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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1338410 | RHN75377.1 | 81.102 | 127 | 21 | 1 | 7 | 130 | 9 | 135 | 6.14e-68 | 214 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1338410 | sp|Q1G3Q4|RITF1_ARATH | 36.522 | 115 | 62 | 3 | 16 | 128 | 17 | 122 | 4.38e-14 | 69.7 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1338410 | A0A396JJY5 | 81.102 | 127 | 21 | 1 | 7 | 130 | 9 | 135 | 2.93e-68 | 214 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1338410 | TF | PLATZ |
| Gene ID | Type | Classification |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1338410 | MtrunA17_Chr2g0320521 | 81.102 | 127 | 21 | 1 | 7 | 130 | 9 | 135 | 5.65e-72 | 214 |
| Msa1338410 | MtrunA17_Chr4g0020811 | 64.567 | 127 | 42 | 1 | 7 | 130 | 9 | 135 | 1.41e-51 | 160 |
| Msa1338410 | MtrunA17_Chr2g0308401 | 63.780 | 127 | 43 | 1 | 7 | 130 | 7 | 133 | 5.21e-51 | 159 |
| Msa1338410 | MtrunA17_Chr2g0320561 | 56.452 | 124 | 51 | 1 | 10 | 130 | 10 | 133 | 2.30e-46 | 150 |
| Msa1338410 | MtrunA17_Chr2g0320551 | 55.645 | 124 | 52 | 1 | 10 | 130 | 10 | 133 | 1.33e-45 | 145 |
| Msa1338410 | MtrunA17_Chr1g0179781 | 47.200 | 125 | 55 | 2 | 9 | 130 | 11 | 127 | 1.04e-31 | 111 |
| Msa1338410 | MtrunA17_Chr7g0265291 | 44.961 | 129 | 57 | 4 | 7 | 130 | 10 | 129 | 4.54e-28 | 102 |
| Msa1338410 | MtrunA17_Chr5g0411151 | 40.800 | 125 | 62 | 3 | 9 | 130 | 39 | 154 | 6.56e-27 | 100 |
| Msa1338410 | MtrunA17_Chr4g0040071 | 41.176 | 119 | 60 | 2 | 14 | 130 | 24 | 134 | 1.48e-26 | 98.6 |
| Msa1338410 | MtrunA17_Chr5g0395181 | 41.525 | 118 | 57 | 3 | 16 | 130 | 32 | 140 | 6.86e-26 | 97.1 |
| Msa1338410 | MtrunA17_Chr8g0366581 | 39.831 | 118 | 59 | 3 | 16 | 130 | 44 | 152 | 2.75e-24 | 93.2 |
| Msa1338410 | MtrunA17_Chr7g0230511 | 35.000 | 120 | 66 | 3 | 16 | 133 | 20 | 129 | 8.76e-18 | 76.6 |
| Msa1338410 | MtrunA17_Chr2g0297251 | 36.719 | 128 | 69 | 4 | 5 | 130 | 38 | 155 | 5.32e-17 | 74.7 |
| Msa1338410 | MtrunA17_Chr4g0065041 | 37.391 | 115 | 61 | 4 | 16 | 128 | 19 | 124 | 4.78e-14 | 66.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1338410 | AT1G32700.1 | 44.068 | 118 | 54 | 4 | 16 | 130 | 23 | 131 | 5.81e-27 | 100 |
| Msa1338410 | AT4G17900.1 | 46.903 | 113 | 48 | 3 | 16 | 125 | 45 | 148 | 1.23e-26 | 99.8 |
| Msa1338410 | AT4G17900.2 | 46.903 | 113 | 48 | 3 | 16 | 125 | 31 | 134 | 1.33e-26 | 99.0 |
| Msa1338410 | AT1G43000.2 | 41.322 | 121 | 59 | 3 | 16 | 133 | 27 | 138 | 3.49e-24 | 93.2 |
| Msa1338410 | AT1G43000.1 | 41.322 | 121 | 59 | 3 | 16 | 133 | 20 | 131 | 4.19e-24 | 92.8 |
| Msa1338410 | AT2G27930.3 | 40.496 | 121 | 68 | 2 | 14 | 130 | 13 | 133 | 6.92e-24 | 90.9 |
| Msa1338410 | AT2G27930.2 | 40.496 | 121 | 68 | 2 | 14 | 130 | 13 | 133 | 6.92e-24 | 90.9 |
