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.gene33844.t1 | RHN81944.1 | 84.8 | 198 | 30 | 0 | 5 | 202 | 1 | 198 | 1.20E-81 | 312.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene33844.t1 | P11432 | 76.3 | 198 | 45 | 2 | 5 | 202 | 1 | 196 | 7.3e-72 | 271.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene33844.t1 | A0A396JXB1 | 84.8 | 198 | 30 | 0 | 5 | 202 | 1 | 198 | 8.6e-82 | 312.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene05081 | MS.gene33844 | 0.821663 | 3.58E-53 | -1.69E-46 |
| MS.gene051734 | MS.gene33844 | 0.82143 | 4.05E-53 | -1.69E-46 |
| MS.gene051838 | MS.gene33844 | 0.814936 | 1.20E-51 | -1.69E-46 |
| MS.gene052414 | MS.gene33844 | 0.810613 | 1.06E-50 | -1.69E-46 |
| MS.gene052469 | MS.gene33844 | 0.832608 | 8.58E-56 | -1.69E-46 |
| MS.gene052870 | MS.gene33844 | 0.842054 | 3.27E-58 | -1.69E-46 |
| MS.gene052872 | MS.gene33844 | 0.844671 | 6.54E-59 | -1.69E-46 |
| MS.gene053824 | MS.gene33844 | 0.811135 | 8.15E-51 | -1.69E-46 |
| MS.gene054884 | MS.gene33844 | -0.813861 | 2.07E-51 | -1.69E-46 |
| MS.gene05494 | MS.gene33844 | 0.80711 | 5.93E-50 | -1.69E-46 |
| MS.gene055539 | MS.gene33844 | 0.838313 | 3.10E-57 | -1.69E-46 |
| MS.gene055741 | MS.gene33844 | 0.82668 | 2.37E-54 | -1.69E-46 |
| MS.gene055744 | MS.gene33844 | 0.828788 | 7.40E-55 | -1.69E-46 |
| MS.gene058444 | MS.gene33844 | 0.814917 | 1.21E-51 | -1.69E-46 |
| MS.gene059717 | MS.gene33844 | 0.826786 | 2.24E-54 | -1.69E-46 |
| MS.gene061154 | MS.gene33844 | 0.815388 | 9.48E-52 | -1.69E-46 |
| MS.gene061231 | MS.gene33844 | 0.842571 | 2.38E-58 | -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.gene33844.t1 | MTR_1g102800 | 91.011 | 178 | 16 | 0 | 25 | 202 | 20 | 197 | 3.78e-110 | 313 |
| MS.gene33844.t1 | MTR_1g102570 | 89.899 | 198 | 20 | 0 | 5 | 202 | 1 | 198 | 1.25e-108 | 310 |
| MS.gene33844.t1 | MTR_1g102780 | 91.000 | 200 | 16 | 1 | 5 | 202 | 1 | 200 | 6.18e-104 | 298 |
| MS.gene33844.t1 | MTR_1g102830 | 78.894 | 199 | 28 | 2 | 5 | 202 | 1 | 186 | 2.96e-96 | 278 |
| MS.gene33844.t1 | MTR_1g102810 | 76.374 | 182 | 29 | 2 | 22 | 202 | 14 | 182 | 3.83e-96 | 277 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene33844.t1 | AT3G22840 | 58.896 | 163 | 67 | 0 | 40 | 202 | 33 | 195 | 4.17e-61 | 189 |
| MS.gene33844.t1 | AT4G14690 | 58.642 | 162 | 66 | 1 | 42 | 202 | 32 | 193 | 1.34e-59 | 185 |
Find 50 sgRNAs with CRISPR-Local
Find 74 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGGTGGAGTCCCATGGTTCT+TGG | 0.283070 | 1.3:+70596761 | MS.gene33844:CDS |
| GGTGGAGTCCCATGGTTCTT+GGG | 0.285032 | 1.3:+70596762 | MS.gene33844:CDS |
| GGTGATGATGATGGTGTAAT+TGG | 0.299898 | 1.3:-70596423 | None:intergenic |
| CCAGCACCTGAGAGAATTAA+TGG | 0.300603 | 1.3:+70596657 | MS.gene33844:CDS |
