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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1279170 | AES93751.1 | 71.084 | 83 | 12 | 1 | 1 | 71 | 15 | 97 | 2.47e-30 | 112 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1279170 | sp|Q9SSF0|HIP16_ARATH | 44.928 | 69 | 38 | 0 | 1 | 69 | 11 | 79 | 8.99e-14 | 64.7 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1279170 | G7K532 | 71.084 | 83 | 12 | 1 | 1 | 71 | 15 | 97 | 1.18e-30 | 112 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0742120 | Msa1279170 | 0.924142 | 1.045881e-89 | -8.615850e-47 |
| Msa1279170 | Msa1298310 | 0.895260 | 1.134336e-75 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1279170 | MtrunA17_Chr3g0120541 | 77.143 | 70 | 16 | 0 | 1 | 70 | 12 | 81 | 1.78e-33 | 110 |
| Msa1279170 | MtrunA17_Chr3g0120531 | 79.032 | 62 | 13 | 0 | 1 | 62 | 13 | 74 | 2.71e-31 | 105 |
| Msa1279170 | MtrunA17_Chr3g0120551 | 66.667 | 66 | 22 | 0 | 1 | 66 | 12 | 77 | 4.39e-25 | 89.7 |
| Msa1279170 | MtrunA17_Chr2g0290831 | 41.538 | 65 | 38 | 0 | 1 | 65 | 11 | 75 | 9.19e-13 | 57.4 |
| Msa1279170 | MtrunA17_Chr5g0438551 | 41.463 | 82 | 37 | 2 | 1 | 71 | 10 | 91 | 2.19e-12 | 57.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1279170 | AT3G07600.1 | 44.928 | 69 | 38 | 0 | 1 | 69 | 11 | 79 | 9.14e-15 | 64.7 |
| Msa1279170 | AT5G48290.2 | 47.887 | 71 | 35 | 1 | 1 | 69 | 1 | 71 | 2.89e-14 | 63.5 |
| Msa1279170 | AT5G48290.1 | 43.662 | 71 | 40 | 0 | 1 | 71 | 11 | 81 | 3.36e-14 | 63.5 |
| Msa1279170 | AT5G48290.3 | 38.462 | 91 | 34 | 2 | 1 | 69 | 11 | 101 | 1.02e-11 | 57.4 |
| Msa1279170 | AT3G20180.1 | 39.726 | 73 | 42 | 1 | 1 | 71 | 7 | 79 | 1.71e-11 | 55.5 |
| Msa1279170 | AT3G20180.4 | 39.726 | 73 | 42 | 1 | 1 | 71 | 9 | 81 | 1.82e-11 | 55.5 |
| Msa1279170 | AT3G20180.3 | 39.726 | 73 | 42 | 1 | 1 | 71 | 11 | 83 | 2.14e-11 | 55.1 |
| Msa1279170 | AT3G20180.2 | 39.726 | 73 | 42 | 1 | 1 | 71 | 30 | 102 | 2.57e-11 | 55.5 |
Find 13 sgRNAs with CRISPR-Local
Find 74 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTATATCTCATAAGTATTT+TGG | 0.150399 | 8_3:+16034349 | Msa1279170:five_prime_UTR |
| ACTTATGAGATATAAATAAA+TGG | 0.288883 | 8_3:-16034342 | None:intergenic |
| AAAATTATGTCATGCAGAAT+TGG | 0.351294 | 8_3:+16035058 | Msa1279170:CDS |
| AACTCCAACTGCAATCTTCA+TGG | 0.355184 | 8_3:-16034823 | None:intergenic |
| AAGGATCAAATAGAGATAAC+AGG | 0.396822 | 8_3:+16034993 | Msa1279170:CDS |
| AACTGCAATCTTCATGGCTC+TGG | 0.399628 | 8_3:-16034817 | None:intergenic |
| ATTGGTGAGTGTTGGTGAAG+TGG | 0.534161 | 8_3:+16035076 | Msa1279170:CDS |
| GCAGCAAAAGATAGTGATCA+AGG | 0.536634 | 8_3:+16034767 | Msa1279170:intron |
| TGGTGAAGTGGAAAAGAAAG+AGG | 0.582213 | 8_3:+16035088 | Msa1279170:CDS |
