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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0707630 | RHN40820.1 | 47.059 | 119 | 61 | 1 | 43 | 159 | 38 | 156 | 9.41e-32 | 122 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0707630 | A0A396GIK5 | 47.059 | 119 | 61 | 1 | 43 | 159 | 38 | 156 | 4.49e-32 | 122 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0012310 | Msa0707630 | 0.961630 | 6.324158e-120 | -8.615850e-47 |
| Msa0707630 | Msa0708150 | 0.984141 | 1.047885e-159 | -8.615850e-47 |
| Msa0707630 | Msa1026930 | 0.959879 | 6.251384e-118 | -8.615850e-47 |
| Msa0707630 | Msa1065570 | 0.813843 | 2.085037e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0707630 | MtrunA17_Chr8g0359031 | 47.059 | 119 | 61 | 1 | 43 | 159 | 38 | 156 | 8.66e-36 | 122 |
| Msa0707630 | MtrunA17_Chr5g0393511 | 45.000 | 120 | 65 | 1 | 43 | 162 | 38 | 156 | 1.07e-31 | 112 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 39 sgRNAs with CRISPR-Local
Find 106 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCATATTGCATGTCAAATTT+TGG | 0.111779 | 4_4:+81023885 | None:intergenic |
| CAATTGCTATGTGAAATTTC+TGG | 0.218719 | 4_4:-81023433 | Msa0707630:CDS |
| GGTTGCAGTTTGCTTATTCC+AGG | 0.370834 | 4_4:-81024176 | Msa0707630:five_prime_UTR |
| AAGGAAGGTTACTATGTTCC+TGG | 0.375285 | 4_4:-81023921 | Msa0707630:CDS |
| TAAGAGTTACAAACAATTCA+TGG | 0.378550 | 4_4:-81023827 | Msa0707630:CDS |
| TGCATTAGGTGTGCAATTGC+AGG | 0.379007 | 4_4:-81024230 | None:intergenic |
| AGCATTCTTCTTCTGAATCA+TGG | 0.388381 | 4_4:+81023958 | None:intergenic |
| CATGCAATATGATGACTATA+AGG | 0.392912 | 4_4:-81023874 | Msa0707630:CDS |
| ATTTCGACTCCTATGTGTAT+AGG | 0.431470 | 4_4:+81023660 | None:intergenic |
| AGACATGGAGGTACCGGCTC+TGG | 0.478033 | 4_4:+81023849 | None:intergenic |
| ACACTTACAACAGCATAAGT+TGG | 0.503451 | 4_4:+81023774 | None:intergenic |
| GATAAGATGAAGAGGTACAT+AGG | 0.508544 | 4_4:-81023540 | Msa0707630:CDS |
| GTAATGTGGAAGTTGATGAT+AGG | 0.517091 | 4_4:-81023488 | Msa0707630:CDS |
| AATTTCACATAGCAATTGAA+AGG | 0.518483 | 4_4:+81023438 | None:intergenic |
| AGGAACATAGTAACCTTCCT+TGG | 0.521276 | 4_4:+81023923 | None:intergenic |
| TACCAGTCATTTACCAAGGA+AGG | 0.524931 | 4_4:-81023936 | Msa0707630:CDS |
| GATGAAAACAGCACTATGCC+TGG | 0.532475 | 4_4:+81024158 | None:intergenic |
| TTGGTTGATTCAGATGAAGA+TGG | 0.537698 | 4_4:-81023603 | Msa0707630:CDS |
| AACCTTCCTTGGTAAATGAC+TGG | 0.545045 | 4_4:+81023934 | None:intergenic |
