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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0698210 | XP_013457286.1 | 92.035 | 113 | 6 | 1 | 1 | 110 | 1 | 113 | 2.12e-62 | 203 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0698210 | sp|Q84K34|SIL10_ARATH | 36.508 | 126 | 64 | 4 | 1 | 110 | 1 | 126 | 4.57e-11 | 61.6 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0698210 | G8A1C0 | 92.035 | 113 | 6 | 1 | 1 | 110 | 1 | 113 | 1.01e-62 | 203 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0077900 | Msa0698210 | 0.804972 | 1.671310e-49 | -8.615850e-47 |
| Msa0614510 | Msa0698210 | 0.808726 | 2.688431e-50 | -8.615850e-47 |
| Msa0698210 | Msa0705390 | 0.800251 | 1.572891e-48 | -8.615850e-47 |
| Msa0698210 | Msa0822170 | 0.803966 | 2.708017e-49 | -8.615850e-47 |
| Msa0698210 | Msa1042660 | 0.803681 | 3.103584e-49 | -8.615850e-47 |
| Msa0698210 | Msa1377800 | 0.813454 | 2.539429e-51 | -8.615850e-47 |
| Msa0698210 | Msa1450720 | 0.805698 | 1.177115e-49 | -8.615850e-47 |
| Msa0237200 | Msa0698210 | 0.804390 | 2.210238e-49 | -8.615850e-47 |
| Msa0395980 | Msa0698210 | 0.804496 | 2.100642e-49 | -8.615850e-47 |
| Msa0440510 | Msa0698210 | 0.813490 | 2.492835e-51 | -8.615850e-47 |
| Msa0245430 | Msa0698210 | 0.811834 | 5.741966e-51 | -8.615850e-47 |
| Msa0274970 | Msa0698210 | 0.801451 | 8.948405e-49 | -8.615850e-47 |
| Msa0311720 | Msa0698210 | 0.815312 | 9.862251e-52 | -8.615850e-47 |
| Msa0315680 | Msa0698210 | 0.800863 | 1.180278e-48 | -8.615850e-47 |
| Msa0336050 | Msa0698210 | 0.802377 | 5.774784e-49 | -8.615850e-47 |
| Msa0363060 | Msa0698210 | 0.804086 | 2.557009e-49 | -8.615850e-47 |
| Msa0491000 | Msa0698210 | 0.806684 | 7.300759e-50 | -8.615850e-47 |
| Msa0530870 | Msa0698210 | -0.804586 | 2.012208e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0698210 | MtrunA17_Chr4g0051351 | 92.035 | 113 | 6 | 1 | 1 | 110 | 1 | 113 | 1.95e-66 | 203 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0698210 | AT5G37930.1 | 36.508 | 126 | 64 | 4 | 1 | 110 | 1 | 126 | 4.65e-12 | 61.6 |
Find 29 sgRNAs with CRISPR-Local
Find 47 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCCTTCGACGCTTCTGATTT+GGG | 0.200729 | 4_4:+68473064 | None:intergenic |
| ACCCTTCGACGCTTCTGATT+TGG | 0.236738 | 4_4:+68473063 | None:intergenic |
| TAGAAACTAACCTGATAAAT+AGG | 0.285373 | 4_4:+68472796 | None:intergenic |
| GTTGGCAGTTCCTATTTATC+AGG | 0.301407 | 4_4:-68472806 | Msa0698210:intron |
| CGCTTCTGATTTGGGTTGCT+AGG | 0.377978 | 4_4:+68473072 | None:intergenic |
| TCCGTTGGTGGCTGCGACGA+CGG | 0.393400 | 4_4:-68473102 | Msa0698210:CDS |
| ACCTCAAGAAGGGTTTGAAA+TGG | 0.426795 | 4_4:-68472980 | Msa0698210:CDS |
| ATGAAGCAATCAAGAACATC+AGG | 0.457363 | 4_4:+68472841 | None:intergenic |
| ATTATTCTGTTGTCCCGCGT+TGG | 0.496225 | 4_4:+68472900 | None:intergenic |
| CTTCATTTGCTCTGAACCGT+TGG | 0.497414 | 4_4:-68472824 | Msa0698210:CDS |
| TGCTGCTGCGACTTCTTCGC+CGG | 0.501882 | 4_4:+68473035 | None:intergenic |
| TAATTTCGATAAAACTGCTA+TGG | 0.503927 | 4_4:+68473171 | None:intergenic |
| GCAAATGAAGGAAATTCGAT+TGG | 0.505880 | 4_4:-68472925 | Msa0698210:CDS |
| GAAAATCAACAACCTCAAGA+AGG | 0.520905 | 4_4:-68472991 | Msa0698210:CDS |