| GGTTTGTTTGATCAAATATC+TGG | 0.314167 | 1.3:+70596738 | MS.gene33844:CDS |
| TATGTTGGGTTTGATTGCTT+TGG | 0.357312 | 1.3:+70596902 | MS.gene33844:CDS |
| ATTGGGTCTACAGGCACCTT+TGG | 0.360861 | 1.3:-70596405 | None:intergenic |
| AATGGAAGGTTGGCTATGAT+TGG | 0.383969 | 1.3:+70596675 | MS.gene33844:CDS |
| CATTAAGGAATTATTATCAA+TGG | 0.404900 | 1.3:+70596063 | None:intergenic |
| CCATTAATTCTCTCAGGTGC+TGG | 0.425775 | 1.3:-70596657 | None:intergenic |
| GCTGGTTGTGGTGTTGGTGT+TGG | 0.432144 | 1.3:-70596444 | None:intergenic |
| GAATGGAAGAATAGCTATGT+TGG | 0.436992 | 1.3:+70596887 | MS.gene33844:CDS |
| AGCTCTAGCCCTGCTAGAAA+TGG | 0.446558 | 1.3:-70596131 | None:intergenic |
| AACCTTCCATTAATTCTCTC+AGG | 0.456054 | 1.3:-70596663 | None:intergenic |
| AAGCTAGGCATGTACACAAA+AGG | 0.459561 | 1.3:-70596172 | None:intergenic |
| GTGATGATGATGGTGTAATT+GGG | 0.461935 | 1.3:-70596422 | None:intergenic |
| CATTGAGCACCATTTCTAGC+AGG | 0.478291 | 1.3:+70596122 | MS.gene33844:CDS |
| TGTCCTCAGATGCTGAGTTA+TGG | 0.479277 | 1.3:+70596865 | MS.gene33844:CDS |
| GTTGGTGTTGGTGATGATGA+TGG | 0.479914 | 1.3:-70596432 | None:intergenic |
| GTGGAGTCCCATGGTTCTTG+GGG | 0.481099 | 1.3:+70596763 | MS.gene33844:CDS |
| AATGGAAGAATAGCTATGTT+GGG | 0.501527 | 1.3:+70596888 | MS.gene33844:CDS |
| GTGTAGGCTGGTTGTGGTGT+TGG | 0.503331 | 1.3:-70596450 | None:intergenic |
| AGTGTGGAGTCTAAGTCAAA+AGG | 0.525000 | 1.3:+70596837 | MS.gene33844:CDS |
| AACCTTATTTACCTCAGCCA+TGG | 0.525798 | 1.3:-70596224 | None:intergenic |
| CTAGCATTCCTTCTGAAGCT+AGG | 0.532093 | 1.3:-70596187 | None:intergenic |
| AGCTAGGCATGTACACAAAA+GGG | 0.534196 | 1.3:-70596171 | None:intergenic |
| TTTGGTGAGCGAGTGTAGGC+TGG | 0.536506 | 1.3:-70596462 | None:intergenic |
| CACTTGTCCCCAAGAACCAT+GGG | 0.536973 | 1.3:-70596770 | None:intergenic |
| GGTGGAAATAGCAAATGGAC+AGG | 0.544893 | 1.3:+70596716 | MS.gene33844:CDS |
| GAGCGAGTGTAGGCTGGTTG+TGG | 0.550985 | 1.3:-70596456 | None:intergenic |
| TTTGATCAAATATCTGGTGG+TGG | 0.551757 | 1.3:+70596744 | MS.gene33844:CDS |
| TGAGAGAATTAATGGAAGGT+TGG | 0.551924 | 1.3:+70596665 | MS.gene33844:CDS |
| GATGGTGTAATTGGGTCTAC+AGG | 0.568013 | 1.3:-70596414 | None:intergenic |
| TCAGATGCTGAGTTATGGAA+TGG | 0.568279 | 1.3:+70596870 | MS.gene33844:CDS |
| TTGTTTGATCAAATATCTGG+TGG | 0.570609 | 1.3:+70596741 | MS.gene33844:CDS |
| TGTACATGCCTAGCTTCAGA+AGG | 0.587219 | 1.3:+70596179 | MS.gene33844:CDS |
| ATTCCATAACTCAGCATCTG+AGG | 0.591329 | 1.3:-70596868 | None:intergenic |
| CTATAGAACTCTATTACACA+AGG | 0.596246 | 1.3:-70596953 | None:intergenic |
| TAGACTCCACACTAACACCT+TGG | 0.597870 | 1.3:-70596827 | None:intergenic |
| ATTGAGCACCATTTCTAGCA+GGG | 0.604034 | 1.3:+70596123 | MS.gene33844:CDS |
| TAGCTTGAAAGTTCGATCCA+TGG | 0.604578 | 1.3:+70596207 | MS.gene33844:CDS |
