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.gene25748.t1 | XP_013461146.1 | 93.4 | 76 | 5 | 0 | 16 | 91 | 114 | 189 | 1.20E-33 | 152.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene25748.t1 | Q75LL6 | 57.1 | 70 | 30 | 0 | 10 | 79 | 112 | 181 | 9.4e-19 | 94.0 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene25748.t1 | A0A072VAF9 | 93.4 | 76 | 5 | 0 | 16 | 91 | 114 | 189 | 8.7e-34 | 152.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene25748.t1 | TF | MYB-related |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene25748.t1 | MTR_3g081380 | 93.421 | 76 | 5 | 0 | 16 | 91 | 114 | 189 | 1.33e-48 | 152 |
| MS.gene25748.t1 | MTR_3g081360 | 78.873 | 71 | 15 | 0 | 16 | 86 | 101 | 171 | 8.66e-34 | 121 |
| MS.gene25748.t1 | MTR_3g082790 | 68.750 | 64 | 20 | 0 | 22 | 85 | 125 | 188 | 6.08e-27 | 102 |
| MS.gene25748.t1 | MTR_3g082790 | 68.750 | 64 | 20 | 0 | 22 | 85 | 85 | 148 | 6.23e-27 | 102 |
| MS.gene25748.t1 | MTR_3g081390 | 75.000 | 60 | 15 | 0 | 22 | 81 | 67 | 126 | 1.26e-26 | 95.1 |
| MS.gene25748.t1 | MTR_7g063290 | 57.143 | 70 | 28 | 1 | 23 | 90 | 121 | 190 | 3.49e-21 | 86.3 |
| MS.gene25748.t1 | MTR_2g026380 | 54.286 | 70 | 32 | 0 | 10 | 79 | 109 | 178 | 8.32e-21 | 85.1 |
| MS.gene25748.t1 | MTR_2g026310 | 60.345 | 58 | 23 | 0 | 16 | 73 | 115 | 172 | 8.89e-19 | 79.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene25748.t1 | AT3G07740 | 52.000 | 75 | 36 | 0 | 10 | 84 | 41 | 115 | 6.07e-22 | 88.6 |
| MS.gene25748.t1 | AT3G07740 | 52.000 | 75 | 36 | 0 | 10 | 84 | 119 | 193 | 7.62e-22 | 88.2 |
| MS.gene25748.t1 | AT3G07740 | 52.000 | 75 | 36 | 0 | 10 | 84 | 91 | 165 | 7.66e-22 | 88.2 |
| MS.gene25748.t1 | AT3G07740 | 52.000 | 75 | 36 | 0 | 10 | 84 | 112 | 186 | 8.28e-22 | 88.2 |
| MS.gene25748.t1 | AT4G16420 | 57.812 | 64 | 27 | 0 | 16 | 79 | 112 | 175 | 2.17e-21 | 87.0 |
| MS.gene25748.t1 | AT4G16420 | 57.812 | 64 | 27 | 0 | 16 | 79 | 112 | 175 | 2.23e-21 | 87.0 |
| MS.gene25748.t1 | AT4G16420 | 57.812 | 64 | 27 | 0 | 16 | 79 | 112 | 175 | 2.38e-21 | 86.7 |
Find 21 sgRNAs with CRISPR-Local
Find 63 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGAAAATGCATTAACAAATA+AGG | 0.295574 | 3.2:+71248525 | MS.gene25748:CDS |
| TTGCTCTTTGTTCTTTCCCT+TGG | 0.303043 | 3.2:-71249020 | None:intergenic |
| ACATGTATGGATTTGAGAAT+TGG | 0.349491 | 3.2:+71248805 | MS.gene25748:CDS |
| TAATGCAGGGGATAAAGCTT+TGG | 0.419580 | 3.2:+71249500 | MS.gene25748:intron |
| GTAGGATTTGTCTTATTCCA+AGG | 0.468148 | 3.2:+71249003 | MS.gene25748:intron |
| TCTCAAATCCATACATGTCA+AGG | 0.519033 | 3.2:-71248800 | None:intergenic |
| GAGTTGATCTCGCTTTCCCA+TGG | 0.527997 | 3.2:-71249050 | None:intergenic |
