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.gene27328.t1 | XP_013466070.1 | 99.4 | 169 | 1 | 0 | 1 | 169 | 1 | 169 | 2.00E-90 | 341.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene27328.t1 | O49929 | 87.0 | 169 | 22 | 0 | 1 | 169 | 1 | 169 | 8.5e-82 | 304.3 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene27328.t1 | A0A072VDK2 | 99.4 | 169 | 1 | 0 | 1 | 169 | 1 | 169 | 1.4e-90 | 341.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene054142 | MS.gene27328 | -0.81236 | 4.41E-51 | -1.69E-46 |
| MS.gene054638 | MS.gene27328 | 0.808522 | 2.97E-50 | -1.69E-46 |
| MS.gene057684 | MS.gene27328 | 0.812089 | 5.05E-51 | -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.gene27328.t1 | MTR_1g022050 | 99.408 | 169 | 1 | 0 | 1 | 169 | 1 | 169 | 2.68e-123 | 346 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene27328.t1 | AT1G45170 | 68.639 | 169 | 52 | 1 | 1 | 169 | 2 | 169 | 3.46e-86 | 252 |
| MS.gene27328.t1 | AT5G42960 | 66.272 | 169 | 56 | 1 | 1 | 169 | 3 | 170 | 7.84e-85 | 248 |
| MS.gene27328.t1 | AT1G45170 | 70.435 | 115 | 33 | 1 | 1 | 115 | 2 | 115 | 3.56e-56 | 174 |
Find 44 sgRNAs with CRISPR-Local
Find 77 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCGAATTATGGTGTTGAATC+TGG | 0.218241 | 1.2:+2565720 | MS.gene27328:CDS |
| AGGGGATAACAGAACAATTT+TGG | 0.234866 | 1.2:+2565659 | MS.gene27328:CDS |
| AATAAGGTTTCAGCGAATTA+TGG | 0.297969 | 1.2:+2565708 | MS.gene27328:CDS |
| CAATTGTAGTCAAACCCTTA+TGG | 0.311402 | 1.2:-2565770 | None:intergenic |
| TTCAATTTATGAACACAGTT+AGG | 0.317886 | 1.2:+2565595 | MS.gene27328:CDS |
| GGCGACGGAGGCTGCGGCGG+CGG | 0.338930 | 1.2:-2565338 | None:intergenic |
| AACAATGAAAGCCGCTGTTA+AGG | 0.348424 | 1.2:+2565291 | None:intergenic |
| GCTGTTTCGAGGAAAGTTTA+TGG | 0.364076 | 1.2:+2565831 | MS.gene27328:CDS |
| ACAATGAAAGCCGCTGTTAA+GGG | 0.378379 | 1.2:+2565292 | None:intergenic |
| TGTGTGGGACCCATCGAATA+AGG | 0.383360 | 1.2:+2565692 | MS.gene27328:CDS |
| CGACTACAACGTCCCCAAAA+AGG | 0.387317 | 1.2:+2565474 | MS.gene27328:CDS |
| ATTAACGGCCCAAGCTTAAC+CGG | 0.393393 | 1.2:+2565412 | MS.gene27328:CDS |
| ACAGACGCTACTTTCATTAA+CGG | 0.400228 | 1.2:+2565397 | MS.gene27328:CDS |
| GCCTCCGTCGCCTTCAACGC+CGG | 0.402791 | 1.2:+2565349 | MS.gene27328:CDS |
| TTTGACATCGCCGGCGTTGA+AGG | 0.416806 | 1.2:-2565359 | None:intergenic |
| TAACCTACATACACAGCAAA+GGG | 0.443140 | 1.2:+2565640 | MS.gene27328:CDS |
| GAAGTATAGCTATGTCCATA+AGG | 0.446086 | 1.2:+2565755 | MS.gene27328:CDS |