| ACCCAAATCAGAAGCGTCGA+AGG | 0.529769 | 4_4:-68473065 | Msa0698210:CDS |
| TCCATTTCAAACCCTTCTTG+AGG | 0.542975 | 4_4:+68472979 | None:intergenic |
| GGTGGCTGCGACGACGGTGA+AGG | 0.585524 | 4_4:-68473096 | Msa0698210:CDS |
| ACCGTCGTCGCAGCCACCAA+CGG | 0.585882 | 4_4:+68473101 | None:intergenic |
| AAAATCAACAACCTCAAGAA+GGG | 0.590977 | 4_4:-68472990 | Msa0698210:CDS |
| TTCTAAAACTAAAAGTACAT+AGG | 0.614741 | 4_4:-68473244 | Msa0698210:five_prime_UTR |
| CATCGGTGGTTGTTTCTCGT+AGG | 0.627486 | 4_4:+68473134 | None:intergenic |
| CCCAAATCAGAAGCGTCGAA+GGG | 0.630719 | 4_4:-68473064 | Msa0698210:CDS |
| AATTCGATTGGATCCAACGC+GGG | 0.643151 | 4_4:-68472913 | Msa0698210:CDS |
| ACGGAAAATGTCACCATCGG+TGG | 0.644933 | 4_4:+68473120 | None:intergenic |
| CCAACGGAAAATGTCACCAT+CGG | 0.660932 | 4_4:+68473117 | None:intergenic |
| AAGCGTCGAAGGGTTGACGC+CGG | 0.663392 | 4_4:-68473054 | Msa0698210:CDS |
| CTACGAGAAACAACCACCGA+TGG | 0.677545 | 4_4:-68473133 | Msa0698210:exon |
| TGATAAATAGGAACTGCCAA+CGG | 0.683227 | 4_4:+68472808 | None:intergenic |
| AAATTCGATTGGATCCAACG+CGG | 0.768622 | 4_4:-68472914 | Msa0698210:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTGAATTTTTTTTTTGTTA+TGG | - | chr4_4:68473190-68473209 | Msa0698210:five_prime_UTR | 10.0% |
| !!! | TTTGTTTTTGTATGAATTTT+GGG | - | chr4_4:68473216-68473235 | Msa0698210:five_prime_UTR | 15.0% |
| !!! | TTCTAAAACTAAAAGTACAT+AGG | - | chr4_4:68472691-68472710 | Msa0698210:intron | 20.0% |
| !!! | GTTTGTTTTTGTATGAATTT+TGG | - | chr4_4:68473215-68473234 | Msa0698210:five_prime_UTR | 20.0% |
| ! | TAATTTCGATAAAACTGCTA+TGG | + | chr4_4:68472767-68472786 | None:intergenic | 25.0% |
| !!! | ATTTTTTAGGTTTCCAATTG+GGG | + | chr4_4:68472987-68473006 | None:intergenic | 25.0% |
| !!! | CATTTTTTAGGTTTCCAATT+GGG | + | chr4_4:68472988-68473007 | None:intergenic | 25.0% |
| !!! | TCATTTTTTAGGTTTCCAAT+TGG | + | chr4_4:68472989-68473008 | None:intergenic | 25.0% |
| !!! | CTTCATTTGCATCATTTTTT+AGG | + | chr4_4:68473000-68473019 | None:intergenic | 25.0% |
| ! | CTAAAAAATGATGCAAATGA+AGG | - | chr4_4:68472998-68473017 | Msa0698210:CDS | 25.0% |
| ! | TAGAAACTAACCTGATAAAT+AGG | + | chr4_4:68473142-68473161 | None:intergenic | 25.0% |
| !!! | TTTTGGGTGTTATTTGATTT+AGG | - | chr4_4:68473232-68473251 | Msa0698210:five_prime_UTR | 25.0% |
| !!! | TTTGGGTGTTATTTGATTTA+GGG | - | chr4_4:68473233-68473252 | Msa0698210:five_prime_UTR | 25.0% |
| TTAACATAAAAAGATGCTGC+TGG | + | chr4_4:68472736-68472755 | None:intergenic | 30.0% | |
| AAAATCAACAACCTCAAGAA+GGG | - | chr4_4:68472945-68472964 | Msa0698210:CDS | 30.0% | |
| !!! | TTTTTTAGGTTTCCAATTGG+GGG | + | chr4_4:68472986-68473005 | None:intergenic | 30.0% |
| !! | TATCAGGTTAGTTTCTATTC+TGG | - | chr4_4:68473145-68473164 | Msa0698210:five_prime_UTR | 30.0% |
| !! | ATCAGGTTAGTTTCTATTCT+GGG | - | chr4_4:68473146-68473165 | Msa0698210:five_prime_UTR | 30.0% |
| GAAAATCAACAACCTCAAGA+AGG | - | chr4_4:68472944-68472963 | Msa0698210:CDS | 35.0% | |
| GCAAATGAAGGAAATTCGAT+TGG | - | chr4_4:68473010-68473029 | Msa0698210:CDS | 35.0% | |
| ATGAAGCAATCAAGAACATC+AGG | + | chr4_4:68473097-68473116 | None:intergenic | 35.0% | |
