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.gene42340.t1 | XP_013462122.1 | 95.6 | 91 | 4 | 0 | 1 | 91 | 1 | 91 | 1.10E-42 | 182.2 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene42340.t1 | F4JVB8 | 58.9 | 90 | 35 | 1 | 3 | 90 | 10 | 99 | 2.2e-23 | 109.4 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene42340.t1 | A0A072V2R8 | 95.6 | 91 | 4 | 0 | 1 | 91 | 1 | 91 | 7.9e-43 | 182.2 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene42340.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.gene42340.t1 | MTR_3g111880 | 95.604 | 91 | 4 | 0 | 1 | 91 | 1 | 91 | 3.58e-63 | 186 |
| MS.gene42340.t1 | MTR_1g022290 | 75.532 | 94 | 19 | 2 | 1 | 91 | 1 | 93 | 4.59e-47 | 145 |
| MS.gene42340.t1 | MTR_3g116720 | 75.385 | 65 | 16 | 0 | 5 | 69 | 14 | 78 | 2.94e-33 | 110 |
| MS.gene42340.t1 | MTR_3g013440 | 57.143 | 91 | 34 | 2 | 1 | 90 | 4 | 90 | 7.71e-32 | 107 |
| MS.gene42340.t1 | MTR_7g089210 | 72.131 | 61 | 17 | 0 | 9 | 69 | 14 | 74 | 6.49e-27 | 94.4 |
| MS.gene42340.t1 | MTR_6g004250 | 57.143 | 70 | 30 | 0 | 2 | 71 | 5 | 74 | 3.97e-26 | 92.4 |
| MS.gene42340.t1 | MTR_5g020170 | 62.687 | 67 | 25 | 0 | 3 | 69 | 15 | 81 | 4.99e-25 | 90.1 |
| MS.gene42340.t1 | MTR_8g077380 | 55.072 | 69 | 30 | 1 | 4 | 72 | 2 | 69 | 1.33e-24 | 88.2 |
| MS.gene42340.t1 | MTR_8g077390 | 55.072 | 69 | 30 | 1 | 4 | 72 | 2 | 69 | 1.33e-24 | 88.2 |
| MS.gene42340.t1 | MTR_8g077360 | 54.286 | 70 | 31 | 1 | 4 | 73 | 2 | 70 | 1.56e-24 | 88.2 |
| MS.gene42340.t1 | MTR_8g077420 | 58.571 | 70 | 28 | 1 | 4 | 73 | 2 | 70 | 8.39e-24 | 86.3 |
| MS.gene42340.t1 | MTR_3g111920 | 52.113 | 71 | 34 | 0 | 6 | 76 | 2 | 72 | 1.10e-22 | 83.6 |
| MS.gene42340.t1 | MTR_1g033600 | 56.522 | 69 | 30 | 0 | 4 | 72 | 9 | 77 | 1.71e-22 | 84.7 |
| MS.gene42340.t1 | MTR_5g020540 | 60.317 | 63 | 24 | 1 | 5 | 67 | 2 | 63 | 5.44e-22 | 81.3 |
| MS.gene42340.t1 | MTR_5g081860 | 55.385 | 65 | 29 | 0 | 5 | 69 | 25 | 89 | 5.99e-21 | 84.0 |
| MS.gene42340.t1 | MTR_8g063870 | 57.576 | 66 | 28 | 0 | 4 | 69 | 5 | 70 | 6.16e-21 | 84.0 |
| MS.gene42340.t1 | MTR_5g069710 | 45.652 | 92 | 39 | 1 | 4 | 84 | 26 | 117 | 6.64e-21 | 84.3 |
| MS.gene42340.t1 | MTR_7g067080 | 50.000 | 78 | 36 | 1 | 5 | 82 | 33 | 107 | 3.42e-20 | 82.4 |
| MS.gene42340.t1 | MTR_8g063600 | 53.623 | 69 | 32 | 0 | 1 | 69 | 4 | 72 | 9.84e-20 | 80.9 |
| MS.gene42340.t1 | MTR_3g462790 | 53.731 | 67 | 31 | 0 | 4 | 70 | 40 | 106 | 4.83e-19 | 79.3 |
| MS.gene42340.t1 | MTR_4g111975 | 46.667 | 75 | 37 | 2 | 2 | 73 | 3 | 77 | 1.50e-17 | 75.1 |
| MS.gene42340.t1 | MTR_1g111830 | 46.269 | 67 | 36 | 0 | 5 | 71 | 22 | 88 | 4.81e-17 | 73.2 |
| MS.gene42340.t1 | MTR_1g086180 | 49.153 | 59 | 29 | 1 | 5 | 62 | 9 | 67 | 3.14e-14 | 62.4 |
