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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1000870 | XP_039683714.1 | 94.118 | 51 | 3 | 0 | 3 | 53 | 61 | 111 | 2.08e-24 | 104 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1000870 | A0A072UBT1 | 94.118 | 51 | 3 | 0 | 3 | 53 | 61 | 111 | 1.06e-24 | 104 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0766630 | Msa1000870 | 0.812031 | 5.201697e-51 | -8.615850e-47 |
| Msa1000860 | Msa1000870 | 0.804545 | 2.052371e-49 | -8.615850e-47 |
| Msa1000870 | Msa1284680 | 0.804984 | 1.661476e-49 | -8.615850e-47 |
| Msa0285450 | Msa1000870 | 0.805213 | 1.488004e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1000870 | MtrunA17_Chr7g0245181 | 94.118 | 51 | 3 | 0 | 3 | 53 | 61 | 111 | 2.34e-28 | 104 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1000870 | AT3G08670.1 | 70.455 | 44 | 12 | 1 | 1 | 44 | 67 | 109 | 4.63e-13 | 61.6 |
Find 22 sgRNAs with CRISPR-Local
Find 36 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGATTTAGTTTCTGTTAAAT+TGG | 0.193096 | 6_4:+84208673 | None:intergenic |
| GATTTAGTTTCTGTTAAATT+GGG | 0.311220 | 6_4:+84208674 | None:intergenic |
| TGCTAGGCTCCTTACTCCCC+TGG | 0.379438 | 6_4:+84209173 | Msa1000870:intron |
| CCGGGGTCCCCAGGGGAGTA+AGG | 0.390538 | 6_4:-84209182 | None:intergenic |
| ATGGAAGAACCGGGGTCCCC+AGG | 0.410199 | 6_4:-84209191 | None:intergenic |
| ATCAGTTGGAGGAGCAAAAC+AGG | 0.411482 | 6_4:+84208703 | Msa1000870:CDS |
| GCTAGGCTCCTTACTCCCCT+GGG | 0.442867 | 6_4:+84209174 | Msa1000870:intron |
| GGAGCAAAACAGGCTCGAAA+TGG | 0.464148 | 6_4:+84208713 | Msa1000870:CDS |
| GAGGAAAGCATGATTATGAT+TGG | 0.470423 | 6_4:+84208765 | Msa1000870:CDS |
| CCTTACTCCCCTGGGGACCC+CGG | 0.504602 | 6_4:+84209182 | Msa1000870:CDS |
| TGGAAGAACCGGGGTCCCCA+GGG | 0.514668 | 6_4:-84209190 | None:intergenic |
| CGAGGCGCCAAGGTTTATTG+TGG | 0.528524 | 6_4:-84209228 | None:intergenic |
| ATTTAGTTTCTGTTAAATTG+GGG | 0.547188 | 6_4:+84208675 | None:intergenic |
| ACAGGCTCGAAATGGAATTG+AGG | 0.578692 | 6_4:+84208721 | Msa1000870:CDS |
| TTGGGGAGACTATCAGTTGG+AGG | 0.589087 | 6_4:+84208692 | Msa1000870:CDS |
| GATGTGTTGTCATCTGTAGA+AGG | 0.621426 | 6_4:+84208743 | Msa1000870:CDS |
| AAATTGGGGAGACTATCAGT+TGG | 0.634959 | 6_4:+84208689 | Msa1000870:CDS |
| GGAAGAACCGGGGTCCCCAG+GGG | 0.644439 | 6_4:-84209189 | None:intergenic |
| TTTCTGATGATGGAAGAACC+GGG | 0.648064 | 6_4:-84209200 | None:intergenic |
| TTCTGATGATGGAAGAACCG+GGG | 0.663729 | 6_4:-84209199 | None:intergenic |
| GTGTTGTCATCTGTAGAAGG+AGG | 0.667010 | 6_4:+84208746 | Msa1000870:CDS |
| CTAGGCTCCTTACTCCCCTG+GGG | 0.671233 | 6_4:+84209175 | Msa1000870:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATGAAAATAAAATTACTAT+TGG | + | chr6_4:84209114-84209133 | Msa1000870:intron | 10.0% |
| !! | TATTATTAGTAGATTGAATT+TGG | + | chr6_4:84208824-84208843 | Msa1000870:intron | 15.0% |
| !! | ATATAATTGAATTGTTCAAT+TGG | - | chr6_4:84208992-84209011 | None:intergenic | 15.0% |
| !! | AATGACATAACCTTTTCTAA+GGG | - | chr6_4:84208910-84208929 | None:intergenic | 25.0% |
| !! | AAATGACATAACCTTTTCTA+AGG | - | chr6_4:84208911-84208930 | None:intergenic | 25.0% |
| !!! | AGTTACAGTATTTTAGTTGT+TGG | + | chr6_4:84209015-84209034 | Msa1000870:intron | 25.0% |
| !!! | GTTACAGTATTTTAGTTGTT+GGG | + | chr6_4:84209016-84209035 | Msa1000870:intron | 25.0% |
