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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0603020 | AES88834.2 | 76.768 | 99 | 13 | 3 | 1 | 98 | 1 | 90 | 2.52e-30 | 114 |
| 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 |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0603000 | Msa0603020 | 0.986514 | 4.834998e-167 | -8.615850e-47 |
| Msa0603020 | Msa0683870 | 0.889168 | 3.084072e-73 | -8.615850e-47 |
| Msa0452120 | Msa0603020 | 0.809102 | 2.233897e-50 | -8.615850e-47 |
| Msa0548020 | Msa0603020 | 0.911890 | 3.642336e-83 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0603020 | MtrunA17_Chr4g0031021 | 76.768 | 99 | 13 | 3 | 1 | 98 | 1 | 90 | 2.32e-34 | 114 |
| Msa0603020 | MtrunA17_Chr4g0031011 | 51.546 | 97 | 40 | 2 | 1 | 94 | 1 | 93 | 3.29e-14 | 63.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 25 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATGGTCTGGGTGAGAAGTT+TGG | 0.374289 | 4_2:+47202179 | Msa0603020:CDS |
| AAGGCAATGTCATGTGAGTA+TGG | 0.402722 | 4_2:-47202118 | None:intergenic |
| CAACACTAAGGTCATGGCTT+TGG | 0.441416 | 4_2:-47202015 | None:intergenic |
| ATGATGTAAACGACGTTGCT+AGG | 0.472531 | 4_2:+47202261 | Msa0603020:CDS |
| CACTACGGTGCTTTCTGAAG+AGG | 0.485776 | 4_2:+47202064 | Msa0603020:CDS |
| TCCACCGGTAGACGCATGCT+AGG | 0.507807 | 4_2:+47202140 | Msa0603020:CDS |
| GAACCCTAGCATGCGTCTAC+CGG | 0.513042 | 4_2:-47202144 | None:intergenic |
| CATTCAATCATTGTTATCAT+CGG | 0.520776 | 4_2:-47202291 | None:intergenic |
| TCTACAGTTGCATCAAACTT+CGG | 0.536605 | 4_2:-47202203 | None:intergenic |
| TGGGTAGGAGAGTAAGTGGT+GGG | 0.540063 | 4_2:-47202098 | None:intergenic |
| TGATGTAAACGACGTTGCTA+GGG | 0.561947 | 4_2:+47202262 | Msa0603020:CDS |
| CACATGACATTGCCTTCCAC+CGG | 0.580768 | 4_2:+47202125 | Msa0603020:CDS |
| CCCTAGCATGCGTCTACCGG+TGG | 0.591972 | 4_2:-47202141 | None:intergenic |
| GAGGAGCAACACTAAGGTCA+TGG | 0.596052 | 4_2:-47202021 | None:intergenic |
| TAGGAGGAGGAGCAACACTA+AGG | 0.598370 | 4_2:-47202027 | None:intergenic |
| CCACCGGTAGACGCATGCTA+GGG | 0.606573 | 4_2:+47202141 | Msa0603020:CDS |
| TAGTGAAAAGAGACAAAACT+AGG | 0.608337 | 4_2:-47202046 | None:intergenic |
| AGTATGGGTAGGAGAGTAAG+TGG | 0.611157 | 4_2:-47202102 | None:intergenic |
| AGCATGCGTCTACCGGTGGA+AGG | 0.612142 | 4_2:-47202137 | None:intergenic |
| AAAGAGACAAAACTAGGAGG+AGG | 0.615522 | 4_2:-47202040 | None:intergenic |
| AATGTCATGTGAGTATGGGT+AGG | 0.634885 | 4_2:-47202113 | None:intergenic |
| ATGGGTAGGAGAGTAAGTGG+TGG | 0.647747 | 4_2:-47202099 | None:intergenic |
| AGGCAATGTCATGTGAGTAT+GGG | 0.653460 | 4_2:-47202117 | None:intergenic |
| GATGCAACTGTAGAAAAGCA+TGG | 0.685732 | 4_2:+47202212 | Msa0603020:CDS |
| TGAAAAGAGACAAAACTAGG+AGG | 0.694756 | 4_2:-47202043 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TAGTGAAAAGAGACAAAACT+AGG | - | chr4_2:47202049-47202068 | None:intergenic | 30.0% | |
| !! | AGTTTTGTCTCTTTTCACTA+CGG | + | chr4_2:47202049-47202068 | Msa0603020:CDS | 30.0% |
