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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0714260 | XP_024632725.2 | 64.356 | 202 | 47 | 1 | 13 | 189 | 11 | 212 | 4.72e-80 | 262 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0714260 | sp|Q9SY66|FRS11_ARATH | 31.053 | 190 | 91 | 3 | 27 | 188 | 21 | 198 | 7.67e-24 | 101 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0714260 | A0A834LIC9 | 46.032 | 189 | 69 | 3 | 27 | 189 | 20 | 201 | 5.09e-41 | 157 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0714260 | TF | FAR1 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0714260 | MtrunA17_Chr2g0276841 | 34.054 | 185 | 83 | 4 | 38 | 188 | 41 | 220 | 3.48e-25 | 101 |
| Msa0714260 | MtrunA17_Chr2g0294841 | 35.669 | 157 | 68 | 3 | 64 | 189 | 45 | 199 | 8.10e-23 | 95.1 |
| Msa0714260 | MtrunA17_Chr2g0290391 | 32.704 | 159 | 79 | 2 | 57 | 189 | 44 | 200 | 7.15e-21 | 89.4 |
| Msa0714260 | MtrunA17_Chr5g0431001 | 34.177 | 158 | 69 | 3 | 64 | 188 | 61 | 216 | 8.04e-16 | 74.7 |
| Msa0714260 | MtrunA17_Chr1g0198761 | 31.013 | 158 | 70 | 5 | 67 | 189 | 50 | 203 | 1.12e-13 | 68.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0714260 | AT1G10240.2 | 31.053 | 190 | 91 | 3 | 27 | 188 | 21 | 198 | 7.79e-25 | 101 |
| Msa0714260 | AT1G10240.1 | 31.053 | 190 | 91 | 3 | 27 | 188 | 21 | 198 | 7.79e-25 | 101 |
| Msa0714260 | AT5G28530.1 | 29.944 | 177 | 96 | 3 | 39 | 189 | 30 | 204 | 1.52e-20 | 89.0 |
| Msa0714260 | AT5G28530.3 | 29.944 | 177 | 96 | 3 | 39 | 189 | 30 | 204 | 1.68e-20 | 88.6 |
| Msa0714260 | AT5G28530.2 | 29.944 | 177 | 96 | 3 | 39 | 189 | 30 | 204 | 1.68e-20 | 88.6 |
| Msa0714260 | AT5G28530.4 | 29.944 | 177 | 96 | 3 | 39 | 189 | 30 | 204 | 1.69e-20 | 88.6 |
| Msa0714260 | AT5G28530.5 | 29.944 | 177 | 96 | 3 | 39 | 189 | 30 | 204 | 1.93e-20 | 88.6 |
Find 19 sgRNAs with CRISPR-Local
Find 94 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTATCACATGGTTCATTATT+TGG | 0.125786 | 5_1:+6888941 | None:intergenic |
| TCAATAACTTGCAATTCTTT+TGG | 0.220230 | 5_1:+6888567 | None:intergenic |
| CTATTTCGTTGTTCTTTAGA+TGG | 0.256140 | 5_1:+6888657 | None:intergenic |
| AGAAAACATTGCCCAATAAA+AGG | 0.311755 | 5_1:+6888848 | None:intergenic |
| GATTGAGAAACCACTCCTTT+TGG | 0.331753 | 5_1:+6888787 | None:intergenic |
| GCAAGGTGTGGATGCACAGC+GGG | 0.464246 | 5_1:-6888627 | Msa0714260:CDS |
| ATCTTACCGCAACATTTATG+AGG | 0.481381 | 5_1:-6888487 | Msa0714260:CDS |
| TTTATGAGAATTATGCCAAA+AGG | 0.484051 | 5_1:-6888802 | Msa0714260:CDS |