| TGATAAATAGGAACTGCCAA+CGG | + | chr4_4:68473130-68473149 | None:intergenic | 35.0% | |
| ACCTCAAGAAGGGTTTGAAA+TGG | - | chr4_4:68472955-68472974 | Msa0698210:CDS | 40.0% | |
| TCCATTTCAAACCCTTCTTG+AGG | + | chr4_4:68472959-68472978 | None:intergenic | 40.0% | |
| GAAATGGAAAATCCCCCAAT+TGG | - | chr4_4:68472971-68472990 | Msa0698210:CDS | 40.0% | |
| AAATTCGATTGGATCCAACG+CGG | - | chr4_4:68473021-68473040 | Msa0698210:CDS | 40.0% | |
| GTTGGCAGTTCCTATTTATC+AGG | - | chr4_4:68473129-68473148 | Msa0698210:exon | 40.0% | |
| !! | GGGTGTTATTTGATTTAGGG+TGG | - | chr4_4:68473236-68473255 | Msa0698210:five_prime_UTR | 40.0% |
| CCAACGGAAAATGTCACCAT+CGG | + | chr4_4:68472821-68472840 | None:intergenic | 45.0% | |
| ! | ATGGTGACATTTTCCGTTGG+TGG | - | chr4_4:68472821-68472840 | Msa0698210:CDS | 45.0% |
| AATTCGATTGGATCCAACGC+GGG | - | chr4_4:68473022-68473041 | Msa0698210:CDS | 45.0% | |
| ATTATTCTGTTGTCCCGCGT+TGG | + | chr4_4:68473038-68473057 | None:intergenic | 45.0% | |
| ! | CTTCATTTGCTCTGAACCGT+TGG | - | chr4_4:68473111-68473130 | Msa0698210:CDS | 45.0% |
| !! | CATCGGTGGTTGTTTCTCGT+AGG | + | chr4_4:68472804-68472823 | None:intergenic | 50.0% |
| CTACGAGAAACAACCACCGA+TGG | - | chr4_4:68472802-68472821 | Msa0698210:intron | 50.0% | |
| ACGGAAAATGTCACCATCGG+TGG | + | chr4_4:68472818-68472837 | None:intergenic | 50.0% | |
| ! | CCGATGGTGACATTTTCCGT+TGG | - | chr4_4:68472818-68472837 | Msa0698210:CDS | 50.0% |
| !! | CGCTTCTGATTTGGGTTGCT+AGG | + | chr4_4:68472866-68472885 | None:intergenic | 50.0% |
| !! | ACCCAAATCAGAAGCGTCGA+AGG | - | chr4_4:68472870-68472889 | Msa0698210:CDS | 50.0% |
| CCCTTCGACGCTTCTGATTT+GGG | + | chr4_4:68472874-68472893 | None:intergenic | 50.0% | |
| !! | CCCAAATCAGAAGCGTCGAA+GGG | - | chr4_4:68472871-68472890 | Msa0698210:CDS | 50.0% |
| ACCCTTCGACGCTTCTGATT+TGG | + | chr4_4:68472875-68472894 | None:intergenic | 50.0% | |
| !! | AAGCGTCGAAGGGTTGACGC+CGG | - | chr4_4:68472881-68472900 | Msa0698210:CDS | 60.0% |
| TGCTGCTGCGACTTCTTCGC+CGG | + | chr4_4:68472903-68472922 | None:intergenic | 60.0% | |
| !! | TCCGTTGGTGGCTGCGACGA+CGG | - | chr4_4:68472833-68472852 | Msa0698210:CDS | 65.0% |
| ACCGTCGTCGCAGCCACCAA+CGG | + | chr4_4:68472837-68472856 | None:intergenic | 65.0% | |
| GGTGGCTGCGACGACGGTGA+AGG | - | chr4_4:68472839-68472858 | Msa0698210:CDS | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 68472683 | 68473274 | 68472683 | ID=Msa0698210;Name=Msa0698210 |
| chr4_4 | mRNA | 68472683 | 68473274 | 68472683 | ID=Msa0698210-mRNA-1;Parent=Msa0698210;Name=Msa0698210-mRNA-1;_AED=0.36;_eAED=0.36;_QI=138|0|0.5|0.5|1|1|2|0|116 |
| chr4_4 | exon | 68472683 | 68472703 | 68472683 | ID=Msa0698210-mRNA-1:exon:20317;Parent=Msa0698210-mRNA-1 |
| chr4_4 | exon | 68472807 | 68473274 | 68472807 | ID=Msa0698210-mRNA-1:exon:20316;Parent=Msa0698210-mRNA-1 |
| chr4_4 | five_prime_UTR | 68473137 | 68473274 | 68473137 | ID=Msa0698210-mRNA-1:five_prime_utr;Parent=Msa0698210-mRNA-1 |
| chr4_4 | CDS | 68472807 | 68473136 | 68472807 | ID=Msa0698210-mRNA-1:cds;Parent=Msa0698210-mRNA-1 |
| chr4_4 | CDS | 68472683 | 68472703 | 68472683 | ID=Msa0698210-mRNA-1:cds;Parent=Msa0698210-mRNA-1 |
| Gene Sequence |
| Protein sequence |