| MS.gene42340.t1 | MTR_7g110580 | 49.206 | 63 | 31 | 1 | 3 | 64 | 4 | 66 | 4.27e-14 | 62.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene42340.t1 | AT4G39250 | 58.621 | 87 | 34 | 1 | 7 | 91 | 14 | 100 | 7.45e-32 | 107 |
| MS.gene42340.t1 | AT2G21650 | 57.955 | 88 | 34 | 1 | 7 | 91 | 14 | 101 | 2.01e-31 | 106 |
| MS.gene42340.t1 | AT1G75250 | 72.059 | 68 | 19 | 0 | 2 | 69 | 7 | 74 | 6.03e-31 | 105 |
| MS.gene42340.t1 | AT1G75250 | 72.059 | 68 | 19 | 0 | 2 | 69 | 7 | 74 | 1.13e-30 | 104 |
| MS.gene42340.t1 | AT1G19510 | 68.182 | 66 | 20 | 1 | 10 | 74 | 15 | 80 | 1.08e-25 | 91.7 |
| MS.gene42340.t1 | AT2G18328 | 64.516 | 62 | 22 | 0 | 10 | 71 | 14 | 75 | 3.97e-25 | 89.7 |
| MS.gene42340.t1 | AT2G38090 | 50.725 | 69 | 34 | 0 | 4 | 72 | 26 | 94 | 2.02e-20 | 82.8 |
| MS.gene42340.t1 | AT5G58900 | 53.030 | 66 | 31 | 0 | 4 | 69 | 31 | 96 | 5.86e-20 | 81.6 |
| MS.gene42340.t1 | AT5G05790 | 47.436 | 78 | 39 | 1 | 4 | 79 | 28 | 105 | 1.40e-19 | 80.5 |
| MS.gene42340.t1 | AT5G05790 | 47.436 | 78 | 39 | 1 | 4 | 79 | 28 | 105 | 1.40e-19 | 80.5 |
| MS.gene42340.t1 | AT4G36570 | 72.727 | 44 | 12 | 0 | 7 | 50 | 12 | 55 | 2.30e-18 | 72.0 |
| MS.gene42340.t1 | AT3G11280 | 46.053 | 76 | 38 | 1 | 7 | 79 | 33 | 108 | 1.61e-17 | 74.7 |
| MS.gene42340.t1 | AT3G11280 | 46.053 | 76 | 38 | 1 | 7 | 79 | 33 | 108 | 1.61e-17 | 74.7 |
| MS.gene42340.t1 | AT5G08520 | 44.737 | 76 | 42 | 0 | 1 | 76 | 6 | 81 | 7.51e-16 | 70.5 |
| MS.gene42340.t1 | AT5G01200 | 33.981 | 103 | 50 | 2 | 5 | 89 | 28 | 130 | 5.19e-15 | 68.2 |
| MS.gene42340.t1 | AT1G49010 | 41.250 | 80 | 42 | 2 | 5 | 81 | 6 | 83 | 4.23e-14 | 65.9 |
| MS.gene42340.t1 | AT5G04760 | 40.299 | 67 | 39 | 1 | 3 | 69 | 2 | 67 | 5.73e-13 | 62.0 |
| MS.gene42340.t1 | AT5G23650 | 42.029 | 69 | 40 | 0 | 1 | 69 | 7 | 75 | 5.61e-12 | 60.1 |
Find 26 sgRNAs with CRISPR-Local
Find 41 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCAACATTATTTGTGTAATT+AGG | 0.311673 | 3.2:-89322969 | None:intergenic |
| AGAACCTTGTTGAAGATATT+AGG | 0.315510 | 3.2:+89322919 | MS.gene42340:CDS |
| ACATAATGGATCAAGATAAA+AGG | 0.337165 | 3.2:+89323000 | MS.gene42340:CDS |
| TAATGGCTTCAAGTTCGAAT+TGG | 0.366111 | 3.2:+89322769 | None:intergenic |
| TGTTGGTTACAATTACATAA+TGG | 0.412132 | 3.2:+89322986 | MS.gene42340:CDS |
| CATTATTTGTGTAATTAGGC+AGG | 0.435090 | 3.2:-89322965 | None:intergenic |
| GCCACCTTCTGCCAACGATC+AGG | 0.467098 | 3.2:-89322849 | None:intergenic |
| TGAGAATGCGTTGGCAATGT+TGG | 0.488680 | 3.2:+89322815 | MS.gene42340:CDS |
| TGTAATTAGGCAGGGGAACA+TGG | 0.488710 | 3.2:-89322956 | None:intergenic |
| CCTAATTACACAAATAATGT+TGG | 0.495931 | 3.2:+89322969 | MS.gene42340:CDS |
| AGGCTCTAAGTCTCCACTAA+AGG | 0.510302 | 3.2:+89323491 | MS.gene42340:CDS |
| ATTATTTGTGTAATTAGGCA+GGG | 0.547965 | 3.2:-89322964 | None:intergenic |