| GAGAATTATGCCAAAAGGAG+TGG | 0.544730 | 5_1:-6888797 | Msa0714260:intron |
| TGATTTGAGCAACAACAAGC+AGG | 0.558806 | 5_1:-6888900 | Msa0714260:CDS |
| CTCAATCAATTGTTCTCATG+TGG | 0.560735 | 5_1:-6889272 | Msa0714260:CDS |
| TAGTAAATCATGATTGTGGT+TGG | 0.562568 | 5_1:+6888536 | None:intergenic |
| CATCTTCCTCATAAATGTTG+CGG | 0.567397 | 5_1:+6888481 | None:intergenic |
| AAATGTTGCGGTAAGATGCA+AGG | 0.591678 | 5_1:+6888493 | None:intergenic |
| TGCAAGGTGTGGATGCACAG+CGG | 0.609984 | 5_1:-6888628 | Msa0714260:CDS |
| AGGAAGCGCACTTGATCTCG+AGG | 0.633544 | 5_1:+6888513 | None:intergenic |
| AATAGACAATCTGCAAGGTG+TGG | 0.640554 | 5_1:-6888639 | Msa0714260:CDS |
| AACGAAATAGACAATCTGCA+AGG | 0.668405 | 5_1:-6888644 | Msa0714260:CDS |
| GAGGTAGTAAATCATGATTG+TGG | 0.689863 | 5_1:+6888532 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AATTCAATAATAATATTTTG+TGG | - | chr5_1:6888630-6888649 | Msa0714260:CDS | 10.0% |
| !!! | AATTCAATAATAATATTTTG+TGG | - | chr5_1:6888630-6888649 | Msa0714260:CDS | 10.0% |
| !! | TATTATTGAATTCGTAAATA+AGG | + | chr5_1:6888622-6888641 | None:intergenic | 15.0% |
| !!! | AATATTTTGTGGATAAATAA+TGG | - | chr5_1:6888641-6888660 | Msa0714260:CDS | 15.0% |
| !! | TAATATGAATTTATTTGTGT+AGG | - | chr5_1:6888696-6888715 | Msa0714260:intron | 15.0% |
| !! | TATTATTGAATTCGTAAATA+AGG | + | chr5_1:6888622-6888641 | None:intergenic | 15.0% |
| !!! | AATATTTTGTGGATAAATAA+TGG | - | chr5_1:6888641-6888660 | Msa0714260:CDS | 15.0% |
| !! | TAATATGAATTTATTTGTGT+AGG | - | chr5_1:6888696-6888715 | Msa0714260:intron | 15.0% |
| !!! | TAATATGTATGTGTTACTTA+AGG | + | chr5_1:6888571-6888590 | None:intergenic | 20.0% |
| !! | AATTCGTAAATAAGGAATTA+GGG | + | chr5_1:6888614-6888633 | None:intergenic | 20.0% |
| !!! | AATTGTTTTGAACCTTTTAT+TGG | - | chr5_1:6888836-6888855 | Msa0714260:CDS | 20.0% |
| !!! | ATTGTTTTGAACCTTTTATT+GGG | - | chr5_1:6888837-6888856 | Msa0714260:CDS | 20.0% |
| !!! | TCATGATATTTTTTTTCTTC+TGG | + | chr5_1:6889018-6889037 | None:intergenic | 20.0% |
| !!! | TAATATGTATGTGTTACTTA+AGG | + | chr5_1:6888571-6888590 | None:intergenic | 20.0% |
| !! | AATTCGTAAATAAGGAATTA+GGG | + | chr5_1:6888614-6888633 | None:intergenic | 20.0% |
| !!! | AATTGTTTTGAACCTTTTAT+TGG | - | chr5_1:6888836-6888855 | Msa0714260:CDS | 20.0% |
| !!! | ATTGTTTTGAACCTTTTATT+GGG | - | chr5_1:6888837-6888856 | Msa0714260:CDS | 20.0% |
| !!! | TCATGATATTTTTTTTCTTC+TGG | + | chr5_1:6889018-6889037 | None:intergenic | 20.0% |
| ! | AATTAGGGGTGAAATATTTA+TGG | + | chr5_1:6888599-6888618 | None:intergenic | 25.0% |
