Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene38558.t1 | PNY10062.1 | 72 | 161 | 6 | 1 | 4 | 125 | 517 | 677 | 3.80E-46 | 194.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene38558.t1 | Q8GS71 | 53.2 | 139 | 24 | 2 | 4 | 103 | 522 | 658 | 7.1e-25 | 114.8 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene38558.t1 | A0A2K3P444 | 72.0 | 161 | 6 | 1 | 4 | 125 | 517 | 677 | 2.8e-46 | 194.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049142 | MS.gene38558 | 0.802699 | 4.96E-49 | -1.69E-46 |
| MS.gene049159 | MS.gene38558 | 0.807723 | 4.40E-50 | -1.69E-46 |
| MS.gene049887 | MS.gene38558 | 0.803562 | 3.29E-49 | -1.69E-46 |
| MS.gene050807 | MS.gene38558 | 0.832427 | 9.51E-56 | -1.69E-46 |
| MS.gene050815 | MS.gene38558 | 0.803756 | 3.00E-49 | -1.69E-46 |
| MS.gene051102 | MS.gene38558 | 0.812384 | 4.36E-51 | -1.69E-46 |
| MS.gene051180 | MS.gene38558 | 0.802504 | 5.44E-49 | -1.69E-46 |
| MS.gene051328 | MS.gene38558 | 0.803883 | 2.82E-49 | -1.69E-46 |
| MS.gene051719 | MS.gene38558 | 0.812234 | 4.70E-51 | -1.69E-46 |
| MS.gene052020 | MS.gene38558 | 0.800267 | 1.56E-48 | -1.69E-46 |
| MS.gene052323 | MS.gene38558 | 0.802179 | 6.34E-49 | -1.69E-46 |
| MS.gene052397 | MS.gene38558 | 0.800189 | 1.62E-48 | -1.69E-46 |
| MS.gene052516 | MS.gene38558 | 0.812284 | 4.58E-51 | -1.69E-46 |
| MS.gene052665 | MS.gene38558 | 0.839496 | 1.53E-57 | -1.69E-46 |
| MS.gene052896 | MS.gene38558 | 0.833033 | 6.73E-56 | -1.69E-46 |
| MS.gene05462 | MS.gene38558 | 0.807776 | 4.28E-50 | -1.69E-46 |
| MS.gene055465 | MS.gene38558 | 0.829514 | 4.93E-55 | -1.69E-46 |
| MS.gene055466 | MS.gene38558 | 0.813313 | 2.73E-51 | -1.69E-46 |
| MS.gene055468 | MS.gene38558 | 0.827644 | 1.40E-54 | -1.69E-46 |
| MS.gene055469 | MS.gene38558 | 0.836436 | 9.37E-57 | -1.69E-46 |
| MS.gene057057 | MS.gene38558 | 0.813584 | 2.38E-51 | -1.69E-46 |
| MS.gene059171 | MS.gene38558 | 0.823735 | 1.18E-53 | -1.69E-46 |
| MS.gene059713 | MS.gene38558 | 0.812782 | 3.57E-51 | -1.69E-46 |
| MS.gene059725 | MS.gene38558 | 0.821121 | 4.78E-53 | -1.69E-46 |
| MS.gene059937 | MS.gene38558 | 0.811723 | 6.07E-51 | -1.69E-46 |
| MS.gene060637 | MS.gene38558 | 0.801384 | 9.23E-49 | -1.69E-46 |
| MS.gene061006 | MS.gene38558 | 0.809887 | 1.51E-50 | -1.69E-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene38558.t1 | MTR_3g102170 | 69.784 | 139 | 3 | 1 | 4 | 103 | 508 | 646 | 7.91e-52 | 175 |