| CATAGGAGTCGAAATTCTAA+AGG | 0.559600 | 4_4:-81023652 | Msa0707630:CDS |
| ACTCTTAGACATGGAGGTAC+CGG | 0.560718 | 4_4:+81023843 | None:intergenic |
| GAAGCAAATCACACTGACCT+TGG | 0.564869 | 4_4:-81023622 | Msa0707630:CDS |
| TGACTATAAGGAACCAGAGC+CGG | 0.567138 | 4_4:-81023862 | Msa0707630:CDS |
| ATAAGATGAAGAGGTACATA+GGG | 0.570183 | 4_4:-81023539 | Msa0707630:CDS |
| ATGAAGAGGTACATAGGGCA+AGG | 0.571299 | 4_4:-81023534 | Msa0707630:CDS |
| AAGAGTTACAAACAATTCAT+GGG | 0.572552 | 4_4:-81023826 | Msa0707630:CDS |
| CAGCGTATTCCTATACACAT+AGG | 0.575668 | 4_4:-81023669 | Msa0707630:CDS |
| CTATGTGAAATTTCTGGAGA+GGG | 0.575789 | 4_4:-81023427 | Msa0707630:CDS |
| TTTGGAACTGGATCAGAACC+AGG | 0.576151 | 4_4:+81023903 | None:intergenic |
| TTTGAACAAGACATGATGAC+AGG | 0.594917 | 4_4:+81024104 | None:intergenic |
| TTGTTTGTAACTCTTAGACA+TGG | 0.601947 | 4_4:+81023834 | None:intergenic |
| AGAGGTACATAGGGCAAGGG+TGG | 0.609118 | 4_4:-81023530 | Msa0707630:CDS |
| TCATCATGTCTTGTTCAAAG+AGG | 0.610027 | 4_4:-81024100 | Msa0707630:intron |
| GCTATGTGAAATTTCTGGAG+AGG | 0.612333 | 4_4:-81023428 | Msa0707630:CDS |
| AAGATGGTGATAAGATGAAG+AGG | 0.620620 | 4_4:-81023548 | Msa0707630:CDS |
| TGAAGAGGTACATAGGGCAA+GGG | 0.632528 | 4_4:-81023533 | Msa0707630:CDS |
| TTTGTAACTCTTAGACATGG+AGG | 0.670628 | 4_4:+81023837 | None:intergenic |
| ATCTTCATCTGAATCAACCA+AGG | 0.672333 | 4_4:+81023605 | None:intergenic |
| ATGCTACCAGTCATTTACCA+AGG | 0.679424 | 4_4:-81023940 | Msa0707630:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTCAAGTATTATATTACAAA+TGG | - | chr4_4:81023627-81023646 | Msa0707630:CDS | 15.0% |
| !! | TTCAAGTATTATATTACAAA+TGG | - | chr4_4:81023627-81023646 | Msa0707630:CDS | 15.0% |
| !!! | TTTTCATCACATAACAAAAT+TGG | - | chr4_4:81023444-81023463 | Msa0707630:CDS | 20.0% |
| !!! | TTTTCATCACATAACAAAAT+TGG | - | chr4_4:81023444-81023463 | Msa0707630:CDS | 20.0% |
| !! | GTATTATATTACAAATGGAA+TGG | - | chr4_4:81023632-81023651 | Msa0707630:CDS | 20.0% |
| !!! | TTTTGTTAAGAAATGTAATG+TGG | - | chr4_4:81024139-81024158 | Msa0707630:five_prime_UTR | 20.0% |
| !!! | TTTTCATCACATAACAAAAT+TGG | - | chr4_4:81023444-81023463 | Msa0707630:CDS | 20.0% |
| !!! | TTTTCATCACATAACAAAAT+TGG | - | chr4_4:81023444-81023463 | Msa0707630:CDS | 20.0% |
| !! | GTATTATATTACAAATGGAA+TGG | - | chr4_4:81023632-81023651 | Msa0707630:CDS | 20.0% |
| !!! | TTTTGTTAAGAAATGTAATG+TGG | - | chr4_4:81024139-81024158 | Msa0707630:five_prime_UTR | 20.0% |