| ! | ATTCGTAAATAAGGAATTAG+GGG | + | chr5_1:6888613-6888632 | None:intergenic | 25.0% |
| ! | GAATTCGTAAATAAGGAATT+AGG | + | chr5_1:6888615-6888634 | None:intergenic | 25.0% |
| ! | TGAATTTATTTGTGTAGGTT+AGG | - | chr5_1:6888701-6888720 | Msa0714260:intron | 25.0% |
| ! | TTATCACATGGTTCATTATT+TGG | + | chr5_1:6888758-6888777 | None:intergenic | 25.0% |
| !! | TCATTTTCTGAATTATCACA+TGG | + | chr5_1:6888770-6888789 | None:intergenic | 25.0% |
| ! | TTTATGAGAATTATGCCAAA+AGG | - | chr5_1:6888894-6888913 | Msa0714260:CDS | 25.0% |
| !!! | TGTCGCTTTCTTAAAAAAAA+TGG | - | chr5_1:6888938-6888957 | Msa0714260:CDS | 25.0% |
| !! | GTCGCTTTCTTAAAAAAAAT+GGG | - | chr5_1:6888939-6888958 | Msa0714260:CDS | 25.0% |
| ! | AAAAAAATGGGATGATACAT+AGG | - | chr5_1:6888951-6888970 | Msa0714260:CDS | 25.0% |
| !!! | TTCTTTTGGAAAAATCTCAA+AGG | + | chr5_1:6889118-6889137 | None:intergenic | 25.0% |
| !!! | TCAATAACTTGCAATTCTTT+TGG | + | chr5_1:6889132-6889151 | None:intergenic | 25.0% |
| ! | AATTAGGGGTGAAATATTTA+TGG | + | chr5_1:6888599-6888618 | None:intergenic | 25.0% |
| ! | ATTCGTAAATAAGGAATTAG+GGG | + | chr5_1:6888613-6888632 | None:intergenic | 25.0% |
| ! | GAATTCGTAAATAAGGAATT+AGG | + | chr5_1:6888615-6888634 | None:intergenic | 25.0% |
| ! | TGAATTTATTTGTGTAGGTT+AGG | - | chr5_1:6888701-6888720 | Msa0714260:intron | 25.0% |
| ! | TTATCACATGGTTCATTATT+TGG | + | chr5_1:6888758-6888777 | None:intergenic | 25.0% |
| !! | TCATTTTCTGAATTATCACA+TGG | + | chr5_1:6888770-6888789 | None:intergenic | 25.0% |
| ! | TTTATGAGAATTATGCCAAA+AGG | - | chr5_1:6888894-6888913 | Msa0714260:CDS | 25.0% |
| !!! | TGTCGCTTTCTTAAAAAAAA+TGG | - | chr5_1:6888938-6888957 | Msa0714260:CDS | 25.0% |
| !! | GTCGCTTTCTTAAAAAAAAT+GGG | - | chr5_1:6888939-6888958 | Msa0714260:CDS | 25.0% |
| ! | AAAAAAATGGGATGATACAT+AGG | - | chr5_1:6888951-6888970 | Msa0714260:CDS | 25.0% |
| !!! | TTCTTTTGGAAAAATCTCAA+AGG | + | chr5_1:6889118-6889137 | None:intergenic | 25.0% |
| !!! | TCAATAACTTGCAATTCTTT+TGG | + | chr5_1:6889132-6889151 | None:intergenic | 25.0% |
| GGTATATAATGTGTGACATA+AGG | + | chr5_1:6888526-6888545 | None:intergenic | 30.0% | |
| AAGGAAAGAAATTGAGAACA+AGG | + | chr5_1:6888552-6888571 | None:intergenic | 30.0% | |
| AGAAAACATTGCCCAATAAA+AGG | + | chr5_1:6888851-6888870 | None:intergenic | 30.0% | |
| !! | TTTTAAGAAAGCGACATTTC+CGG | + | chr5_1:6888934-6888953 | None:intergenic | 30.0% |
| !!! | TACATAGGAGAGATTTTTTC+TGG | - | chr5_1:6888966-6888985 | Msa0714260:CDS | 30.0% |