| TCAAATAGACTTACAGGAAG+AGG | 0.528922 | 3.2:-71248915 | None:intergenic |
| ATGGTGTTGCTGAACATGTT+GGG | 0.532190 | 3.2:+71248829 | MS.gene25748:CDS |
| CAAAGAGCAACTCCGTGCCA+TGG | 0.534697 | 3.2:+71249033 | MS.gene25748:CDS |
| TAGGATTTGTCTTATTCCAA+GGG | 0.536827 | 3.2:+71249004 | MS.gene25748:intron |
| AAAGAGCAACTCCGTGCCAT+GGG | 0.560848 | 3.2:+71249034 | MS.gene25748:CDS |
| AAGCGAGATCAACTCAAGAA+AGG | 0.572505 | 3.2:+71249058 | MS.gene25748:CDS |
| TCAGATATACAACATTATAG+TGG | 0.585833 | 3.2:-71248878 | None:intergenic |
| TATGGATTTGAGAATTGGAA+TGG | 0.599113 | 3.2:+71248810 | MS.gene25748:CDS |
| CTCAAATCCATACATGTCAA+GGG | 0.602788 | 3.2:-71248799 | None:intergenic |
| AATGGTGTTGCTGAACATGT+TGG | 0.605755 | 3.2:+71248828 | MS.gene25748:CDS |
| GATCTCGCTTTCCCATGGCA+CGG | 0.612939 | 3.2:-71249045 | None:intergenic |
| CTTACAGGAAGAGGAGCACA+TGG | 0.648202 | 3.2:-71248906 | None:intergenic |
| TAGAGCAGAATTGATACATG+AGG | 0.674226 | 3.2:+71248549 | MS.gene25748:CDS |
| TTATAGTGGTCAATACACTC+AGG | 0.688875 | 3.2:-71248864 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TGTTATGATAATATGAAATA+AGG | - | chr3.2:71248761-71248780 | None:intergenic | 15.0% |
| !! | AGAATGAAAATTTCTTTGAT+AGG | + | chr3.2:71249356-71249375 | MS.gene25748:intron | 20.0% |
| !! | ATTTGTAGAAATAGACAAAT+AGG | + | chr3.2:71249206-71249225 | MS.gene25748:intron | 20.0% |
| !! | TGAAAATGCATTAACAAATA+AGG | + | chr3.2:71248525-71248544 | MS.gene25748:CDS | 20.0% |
| !!! | AAACCAAACTTTTTTTTTAG+AGG | + | chr3.2:71249167-71249186 | MS.gene25748:intron | 20.0% |
| !!! | GGGATTTTATTTTTTTGTAA+TGG | + | chr3.2:71249438-71249457 | MS.gene25748:intron | 20.0% |
| ! | TCAGATATACAACATTATAG+TGG | - | chr3.2:71248881-71248900 | None:intergenic | 25.0% |
| ! | TTCATTCTTTACCTAATTTC+AGG | - | chr3.2:71249344-71249363 | None:intergenic | 25.0% |
| !! | AAAAAAAGTTTGGTTTCGTT+TGG | - | chr3.2:71249163-71249182 | None:intergenic | 25.0% |
| !! | TTATGACATTGATTAATGCA+GGG | + | chr3.2:71249487-71249506 | MS.gene25748:intron | 25.0% |
| !! | TTTATGACATTGATTAATGC+AGG | + | chr3.2:71249486-71249505 | MS.gene25748:intron | 25.0% |
| AAACTTTATCCCACGAAATA+GGG | + | chr3.2:71249124-71249143 | MS.gene25748:intron | 30.0% | |
| AAGCCAATCAGATAAAATGA+AGG | - | chr3.2:71249468-71249487 | None:intergenic | 30.0% | |
| ACATGTATGGATTTGAGAAT+TGG | + | chr3.2:71248805-71248824 | MS.gene25748:CDS | 30.0% | |
| ATGATCTAAATCACAATGTG+TGG | + | chr3.2:71249092-71249111 | MS.gene25748:intron | 30.0% | |
| ATGTGCACAATCAATTTAAC+TGG | + | chr3.2:71249317-71249336 | MS.gene25748:intron | 30.0% | |
| ATTTAACTGGACCTGAAATT+AGG | + | chr3.2:71249330-71249349 | MS.gene25748:intron | 30.0% | |