| !! | TCATATTGCATGTCAAATTT+TGG | + | chr4_4:81023759-81023778 | None:intergenic | 25.0% |
| ! | TAAGAGTTACAAACAATTCA+TGG | - | chr4_4:81023814-81023833 | Msa0707630:CDS | 25.0% |
| ! | AAGAGTTACAAACAATTCAT+GGG | - | chr4_4:81023815-81023834 | Msa0707630:CDS | 25.0% |
| !!! | GTTGTGTTATTTATAAACAC+TGG | - | chr4_4:81023920-81023939 | Msa0707630:CDS | 25.0% |
| ! | GTTATTTATAAACACTGGAT+TGG | - | chr4_4:81023925-81023944 | Msa0707630:CDS | 25.0% |
| !!! | TGTGATGTTTTTTTTGAAGA+TGG | - | chr4_4:81024077-81024096 | Msa0707630:intron | 25.0% |
| ! | AATTTCACATAGCAATTGAA+AGG | + | chr4_4:81024206-81024225 | None:intergenic | 25.0% |
| !! | TCATATTGCATGTCAAATTT+TGG | + | chr4_4:81023759-81023778 | None:intergenic | 25.0% |
| ! | TAAGAGTTACAAACAATTCA+TGG | - | chr4_4:81023814-81023833 | Msa0707630:CDS | 25.0% |
| ! | AAGAGTTACAAACAATTCAT+GGG | - | chr4_4:81023815-81023834 | Msa0707630:CDS | 25.0% |
| !!! | GTTGTGTTATTTATAAACAC+TGG | - | chr4_4:81023920-81023939 | Msa0707630:CDS | 25.0% |
| ! | GTTATTTATAAACACTGGAT+TGG | - | chr4_4:81023925-81023944 | Msa0707630:CDS | 25.0% |
| !!! | TGTGATGTTTTTTTTGAAGA+TGG | - | chr4_4:81024077-81024096 | Msa0707630:intron | 25.0% |
| ! | AATTTCACATAGCAATTGAA+AGG | + | chr4_4:81024206-81024225 | None:intergenic | 25.0% |
| ! | TTCTTCTGAATCATGGTTTT+TGG | + | chr4_4:81023679-81023698 | None:intergenic | 30.0% |
| CATGCAATATGATGACTATA+AGG | - | chr4_4:81023767-81023786 | Msa0707630:intron | 30.0% | |
| TTGTTTGTAACTCTTAGACA+TGG | + | chr4_4:81023810-81023829 | None:intergenic | 30.0% | |
| ! | ATGCTGTTGTAAGTGTTTTA+TGG | - | chr4_4:81023874-81023893 | Msa0707630:CDS | 30.0% |
| ! | ATAAGATGAAGAGGTACATA+GGG | - | chr4_4:81024102-81024121 | Msa0707630:exon | 30.0% |
| CAATTGCTATGTGAAATTTC+TGG | - | chr4_4:81024208-81024227 | Msa0707630:five_prime_UTR | 30.0% | |
| ! | TTCTTCTGAATCATGGTTTT+TGG | + | chr4_4:81023679-81023698 | None:intergenic | 30.0% |
| CATGCAATATGATGACTATA+AGG | - | chr4_4:81023767-81023786 | Msa0707630:intron | 30.0% | |
| TTGTTTGTAACTCTTAGACA+TGG | + | chr4_4:81023810-81023829 | None:intergenic | 30.0% | |
| ! | ATGCTGTTGTAAGTGTTTTA+TGG | - | chr4_4:81023874-81023893 | Msa0707630:CDS | 30.0% |
| ! | ATAAGATGAAGAGGTACATA+GGG | - | chr4_4:81024102-81024121 | Msa0707630:exon | 30.0% |
| CAATTGCTATGTGAAATTTC+TGG | - | chr4_4:81024208-81024227 | Msa0707630:five_prime_UTR | 30.0% | |
| TTTGAACAAGACATGATGAC+AGG | + | chr4_4:81023540-81023559 | None:intergenic | 35.0% | |