| CTATTTCGTTGTTCTTTAGA+TGG | + | chr5_1:6889042-6889061 | None:intergenic | 30.0% | |
| TAGTAAATCATGATTGTGGT+TGG | + | chr5_1:6889163-6889182 | None:intergenic | 30.0% | |
| GGTATATAATGTGTGACATA+AGG | + | chr5_1:6888526-6888545 | None:intergenic | 30.0% | |
| AAGGAAAGAAATTGAGAACA+AGG | + | chr5_1:6888552-6888571 | None:intergenic | 30.0% | |
| AGAAAACATTGCCCAATAAA+AGG | + | chr5_1:6888851-6888870 | None:intergenic | 30.0% | |
| !! | TTTTAAGAAAGCGACATTTC+CGG | + | chr5_1:6888934-6888953 | None:intergenic | 30.0% |
| !!! | TACATAGGAGAGATTTTTTC+TGG | - | chr5_1:6888966-6888985 | Msa0714260:CDS | 30.0% |
| CTATTTCGTTGTTCTTTAGA+TGG | + | chr5_1:6889042-6889061 | None:intergenic | 30.0% | |
| TAGTAAATCATGATTGTGGT+TGG | + | chr5_1:6889163-6889182 | None:intergenic | 30.0% | |
| CTCAATCAATTGTTCTCATG+TGG | - | chr5_1:6888424-6888443 | Msa0714260:CDS | 35.0% | |
| GTTGAGAACATGTGAGAAAA+AGG | + | chr5_1:6888498-6888517 | None:intergenic | 35.0% | |
| AAGAAATTGAGAACAAGGTG+TGG | + | chr5_1:6888547-6888566 | None:intergenic | 35.0% | |
| ! | TTTCTTCTGGAAATCCTTCT+CGG | + | chr5_1:6889005-6889024 | None:intergenic | 35.0% |
| AACGAAATAGACAATCTGCA+AGG | - | chr5_1:6889052-6889071 | Msa0714260:intron | 35.0% | |
| GAGGTAGTAAATCATGATTG+TGG | + | chr5_1:6889167-6889186 | None:intergenic | 35.0% | |
| ATCTTACCGCAACATTTATG+AGG | - | chr5_1:6889209-6889228 | Msa0714260:intron | 35.0% | |
| CATCTTCCTCATAAATGTTG+CGG | + | chr5_1:6889218-6889237 | None:intergenic | 35.0% | |
| CTCAATCAATTGTTCTCATG+TGG | - | chr5_1:6888424-6888443 | Msa0714260:CDS | 35.0% | |
| GTTGAGAACATGTGAGAAAA+AGG | + | chr5_1:6888498-6888517 | None:intergenic | 35.0% | |
| AAGAAATTGAGAACAAGGTG+TGG | + | chr5_1:6888547-6888566 | None:intergenic | 35.0% | |
| ! | TTTCTTCTGGAAATCCTTCT+CGG | + | chr5_1:6889005-6889024 | None:intergenic | 35.0% |
| AACGAAATAGACAATCTGCA+AGG | - | chr5_1:6889052-6889071 | Msa0714260:intron | 35.0% | |
| GAGGTAGTAAATCATGATTG+TGG | + | chr5_1:6889167-6889186 | None:intergenic | 35.0% | |
| ATCTTACCGCAACATTTATG+AGG | - | chr5_1:6889209-6889228 | Msa0714260:intron | 35.0% | |
| CATCTTCCTCATAAATGTTG+CGG | + | chr5_1:6889218-6889237 | None:intergenic | 35.0% | |
| TGATTTGAGCAACAACAAGC+AGG | - | chr5_1:6888796-6888815 | Msa0714260:intron | 40.0% | |
| ! | TGGGCAATGTTTTCTTAGTG+AGG | - | chr5_1:6888856-6888875 | Msa0714260:CDS | 40.0% |
| GAGAATTATGCCAAAAGGAG+TGG | - | chr5_1:6888899-6888918 | Msa0714260:CDS | 40.0% | |
| ! | GATTGAGAAACCACTCCTTT+TGG | + | chr5_1:6888912-6888931 | None:intergenic | 40.0% |