| Msa1338410 | AT2G27930.1 | 40.458 | 131 | 73 | 3 | 7 | 133 | 7 | 136 | 8.98e-24 | 91.3 |
| Msa1338410 | AT2G27930.4 | 40.458 | 131 | 73 | 3 | 7 | 133 | 7 | 136 | 8.98e-24 | 91.3 |
| Msa1338410 | AT1G21000.2 | 39.683 | 126 | 62 | 4 | 10 | 130 | 16 | 132 | 5.79e-23 | 90.5 |
| Msa1338410 | AT1G21000.1 | 39.683 | 126 | 62 | 4 | 10 | 130 | 19 | 135 | 6.46e-23 | 90.5 |
| Msa1338410 | AT1G76590.1 | 39.062 | 128 | 66 | 3 | 10 | 133 | 21 | 140 | 1.68e-22 | 89.4 |
| Msa1338410 | AT1G32700.2 | 44.554 | 101 | 44 | 4 | 33 | 130 | 1 | 92 | 2.19e-21 | 84.7 |
| Msa1338410 | AT5G46710.2 | 36.508 | 126 | 70 | 2 | 2 | 125 | 25 | 142 | 2.54e-19 | 79.3 |
| Msa1338410 | AT5G46710.3 | 39.286 | 112 | 58 | 2 | 16 | 125 | 23 | 126 | 5.14e-19 | 79.3 |
| Msa1338410 | AT5G46710.1 | 39.286 | 112 | 58 | 2 | 16 | 125 | 39 | 142 | 8.28e-19 | 79.3 |
| Msa1338410 | AT3G60670.1 | 36.641 | 131 | 71 | 4 | 5 | 133 | 8 | 128 | 2.51e-16 | 72.8 |
| Msa1338410 | AT2G12646.3 | 39.130 | 115 | 59 | 4 | 16 | 128 | 14 | 119 | 4.25e-15 | 69.7 |
| Msa1338410 | AT2G12646.1 | 36.522 | 115 | 62 | 3 | 16 | 128 | 17 | 122 | 4.45e-15 | 69.7 |
| Msa1338410 | AT2G12646.2 | 36.522 | 115 | 62 | 3 | 16 | 128 | 17 | 122 | 4.45e-15 | 69.7 |
| Msa1338410 | AT1G31040.1 | 35.938 | 128 | 69 | 5 | 5 | 130 | 20 | 136 | 2.07e-14 | 67.8 |
| Msa1338410 | AT2G27930.5 | 38.158 | 76 | 46 | 1 | 56 | 130 | 61 | 136 | 2.28e-11 | 58.9 |
| Msa1338410 | AT2G27930.6 | 38.158 | 76 | 46 | 1 | 56 | 130 | 61 | 136 | 2.28e-11 | 58.9 |
Find 14 sgRNAs with CRISPR-Local
Find 25 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TATCTCATTGATTGGGAATA+AGG | 0.167816 | tig0002106:-5979 | Msa1338410:intergenic |
| GATTGATATTTACAAGTATT+TGG | 0.197324 | tig0002106:+5894 | Msa1338410:CDS |
| TTTATGCAATATCTGCAAAA+TGG | 0.262466 | tig0002106:-5632 | Msa1338410:intergenic |
| AGATACAAGATTGGTATAAT+TGG | 0.287922 | tig0002106:+5997 | Msa1338410:CDS |
| AACAATATGTAAAAGTAATA+AGG | 0.299722 | tig0002106:-6069 | Msa1338410:intergenic |
| CAATCTTGTATCTCATTGAT+TGG | 0.323377 | tig0002106:-5987 | Msa1338410:intergenic |
| TACAAGTATTTGGACATTCT+AGG | 0.354638 | tig0002106:+5904 | Msa1338410:CDS |
| AATCTTGTATCTCATTGATT+GGG | 0.448397 | tig0002106:-5986 | Msa1338410:intergenic |
| CGTCTTAAAGACGTCAGTAT+AGG | 0.449989 | tig0002106:-5872 | Msa1338410:intergenic |
| CAATCAATGAGATACAAGAT+TGG | 0.552028 | tig0002106:+5988 | Msa1338410:CDS |
| AATATGTCAAAGAAATCTTG+TGG | 0.552311 | tig0002106:+6044 | Msa1338410:CDS |
| ATATGTCAAAGAAATCTTGT+GGG | 0.553602 | tig0002106:+6045 | Msa1338410:CDS |
| CGACTGTATTCATAAACAAG+AGG | 0.573759 | tig0002106:+5956 | Msa1338410:CDS |
| AGGATATGATGGTTATGCCC+TGG | 0.608474 | tig0002106:+5505 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTATTTGATTTTTTTTACTT+TGG | + | tig0002106:5796-5815 | Msa1338410:intron | 10.0% |
| !!! | TATTTGATTTTTTTTACTTT+GGG | + | tig0002106:5797-5816 | Msa1338410:intron | 10.0% |