| ACACTTGTCCCCAAGAACCA+TGG | 0.606138 | 1.3:-70596771 | None:intergenic |
| AGAGCAGAAAGAGCAACCAA+AGG | 0.611218 | 1.3:+70596389 | MS.gene33844:CDS |
| AGCCTACACTCGCTCACCAA+AGG | 0.611565 | 1.3:+70596464 | MS.gene33844:CDS |
| GAAAGTTCGATCCATGGCTG+AGG | 0.622095 | 1.3:+70596213 | MS.gene33844:CDS |
| CACCTGAGAGAATTAATGGA+AGG | 0.651384 | 1.3:+70596661 | MS.gene33844:CDS |
| TATCTGGTGGTGGAGTCCCA+TGG | 0.653372 | 1.3:+70596754 | MS.gene33844:CDS |
| TACCTTTGGTGAGCGAGTGT+AGG | 0.653559 | 1.3:-70596466 | None:intergenic |
| GTGGAAATAGCAAATGGACA+GGG | 0.661963 | 1.3:+70596717 | MS.gene33844:CDS |
| TATAGAACTCTATTACACAA+GGG | 0.699610 | 1.3:-70596952 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAATAATAATGATGAAAATA+TGG | + | chr1.3:70596592-70596611 | MS.gene33844:intron | 10.0% |
| !! | ATAATATGTTTATGATTTAT+TGG | + | chr1.3:70596341-70596360 | MS.gene33844:intron | 10.0% |
| !! | CATCATTATTATTTATTAAA+AGG | - | chr1.3:70596586-70596605 | None:intergenic | 10.0% |
| !! | TATAAGATAAACAAAATTTA+AGG | + | chr1.3:70596247-70596266 | MS.gene33844:intron | 10.0% |
| !! | AAATCATAAACATATTATGT+TGG | - | chr1.3:70596339-70596358 | None:intergenic | 15.0% |
| !!! | ATTTTGCTAAGTACTAAATT+AGG | + | chr1.3:70596545-70596564 | MS.gene33844:intron | 20.0% |
| AATGGAAGAATAGCTATGTT+GGG | + | chr1.3:70596888-70596907 | MS.gene33844:CDS | 30.0% | |
| TTGTTTGATCAAATATCTGG+TGG | + | chr1.3:70596741-70596760 | MS.gene33844:CDS | 30.0% | |
| TTTGTTACTATGCATACCTT+TGG | - | chr1.3:70596483-70596502 | None:intergenic | 30.0% | |
| ! | GCTTTTACAGAGTATGTTAA+GGG | + | chr1.3:70596924-70596943 | MS.gene33844:CDS | 30.0% |
| ! | GGTTTGTTTGATCAAATATC+TGG | + | chr1.3:70596738-70596757 | MS.gene33844:CDS | 30.0% |
| !! | TATTATGTTGGTGATGATGA+AGG | - | chr1.3:70596327-70596346 | None:intergenic | 30.0% |
| !! | TCTTTGATTCCATTTTTCCA+AGG | + | chr1.3:70596810-70596829 | MS.gene33844:CDS | 30.0% |
| AACCTTCCATTAATTCTCTC+AGG | - | chr1.3:70596666-70596685 | None:intergenic | 35.0% | |
| ACACTAACACCTTGGAAAAA+TGG | - | chr1.3:70596822-70596841 | None:intergenic | 35.0% | |
| GAATGGAAGAATAGCTATGT+TGG | + | chr1.3:70596887-70596906 | MS.gene33844:CDS | 35.0% | |
| GATTGCGTGTTACATTATTC+AGG | + | chr1.3:70596365-70596384 | MS.gene33844:intron | 35.0% | |
| TATGTTGGGTTTGATTGCTT+TGG | + | chr1.3:70596902-70596921 | MS.gene33844:CDS | 35.0% | |
| TGAGAGAATTAATGGAAGGT+TGG | + | chr1.3:70596665-70596684 | MS.gene33844:CDS | 35.0% | |
| TTTGATCAAATATCTGGTGG+TGG | + | chr1.3:70596744-70596763 | MS.gene33844:CDS | 35.0% | |
| ! | CACAAAGTTTTCGGATTTGA+TGG | + | chr1.3:70596623-70596642 | MS.gene33844:CDS | 35.0% |
| ! | GGCTTTTACAGAGTATGTTA+AGG | + | chr1.3:70596923-70596942 | MS.gene33844:CDS | 35.0% |