| GTGTAATTGTTTGTACTTGT+AGG | + | chr3.2:71248985-71249004 | MS.gene25748:intron | 30.0% | |
| TATGGATTTGAGAATTGGAA+TGG | + | chr3.2:71248810-71248829 | MS.gene25748:CDS | 30.0% | |
| ! | CCACCTCTAAAAAAAAAGTT+TGG | - | chr3.2:71249173-71249192 | None:intergenic | 30.0% |
| ! | TAGGATTTGTCTTATTCCAA+GGG | + | chr3.2:71249004-71249023 | MS.gene25748:intron | 30.0% |
| ! | TATGACATTGATTAATGCAG+GGG | + | chr3.2:71249488-71249507 | MS.gene25748:intron | 30.0% |
| !! | CTTTATTAGCTTTGAGACAA+TGG | + | chr3.2:71249414-71249433 | MS.gene25748:intron | 30.0% |
| !! | TAACAAGCTTGTTTCGTTTT+AGG | + | chr3.2:71248776-71248795 | MS.gene25748:intron | 30.0% |
| !!! | CCAAACTTTTTTTTTAGAGG+TGG | + | chr3.2:71249170-71249189 | MS.gene25748:intron | 30.0% |
| ACGTTGTCAAATAGACTTAC+AGG | - | chr3.2:71248924-71248943 | None:intergenic | 35.0% | |
| CAAACTTTATCCCACGAAAT+AGG | + | chr3.2:71249123-71249142 | MS.gene25748:intron | 35.0% | |
| CTCAAATCCATACATGTCAA+GGG | - | chr3.2:71248802-71248821 | None:intergenic | 35.0% | |
| TAGAGCAGAATTGATACATG+AGG | + | chr3.2:71248549-71248568 | MS.gene25748:CDS | 35.0% | |
| TCAAATAGACTTACAGGAAG+AGG | - | chr3.2:71248918-71248937 | None:intergenic | 35.0% | |
| TCTCAAATCCATACATGTCA+AGG | - | chr3.2:71248803-71248822 | None:intergenic | 35.0% | |
| TTATAGTGGTCAATACACTC+AGG | - | chr3.2:71248867-71248886 | None:intergenic | 35.0% | |
| TTCTGCTTACATGTCCATAT+TGG | + | chr3.2:71248626-71248645 | MS.gene25748:intron | 35.0% | |
| ! | CTGCCTTCATTTTATCTGAT+TGG | + | chr3.2:71249462-71249481 | MS.gene25748:intron | 35.0% |
| ! | GTAGGATTTGTCTTATTCCA+AGG | + | chr3.2:71249003-71249022 | MS.gene25748:intron | 35.0% |
| !! | ATTAGCTTTGAGACAATGGT+GGG | + | chr3.2:71249418-71249437 | MS.gene25748:intron | 35.0% |
| !! | TATTAGCTTTGAGACAATGG+TGG | + | chr3.2:71249417-71249436 | MS.gene25748:intron | 35.0% |
| AAGCGAGATCAACTCAAGAA+AGG | + | chr3.2:71249058-71249077 | MS.gene25748:CDS | 40.0% | |
| AGGTTTGTGGTTTGAGTATG+GGG | + | chr3.2:71248677-71248696 | MS.gene25748:intron | 40.0% | |
| ATACTCAAACCACAAACCTC+AGG | - | chr3.2:71248676-71248695 | None:intergenic | 40.0% | |
| ATATAGCCAACCCTATTTCG+TGG | - | chr3.2:71249137-71249156 | None:intergenic | 40.0% | |
| GAGGTTTGTGGTTTGAGTAT+GGG | + | chr3.2:71248676-71248695 | MS.gene25748:intron | 40.0% | |
| TAATGCAGGGGATAAAGCTT+TGG | + | chr3.2:71249500-71249519 | MS.gene25748:intron | 40.0% | |
| TACACCAAGCATTCAAACAG+AGG | - | chr3.2:71248970-71248989 | None:intergenic | 40.0% | |
| TATAGCCAACCCTATTTCGT+GGG | - | chr3.2:71249136-71249155 | None:intergenic | 40.0% | |