| !! | AACAATATGTAAAAGTAATA+AGG | - | tig0002106:6072-6091 | Msa1338410:intergenic | 15.0% |
| !! | GATTGATATTTACAAGTATT+TGG | + | tig0002106:5894-5913 | Msa1338410:CDS | 20.0% |
| ! | TTTATGCAATATCTGCAAAA+TGG | - | tig0002106:5635-5654 | Msa1398630:intergenic | 25.0% |
| ! | ATTTGTAGTTGCAAATATCA+AGG | - | tig0002106:5836-5855 | Msa1338410:intergenic | 25.0% |
| !! | AATCTTGTATCTCATTGATT+GGG | - | tig0002106:5989-6008 | Msa1338410:intergenic | 25.0% |
| ! | AGATACAAGATTGGTATAAT+TGG | + | tig0002106:5997-6016 | Msa1338410:CDS | 25.0% |
| ! | AATATGTCAAAGAAATCTTG+TGG | + | tig0002106:6044-6063 | Msa1338410:CDS | 25.0% |
| ! | ATATGTCAAAGAAATCTTGT+GGG | + | tig0002106:6045-6064 | Msa1338410:CDS | 25.0% |
| !!! | GCTCATATTTTGACTCATTT+GGG | - | tig0002106:5580-5599 | Msa1398630:intergenic | 30.0% |
| GATATTTGCAACTACAAATC+AGG | + | tig0002106:5837-5856 | Msa1338410:intron | 30.0% | |
| TACAAGTATTTGGACATTCT+AGG | + | tig0002106:5904-5923 | Msa1338410:CDS | 30.0% | |
| ! | TATCTCATTGATTGGGAATA+AGG | - | tig0002106:5982-6001 | Msa1338410:intergenic | 30.0% |
| CAATCTTGTATCTCATTGAT+TGG | - | tig0002106:5990-6009 | Msa1338410:intergenic | 30.0% | |
| CAATCAATGAGATACAAGAT+TGG | + | tig0002106:5988-6007 | Msa1338410:CDS | 30.0% | |
| !! | TGGAAGCAATTTTTCAACCA+GGG | - | tig0002106:5525-5544 | Msa1398630:intergenic | 35.0% |
| !! | TTGGAAGCAATTTTTCAACC+AGG | - | tig0002106:5526-5545 | Msa1398630:intergenic | 35.0% |
| TCAGTGAAAAATGCAGTGAT+TGG | - | tig0002106:5545-5564 | Msa1398630:intergenic | 35.0% | |
| !!! | CGCTCATATTTTGACTCATT+TGG | - | tig0002106:5581-5600 | Msa1398630:intergenic | 35.0% |
| ! | TGACTGTTGTTTAAAGCGAT+AGG | + | tig0002106:5687-5706 | Msa1338410:intron | 35.0% |
| CGACTGTATTCATAAACAAG+AGG | + | tig0002106:5956-5975 | Msa1338410:CDS | 35.0% | |
| ! | CGCTTTAAACAACAGTCACT+TGG | - | tig0002106:5685-5704 | Msa1398630:intergenic | 40.0% |
| TTGCAACTACAAATCAGGTG+AGG | + | tig0002106:5842-5861 | Msa1338410:intron | 40.0% | |
| CGTCTTAAAGACGTCAGTAT+AGG | - | tig0002106:5875-5894 | Msa1338410:intergenic | 40.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0002106 | gene | 5509 | 6092 | 5509 | ID=Msa1338410;Name=Msa1338410 |
| tig0002106 | mRNA | 5509 | 6092 | 5509 | ID=Msa1338410-mRNA-1;Parent=Msa1338410;Name=Msa1338410-mRNA-1;_AED=0.14;_eAED=0.18;_QI=0|0|0|1|1|0.5|2|0|134 |
| tig0002106 | exon | 5509 | 5676 | 5509 | ID=Msa1338410-mRNA-1:exon:1647;Parent=Msa1338410-mRNA-1 |
| tig0002106 | exon | 5859 | 6092 | 5859 | ID=Msa1338410-mRNA-1:exon:1648;Parent=Msa1338410-mRNA-1 |
| tig0002106 | CDS | 5509 | 5676 | 5509 | ID=Msa1338410-mRNA-1:cds;Parent=Msa1338410-mRNA-1 |
| tig0002106 | CDS | 5859 | 6092 | 5859 | ID=Msa1338410-mRNA-1:cds;Parent=Msa1338410-mRNA-1 |
| Gene Sequence |
| Protein sequence |