| AGAGCCATGAAGATTGCAGT+TGG | 0.586072 | 8_3:+16034819 | Msa1279170:CDS |
| TCAAATAATCACATATAGCA+CGG | 0.588637 | 8_3:+16034300 | None:intergenic |
| AGCTATAAAAGCAGATAGCA+AGG | 0.594508 | 8_3:+16034974 | Msa1279170:CDS |
| CATGCAGAATTGGTGAGTGT+TGG | 0.631342 | 8_3:+16035068 | Msa1279170:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTGAATTGAAAATAATTAA+TGG | - | chr8_3:16034878-16034897 | None:intergenic | 10.0% |
| !! | TTTGAATTGAAAATAATTAA+TGG | - | chr8_3:16034878-16034897 | None:intergenic | 10.0% |
| !! | ACTTATGAGATATAAATAAA+TGG | - | chr8_3:16034345-16034364 | None:intergenic | 15.0% |
| !!! | TTTATATCTCATAAGTATTT+TGG | + | chr8_3:16034349-16034368 | Msa1279170:five_prime_UTR | 15.0% |
| !!! | CTATATATTTTAAATAAAGG+AGG | - | chr8_3:16034415-16034434 | None:intergenic | 15.0% |
| !! | ACTTATGAGATATAAATAAA+TGG | - | chr8_3:16034345-16034364 | None:intergenic | 15.0% |
| !!! | TTTATATCTCATAAGTATTT+TGG | + | chr8_3:16034349-16034368 | Msa1279170:five_prime_UTR | 15.0% |
| !!! | CTATATATTTTAAATAAAGG+AGG | - | chr8_3:16034415-16034434 | None:intergenic | 15.0% |
| ! | AGCAAAGGATATATAATAGA+AGG | - | chr8_3:16034483-16034502 | None:intergenic | 25.0% |
| !! | AATCTTTTCTTCGAAAGTTT+TGG | - | chr8_3:16034625-16034644 | None:intergenic | 25.0% |
| ! | AAAATTATGTCATGCAGAAT+TGG | + | chr8_3:16035058-16035077 | Msa1279170:CDS | 25.0% |
| ! | AGCAAAGGATATATAATAGA+AGG | - | chr8_3:16034483-16034502 | None:intergenic | 25.0% |
| !! | AATCTTTTCTTCGAAAGTTT+TGG | - | chr8_3:16034625-16034644 | None:intergenic | 25.0% |
| ! | AAAATTATGTCATGCAGAAT+TGG | + | chr8_3:16035058-16035077 | Msa1279170:CDS | 25.0% |
| !!! | TCTCATAAGTATTTTGGCTA+AGG | + | chr8_3:16034355-16034374 | Msa1279170:five_prime_UTR | 30.0% |
| AAAATTGAGAGGGAAAATGT+AGG | + | chr8_3:16034505-16034524 | Msa1279170:intron | 30.0% | |
| AAATTGAGAGGGAAAATGTA+GGG | + | chr8_3:16034506-16034525 | Msa1279170:intron | 30.0% | |
| !! | TTTTCTTCGAAAGTTTTGGT+GGG | - | chr8_3:16034621-16034640 | None:intergenic | 30.0% |
| CAATGAACAACCAAAAATCA+AGG | + | chr8_3:16034793-16034812 | Msa1279170:exon | 30.0% | |
| GACTTTGGATAATTAAGCTA+TGG | - | chr8_3:16034913-16034932 | None:intergenic | 30.0% | |
| ! | ATTTCTGCACATGATTAGTT+TGG | - | chr8_3:16034935-16034954 | None:intergenic | 30.0% |
| AATCATGTGCAGAAATATTC+AGG | + | chr8_3:16034939-16034958 | Msa1279170:intron | 30.0% | |
| AAGGATCAAATAGAGATAAC+AGG | + | chr8_3:16034993-16035012 | Msa1279170:CDS | 30.0% | |
| !!! | TCTCATAAGTATTTTGGCTA+AGG | + | chr8_3:16034355-16034374 | Msa1279170:five_prime_UTR | 30.0% |
| AAAATTGAGAGGGAAAATGT+AGG | + | chr8_3:16034505-16034524 | Msa1279170:intron | 30.0% | |
| AAATTGAGAGGGAAAATGTA+GGG | + | chr8_3:16034506-16034525 | Msa1279170:intron | 30.0% | |