| ! | TCATCATGTCTTGTTCAAAG+AGG | - | chr4_4:81023541-81023560 | Msa0707630:CDS | 35.0% |
| AGCATTCTTCTTCTGAATCA+TGG | + | chr4_4:81023686-81023705 | None:intergenic | 35.0% | |
| !!! | TGCATGTCAAATTTTGGAAC+TGG | + | chr4_4:81023753-81023772 | None:intergenic | 35.0% |
| TTTGTAACTCTTAGACATGG+AGG | + | chr4_4:81023807-81023826 | None:intergenic | 35.0% | |
| ACACTTACAACAGCATAAGT+TGG | + | chr4_4:81023870-81023889 | None:intergenic | 35.0% | |
| ATTTCGACTCCTATGTGTAT+AGG | + | chr4_4:81023984-81024003 | None:intergenic | 35.0% | |
| CATAGGAGTCGAAATTCTAA+AGG | - | chr4_4:81023989-81024008 | Msa0707630:intron | 35.0% | |
| ATCTTCATCTGAATCAACCA+AGG | + | chr4_4:81024039-81024058 | None:intergenic | 35.0% | |
| ! | TTGGTTGATTCAGATGAAGA+TGG | - | chr4_4:81024038-81024057 | Msa0707630:intron | 35.0% |
| AAGATGGTGATAAGATGAAG+AGG | - | chr4_4:81024093-81024112 | Msa0707630:intron | 35.0% | |
| ! | GATAAGATGAAGAGGTACAT+AGG | - | chr4_4:81024101-81024120 | Msa0707630:exon | 35.0% |
| !! | GTAATGTGGAAGTTGATGAT+AGG | - | chr4_4:81024153-81024172 | Msa0707630:five_prime_UTR | 35.0% |
| ! | CTATGTGAAATTTCTGGAGA+GGG | - | chr4_4:81024214-81024233 | Msa0707630:five_prime_UTR | 35.0% |
| TTTGAACAAGACATGATGAC+AGG | + | chr4_4:81023540-81023559 | None:intergenic | 35.0% | |
| ! | TCATCATGTCTTGTTCAAAG+AGG | - | chr4_4:81023541-81023560 | Msa0707630:CDS | 35.0% |
| AGCATTCTTCTTCTGAATCA+TGG | + | chr4_4:81023686-81023705 | None:intergenic | 35.0% | |
| !!! | TGCATGTCAAATTTTGGAAC+TGG | + | chr4_4:81023753-81023772 | None:intergenic | 35.0% |
| TTTGTAACTCTTAGACATGG+AGG | + | chr4_4:81023807-81023826 | None:intergenic | 35.0% | |
| ACACTTACAACAGCATAAGT+TGG | + | chr4_4:81023870-81023889 | None:intergenic | 35.0% | |
| ATTTCGACTCCTATGTGTAT+AGG | + | chr4_4:81023984-81024003 | None:intergenic | 35.0% | |
| CATAGGAGTCGAAATTCTAA+AGG | - | chr4_4:81023989-81024008 | Msa0707630:intron | 35.0% | |
| ATCTTCATCTGAATCAACCA+AGG | + | chr4_4:81024039-81024058 | None:intergenic | 35.0% | |
| ! | TTGGTTGATTCAGATGAAGA+TGG | - | chr4_4:81024038-81024057 | Msa0707630:intron | 35.0% |
| AAGATGGTGATAAGATGAAG+AGG | - | chr4_4:81024093-81024112 | Msa0707630:intron | 35.0% | |
| ! | GATAAGATGAAGAGGTACAT+AGG | - | chr4_4:81024101-81024120 | Msa0707630:exon | 35.0% |
| !! | GTAATGTGGAAGTTGATGAT+AGG | - | chr4_4:81024153-81024172 | Msa0707630:five_prime_UTR | 35.0% |
| ! | CTATGTGAAATTTCTGGAGA+GGG | - | chr4_4:81024214-81024233 | Msa0707630:five_prime_UTR | 35.0% |
