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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0887590 | RZB48484.1 | 93.333 | 150 | 2 | 1 | 1 | 150 | 97 | 238 | 5.99e-94 | 281 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0887590 | sp|Q9M5Z9|RS23_EUPES | 92.667 | 150 | 3 | 1 | 1 | 150 | 1 | 142 | 1.25e-95 | 275 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0887590 | A0A445FI55 | 93.333 | 150 | 2 | 1 | 1 | 150 | 97 | 238 | 2.86e-94 | 281 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0367910 | Msa0887590 | 0.846578 | 1.989617e-59 | -8.615850e-47 |
| Msa0887590 | Msa0999610 | 0.953410 | 2.919187e-111 | -8.615850e-47 |
| Msa0887590 | Msa1146440 | 0.854534 | 1.154428e-61 | -8.615850e-47 |
| Msa0887590 | Msa1452980 | 0.895965 | 5.802055e-76 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0887590 | MtrunA17_Chr1g0181621 | 93.333 | 150 | 2 | 1 | 1 | 150 | 1 | 142 | 1.18e-97 | 277 |
| Msa0887590 | MtrunA17_Chr7g0263691 | 87.333 | 150 | 11 | 1 | 1 | 150 | 1 | 142 | 3.10e-90 | 258 |
| Msa0887590 | MtrunA17_Chr7g0239631 | 60.000 | 55 | 20 | 1 | 63 | 117 | 29 | 81 | 2.47e-15 | 66.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0887590 | AT5G02960.1 | 88.667 | 150 | 9 | 1 | 1 | 150 | 1 | 142 | 2.05e-90 | 259 |
| Msa0887590 | AT3G09680.1 | 86.667 | 150 | 12 | 1 | 1 | 150 | 1 | 142 | 6.09e-87 | 250 |
Find 43 sgRNAs with CRISPR-Local
Find 55 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTCAAGGTTGTGAAGGTCTC+TGG | 0.340450 | 6_1:-49708640 | Msa0887590:CDS |
| TCTCCTTCTTCTCCTTGAAA+AGG | 0.352760 | 6_1:+49708602 | None:intergenic |
| ATTCCACAAATCTAAGATCT+TGG | 0.379899 | 6_1:+49708577 | None:intergenic |
| CAGCTATTCGTAAGTGTGCC+AGG | 0.413818 | 6_1:-49708955 | Msa0887590:CDS |
| CATGCTGTGGGAGATATTCC+TGG | 0.414411 | 6_1:-49708670 | Msa0887590:CDS |
| CTCCTTCTTCTCCTTGAAAA+GGG | 0.418297 | 6_1:+49708603 | None:intergenic |
| CACTTACGAATAGCTGAGTT+GGG | 0.449683 | 6_1:+49708962 | None:intergenic |
| GGAGGCAAAGGTGGGCTGAC+AGG | 0.476427 | 6_1:-49709181 | Msa0887590:CDS |
| TCAAGGTTGTGAAGGTCTCT+GGG | 0.478339 | 6_1:-49708639 | Msa0887590:CDS |
| TCATACAAGAAGTCTCATCT+TGG | 0.482133 | 6_1:-49709158 | Msa0887590:CDS |
| TGCTGGTTCTTCCCACGCAA+AGG | 0.487634 | 6_1:-49709114 | Msa0887590:CDS |
| CTCACCGCAGGAGGCAAAGG+TGG | 0.491520 | 6_1:-49709190 | Msa0887590:CDS |
| CATGGGGAATACACATGGAA+TGG | 0.495178 | 6_1:-49709234 | Msa0887590:CDS |
| GCTGGTTCTTCCCACGCAAA+GGG | 0.497054 | 6_1:-49709113 | Msa0887590:CDS |
| TAGTTTAAACAACCATCGTT+GGG | 0.498002 | 6_1:+49708890 | None:intergenic |
| ATTGCTGGATTTGGAAGAAA+GGG | 0.499669 | 6_1:-49708694 | Msa0887590:CDS |