| GCAGAAGGTGGCTAGAGCTG+TGG | 0.552998 | 3.2:+89322860 | MS.gene42340:CDS |
| CAAAAGATTTGAGAATGCGT+TGG | 0.553213 | 3.2:+89322806 | MS.gene42340:CDS |
| TCATGCATGATGCAGGATGA+AGG | 0.557115 | 3.2:+89323471 | MS.gene42340:intron |
| CAGAAGGTGGCTAGAGCTGT+GGG | 0.558074 | 3.2:+89322861 | MS.gene42340:CDS |
| CACTCCTGATCGTTGGCAGA+AGG | 0.576549 | 3.2:+89322845 | MS.gene42340:CDS |
| GATATTAGGCAGATCGAGGA+AGG | 0.589514 | 3.2:+89322933 | MS.gene42340:CDS |
| TTATTTGTGTAATTAGGCAG+GGG | 0.601636 | 3.2:-89322963 | None:intergenic |
| TCCTGATCGTTGGCAGAAGG+TGG | 0.602919 | 3.2:+89322848 | MS.gene42340:CDS |
| ACAAGGACACTCCTGATCGT+TGG | 0.625458 | 3.2:+89322838 | MS.gene42340:CDS |
| TGCGTTGGCAATGTTGGACA+AGG | 0.631324 | 3.2:+89322821 | MS.gene42340:CDS |
| TGAAGATATTAGGCAGATCG+AGG | 0.643314 | 3.2:+89322929 | MS.gene42340:CDS |
| AGGTGGCTAGAGCTGTGGGA+GGG | 0.662019 | 3.2:+89322865 | MS.gene42340:CDS |
| AAGGTGGCTAGAGCTGTGGG+AGG | 0.685328 | 3.2:+89322864 | MS.gene42340:CDS |
| TCTGCCTAATATCTTCAACA+AGG | 0.692316 | 3.2:-89322923 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATATTTATATGTTTATAAGT+AGG | + | chr3.2:89323263-89323282 | MS.gene42340:intron | 10.0% |
| !! | GATCAAATAAATAATATAAT+TGG | - | chr3.2:89323426-89323445 | None:intergenic | 10.0% |
| !! | TATATTATTTATTTGATCTC+TGG | + | chr3.2:89323428-89323447 | MS.gene42340:intron | 15.0% |
| !! | GATATTCTTAAAGTTAAGAT+TGG | - | chr3.2:89323333-89323352 | None:intergenic | 20.0% |
| !!! | ATTGCTGTTTTAATTGTTTT+TGG | - | chr3.2:89323201-89323220 | None:intergenic | 20.0% |
| !!! | TGATTTGTTGTAGATTAATA+TGG | + | chr3.2:89323093-89323112 | MS.gene42340:intron | 20.0% |
| !!! | TTGGTTTTATTCAAGTTTTT+TGG | - | chr3.2:89323182-89323201 | None:intergenic | 20.0% |
| !!! | TTTATTCAAGTTTTTTGGTT+TGG | - | chr3.2:89323177-89323196 | None:intergenic | 20.0% |
| ! | ATTATTTGTGTAATTAGGCA+GGG | - | chr3.2:89322967-89322986 | None:intergenic | 25.0% |
| ! | CCAACATTATTTGTGTAATT+AGG | - | chr3.2:89322972-89322991 | None:intergenic | 25.0% |
| ! | CCTAATTACACAAATAATGT+TGG | + | chr3.2:89322969-89322988 | MS.gene42340:CDS | 25.0% |
| ! | TGATTATTATTCATACATGC+AGG | + | chr3.2:89323384-89323403 | MS.gene42340:intron | 25.0% |
| ! | TGCATGTATGAATAATAATC+AGG | - | chr3.2:89323385-89323404 | None:intergenic | 25.0% |
| !! | TGTTGGTTACAATTACATAA+TGG | + | chr3.2:89322986-89323005 | MS.gene42340:CDS | 25.0% |
| !! | TTCATGTGTAACAAACATTT+TGG | - | chr3.2:89323359-89323378 | None:intergenic | 25.0% |
| !!! | ACATAATGGATCAAGATAAA+AGG | + | chr3.2:89323000-89323019 | MS.gene42340:CDS | 25.0% |
| AGAACCTTGTTGAAGATATT+AGG | + | chr3.2:89322919-89322938 | MS.gene42340:CDS | 30.0% | |