| GGAATGGTTGTTCTTAACAG+CGG | - | chr4_4:81023648-81023667 | Msa0707630:CDS | 40.0% | |
| GAATGGTTGTTCTTAACAGC+GGG | - | chr4_4:81023649-81023668 | Msa0707630:CDS | 40.0% | |
| AATGGTTGTTCTTAACAGCG+GGG | - | chr4_4:81023650-81023669 | Msa0707630:CDS | 40.0% | |
| ATGCTACCAGTCATTTACCA+AGG | - | chr4_4:81023701-81023720 | Msa0707630:intron | 40.0% | |
| TACCAGTCATTTACCAAGGA+AGG | - | chr4_4:81023705-81023724 | Msa0707630:intron | 40.0% | |
| AACCTTCCTTGGTAAATGAC+TGG | + | chr4_4:81023710-81023729 | None:intergenic | 40.0% | |
| AGGAACATAGTAACCTTCCT+TGG | + | chr4_4:81023721-81023740 | None:intergenic | 40.0% | |
| AAGGAAGGTTACTATGTTCC+TGG | - | chr4_4:81023720-81023739 | Msa0707630:intron | 40.0% | |
| CAGCGTATTCCTATACACAT+AGG | - | chr4_4:81023972-81023991 | Msa0707630:CDS | 40.0% | |
| ! | GCTATGTGAAATTTCTGGAG+AGG | - | chr4_4:81024213-81024232 | Msa0707630:five_prime_UTR | 40.0% |
| GGAATGGTTGTTCTTAACAG+CGG | - | chr4_4:81023648-81023667 | Msa0707630:CDS | 40.0% | |
| GAATGGTTGTTCTTAACAGC+GGG | - | chr4_4:81023649-81023668 | Msa0707630:CDS | 40.0% | |
| AATGGTTGTTCTTAACAGCG+GGG | - | chr4_4:81023650-81023669 | Msa0707630:CDS | 40.0% | |
| ATGCTACCAGTCATTTACCA+AGG | - | chr4_4:81023701-81023720 | Msa0707630:intron | 40.0% | |
| TACCAGTCATTTACCAAGGA+AGG | - | chr4_4:81023705-81023724 | Msa0707630:intron | 40.0% | |
| AACCTTCCTTGGTAAATGAC+TGG | + | chr4_4:81023710-81023729 | None:intergenic | 40.0% | |
| AGGAACATAGTAACCTTCCT+TGG | + | chr4_4:81023721-81023740 | None:intergenic | 40.0% | |
| AAGGAAGGTTACTATGTTCC+TGG | - | chr4_4:81023720-81023739 | Msa0707630:intron | 40.0% | |
| CAGCGTATTCCTATACACAT+AGG | - | chr4_4:81023972-81023991 | Msa0707630:CDS | 40.0% | |
| ! | GCTATGTGAAATTTCTGGAG+AGG | - | chr4_4:81024213-81024232 | Msa0707630:five_prime_UTR | 40.0% |
| ! | GGTTGCAGTTTGCTTATTCC+AGG | - | chr4_4:81023465-81023484 | Msa0707630:CDS | 45.0% |
| GATGAAAACAGCACTATGCC+TGG | + | chr4_4:81023432-81023451 | None:intergenic | 45.0% | |
| ATGGTTGTTCTTAACAGCGG+GGG | - | chr4_4:81023651-81023670 | Msa0707630:CDS | 45.0% | |
| ! | TTTGGAACTGGATCAGAACC+AGG | + | chr4_4:81023741-81023760 | None:intergenic | 45.0% |
| TGACTATAAGGAACCAGAGC+CGG | - | chr4_4:81023779-81023798 | Msa0707630:intron | 45.0% | |
| ! | ACTCTTAGACATGGAGGTAC+CGG | + | chr4_4:81023801-81023820 | None:intergenic | 45.0% |
| GAAGCAAATCACACTGACCT+TGG | - | chr4_4:81024019-81024038 | Msa0707630:intron | 45.0% | |