| GATTGAATTTGGCCAAAATA+AGG | + | chr6_4:84208835-84208854 | Msa1000870:intron | 30.0% | |
| ! | TTTTAGATCATTCCTAGATC+TGG | + | chr6_4:84208928-84208947 | Msa1000870:intron | 30.0% |
| ! | TTGGGTTACTATTTGAAATG+AGG | + | chr6_4:84209034-84209053 | Msa1000870:intron | 30.0% |
| !!! | ATCACTGATTTTATGTTGCT+AGG | + | chr6_4:84209157-84209176 | Msa1000870:intron | 30.0% |
| ! | GAGGAAAGCATGATTATGAT+TGG | + | chr6_4:84208765-84208784 | Msa1000870:CDS | 35.0% |
| ATTTGGCCAAAATAAGGAAG+AGG | + | chr6_4:84208841-84208860 | Msa1000870:intron | 35.0% | |
| TTTGGCCAAAATAAGGAAGA+GGG | + | chr6_4:84208842-84208861 | Msa1000870:intron | 35.0% | |
| !! | TCTTTCCCTCTTCCTTATTT+TGG | - | chr6_4:84208850-84208869 | None:intergenic | 35.0% |
| TTAGCAGTTTCCCTTAGAAA+AGG | + | chr6_4:84208897-84208916 | Msa1000870:intron | 35.0% | |
| !!! | TTTTCTGATGATGGAAGAAC+CGG | - | chr6_4:84209204-84209223 | None:intergenic | 35.0% |
| ! | TGTGGTTCATTTTCTGATGA+TGG | - | chr6_4:84209213-84209232 | None:intergenic | 35.0% |
| AAATTGGGGAGACTATCAGT+TGG | + | chr6_4:84208689-84208708 | Msa1000870:CDS | 40.0% | |
| GATGTGTTGTCATCTGTAGA+AGG | + | chr6_4:84208743-84208762 | Msa1000870:CDS | 40.0% | |
| ! | CTGCAATTGATTCCAGATCT+AGG | - | chr6_4:84208943-84208962 | None:intergenic | 40.0% |
| !! | TTTCTGATGATGGAAGAACC+GGG | - | chr6_4:84209203-84209222 | None:intergenic | 40.0% |
| ATCAGTTGGAGGAGCAAAAC+AGG | + | chr6_4:84208703-84208722 | Msa1000870:CDS | 45.0% | |
| ACAGGCTCGAAATGGAATTG+AGG | + | chr6_4:84208721-84208740 | Msa1000870:CDS | 45.0% | |
| GTGTTGTCATCTGTAGAAGG+AGG | + | chr6_4:84208746-84208765 | Msa1000870:CDS | 45.0% | |
| !! | TTCTGATGATGGAAGAACCG+GGG | - | chr6_4:84209202-84209221 | None:intergenic | 45.0% |
| TTGGGGAGACTATCAGTTGG+AGG | + | chr6_4:84208692-84208711 | Msa1000870:CDS | 50.0% | |
| GGAGCAAAACAGGCTCGAAA+TGG | + | chr6_4:84208713-84208732 | Msa1000870:CDS | 50.0% | |
| TGCTAGGCTCCTTACTCCCC+TGG | + | chr6_4:84209173-84209192 | Msa1000870:intron | 60.0% | |
| GCTAGGCTCCTTACTCCCCT+GGG | + | chr6_4:84209174-84209193 | Msa1000870:intron | 60.0% | |
| CTAGGCTCCTTACTCCCCTG+GGG | + | chr6_4:84209175-84209194 | Msa1000870:intron | 60.0% | |
| TGGAAGAACCGGGGTCCCCA+GGG | - | chr6_4:84209193-84209212 | None:intergenic | 65.0% | |
| ATGGAAGAACCGGGGTCCCC+AGG | - | chr6_4:84209194-84209213 | None:intergenic | 65.0% | |
| CCTTACTCCCCTGGGGACCC+CGG | + | chr6_4:84209182-84209201 | Msa1000870:CDS | 70.0% | |
| GGAAGAACCGGGGTCCCCAG+GGG | - | chr6_4:84209192-84209211 | None:intergenic | 70.0% | |
| CCGGGGTCCCCAGGGGAGTA+AGG | - | chr6_4:84209185-84209204 | None:intergenic | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_4 | gene | 84208683 | 84209236 | 84208683 | ID=Msa1000870;Name=Msa1000870 |
| chr6_4 | mRNA | 84208683 | 84209236 | 84208683 | ID=Msa1000870-mRNA-1;Parent=Msa1000870;Name=Msa1000870-mRNA-1;_AED=0.53;_eAED=0.66;_QI=0|0|0|1|0|0|2|0|53 |
| chr6_4 | exon | 84208683 | 84208786 | 84208683 | ID=Msa1000870-mRNA-1:exon:16413;Parent=Msa1000870-mRNA-1 |
| chr6_4 | exon | 84209179 | 84209236 | 84209179 | ID=Msa1000870-mRNA-1:exon:16414;Parent=Msa1000870-mRNA-1 |
| chr6_4 | CDS | 84208683 | 84208786 | 84208683 | ID=Msa1000870-mRNA-1:cds;Parent=Msa1000870-mRNA-1 |
| chr6_4 | CDS | 84209179 | 84209236 | 84209179 | ID=Msa1000870-mRNA-1:cds;Parent=Msa1000870-mRNA-1 |
| Gene Sequence |
| Protein sequence |