| GCGTGGGAAGAACCAGCAAA+AGG | 0.504542 | 6_1:+49709119 | None:intergenic |
| GATTGCTGGATTTGGAAGAA+AGG | 0.508603 | 6_1:-49708695 | Msa0887590:CDS |
| TATTCCTGGAGTTAGATTCA+AGG | 0.508883 | 6_1:-49708656 | Msa0887590:CDS |
| ACACTTACGAATAGCTGAGT+TGG | 0.509353 | 6_1:+49708961 | None:intergenic |
| AGGGTACAACTAATCAAGAA+TGG | 0.513747 | 6_1:-49708935 | Msa0887590:CDS |
| CATACAAGAAGTCTCATCTT+GGG | 0.517410 | 6_1:-49709157 | Msa0887590:CDS |
| CGAGGACAATTCCCTTTGCG+TGG | 0.534957 | 6_1:+49709102 | None:intergenic |
| ATGGGGAATACACATGGAAT+GGG | 0.535864 | 6_1:-49709233 | Msa0887590:CDS |
| GTAGTTTAAACAACCATCGT+TGG | 0.552087 | 6_1:+49708889 | None:intergenic |
| CAGCCCACCTTTGCCTCCTG+CGG | 0.552736 | 6_1:+49709186 | None:intergenic |
| GCAAGCTGAAGTCTCACCGC+AGG | 0.557712 | 6_1:-49709202 | Msa0887590:CDS |
| CATTCCATGTGTATTCCCCA+TGG | 0.562380 | 6_1:+49709235 | None:intergenic |
| AGTCTCACCGCAGGAGGCAA+AGG | 0.562641 | 6_1:-49709193 | Msa0887590:CDS |
| AGCTGAAGTCTCACCGCAGG+AGG | 0.569090 | 6_1:-49709199 | Msa0887590:CDS |
| AGTCTCATCTTGGGAATGAG+TGG | 0.571456 | 6_1:-49709148 | Msa0887590:CDS |
| ACAACCATCGTTGGGAACAA+AGG | 0.572957 | 6_1:+49708898 | None:intergenic |
| ATTCTTGATTAGTTGTACCC+TGG | 0.574592 | 6_1:+49708937 | None:intergenic |
| TGGAAGAAAGGGTCATGCTG+TGG | 0.584767 | 6_1:-49708683 | Msa0887590:CDS |
| GGAAGAAAGGGTCATGCTGT+GGG | 0.588458 | 6_1:-49708682 | Msa0887590:CDS |
| AGTTAGATTCAAGGTTGTGA+AGG | 0.593952 | 6_1:-49708647 | Msa0887590:CDS |
| TCACCGCAGGAGGCAAAGGT+GGG | 0.600190 | 6_1:-49709189 | Msa0887590:CDS |
| ACAACCTTGAATCTAACTCC+AGG | 0.602701 | 6_1:+49708652 | None:intergenic |
| GCTGCCTTTGTTCCCAACGA+TGG | 0.607412 | 6_1:-49708902 | Msa0887590:CDS |
| GAGGACAATTCCCTTTGCGT+GGG | 0.632164 | 6_1:+49709103 | None:intergenic |
| AGCTATTCGTAAGTGTGCCA+GGG | 0.641920 | 6_1:-49708954 | Msa0887590:CDS |
| GCAGCCATGGGGAATACACA+TGG | 0.647637 | 6_1:-49709239 | None:intergenic |
| CAAGGTTGTGAAGGTCTCTG+GGG | 0.680000 | 6_1:-49708638 | Msa0887590:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | GATTGTTGTTTTATTTACAA+AGG | - | chr6_1:49708820-49708839 | Msa0887590:intron | 20.0% |
| !!! | TTTTATTTACAAAGGTATTG+AGG | - | chr6_1:49708828-49708847 | Msa0887590:intron | 20.0% |
| !! | TGATTTTAAACTGTTATGTC+TGG | - | chr6_1:49709004-49709023 | Msa0887590:CDS | 25.0% |
| TAGTTTAAACAACCATCGTT+GGG | + | chr6_1:49708934-49708953 | None:intergenic | 30.0% | |
| ! | TCCTTGCTTGTATTTTCTAT+TGG | - | chr6_1:49708972-49708991 | Msa0887590:CDS | 30.0% |
| ACCAATAGAAAATACAAGCA+AGG | + | chr6_1:49708976-49708995 | None:intergenic | 30.0% | |
| TCATACAAGAAGTCTCATCT+TGG | - | chr6_1:49708663-49708682 | Msa0887590:CDS | 35.0% | |