| TCAATTTATGAACACAGTTA+GGG | 0.463428 | 1.2:+2565596 | MS.gene27328:CDS |
| AGGACTAAGCCGGTTAAGCT+TGG | 0.467012 | 1.2:-2565421 | None:intergenic |
| GTAGTCGATACTGAAGGAAC+CGG | 0.468560 | 1.2:-2565458 | None:intergenic |
| AAGTATAGCTATGTCCATAA+GGG | 0.470434 | 1.2:+2565756 | MS.gene27328:CDS |
| GGACTAAGCCGGTTAAGCTT+GGG | 0.473049 | 1.2:-2565420 | None:intergenic |
| CGAATTATGGTGTTGAATCT+GGG | 0.476174 | 1.2:+2565721 | MS.gene27328:CDS |
| ATCCCCTTTGCTGTGTATGT+AGG | 0.496851 | 1.2:-2565643 | None:intergenic |
| TTCGCTGAAACCTTATTCGA+TGG | 0.499631 | 1.2:-2565702 | None:intergenic |
| GTTGAAGGCGACGGAGGCTG+CGG | 0.500163 | 1.2:-2565344 | None:intergenic |
| TTCTACGGCGAGGACTAAGC+CGG | 0.514419 | 1.2:-2565431 | None:intergenic |
| TTATGGTGATGACTCATTGA+AGG | 0.523909 | 1.2:+2565848 | MS.gene27328:CDS |
| GAAGGCGACGGAGGCTGCGG+CGG | 0.533980 | 1.2:-2565341 | None:intergenic |
| TGCTCGGAGTTTGACATCGC+CGG | 0.539580 | 1.2:-2565368 | None:intergenic |
| TGTATGTAGGTTAAATTCAA+CGG | 0.544412 | 1.2:-2565630 | None:intergenic |
| TCGCTGAAACCTTATTCGAT+GGG | 0.554144 | 1.2:-2565701 | None:intergenic |
| TTCTTAGCAACATCATAACT+AGG | 0.560239 | 1.2:-2565795 | None:intergenic |
| TTTGGACGGAACATTTGTGT+GGG | 0.592902 | 1.2:+2565677 | MS.gene27328:CDS |
| ATCGCCGGCGTTGAAGGCGA+CGG | 0.596432 | 1.2:-2565353 | None:intergenic |
| GTCGTATTTGCCCTTAACAG+CGG | 0.599655 | 1.2:-2565302 | None:intergenic |
| TAGCGTCTGTTATCGATGCT+CGG | 0.602349 | 1.2:-2565384 | None:intergenic |
| TAGTCGATACTGAAGGAACC+GGG | 0.608857 | 1.2:-2565457 | None:intergenic |
| TTAACCTACATACACAGCAA+AGG | 0.618005 | 1.2:+2565639 | MS.gene27328:CDS |
| GCCGGCGTTGAAGGCGACGG+AGG | 0.618807 | 1.2:-2565350 | None:intergenic |
| TGATGTTGCTAAGAATGCGT+GGG | 0.641670 | 1.2:+2565803 | MS.gene27328:CDS |
| ATGATGTTGCTAAGAATGCG+TGG | 0.662892 | 1.2:+2565802 | MS.gene27328:CDS |
| GACGTTGTAGTCGATACTGA+AGG | 0.665017 | 1.2:-2565464 | None:intergenic |
| AACCTACATACACAGCAAAG+GGG | 0.729150 | 1.2:+2565641 | MS.gene27328:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATAAATAAATAAATTGAAC+CGG | - | chr1.2:2565537-2565556 | None:intergenic | 10.0% |
| !!! | TTTTTTTTGTTTACCTTTTT+GGG | - | chr1.2:2565490-2565509 | None:intergenic | 15.0% |
| !!! | TTTTTTTTTGTTTACCTTTT+TGG | - | chr1.2:2565491-2565510 | None:intergenic | 15.0% |
| !!! | TTTTTTTTTTTTTTTGTGTG+TGG | + | chr1.2:2565976-2565995 | MS.gene27328:intron | 15.0% |