| !! | ATTTTTCCAAGGTGTTAGTG+TGG | + | chr1.3:70596821-70596840 | MS.gene33844:CDS | 35.0% |
| !! | GTGATGATGATGGTGTAATT+GGG | - | chr1.3:70596425-70596444 | None:intergenic | 35.0% |
| !! | TTTTCGGATTTGATGGCTTT+TGG | + | chr1.3:70596630-70596649 | MS.gene33844:CDS | 35.0% |
| !!! | ATTGGTTTTGTAGCTGCAAT+GGG | + | chr1.3:70596693-70596712 | MS.gene33844:CDS | 35.0% |
| AAGCTAGGCATGTACACAAA+AGG | - | chr1.3:70596175-70596194 | None:intergenic | 40.0% | |
| AGCTAGGCATGTACACAAAA+GGG | - | chr1.3:70596174-70596193 | None:intergenic | 40.0% | |
| AGTGTGGAGTCTAAGTCAAA+AGG | + | chr1.3:70596837-70596856 | MS.gene33844:CDS | 40.0% | |
| ATCCATGGCTGAGGTAAATA+AGG | + | chr1.3:70596222-70596241 | MS.gene33844:intron | 40.0% | |
| ATTCCATAACTCAGCATCTG+AGG | - | chr1.3:70596871-70596890 | None:intergenic | 40.0% | |
| CACCTGAGAGAATTAATGGA+AGG | + | chr1.3:70596661-70596680 | MS.gene33844:CDS | 40.0% | |
| GTGGAAATAGCAAATGGACA+GGG | + | chr1.3:70596717-70596736 | MS.gene33844:CDS | 40.0% | |
| TAGCTTGAAAGTTCGATCCA+TGG | + | chr1.3:70596207-70596226 | MS.gene33844:CDS | 40.0% | |
| TCAGATGCTGAGTTATGGAA+TGG | + | chr1.3:70596870-70596889 | MS.gene33844:CDS | 40.0% | |
| ! | AACCTTATTTACCTCAGCCA+TGG | - | chr1.3:70596227-70596246 | None:intergenic | 40.0% |
| ! | AATGGAAGGTTGGCTATGAT+TGG | + | chr1.3:70596675-70596694 | MS.gene33844:CDS | 40.0% |
| ! | GCAGATGAGCACAAAGTTTT+CGG | + | chr1.3:70596614-70596633 | MS.gene33844:intron | 40.0% |
| ! | GGTGATGATGAAGGTGTAAT+CGG | - | chr1.3:70596318-70596337 | None:intergenic | 40.0% |
| !! | ATTGAGCACCATTTCTAGCA+GGG | + | chr1.3:70596123-70596142 | MS.gene33844:CDS | 40.0% |
| !! | GGTGATGATGATGGTGTAAT+TGG | - | chr1.3:70596426-70596445 | None:intergenic | 40.0% |
| !!! | GATTGGTTTTGTAGCTGCAA+TGG | + | chr1.3:70596692-70596711 | MS.gene33844:CDS | 40.0% |
| !!! | TTGGTTTTGTAGCTGCAATG+GGG | + | chr1.3:70596694-70596713 | MS.gene33844:CDS | 40.0% |
| AGAGCAGAAAGAGCAACCAA+AGG | + | chr1.3:70596389-70596408 | MS.gene33844:CDS | 45.0% | |
| ATGGGGGTGGAAATAGCAAA+TGG | + | chr1.3:70596711-70596730 | MS.gene33844:CDS | 45.0% | |
| CCAGCACCTGAGAGAATTAA+TGG | + | chr1.3:70596657-70596676 | MS.gene33844:CDS | 45.0% | |
| CCATTAATTCTCTCAGGTGC+TGG | - | chr1.3:70596660-70596679 | None:intergenic | 45.0% | |
| GATGGTGTAATTGGGTCTAC+AGG | - | chr1.3:70596417-70596436 | None:intergenic | 45.0% | |
| GGTGGAAATAGCAAATGGAC+AGG | + | chr1.3:70596716-70596735 | MS.gene33844:CDS | 45.0% | |
| TAGACTCCACACTAACACCT+TGG | - | chr1.3:70596830-70596849 | None:intergenic | 45.0% | |
| TGTACATGCCTAGCTTCAGA+AGG | + | chr1.3:70596179-70596198 | MS.gene33844:CDS | 45.0% | |
| TGTCCTCAGATGCTGAGTTA+TGG | + | chr1.3:70596865-70596884 | MS.gene33844:CDS | 45.0% | |
| !! | CATTGAGCACCATTTCTAGC+AGG | + | chr1.3:70596122-70596141 | MS.gene33844:CDS | 45.0% |