| !! | TTTTCTTCGAAAGTTTTGGT+GGG | - | chr8_3:16034621-16034640 | None:intergenic | 30.0% |
| CAATGAACAACCAAAAATCA+AGG | + | chr8_3:16034793-16034812 | Msa1279170:exon | 30.0% | |
| GACTTTGGATAATTAAGCTA+TGG | - | chr8_3:16034913-16034932 | None:intergenic | 30.0% | |
| ! | ATTTCTGCACATGATTAGTT+TGG | - | chr8_3:16034935-16034954 | None:intergenic | 30.0% |
| AATCATGTGCAGAAATATTC+AGG | + | chr8_3:16034939-16034958 | Msa1279170:intron | 30.0% | |
| AAGGATCAAATAGAGATAAC+AGG | + | chr8_3:16034993-16035012 | Msa1279170:CDS | 30.0% | |
| TCCTTTGCTTGAAAATTGAG+AGG | + | chr8_3:16034494-16034513 | Msa1279170:intron | 35.0% | |
| CCTTTGCTTGAAAATTGAGA+GGG | + | chr8_3:16034495-16034514 | Msa1279170:intron | 35.0% | |
| !! | CTTTTCTTCGAAAGTTTTGG+TGG | - | chr8_3:16034622-16034641 | None:intergenic | 35.0% |
| ! | AAGATTGCAGTTGGAGTTTT+AGG | + | chr8_3:16034828-16034847 | Msa1279170:CDS | 35.0% |
| !! | CACATGATTAGTTTGGACTT+TGG | - | chr8_3:16034928-16034947 | None:intergenic | 35.0% |
| AGCTATAAAAGCAGATAGCA+AGG | + | chr8_3:16034974-16034993 | Msa1279170:CDS | 35.0% | |
| TCCTTTGCTTGAAAATTGAG+AGG | + | chr8_3:16034494-16034513 | Msa1279170:intron | 35.0% | |
| CCTTTGCTTGAAAATTGAGA+GGG | + | chr8_3:16034495-16034514 | Msa1279170:intron | 35.0% | |
| !! | CTTTTCTTCGAAAGTTTTGG+TGG | - | chr8_3:16034622-16034641 | None:intergenic | 35.0% |
| ! | AAGATTGCAGTTGGAGTTTT+AGG | + | chr8_3:16034828-16034847 | Msa1279170:CDS | 35.0% |
| !! | CACATGATTAGTTTGGACTT+TGG | - | chr8_3:16034928-16034947 | None:intergenic | 35.0% |
| AGCTATAAAAGCAGATAGCA+AGG | + | chr8_3:16034974-16034993 | Msa1279170:CDS | 35.0% | |
| !! | CCCTCTCAATTTTCAAGCAA+AGG | - | chr8_3:16034498-16034517 | None:intergenic | 40.0% |
| AGGGAAAATGTAGGGAAAGA+GGG | + | chr8_3:16034514-16034533 | Msa1279170:intron | 40.0% | |
| GCAGCAAAAGATAGTGATCA+AGG | + | chr8_3:16034767-16034786 | Msa1279170:intron | 40.0% | |
| AACTCCAACTGCAATCTTCA+TGG | - | chr8_3:16034826-16034845 | None:intergenic | 40.0% | |
| TGTGCAGAAATATTCAGGAG+TGG | + | chr8_3:16034944-16034963 | Msa1279170:intron | 40.0% | |
| TGGTGAAGTGGAAAAGAAAG+AGG | + | chr8_3:16035088-16035107 | Msa1279170:CDS | 40.0% | |
| !! | CCCTCTCAATTTTCAAGCAA+AGG | - | chr8_3:16034498-16034517 | None:intergenic | 40.0% |
| AGGGAAAATGTAGGGAAAGA+GGG | + | chr8_3:16034514-16034533 | Msa1279170:intron | 40.0% | |
| GCAGCAAAAGATAGTGATCA+AGG | + | chr8_3:16034767-16034786 | Msa1279170:intron | 40.0% | |
| AACTCCAACTGCAATCTTCA+TGG | - | chr8_3:16034826-16034845 | None:intergenic | 40.0% | |
| TGTGCAGAAATATTCAGGAG+TGG | + | chr8_3:16034944-16034963 | Msa1279170:intron | 40.0% | |
| TGGTGAAGTGGAAAAGAAAG+AGG | + | chr8_3:16035088-16035107 | Msa1279170:CDS | 40.0% | |