| !!! | TTGATTATGGTTTTGAATTA+GGG | + | chr1.2:2566002-2566021 | MS.gene27328:intron | 20.0% |
| !!! | TTTGATTATGGTTTTGAATT+AGG | + | chr1.2:2566001-2566020 | MS.gene27328:intron | 20.0% |
| !!! | TTTTTTTGTTTACCTTTTTG+GGG | - | chr1.2:2565489-2565508 | None:intergenic | 20.0% |
| ! | ATAAATAAATTGAACCGGTT+TGG | - | chr1.2:2565532-2565551 | None:intergenic | 25.0% |
| ! | TCAATTTATGAACACAGTTA+GGG | + | chr1.2:2565596-2565615 | MS.gene27328:CDS | 25.0% |
| ! | TGTATGTAGGTTAAATTCAA+CGG | - | chr1.2:2565633-2565652 | None:intergenic | 25.0% |
| ! | TTCAATTTATGAACACAGTT+AGG | + | chr1.2:2565595-2565614 | MS.gene27328:CDS | 25.0% |
| !!! | TTTTTGTTTAATTTTGGTGC+AGG | + | chr1.2:2565563-2565582 | MS.gene27328:intron | 25.0% |
| AAGTATAGCTATGTCCATAA+GGG | + | chr1.2:2565756-2565775 | MS.gene27328:CDS | 30.0% | |
| AATAAGGTTTCAGCGAATTA+TGG | + | chr1.2:2565708-2565727 | MS.gene27328:CDS | 30.0% | |
| TTCTTAGCAACATCATAACT+AGG | - | chr1.2:2565798-2565817 | None:intergenic | 30.0% | |
| TTGCAATTGTGGTTGAAATA+TGG | + | chr1.2:2566088-2566107 | MS.gene27328:intron | 30.0% | |
| ! | ATCCATTTTCTAAACCAAAC+CGG | + | chr1.2:2565515-2565534 | MS.gene27328:intron | 30.0% |
| ! | GATAACAGAACAATTTTGGA+CGG | + | chr1.2:2565663-2565682 | MS.gene27328:CDS | 30.0% |
| !! | TAATTTTGGTGCAGGATTTT+AGG | + | chr1.2:2565571-2565590 | MS.gene27328:intron | 30.0% |
| !!! | TTGTGTGTGGATTTTGATTA+TGG | + | chr1.2:2565989-2566008 | MS.gene27328:intron | 30.0% |
| CAATTGTAGTCAAACCCTTA+TGG | - | chr1.2:2565773-2565792 | None:intergenic | 35.0% | |
| GAAGTATAGCTATGTCCATA+AGG | + | chr1.2:2565755-2565774 | MS.gene27328:CDS | 35.0% | |
| TAACCTACATACACAGCAAA+GGG | + | chr1.2:2565640-2565659 | MS.gene27328:CDS | 35.0% | |
| TGAATTAGGGTTGAGGAATT+TGG | + | chr1.2:2566015-2566034 | MS.gene27328:intron | 35.0% | |
| TTAACCTACATACACAGCAA+AGG | + | chr1.2:2565639-2565658 | MS.gene27328:CDS | 35.0% | |
| TTGTGGTTGAAATATGGTTG+TGG | + | chr1.2:2566094-2566113 | MS.gene27328:intron | 35.0% | |
| ! | ACAGACGCTACTTTCATTAA+CGG | + | chr1.2:2565397-2565416 | MS.gene27328:CDS | 35.0% |
| ! | AGGGGATAACAGAACAATTT+TGG | + | chr1.2:2565659-2565678 | MS.gene27328:CDS | 35.0% |
| ! | CGAATTATGGTGTTGAATCT+GGG | + | chr1.2:2565721-2565740 | MS.gene27328:CDS | 35.0% |
| ! | GTAGAAAATTGTTGTTGACG+TGG | + | chr1.2:2566065-2566084 | MS.gene27328:intron | 35.0% |
| ! | TTATGGTGATGACTCATTGA+AGG | + | chr1.2:2565848-2565867 | MS.gene27328:CDS | 35.0% |