| TCTTCATGCACACTCCAATA+TGG | - | chr3.2:71248643-71248662 | None:intergenic | 40.0% | |
| TGAGGTTTGTGGTTTGAGTA+TGG | + | chr3.2:71248675-71248694 | MS.gene25748:intron | 40.0% | |
| TTGCTCTTTGTTCTTTCCCT+TGG | - | chr3.2:71249023-71249042 | None:intergenic | 40.0% | |
| TTTATCCCACGAAATAGGGT+TGG | + | chr3.2:71249128-71249147 | MS.gene25748:intron | 40.0% | |
| ! | TGAAGAGTTGTTACTTCCTG+AGG | + | chr3.2:71248657-71248676 | MS.gene25748:intron | 40.0% |
| ! | TTGTTACTTCCTGAGGTTTG+TGG | + | chr3.2:71248664-71248683 | MS.gene25748:intron | 40.0% |
| ! | TTTTAGGCCCTTGACATGTA+TGG | + | chr3.2:71248792-71248811 | MS.gene25748:intron | 40.0% |
| !! | AATGGTGTTGCTGAACATGT+TGG | + | chr3.2:71248828-71248847 | MS.gene25748:CDS | 40.0% |
| !! | ACGAAATAGGGTTGGCTATA+TGG | + | chr3.2:71249136-71249155 | MS.gene25748:intron | 40.0% |
| !! | ATGGTGTTGCTGAACATGTT+GGG | + | chr3.2:71248829-71248848 | MS.gene25748:CDS | 40.0% |
| !! | TCGACAACGAAAGCATTTGA+AGG | + | chr3.2:71249269-71249288 | MS.gene25748:intron | 40.0% |
| GCAACCTCTGTTTGAATGCT+TGG | + | chr3.2:71248963-71248982 | MS.gene25748:intron | 45.0% | |
| !!! | ACAAATAAATATATTTTTAT+AGG | + | chr3.2:71248592-71248611 | MS.gene25748:intron | 5.0% |
| AAAGAGCAACTCCGTGCCAT+GGG | + | chr3.2:71249034-71249053 | MS.gene25748:CDS | 50.0% | |
| ! | CTTACAGGAAGAGGAGCACA+TGG | - | chr3.2:71248909-71248928 | None:intergenic | 50.0% |
| ! | GAGTTGATCTCGCTTTCCCA+TGG | - | chr3.2:71249053-71249072 | None:intergenic | 50.0% |
| CAAAGAGCAACTCCGTGCCA+TGG | + | chr3.2:71249033-71249052 | MS.gene25748:CDS | 55.0% | |
| GATCTCGCTTTCCCATGGCA+CGG | - | chr3.2:71249048-71249067 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.2 | gene | 71248514 | 71249527 | 71248514 | ID=MS.gene25748 |
| chr3.2 | mRNA | 71248514 | 71249527 | 71248514 | ID=MS.gene25748.t1;Parent=MS.gene25748 |
| chr3.2 | exon | 71248514 | 71248570 | 71248514 | ID=MS.gene25748.t1.exon1;Parent=MS.gene25748.t1 |
| chr3.2 | CDS | 71248514 | 71248570 | 71248514 | ID=cds.MS.gene25748.t1;Parent=MS.gene25748.t1 |
| chr3.2 | exon | 71248798 | 71248923 | 71248798 | ID=MS.gene25748.t1.exon2;Parent=MS.gene25748.t1 |
| chr3.2 | CDS | 71248798 | 71248923 | 71248798 | ID=cds.MS.gene25748.t1;Parent=MS.gene25748.t1 |
| chr3.2 | exon | 71249007 | 71249079 | 71249007 | ID=MS.gene25748.t1.exon3;Parent=MS.gene25748.t1 |
| chr3.2 | CDS | 71249007 | 71249079 | 71249007 | ID=cds.MS.gene25748.t1;Parent=MS.gene25748.t1 |
| chr3.2 | exon | 71249508 | 71249527 | 71249508 | ID=MS.gene25748.t1.exon4;Parent=MS.gene25748.t1 |
| chr3.2 | CDS | 71249508 | 71249527 | 71249508 | ID=cds.MS.gene25748.t1;Parent=MS.gene25748.t1 |
| Gene Sequence |
| Protein sequence |