| CATACAAGAAGTCTCATCTT+GGG | - | chr6_1:49708664-49708683 | Msa0887590:CDS | 35.0% | |
| ! | ATTCTTGATTAGTTGTACCC+TGG | + | chr6_1:49708887-49708906 | None:intergenic | 35.0% |
| AGGGTACAACTAATCAAGAA+TGG | - | chr6_1:49708886-49708905 | Msa0887590:CDS | 35.0% | |
| GTAGTTTAAACAACCATCGT+TGG | + | chr6_1:49708935-49708954 | None:intergenic | 35.0% | |
| ACACACAATGTCACACAATA+TGG | + | chr6_1:49709080-49709099 | None:intergenic | 35.0% | |
| !!! | GAAGTTTTGATTGCTGGATT+TGG | - | chr6_1:49709118-49709137 | Msa0887590:CDS | 35.0% |
| ATTGCTGGATTTGGAAGAAA+GGG | - | chr6_1:49709127-49709146 | Msa0887590:CDS | 35.0% | |
| TATTCCTGGAGTTAGATTCA+AGG | - | chr6_1:49709165-49709184 | Msa0887590:CDS | 35.0% | |
| AGTTAGATTCAAGGTTGTGA+AGG | - | chr6_1:49709174-49709193 | Msa0887590:CDS | 35.0% | |
| ATGGGGAATACACATGGAAT+GGG | - | chr6_1:49708588-49708607 | Msa0887590:CDS | 40.0% | |
| TCCTCGAAAAGATGTAAGAG+TGG | - | chr6_1:49708736-49708755 | Msa0887590:intron | 40.0% | |
| ! | ACCACTCTTACATCTTTTCG+AGG | + | chr6_1:49708740-49708759 | None:intergenic | 40.0% |
| GATGTAAGAGTGGTTAAGCT+TGG | - | chr6_1:49708746-49708765 | Msa0887590:intron | 40.0% | |
| CACTTACGAATAGCTGAGTT+GGG | + | chr6_1:49708862-49708881 | None:intergenic | 40.0% | |
| ACACTTACGAATAGCTGAGT+TGG | + | chr6_1:49708863-49708882 | None:intergenic | 40.0% | |
| !!! | CAGGATGAAGTTTTGATTGC+TGG | - | chr6_1:49709112-49709131 | Msa0887590:CDS | 40.0% |
| GATTGCTGGATTTGGAAGAA+AGG | - | chr6_1:49709126-49709145 | Msa0887590:CDS | 40.0% | |
| ACAACCTTGAATCTAACTCC+AGG | + | chr6_1:49709172-49709191 | None:intergenic | 40.0% | |
| CTCCTTCTTCTCCTTGAAAA+GGG | + | chr6_1:49709221-49709240 | None:intergenic | 40.0% | |
| TCTCCTTCTTCTCCTTGAAA+AGG | + | chr6_1:49709222-49709241 | None:intergenic | 40.0% | |
| AGTCTCATCTTGGGAATGAG+TGG | - | chr6_1:49708673-49708692 | Msa0887590:CDS | 45.0% | |
| ! | GAGTGGAAGAAACCTTTTGC+TGG | - | chr6_1:49708690-49708709 | Msa0887590:CDS | 45.0% |
| AGCTATTCGTAAGTGTGCCA+GGG | - | chr6_1:49708867-49708886 | Msa0887590:intron | 45.0% | |
| ACAACCATCGTTGGGAACAA+AGG | + | chr6_1:49708926-49708945 | None:intergenic | 45.0% | |
| GTGACATTGTGTGTGACTGA+TGG | - | chr6_1:49709086-49709105 | Msa0887590:intron | 45.0% | |
| TTCAAGGTTGTGAAGGTCTC+TGG | - | chr6_1:49709181-49709200 | Msa0887590:CDS | 45.0% | |
| TCAAGGTTGTGAAGGTCTCT+GGG | - | chr6_1:49709182-49709201 | Msa0887590:CDS | 45.0% | |
| ! | GTCTCTTCTTGCCCTTTTCA+AGG | - | chr6_1:49709207-49709226 | Msa0887590:CDS | 45.0% |
| !! | TGCCCTTTTCAAGGAGAAGA+AGG | - | chr6_1:49709216-49709235 | Msa0887590:CDS | 45.0% |