| MS.gene38558.t1 | MTR_1g018940 | 61.151 | 139 | 15 | 1 | 4 | 103 | 508 | 646 | 5.15e-43 | 150 |
| MS.gene38558.t1 | MTR_4g094882 | 52.518 | 139 | 26 | 2 | 4 | 103 | 519 | 656 | 3.47e-32 | 119 |
| MS.gene38558.t1 | MTR_3g100270 | 35.252 | 139 | 51 | 1 | 4 | 103 | 553 | 691 | 3.58e-18 | 79.3 |
| MS.gene38558.t1 | MTR_5g066320 | 40.288 | 139 | 35 | 3 | 4 | 103 | 571 | 700 | 4.92e-18 | 79.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene38558.t1 | AT5G47820 | 53.237 | 139 | 24 | 2 | 4 | 103 | 522 | 658 | 1.52e-34 | 126 |
| MS.gene38558.t1 | AT5G47820 | 53.237 | 139 | 24 | 2 | 4 | 103 | 522 | 658 | 1.52e-34 | 126 |
| MS.gene38558.t1 | AT3G50240 | 48.921 | 139 | 31 | 2 | 4 | 103 | 526 | 663 | 9.05e-29 | 109 |
| MS.gene38558.t1 | AT3G50240 | 48.921 | 139 | 31 | 2 | 4 | 103 | 521 | 658 | 1.36e-28 | 109 |
| MS.gene38558.t1 | AT3G50240 | 48.921 | 139 | 31 | 2 | 4 | 103 | 424 | 561 | 1.36e-28 | 109 |
| MS.gene38558.t1 | AT3G50240 | 48.921 | 139 | 31 | 2 | 4 | 103 | 526 | 663 | 1.44e-28 | 109 |
| MS.gene38558.t1 | AT5G60930 | 36.691 | 139 | 49 | 1 | 4 | 103 | 569 | 707 | 1.03e-18 | 81.3 |
| MS.gene38558.t1 | AT5G60930 | 36.691 | 139 | 49 | 1 | 4 | 103 | 569 | 707 | 1.23e-18 | 80.9 |
| MS.gene38558.t1 | AT5G60930 | 36.691 | 139 | 49 | 1 | 4 | 103 | 569 | 707 | 1.31e-18 | 80.9 |
Find 17 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AACAAGAGGCAGAACAGTTT+CGG | 0.393031 | 3.1:-81232244 | MS.gene38558:CDS |
| GCGAGAAAGAGATTGTCTTT+TGG | 0.396616 | 3.1:-81232695 | MS.gene38558:CDS |
| CTGTGTTTGTCCATCAGAGT+TGG | 0.437241 | 3.1:+81232651 | None:intergenic |
| TGGACAAACACAGAAATTAG+AGG | 0.472376 | 3.1:-81232641 | MS.gene38558:CDS |
| AGGCAGAACAGTTTCGGCAG+TGG | 0.478814 | 3.1:-81232238 | MS.gene38558:CDS |
| CAGTCTGAGATGAAGCTGTT+TGG | 0.490976 | 3.1:-81232877 | MS.gene38558:CDS |
| ATTAAATAACATGATAAAAG+AGG | 0.491287 | 3.1:+81232172 | None:intergenic |
| AATCTTGCTGCCAACTCTGA+TGG | 0.492420 | 3.1:-81232661 | MS.gene38558:CDS |
| GAAGTACTCAAACAGCACTT+TGG | 0.523229 | 3.1:-81232841 | MS.gene38558:CDS |
| AGATGAGAAGAGAACAGTGC+AGG | 0.532521 | 3.1:-81232797 | MS.gene38558:intron |
| TTGAGATGTCATCGAGAAGT+AGG | 0.536343 | 3.1:+81232141 | None:intergenic |
| TACTCAAACAGCACTTTGGA+AGG | 0.541124 | 3.1:-81232837 | MS.gene38558:CDS |
| AGAACAGTTTCGGCAGTGGA+AGG | 0.552559 | 3.1:-81232234 | MS.gene38558:CDS |
| CTGTTTGAGTACTTCAGCAT+CGG | 0.557445 | 3.1:+81232849 | None:intergenic |
| GCAGCAAAAGATAAAACAAG+AGG | 0.581350 | 3.1:-81232258 | MS.gene38558:CDS |