| CATTATTTGTGTAATTAGGC+AGG | - | chr3.2:89322968-89322987 | None:intergenic | 30.0% | |
| CTAGTTTCATTGTGTTTGAT+TGG | - | chr3.2:89323126-89323145 | None:intergenic | 30.0% | |
| TTATTTGTGTAATTAGGCAG+GGG | - | chr3.2:89322966-89322985 | None:intergenic | 30.0% | |
| ! | AAATCTTTTGTTCTGCTTTG+TGG | - | chr3.2:89322796-89322815 | None:intergenic | 30.0% |
| ! | ACTTTACATAACTAGCTTGA+AGG | - | chr3.2:89323301-89323320 | None:intergenic | 30.0% |
| !! | CATTGTGTTTGATTGGTTTA+AGG | - | chr3.2:89323119-89323138 | None:intergenic | 30.0% |
| CAAAAGATTTGAGAATGCGT+TGG | + | chr3.2:89322806-89322825 | MS.gene42340:CDS | 35.0% | |
| GTATTTATCATGCATGATGC+AGG | + | chr3.2:89323464-89323483 | MS.gene42340:intron | 35.0% | |
| TCTGCCTAATATCTTCAACA+AGG | - | chr3.2:89322926-89322945 | None:intergenic | 35.0% | |
| TGAAGATATTAGGCAGATCG+AGG | + | chr3.2:89322929-89322948 | MS.gene42340:CDS | 40.0% | |
| GATATTAGGCAGATCGAGGA+AGG | + | chr3.2:89322933-89322952 | MS.gene42340:CDS | 45.0% | |
| TCATGCATGATGCAGGATGA+AGG | + | chr3.2:89323471-89323490 | MS.gene42340:intron | 45.0% | |
| TGTAATTAGGCAGGGGAACA+TGG | - | chr3.2:89322959-89322978 | None:intergenic | 45.0% | |
| ! | TGAGAATGCGTTGGCAATGT+TGG | + | chr3.2:89322815-89322834 | MS.gene42340:CDS | 45.0% |
| !! | TAATATATATAAATTGAAAT+TGG | - | chr3.2:89323050-89323069 | None:intergenic | 5.0% |
| ACAAGGACACTCCTGATCGT+TGG | + | chr3.2:89322838-89322857 | MS.gene42340:CDS | 50.0% | |
| ! | TGCGTTGGCAATGTTGGACA+AGG | + | chr3.2:89322821-89322840 | MS.gene42340:CDS | 50.0% |
| CACTCCTGATCGTTGGCAGA+AGG | + | chr3.2:89322845-89322864 | MS.gene42340:CDS | 55.0% | |
| CAGAAGGTGGCTAGAGCTGT+GGG | + | chr3.2:89322861-89322880 | MS.gene42340:CDS | 55.0% | |
| TCCTGATCGTTGGCAGAAGG+TGG | + | chr3.2:89322848-89322867 | MS.gene42340:CDS | 55.0% | |
| AAGGTGGCTAGAGCTGTGGG+AGG | + | chr3.2:89322864-89322883 | MS.gene42340:CDS | 60.0% | |
| AGGTGGCTAGAGCTGTGGGA+GGG | + | chr3.2:89322865-89322884 | MS.gene42340:CDS | 60.0% | |
| GCAGAAGGTGGCTAGAGCTG+TGG | + | chr3.2:89322860-89322879 | MS.gene42340:CDS | 60.0% | |
| GCCACCTTCTGCCAACGATC+AGG | - | chr3.2:89322852-89322871 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.2 | gene | 89322771 | 89323510 | 89322771 | ID=MS.gene42340 |
| chr3.2 | mRNA | 89322771 | 89323510 | 89322771 | ID=MS.gene42340.t1;Parent=MS.gene42340 |
| chr3.2 | exon | 89322771 | 89323021 | 89322771 | ID=MS.gene42340.t1.exon1;Parent=MS.gene42340.t1 |
| chr3.2 | CDS | 89322771 | 89323021 | 89322771 | ID=cds.MS.gene42340.t1;Parent=MS.gene42340.t1 |
| chr3.2 | exon | 89323486 | 89323510 | 89323486 | ID=MS.gene42340.t1.exon2;Parent=MS.gene42340.t1 |
| chr3.2 | CDS | 89323486 | 89323510 | 89323486 | ID=cds.MS.gene42340.t1;Parent=MS.gene42340.t1 |
| Gene Sequence |
| Protein sequence |