| !! | AACCGGTTTGGTTTAGAAAA+TGG | - | chr1.2:2565520-2565539 | None:intergenic | 35.0% |
| !! | GAAACAAAGGGGTTGTTTTA+AGG | + | chr1.2:2565923-2565942 | MS.gene27328:intron | 35.0% |
| !!! | ATGGTTTTGAATTAGGGTTG+AGG | + | chr1.2:2566008-2566027 | MS.gene27328:intron | 35.0% |
| AAACCCTAACTTCTTACTCG+TGG | - | chr1.2:2565886-2565905 | None:intergenic | 40.0% | |
| AACCTACATACACAGCAAAG+GGG | + | chr1.2:2565641-2565660 | MS.gene27328:CDS | 40.0% | |
| AGACCACGAGTAAGAAGTTA+GGG | + | chr1.2:2565880-2565899 | MS.gene27328:intron | 40.0% | |
| ATGATGTTGCTAAGAATGCG+TGG | + | chr1.2:2565802-2565821 | MS.gene27328:CDS | 40.0% | |
| GTAAGAAGTTAGGGTTTGAG+TGG | + | chr1.2:2565889-2565908 | MS.gene27328:intron | 40.0% | |
| GTCGAGGAATTCGAAACAAA+GGG | + | chr1.2:2565911-2565930 | MS.gene27328:intron | 40.0% | |
| TCGAGGAATTCGAAACAAAG+GGG | + | chr1.2:2565912-2565931 | MS.gene27328:intron | 40.0% | |
| TCGCTGAAACCTTATTCGAT+GGG | - | chr1.2:2565704-2565723 | None:intergenic | 40.0% | |
| TGATGTTGCTAAGAATGCGT+GGG | + | chr1.2:2565803-2565822 | MS.gene27328:CDS | 40.0% | |
| TTCGCTGAAACCTTATTCGA+TGG | - | chr1.2:2565705-2565724 | None:intergenic | 40.0% | |
| TTTGGACGGAACATTTGTGT+GGG | + | chr1.2:2565677-2565696 | MS.gene27328:CDS | 40.0% | |
| ! | GCGAATTATGGTGTTGAATC+TGG | + | chr1.2:2565720-2565739 | MS.gene27328:CDS | 40.0% |
| ! | GCTGTTTCGAGGAAAGTTTA+TGG | + | chr1.2:2565831-2565850 | MS.gene27328:CDS | 40.0% |
| ! | TTTTGGACGGAACATTTGTG+TGG | + | chr1.2:2565676-2565695 | MS.gene27328:CDS | 40.0% |
| ATTAACGGCCCAAGCTTAAC+CGG | + | chr1.2:2565412-2565431 | MS.gene27328:CDS | 45.0% | |
| CAGACCACGAGTAAGAAGTT+AGG | + | chr1.2:2565879-2565898 | MS.gene27328:intron | 45.0% | |
| GACGTTGTAGTCGATACTGA+AGG | - | chr1.2:2565467-2565486 | None:intergenic | 45.0% | |
| GGTCGAGGAATTCGAAACAA+AGG | + | chr1.2:2565910-2565929 | MS.gene27328:intron | 45.0% | |
| GTAGTCGATACTGAAGGAAC+CGG | - | chr1.2:2565461-2565480 | None:intergenic | 45.0% | |
| GTCGTATTTGCCCTTAACAG+CGG | - | chr1.2:2565305-2565324 | None:intergenic | 45.0% | |
| TAGCGTCTGTTATCGATGCT+CGG | - | chr1.2:2565387-2565406 | None:intergenic | 45.0% | |
| TAGTCGATACTGAAGGAACC+GGG | - | chr1.2:2565460-2565479 | None:intergenic | 45.0% | |
| TGTTGACGTGGTTGCAATTG+TGG | + | chr1.2:2566077-2566096 | MS.gene27328:intron | 45.0% | |
| ! | ATCCCCTTTGCTGTGTATGT+AGG | - | chr1.2:2565646-2565665 | None:intergenic | 45.0% |
| ! | GAAGGAACCGGGTTTTTCTA+CGG | - | chr1.2:2565449-2565468 | None:intergenic | 45.0% |