| TACTTCTCGATGACATCTCA+AGG | 0.606262 | 3.1:-81232139 | MS.gene38558:CDS |
| GCACTTTGGAAGGAAGATAA+CGG | 0.614706 | 3.1:-81232827 | MS.gene38558:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | CATACATAAATAAATAAATA+AGG | + | chr3.1:81232459-81232478 | None:intergenic | 10.0% |
| !! | TCAAATTTAAATCTTATAAA+CGG | + | chr3.1:81232502-81232521 | None:intergenic | 10.0% |
| !! | ATTAAATAACATGATAAAAG+AGG | + | chr3.1:81232850-81232869 | None:intergenic | 15.0% |
| !! | AATAAATAAATAAGGCAAGT+TGG | + | chr3.1:81232451-81232470 | None:intergenic | 20.0% |
| !! | AGTATATAAAGTTATAACCA+TGG | + | chr3.1:81232698-81232717 | None:intergenic | 20.0% |
| !!! | ATTGTATTTTAACAAATCCA+TGG | - | chr3.1:81232678-81232697 | MS.gene38558:CDS | 20.0% |
| !!! | GAATACTAGTTTTTATGTAA+AGG | + | chr3.1:81232278-81232297 | None:intergenic | 20.0% |
| !! | TTCAAGTGCTTTCAATTTTT+GGG | + | chr3.1:81232413-81232432 | None:intergenic | 25.0% |
| TTGAACCTGCAACATTATTA+AGG | + | chr3.1:81232739-81232758 | None:intergenic | 30.0% | |
| ! | AAATACAATCGTCAACCTTT+TGG | + | chr3.1:81232667-81232686 | None:intergenic | 30.0% |
| ! | AATACAATCGTCAACCTTTT+GGG | + | chr3.1:81232666-81232685 | None:intergenic | 30.0% |
| ! | CTTCAAGTGCTTTCAATTTT+TGG | + | chr3.1:81232414-81232433 | None:intergenic | 30.0% |
| !! | TGCTTTCAATTTTTGGGAAT+GGG | + | chr3.1:81232407-81232426 | None:intergenic | 30.0% |
| CAGATCCAAAATCTAACATG+CGG | + | chr3.1:81232559-81232578 | None:intergenic | 35.0% | |
| CATGACCTTAATAATGTTGC+AGG | - | chr3.1:81232731-81232750 | MS.gene38558:intron | 35.0% | |
| GCAGCAAAAGATAAAACAAG+AGG | - | chr3.1:81232761-81232780 | MS.gene38558:intron | 35.0% | |
| TGGACAAACACAGAAATTAG+AGG | - | chr3.1:81232378-81232397 | MS.gene38558:intron | 35.0% | |
| ! | AAACTCCGCATGTTAGATTT+TGG | - | chr3.1:81232551-81232570 | MS.gene38558:intron | 35.0% |
| !! | GTGCTTTCAATTTTTGGGAA+TGG | + | chr3.1:81232408-81232427 | None:intergenic | 35.0% |
| !! | TTTGCTTTTGCTTCATAAGC+TGG | + | chr3.1:81232605-81232624 | None:intergenic | 35.0% |
| AACAAGAGGCAGAACAGTTT+CGG | - | chr3.1:81232775-81232794 | MS.gene38558:intron | 40.0% | |
| CGAAGAGGATACAGTCTATA+AGG | - | chr3.1:81232640-81232659 | MS.gene38558:CDS | 40.0% | |
| CTGTTTGAGTACTTCAGCAT+CGG | + | chr3.1:81232173-81232192 | None:intergenic | 40.0% | |
| TACAGTCTATAAGGCCCAAA+AGG | - | chr3.1:81232649-81232668 | MS.gene38558:CDS | 40.0% | |