| ! | ATGAAGAGGTACATAGGGCA+AGG | - | chr4_4:81024107-81024126 | Msa0707630:exon | 45.0% |
| ! | TGAAGAGGTACATAGGGCAA+GGG | - | chr4_4:81024108-81024127 | Msa0707630:exon | 45.0% |
| ! | GGTTGCAGTTTGCTTATTCC+AGG | - | chr4_4:81023465-81023484 | Msa0707630:CDS | 45.0% |
| GATGAAAACAGCACTATGCC+TGG | + | chr4_4:81023432-81023451 | None:intergenic | 45.0% | |
| ATGGTTGTTCTTAACAGCGG+GGG | - | chr4_4:81023651-81023670 | Msa0707630:CDS | 45.0% | |
| ! | TTTGGAACTGGATCAGAACC+AGG | + | chr4_4:81023741-81023760 | None:intergenic | 45.0% |
| TGACTATAAGGAACCAGAGC+CGG | - | chr4_4:81023779-81023798 | Msa0707630:intron | 45.0% | |
| ! | ACTCTTAGACATGGAGGTAC+CGG | + | chr4_4:81023801-81023820 | None:intergenic | 45.0% |
| GAAGCAAATCACACTGACCT+TGG | - | chr4_4:81024019-81024038 | Msa0707630:intron | 45.0% | |
| ! | ATGAAGAGGTACATAGGGCA+AGG | - | chr4_4:81024107-81024126 | Msa0707630:exon | 45.0% |
| ! | TGAAGAGGTACATAGGGCAA+GGG | - | chr4_4:81024108-81024127 | Msa0707630:exon | 45.0% |
| ! | AGAGGTACATAGGGCAAGGG+TGG | - | chr4_4:81024111-81024130 | Msa0707630:exon | 55.0% |
| ! | AGAGGTACATAGGGCAAGGG+TGG | - | chr4_4:81024111-81024130 | Msa0707630:exon | 55.0% |
| !! | AGACATGGAGGTACCGGCTC+TGG | + | chr4_4:81023795-81023814 | None:intergenic | 60.0% |
| !! | AGACATGGAGGTACCGGCTC+TGG | + | chr4_4:81023795-81023814 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 81023419 | 81024244 | 81023419 | ID=Msa0707630;Name=Msa0707630 |
| chr4_4 | mRNA | 81023419 | 81024244 | 81023419 | ID=Msa0707630-mRNA-1;Parent=Msa0707630;Name=Msa0707630-mRNA-1;_AED=0.06;_eAED=0.06;_QI=127|1|0.66|1|1|1|3|0|166 |
| chr4_4 | exon | 81023419 | 81023688 | 81023419 | ID=Msa0707630-mRNA-1:exon:26445;Parent=Msa0707630-mRNA-1 |
| chr4_4 | exon | 81023782 | 81023995 | 81023782 | ID=Msa0707630-mRNA-1:exon:26444;Parent=Msa0707630-mRNA-1 |
| chr4_4 | exon | 81024101 | 81024244 | 81024101 | ID=Msa0707630-mRNA-1:exon:26443;Parent=Msa0707630-mRNA-1 |
| chr4_4 | five_prime_UTR | 81024118 | 81024244 | 81024118 | ID=Msa0707630-mRNA-1:five_prime_utr;Parent=Msa0707630-mRNA-1 |
| chr4_4 | CDS | 81024101 | 81024117 | 81024101 | ID=Msa0707630-mRNA-1:cds;Parent=Msa0707630-mRNA-1 |
| chr4_4 | CDS | 81023782 | 81023995 | 81023782 | ID=Msa0707630-mRNA-1:cds;Parent=Msa0707630-mRNA-1 |
| chr4_4 | CDS | 81023419 | 81023688 | 81023419 | ID=Msa0707630-mRNA-1:cds;Parent=Msa0707630-mRNA-1 |
| Gene Sequence |
| Protein sequence |