| !!! | TATTTATTTTTGTTTAATTT+TGG | + | chr1.2:2565557-2565576 | MS.gene27328:intron | 5.0% |
| AGGACTAAGCCGGTTAAGCT+TGG | - | chr1.2:2565424-2565443 | None:intergenic | 50.0% | |
| AGTTAGGGTTTGAGTGGTCG+AGG | + | chr1.2:2565895-2565914 | MS.gene27328:intron | 50.0% | |
| CGACTACAACGTCCCCAAAA+AGG | + | chr1.2:2565474-2565493 | MS.gene27328:CDS | 50.0% | |
| GGACTAAGCCGGTTAAGCTT+GGG | - | chr1.2:2565423-2565442 | None:intergenic | 50.0% | |
| TGTGTGGGACCCATCGAATA+AGG | + | chr1.2:2565692-2565711 | MS.gene27328:CDS | 50.0% | |
| !!! | CGTGGGATTTTGCTGTTTCG+AGG | + | chr1.2:2565820-2565839 | MS.gene27328:CDS | 50.0% |
| GTCCTCGCCGTAGAAAAACC+CGG | + | chr1.2:2565439-2565458 | MS.gene27328:CDS | 55.0% | |
| TGCTCGGAGTTTGACATCGC+CGG | - | chr1.2:2565371-2565390 | None:intergenic | 55.0% | |
| TTCTACGGCGAGGACTAAGC+CGG | - | chr1.2:2565434-2565453 | None:intergenic | 55.0% | |
| ! | AACCGGGTTTTTCTACGGCG+AGG | - | chr1.2:2565444-2565463 | None:intergenic | 55.0% |
| ! | TTTGACATCGCCGGCGTTGA+AGG | - | chr1.2:2565362-2565381 | None:intergenic | 55.0% |
| GTTGAAGGCGACGGAGGCTG+CGG | - | chr1.2:2565347-2565366 | None:intergenic | 65.0% | |
| ! | ATCGCCGGCGTTGAAGGCGA+CGG | - | chr1.2:2565356-2565375 | None:intergenic | 65.0% |
| GCCTCCGTCGCCTTCAACGC+CGG | + | chr1.2:2565349-2565368 | MS.gene27328:CDS | 70.0% | |
| GAAGGCGACGGAGGCTGCGG+CGG | - | chr1.2:2565344-2565363 | None:intergenic | 75.0% | |
| ! | GCCGGCGTTGAAGGCGACGG+AGG | - | chr1.2:2565353-2565372 | None:intergenic | 75.0% |
| ! | GGCGACGGAGGCTGCGGCGG+CGG | - | chr1.2:2565341-2565360 | None:intergenic | 85.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.2 | gene | 2565295 | 2566126 | 2565295 | ID=MS.gene27328 |
| chr1.2 | mRNA | 2565295 | 2566126 | 2565295 | ID=MS.gene27328.t1;Parent=MS.gene27328 |
| chr1.2 | exon | 2565295 | 2565495 | 2565295 | ID=MS.gene27328.t1.exon1;Parent=MS.gene27328.t1 |
| chr1.2 | CDS | 2565295 | 2565495 | 2565295 | ID=cds.MS.gene27328.t1;Parent=MS.gene27328.t1 |
| chr1.2 | exon | 2565585 | 2565888 | 2565585 | ID=MS.gene27328.t1.exon2;Parent=MS.gene27328.t1 |
| chr1.2 | CDS | 2565585 | 2565888 | 2565585 | ID=cds.MS.gene27328.t1;Parent=MS.gene27328.t1 |
| chr1.2 | exon | 2566122 | 2566126 | 2566122 | ID=MS.gene27328.t1.exon3;Parent=MS.gene27328.t1 |
| chr1.2 | CDS | 2566122 | 2566126 | 2566122 | ID=cds.MS.gene27328.t1;Parent=MS.gene27328.t1 |
| Gene Sequence |
| Protein sequence |