| GAGGACAATTCCCTTTGCGT+GGG | + | chr6_1:49708721-49708740 | None:intergenic | 50.0% | |
| CAGCTATTCGTAAGTGTGCC+AGG | - | chr6_1:49708866-49708885 | Msa0887590:intron | 50.0% | |
| TGTGTGTGACTGATGGTTGC+AGG | - | chr6_1:49709093-49709112 | Msa0887590:intron | 50.0% | |
| TGGAAGAAAGGGTCATGCTG+TGG | - | chr6_1:49709138-49709157 | Msa0887590:CDS | 50.0% | |
| GGAAGAAAGGGTCATGCTGT+GGG | - | chr6_1:49709139-49709158 | Msa0887590:CDS | 50.0% | |
| CATGCTGTGGGAGATATTCC+TGG | - | chr6_1:49709151-49709170 | Msa0887590:CDS | 50.0% | |
| CAAGGTTGTGAAGGTCTCTG+GGG | - | chr6_1:49709183-49709202 | Msa0887590:CDS | 50.0% | |
| GCGTGGGAAGAACCAGCAAA+AGG | + | chr6_1:49708705-49708724 | None:intergenic | 55.0% | |
| !! | TGCTGGTTCTTCCCACGCAA+AGG | - | chr6_1:49708707-49708726 | Msa0887590:CDS | 55.0% |
| ! | GCTGGTTCTTCCCACGCAAA+GGG | - | chr6_1:49708708-49708727 | Msa0887590:CDS | 55.0% |
| CGAGGACAATTCCCTTTGCG+TGG | + | chr6_1:49708722-49708741 | None:intergenic | 55.0% | |
| GCTGCCTTTGTTCCCAACGA+TGG | - | chr6_1:49708919-49708938 | Msa0887590:CDS | 55.0% | |
| GCAAGCTGAAGTCTCACCGC+AGG | - | chr6_1:49708619-49708638 | Msa0887590:CDS | 60.0% | |
| AGCTGAAGTCTCACCGCAGG+AGG | - | chr6_1:49708622-49708641 | Msa0887590:CDS | 60.0% | |
| AGTCTCACCGCAGGAGGCAA+AGG | - | chr6_1:49708628-49708647 | Msa0887590:CDS | 60.0% | |
| TCACCGCAGGAGGCAAAGGT+GGG | - | chr6_1:49708632-49708651 | Msa0887590:CDS | 60.0% | |
| CTCACCGCAGGAGGCAAAGG+TGG | - | chr6_1:49708631-49708650 | Msa0887590:CDS | 65.0% | |
| CAGCCCACCTTTGCCTCCTG+CGG | + | chr6_1:49708638-49708657 | None:intergenic | 65.0% | |
| !! | GGAGGCAAAGGTGGGCTGAC+AGG | - | chr6_1:49708640-49708659 | Msa0887590:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_1 | gene | 49708588 | 49709255 | 49708588 | ID=Msa0887590;Name=Msa0887590 |
| chr6_1 | mRNA | 49708588 | 49709255 | 49708588 | ID=Msa0887590-mRNA-1;Parent=Msa0887590;Name=Msa0887590-mRNA-1;_AED=0.06;_eAED=0.06;_QI=0|0|0|1|0.5|0.33|3|0|150 |
| chr6_1 | exon | 49709095 | 49709255 | 49709095 | ID=Msa0887590-mRNA-1:exon:10271;Parent=Msa0887590-mRNA-1 |
| chr6_1 | exon | 49708877 | 49709027 | 49708877 | ID=Msa0887590-mRNA-1:exon:10270;Parent=Msa0887590-mRNA-1 |
| chr6_1 | exon | 49708588 | 49708728 | 49708588 | ID=Msa0887590-mRNA-1:exon:10269;Parent=Msa0887590-mRNA-1 |
| chr6_1 | CDS | 49709095 | 49709255 | 49709095 | ID=Msa0887590-mRNA-1:cds;Parent=Msa0887590-mRNA-1 |
| chr6_1 | CDS | 49708877 | 49709027 | 49708877 | ID=Msa0887590-mRNA-1:cds;Parent=Msa0887590-mRNA-1 |
| chr6_1 | CDS | 49708588 | 49708728 | 49708588 | ID=Msa0887590-mRNA-1:cds;Parent=Msa0887590-mRNA-1 |
| Gene Sequence |
| Protein sequence |
