATTTCAA+TGG | 0.484539 | 4_1:+1653808 | None:intergenic |
| CAGTGTCGGCGGAAGCACTT+GGG | 0.485653 | 4_1:-1653793 | Msa0528710:CDS |
| AAAATTGCACCACACCAGAT+TGG | 0.488889 | 4_1:+1653849 | None:intergenic |
| ATGGTTGCTTATAACCAATC+TGG | 0.492558 | 4_1:-1653863 | Msa0528710:CDS |
| TACAGGTGGTATAACTGGAT+GGG | 0.534122 | 4_1:-1653888 | Msa0528710:CDS |
| TGGTATAACTGGATGGGGAA+TGG | 0.534928 | 4_1:-1653882 | Msa0528710:CDS |
| ATAATGATTTATTTGTTGGT+CGG | 0.535582 | 4_1:+1653952 | None:intergenic |
| TTACAGGTGGTATAACTGGA+TGG | 0.557506 | 4_1:-1653889 | Msa0528710:CDS |
| ACAGGTGGTATAACTGGATG+GGG | 0.576765 | 4_1:-1653887 | Msa0528710:CDS |
| GATGCTGCTTGCTTTACAGG+TGG | 0.593786 | 4_1:-1653902 | Msa0528710:CDS |
| TGCTTATAACCAATCTGGTG+TGG | 0.621838 | 4_1:-1653858 | Msa0528710:CDS |
| CATTGAAATTGATCCAGTGT+CGG | 0.635782 | 4_1:-1653807 | Msa0528710:CDS |
| AGTGTCGGCGGAAGCACTTG+GGG | 0.638389 | 4_1:-1653792 | Msa0528710:CDS |
| TGAAATTGATCCAGTGTCGG+CGG | 0.646558 | 4_1:-1653804 | Msa0528710:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTATGAAATATGATGTTAAT+AGG | - | chr4_1:1653761-1653780 | Msa0528710:CDS | 15.0% |
| !! | AAATATGATGTTAATAGGTA+TGG | - | chr4_1:1653766-1653785 | Msa0528710:CDS | 20.0% |
| !!! | ATAATGATTTATTTGTTGGT+CGG | + | chr4_1:1653803-1653822 | None:intergenic | 20.0% |
| !! | GAACATAATGATTTATTTGT+TGG | + | chr4_1:1653807-1653826 | None:intergenic | 20.0% |
| ! | ACAAAAAACAGTTCAGTAAT+TGG | + | chr4_1:1653829-1653848 | None:intergenic | 25.0% |
| ATGGTTGCTTATAACCAATC+TGG | - | chr4_1:1653889-1653908 | Msa0528710:CDS | 35.0% | |
| CATTGAAATTGATCCAGTGT+CGG | - | chr4_1:1653945-1653964 | Msa0528710:CDS | 35.0% | |
| TGCTTTACAGGTGGTATAAC+TGG | - | chr4_1:1653859-1653878 | Msa0528710:CDS | 40.0% | |
| TTACAGGTGGTATAACTGGA+TGG | - | chr4_1:1653863-1653882 | Msa0528710:CDS | 40.0% | |
| TACAGGTGGTATAACTGGAT+GGG | - | chr4_1:1653864-1653883 | Msa0528710:CDS | 40.0% | |
| TGCTTATAACCAATCTGGTG+TGG | - | chr4_1:1653894-1653913 | Msa0528710:CDS | 40.0% | |
| AAAATTGCACCACACCAGAT+TGG | + | chr4_1:1653906-1653925 | None:intergenic | 40.0% | |
| CGACACTGGATCAATTTCAA+TGG | + | chr4_1:1653947-1653966 | None:intergenic | 40.0% | |
| ! | GTTGATGCTGCTTGCTTTAC+AGG | - | chr4_1:1653847-1653866 | Msa0528710:CDS | 45.0% |
| ACAGGTGGTATAACTGGATG+GGG | - | chr4_1:1653865-1653884 | Msa0528710:CDS | 45.0% | |
| TGGTATAACTGGATGGGGAA+TGG | - | chr4_1:1653870-1653889 | Msa0528710:CDS | 45.0% | |
| ! | TGAAATTGATCCAGTGTCGG+CGG | - | chr4_1:1653948-1653967 | Msa0528710:CDS | 45.0% |
| ! | GATGCTGCTTGCTTTACAGG+TGG | - | chr4_1:1653850-1653869 | Msa0528710:CDS | 50.0% |
| !! | CGGAAGCACTTGGGGTTAGA+TGG | - | chr4_1:1653968-1653987 | Msa0528710:CDS | 55.0% |
| !! | CAGTGTCGGCGGAAGCACTT+GGG | - | chr4_1:1653959-1653978 | Msa0528710:CDS | 60.0% |
| !! | AGTGTCGGCGGAAGCACTTG+GGG | - | chr4_1:1653960-1653979 | Msa0528710:CDS | 60.0% |
| CCAAGTGCTTCCGCCGACAC+TGG | + | chr4_1:1653961-1653980 | None:intergenic | 65.0% | |
| !! | CCAGTGTCGGCGGAAGCACT+TGG | - | chr4_1:1653958-1653977 | Msa0528710:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 1653751 | 1654023 | 1653751 | ID=Msa0528710;Name=Msa0528710 |
| chr4_1 | mRNA | 1653751 | 1654023 | 1653751 | ID=Msa0528710-mRNA-1;Parent=Msa0528710;Name=Msa0528710-mRNA-1;_AED=0.05;_eAED=0.05;_QI=0|-1|0|1|-1|1|1|0|90 |
| chr4_1 | exon | 1653751 | 1654023 | 1653751 | ID=Msa0528710-mRNA-1:exon:504;Parent=Msa0528710-mRNA-1 |
| chr4_1 | CDS | 1653751 | 1654023 | 1653751 | ID=Msa0528710-mRNA-1:cds;Parent=Msa0528710-mRNA-1 |
| Gene Sequence |
| Protein sequence |