| TGAAAAGAGACAAAACTAGG+AGG | - | chr4_2:47202046-47202065 | None:intergenic | 35.0% | |
| TCTACAGTTGCATCAAACTT+CGG | - | chr4_2:47202206-47202225 | None:intergenic | 35.0% | |
| AAAGAGACAAAACTAGGAGG+AGG | - | chr4_2:47202043-47202062 | None:intergenic | 40.0% | |
| AATGTCATGTGAGTATGGGT+AGG | - | chr4_2:47202116-47202135 | None:intergenic | 40.0% | |
| AGGCAATGTCATGTGAGTAT+GGG | - | chr4_2:47202120-47202139 | None:intergenic | 40.0% | |
| AAGGCAATGTCATGTGAGTA+TGG | - | chr4_2:47202121-47202140 | None:intergenic | 40.0% | |
| GATGCAACTGTAGAAAAGCA+TGG | + | chr4_2:47202212-47202231 | Msa0603020:CDS | 40.0% | |
| ATGATGTAAACGACGTTGCT+AGG | + | chr4_2:47202261-47202280 | Msa0603020:CDS | 40.0% | |
| TGATGTAAACGACGTTGCTA+GGG | + | chr4_2:47202262-47202281 | Msa0603020:CDS | 40.0% | |
| CAACACTAAGGTCATGGCTT+TGG | - | chr4_2:47202018-47202037 | None:intergenic | 45.0% | |
| AGTATGGGTAGGAGAGTAAG+TGG | - | chr4_2:47202105-47202124 | None:intergenic | 45.0% | |
| !!! | GCCAGCTTTTTCAATGGTCT+GGG | + | chr4_2:47202167-47202186 | Msa0603020:CDS | 45.0% |
| ACCCAGACCATTGAAAAAGC+TGG | - | chr4_2:47202171-47202190 | None:intergenic | 45.0% | |
| AATGGTCTGGGTGAGAAGTT+TGG | + | chr4_2:47202179-47202198 | Msa0603020:CDS | 45.0% | |
| GAGGAGCAACACTAAGGTCA+TGG | - | chr4_2:47202024-47202043 | None:intergenic | 50.0% | |
| TAGGAGGAGGAGCAACACTA+AGG | - | chr4_2:47202030-47202049 | None:intergenic | 50.0% | |
| ! | CACTACGGTGCTTTCTGAAG+AGG | + | chr4_2:47202064-47202083 | Msa0603020:CDS | 50.0% |
| TGGGTAGGAGAGTAAGTGGT+GGG | - | chr4_2:47202101-47202120 | None:intergenic | 50.0% | |
| ATGGGTAGGAGAGTAAGTGG+TGG | - | chr4_2:47202102-47202121 | None:intergenic | 50.0% | |
| CACATGACATTGCCTTCCAC+CGG | + | chr4_2:47202125-47202144 | Msa0603020:CDS | 50.0% | |
| !!! | GGGTTCGCCAGCTTTTTCAA+TGG | + | chr4_2:47202161-47202180 | Msa0603020:CDS | 50.0% |
| !!! | CGCCAGCTTTTTCAATGGTC+TGG | + | chr4_2:47202166-47202185 | Msa0603020:CDS | 50.0% |
| GAACCCTAGCATGCGTCTAC+CGG | - | chr4_2:47202147-47202166 | None:intergenic | 55.0% | |
| AGCATGCGTCTACCGGTGGA+AGG | - | chr4_2:47202140-47202159 | None:intergenic | 60.0% | |
| TCCACCGGTAGACGCATGCT+AGG | + | chr4_2:47202140-47202159 | Msa0603020:CDS | 60.0% | |
| CCACCGGTAGACGCATGCTA+GGG | + | chr4_2:47202141-47202160 | Msa0603020:CDS | 60.0% | |
| CCCTAGCATGCGTCTACCGG+TGG | - | chr4_2:47202144-47202163 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_2 | gene | 47202011 | 47202310 | 47202011 | ID=Msa0603020;Name=Msa0603020 |
| chr4_2 | mRNA | 47202011 | 47202310 | 47202011 | ID=Msa0603020-mRNA-1;Parent=Msa0603020;Name=Msa0603020-mRNA-1;_AED=0.38;_eAED=0.44;_QI=0|-1|0|1|-1|1|1|0|99 |
| chr4_2 | exon | 47202011 | 47202310 | 47202011 | ID=Msa0603020-mRNA-1:exon:10776;Parent=Msa0603020-mRNA-1 |
| chr4_2 | CDS | 47202011 | 47202310 | 47202011 | ID=Msa0603020-mRNA-1:cds;Parent=Msa0603020-mRNA-1 |
| Gene Sequence |
| Protein sequence |