| AAAGGAGTGGTTTCTCAATC+CGG | - | chr5_1:6888912-6888931 | Msa0714260:CDS | 40.0% | |
| !!! | GATTTTTTCTGTCACCGAGA+AGG | - | chr5_1:6888988-6889007 | Msa0714260:intron | 40.0% |
| AATAGACAATCTGCAAGGTG+TGG | - | chr5_1:6889057-6889076 | Msa0714260:intron | 40.0% | |
| AAATGTTGCGGTAAGATGCA+AGG | + | chr5_1:6889206-6889225 | None:intergenic | 40.0% | |
| TGATTTGAGCAACAACAAGC+AGG | - | chr5_1:6888796-6888815 | Msa0714260:intron | 40.0% | |
| ! | TGGGCAATGTTTTCTTAGTG+AGG | - | chr5_1:6888856-6888875 | Msa0714260:CDS | 40.0% |
| GAGAATTATGCCAAAAGGAG+TGG | - | chr5_1:6888899-6888918 | Msa0714260:CDS | 40.0% | |
| ! | GATTGAGAAACCACTCCTTT+TGG | + | chr5_1:6888912-6888931 | None:intergenic | 40.0% |
| AAAGGAGTGGTTTCTCAATC+CGG | - | chr5_1:6888912-6888931 | Msa0714260:CDS | 40.0% | |
| !!! | GATTTTTTCTGTCACCGAGA+AGG | - | chr5_1:6888988-6889007 | Msa0714260:intron | 40.0% |
| AATAGACAATCTGCAAGGTG+TGG | - | chr5_1:6889057-6889076 | Msa0714260:intron | 40.0% | |
| AAATGTTGCGGTAAGATGCA+AGG | + | chr5_1:6889206-6889225 | None:intergenic | 40.0% | |
| TGCAAGGTGTGGATGCACAG+CGG | - | chr5_1:6889068-6889087 | Msa0714260:intron | 55.0% | |
| ! | AGGAAGCGCACTTGATCTCG+AGG | + | chr5_1:6889186-6889205 | None:intergenic | 55.0% |
| TGCAAGGTGTGGATGCACAG+CGG | - | chr5_1:6889068-6889087 | Msa0714260:intron | 55.0% | |
| ! | AGGAAGCGCACTTGATCTCG+AGG | + | chr5_1:6889186-6889205 | None:intergenic | 55.0% |
| GCAAGGTGTGGATGCACAGC+GGG | - | chr5_1:6889069-6889088 | Msa0714260:intron | 60.0% | |
| GCAAGGTGTGGATGCACAGC+GGG | - | chr5_1:6889069-6889088 | Msa0714260:intron | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_1 | gene | 6888401 | 6889317 | 6888401 | ID=Msa0714260;Name=Msa0714260 |
| chr5_1 | mRNA | 6888401 | 6889317 | 6888401 | ID=Msa0714260-mRNA-1;Parent=Msa0714260;Name=Msa0714260-mRNA-1;_AED=0.38;_eAED=0.38;_QI=0|0|0|1|1|1|3|0|189 |
| chr5_1 | exon | 6889259 | 6889317 | 6889259 | ID=Msa0714260-mRNA-1:exon:2870;Parent=Msa0714260-mRNA-1 |
| chr5_1 | exon | 6888798 | 6889000 | 6888798 | ID=Msa0714260-mRNA-1:exon:2869;Parent=Msa0714260-mRNA-1 |
| chr5_1 | exon | 6888401 | 6888708 | 6888401 | ID=Msa0714260-mRNA-1:exon:2868;Parent=Msa0714260-mRNA-1 |
| chr5_1 | CDS | 6889259 | 6889317 | 6889259 | ID=Msa0714260-mRNA-1:cds;Parent=Msa0714260-mRNA-1 |
| chr5_1 | CDS | 6888798 | 6889000 | 6888798 | ID=Msa0714260-mRNA-1:cds;Parent=Msa0714260-mRNA-1 |
| chr5_1 | CDS | 6888401 | 6888708 | 6888401 | ID=Msa0714260-mRNA-1:cds;Parent=Msa0714260-mRNA-1 |
| Gene Sequence |
| Protein sequence |