| !! | CGGATTTGATGGCTTTTGGT+GGG | + | chr1.3:70596634-70596653 | MS.gene33844:CDS | 45.0% |
| !! | CTAGCATTCCTTCTGAAGCT+AGG | - | chr1.3:70596190-70596209 | None:intergenic | 45.0% |
| !! | GTTGGTGTTGGTGATGATGA+TGG | - | chr1.3:70596435-70596454 | None:intergenic | 45.0% |
| !! | TCGGATTTGATGGCTTTTGG+TGG | + | chr1.3:70596633-70596652 | MS.gene33844:CDS | 45.0% |
| !!! | TGGTTTTGTAGCTGCAATGG+GGG | + | chr1.3:70596695-70596714 | MS.gene33844:CDS | 45.0% |
| ACACTTGTCCCCAAGAACCA+TGG | - | chr1.3:70596774-70596793 | None:intergenic | 50.0% | |
| ATTGGGTCTACAGGCACCTT+TGG | - | chr1.3:70596408-70596427 | None:intergenic | 50.0% | |
| CACTTGTCCCCAAGAACCAT+GGG | - | chr1.3:70596773-70596792 | None:intergenic | 50.0% | |
| GAAAGTTCGATCCATGGCTG+AGG | + | chr1.3:70596213-70596232 | MS.gene33844:CDS | 50.0% | |
| TACCTTTGGTGAGCGAGTGT+AGG | - | chr1.3:70596469-70596488 | None:intergenic | 50.0% | |
| ! | AGCTCTAGCCCTGCTAGAAA+TGG | - | chr1.3:70596134-70596153 | None:intergenic | 50.0% |
| ! | TTTTGTAGCTGCAATGGGGG+TGG | + | chr1.3:70596698-70596717 | MS.gene33844:CDS | 50.0% |
| AGCCTACACTCGCTCACCAA+AGG | + | chr1.3:70596464-70596483 | MS.gene33844:CDS | 55.0% | |
| GGTGGAGTCCCATGGTTCTT+GGG | + | chr1.3:70596762-70596781 | MS.gene33844:CDS | 55.0% | |
| GTGGAGTCCCATGGTTCTTG+GGG | + | chr1.3:70596763-70596782 | MS.gene33844:CDS | 55.0% | |
| TGGTGGAGTCCCATGGTTCT+TGG | + | chr1.3:70596761-70596780 | MS.gene33844:CDS | 55.0% | |
| TTTGGTGAGCGAGTGTAGGC+TGG | - | chr1.3:70596465-70596484 | None:intergenic | 55.0% | |
| ! | GTGTAGGCTGGTTGTGGTGT+TGG | - | chr1.3:70596453-70596472 | None:intergenic | 55.0% |
| !! | GCTGGTTGTGGTGTTGGTGT+TGG | - | chr1.3:70596447-70596466 | None:intergenic | 55.0% |
| !! | TATCTGGTGGTGGAGTCCCA+TGG | + | chr1.3:70596754-70596773 | MS.gene33844:CDS | 55.0% |
| ! | GAGCGAGTGTAGGCTGGTTG+TGG | - | chr1.3:70596459-70596478 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.3 | gene | 70596070 | 70596962 | 70596070 | ID=MS.gene33844 |
| chr1.3 | mRNA | 70596070 | 70596962 | 70596070 | ID=MS.gene33844.t1;Parent=MS.gene33844 |
| chr1.3 | exon | 70596070 | 70596234 | 70596070 | ID=MS.gene33844.t1.exon1;Parent=MS.gene33844.t1 |
| chr1.3 | CDS | 70596070 | 70596234 | 70596070 | ID=cds.MS.gene33844.t1;Parent=MS.gene33844.t1 |
| chr1.3 | exon | 70596387 | 70596485 | 70596387 | ID=MS.gene33844.t1.exon2;Parent=MS.gene33844.t1 |
| chr1.3 | CDS | 70596387 | 70596485 | 70596387 | ID=cds.MS.gene33844.t1;Parent=MS.gene33844.t1 |
| chr1.3 | exon | 70596618 | 70596962 | 70596618 | ID=MS.gene33844.t1.exon3;Parent=MS.gene33844.t1 |
| chr1.3 | CDS | 70596618 | 70596962 | 70596618 | ID=cds.MS.gene33844.t1;Parent=MS.gene33844.t1 |
| Gene Sequence |
| Protein sequence |