| TACTCAAACAGCACTTTGGA+AGG | - | chr3.1:81232182-81232201 | MS.gene38558:CDS | 40.0% | |
| TACTTCTCGATGACATCTCA+AGG | - | chr3.1:81232880-81232899 | MS.gene38558:CDS | 40.0% | |
| TTGAGATGTCATCGAGAAGT+AGG | + | chr3.1:81232881-81232900 | None:intergenic | 40.0% | |
| ! | AAAGCACTTGAAGCACAAGT+GGG | - | chr3.1:81232421-81232440 | MS.gene38558:intron | 40.0% |
| ! | GAAGTACTCAAACAGCACTT+TGG | - | chr3.1:81232178-81232197 | MS.gene38558:CDS | 40.0% |
| ! | GCACTTTGGAAGGAAGATAA+CGG | - | chr3.1:81232192-81232211 | MS.gene38558:CDS | 40.0% |
| ! | GCGAGAAAGAGATTGTCTTT+TGG | - | chr3.1:81232324-81232343 | MS.gene38558:intron | 40.0% |
| !! | AACATGCGGAGTTTTGACAA+GGG | + | chr3.1:81232545-81232564 | None:intergenic | 40.0% |
| !! | TAACATGCGGAGTTTTGACA+AGG | + | chr3.1:81232546-81232565 | None:intergenic | 40.0% |
| AAAGCGATGAAGCAACGAAG+AGG | - | chr3.1:81232625-81232644 | MS.gene38558:CDS | 45.0% | |
| AATCTTGCTGCCAACTCTGA+TGG | - | chr3.1:81232358-81232377 | MS.gene38558:intron | 45.0% | |
| AGATGAGAAGAGAACAGTGC+AGG | - | chr3.1:81232222-81232241 | MS.gene38558:CDS | 45.0% | |
| CTGTGTTTGTCCATCAGAGT+TGG | + | chr3.1:81232371-81232390 | None:intergenic | 45.0% | |
| GAAGAAGAAGCAAGAGAGTC+AGG | - | chr3.1:81232578-81232597 | MS.gene38558:intron | 45.0% | |
| ! | CAGTCTGAGATGAAGCTGTT+TGG | - | chr3.1:81232142-81232161 | MS.gene38558:CDS | 45.0% |
| !! | GAAAGCACTTGAAGCACAAG+TGG | - | chr3.1:81232420-81232439 | MS.gene38558:intron | 45.0% |
| AGAACAGTTTCGGCAGTGGA+AGG | - | chr3.1:81232785-81232804 | MS.gene38558:intron | 50.0% | |
| AGGCAGAACAGTTTCGGCAG+TGG | - | chr3.1:81232781-81232800 | MS.gene38558:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.1 | gene | 81232133 | 81232908 | 81232133 | ID=MS.gene38558 |
| chr3.1 | mRNA | 81232133 | 81232908 | 81232133 | ID=MS.gene38558.t1;Parent=MS.gene38558 |
| chr3.1 | exon | 81232798 | 81232908 | 81232798 | ID=MS.gene38558.t1.exon1;Parent=MS.gene38558.t1 |
| chr3.1 | CDS | 81232798 | 81232908 | 81232798 | ID=cds.MS.gene38558.t1;Parent=MS.gene38558.t1 |
| chr3.1 | exon | 81232603 | 81232716 | 81232603 | ID=MS.gene38558.t1.exon2;Parent=MS.gene38558.t1 |
| chr3.1 | CDS | 81232603 | 81232716 | 81232603 | ID=cds.MS.gene38558.t1;Parent=MS.gene38558.t1 |
| chr3.1 | exon | 81232133 | 81232288 | 81232133 | ID=MS.gene38558.t1.exon3;Parent=MS.gene38558.t1 |
| chr3.1 | CDS | 81232133 | 81232288 | 81232133 | ID=cds.MS.gene38558.t1;Parent=MS.gene38558.t1 |
| Gene Sequence |
| Protein sequence |