| AGGAGGTAACACTACTTAGC+AGG | - | chr8_3:16034398-16034417 | None:intergenic | 45.0% | |
| GAGGGAAAATGTAGGGAAAG+AGG | + | chr8_3:16034513-16034532 | Msa1279170:intron | 45.0% | |
| GACTTGATGAGCTAGAGAGT+TGG | + | chr8_3:16034692-16034711 | Msa1279170:intron | 45.0% | |
| !!! | TGGCTCTGGACCTTGATTTT+TGG | - | chr8_3:16034806-16034825 | None:intergenic | 45.0% |
| AACTGCAATCTTCATGGCTC+TGG | - | chr8_3:16034820-16034839 | None:intergenic | 45.0% | |
| AGAGCCATGAAGATTGCAGT+TGG | + | chr8_3:16034819-16034838 | Msa1279170:CDS | 45.0% | |
| CATGCAGAATTGGTGAGTGT+TGG | + | chr8_3:16035068-16035087 | Msa1279170:CDS | 45.0% | |
| !! | ATTGGTGAGTGTTGGTGAAG+TGG | + | chr8_3:16035076-16035095 | Msa1279170:CDS | 45.0% |
| AGGAGGTAACACTACTTAGC+AGG | - | chr8_3:16034398-16034417 | None:intergenic | 45.0% | |
| GAGGGAAAATGTAGGGAAAG+AGG | + | chr8_3:16034513-16034532 | Msa1279170:intron | 45.0% | |
| GACTTGATGAGCTAGAGAGT+TGG | + | chr8_3:16034692-16034711 | Msa1279170:intron | 45.0% | |
| !!! | TGGCTCTGGACCTTGATTTT+TGG | - | chr8_3:16034806-16034825 | None:intergenic | 45.0% |
| AACTGCAATCTTCATGGCTC+TGG | - | chr8_3:16034820-16034839 | None:intergenic | 45.0% | |
| AGAGCCATGAAGATTGCAGT+TGG | + | chr8_3:16034819-16034838 | Msa1279170:CDS | 45.0% | |
| CATGCAGAATTGGTGAGTGT+TGG | + | chr8_3:16035068-16035087 | Msa1279170:CDS | 45.0% | |
| !! | ATTGGTGAGTGTTGGTGAAG+TGG | + | chr8_3:16035076-16035095 | Msa1279170:CDS | 45.0% |
| !!! | TAACTATATATTTTAAATAA+AGG | - | chr8_3:16034418-16034437 | None:intergenic | 5.0% |
| !!! | TAACTATATATTTTAAATAA+AGG | - | chr8_3:16034418-16034437 | None:intergenic | 5.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_3 | gene | 16034303 | 16035121 | 16034303 | ID=Msa1279170;Name=Msa1279170 |
| chr8_3 | mRNA | 16034303 | 16035121 | 16034303 | ID=Msa1279170-mRNA-1;Parent=Msa1279170;Name=Msa1279170-mRNA-1;_AED=0.14;_eAED=0.14;_QI=98|1|0.66|1|0|0|3|0|71 |
| chr8_3 | exon | 16034303 | 16034376 | 16034303 | ID=Msa1279170-mRNA-1:exon:6166;Parent=Msa1279170-mRNA-1 |
| chr8_3 | exon | 16034771 | 16034849 | 16034771 | ID=Msa1279170-mRNA-1:exon:6167;Parent=Msa1279170-mRNA-1 |
| chr8_3 | exon | 16034961 | 16035121 | 16034961 | ID=Msa1279170-mRNA-1:exon:6168;Parent=Msa1279170-mRNA-1 |
| chr8_3 | five_prime_UTR | 16034303 | 16034376 | 16034303 | ID=Msa1279170-mRNA-1:five_prime_utr;Parent=Msa1279170-mRNA-1 |
| chr8_3 | five_prime_UTR | 16034771 | 16034794 | 16034771 | ID=Msa1279170-mRNA-1:five_prime_utr;Parent=Msa1279170-mRNA-1 |
| chr8_3 | CDS | 16034795 | 16034849 | 16034795 | ID=Msa1279170-mRNA-1:cds;Parent=Msa1279170-mRNA-1 |
| chr8_3 | CDS | 16034961 | 16035121 | 16034961 | ID=Msa1279170-mRNA-1:cds;Parent=Msa1279170-mRNA-1 |
| Gene Sequence |
| Protein sequence |
