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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0296860 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0296860 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0296860 | A0A396JJY5 | 81.102 | 127 | 21 | 1 | 7 | 130 | 9 | 135 | 2.93e-68 | 214 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0296860 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0296860 | MtrunA17_Chr2g0320521 | 81.102 | 127 | 21 | 1 | 7 | 130 | 9 | 135 | 5.65e-72 | 214 |
| Msa0296860 | MtrunA17_Chr4g0020811 | 64.567 | 127 | 42 | 1 | 7 | 130 | 9 | 135 | 1.41e-51 | 160 |
| Msa0296860 | MtrunA17_Chr2g0308401 | 63.780 | 127 | 43 | 1 | 7 | 130 | 7 | 133 | 5.21e-51 | 159 |
| Msa0296860 | MtrunA17_Chr2g0320561 | 56.452 | 124 | 51 | 1 | 10 | 130 | 10 | 133 | 2.30e-46 | 150 |
| Msa0296860 | MtrunA17_Chr2g0320551 | 55.645 | 124 | 52 | 1 | 10 | 130 | 10 | 133 | 1.33e-45 | 145 |
| Msa0296860 | MtrunA17_Chr1g0179781 | 47.200 | 125 | 55 | 2 | 9 | 130 | 11 | 127 | 1.04e-31 | 111 |
| Msa0296860 | MtrunA17_Chr7g0265291 | 44.961 | 129 | 57 | 4 | 7 | 130 | 10 | 129 | 4.54e-28 | 102 |
| Msa0296860 | MtrunA17_Chr5g0411151 | 40.800 | 125 | 62 | 3 | 9 | 130 | 39 | 154 | 6.56e-27 | 100 |
| Msa0296860 | MtrunA17_Chr4g0040071 | 41.176 | 119 | 60 | 2 | 14 | 130 | 24 | 134 | 1.48e-26 | 98.6 |
| Msa0296860 | MtrunA17_Chr5g0395181 | 41.525 | 118 | 57 | 3 | 16 | 130 | 32 | 140 | 6.86e-26 | 97.1 |
| Msa0296860 | MtrunA17_Chr8g0366581 | 39.831 | 118 | 59 | 3 | 16 | 130 | 44 | 152 | 2.75e-24 | 93.2 |
| Msa0296860 | MtrunA17_Chr7g0230511 | 35.000 | 120 | 66 | 3 | 16 | 133 | 20 | 129 | 8.76e-18 | 76.6 |
| Msa0296860 | MtrunA17_Chr2g0297251 | 36.719 | 128 | 69 | 4 | 5 | 130 | 38 | 155 | 5.32e-17 | 74.7 |
| Msa0296860 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0296860 | AT1G32700.1 | 44.068 | 118 | 54 | 4 | 16 | 130 | 23 | 131 | 5.81e-27 | 100 |
| Msa0296860 | AT4G17900.1 | 46.903 | 113 | 48 | 3 | 16 | 125 | 45 | 148 | 1.23e-26 | 99.8 |
| Msa0296860 | AT4G17900.2 | 46.903 | 113 | 48 | 3 | 16 | 125 | 31 | 134 | 1.33e-26 | 99.0 |
| Msa0296860 | AT1G43000.2 | 41.322 | 121 | 59 | 3 | 16 | 133 | 27 | 138 | 3.49e-24 | 93.2 |
| Msa0296860 | AT1G43000.1 | 41.322 | 121 | 59 | 3 | 16 | 133 | 20 | 131 | 4.19e-24 | 92.8 |
| Msa0296860 | AT2G27930.3 | 40.496 | 121 | 68 | 2 | 14 | 130 | 13 | 133 | 6.92e-24 | 90.9 |
| Msa0296860 | AT2G27930.2 | 40.496 | 121 | 68 | 2 | 14 | 130 | 13 | 133 | 6.92e-24 | 90.9 |
| Msa0296860 | AT2G27930.1 | 40.458 | 131 | 73 | 3 | 7 | 133 | 7 | 136 | 8.98e-24 | 91.3 |
| Msa0296860 | AT2G27930.4 | 40.458 | 131 | 73 | 3 | 7 | 133 | 7 | 136 | 8.98e-24 | 91.3 |
| Msa0296860 | AT1G21000.2 | 39.683 | 126 | 62 | 4 | 10 | 130 | 16 | 132 | 5.79e-23 | 90.5 |
| Msa0296860 | AT1G21000.1 | 39.683 | 126 | 62 | 4 | 10 | 130 | 19 | 135 | 6.46e-23 | 90.5 |
| Msa0296860 | AT1G76590.1 | 39.062 | 128 | 66 | 3 | 10 | 133 | 21 | 140 | 1.68e-22 | 89.4 |
| Msa0296860 | AT1G32700.2 | 44.554 | 101 | 44 | 4 | 33 | 130 | 1 | 92 | 2.19e-21 | 84.7 |
| Msa0296860 | AT5G46710.2 | 36.508 | 126 | 70 | 2 | 2 | 125 | 25 | 142 | 2.54e-19 | 79.3 |
| Msa0296860 | AT5G46710.3 | 39.286 | 112 | 58 | 2 | 16 | 125 | 23 | 126 | 5.14e-19 | 79.3 |
| Msa0296860 | AT5G46710.1 | 39.286 | 112 | 58 | 2 | 16 | 125 | 39 | 142 | 8.28e-19 | 79.3 |
| Msa0296860 | AT3G60670.1 | 36.641 | 131 | 71 | 4 | 5 | 133 | 8 | 128 | 2.51e-16 | 72.8 |
| Msa0296860 | AT2G12646.3 | 39.130 | 115 | 59 | 4 | 16 | 128 | 14 | 119 | 4.25e-15 | 69.7 |
| Msa0296860 | AT2G12646.1 | 36.522 | 115 | 62 | 3 | 16 | 128 | 17 | 122 | 4.45e-15 | 69.7 |
| Msa0296860 | AT2G12646.2 | 36.522 | 115 | 62 | 3 | 16 | 128 | 17 | 122 | 4.45e-15 | 69.7 |
| Msa0296860 | AT1G31040.1 | 35.938 | 128 | 69 | 5 | 5 | 130 | 20 | 136 | 2.07e-14 | 67.8 |
| Msa0296860 | AT2G27930.5 | 38.158 | 76 | 46 | 1 | 56 | 130 | 61 | 136 | 2.28e-11 | 58.9 |
| Msa0296860 | 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 | 2_3:-50431969 | None:intergenic |
| GATTGATATTTACAAGTATT+TGG | 0.197324 | 2_3:+50431884 | Msa0296860:CDS |
| TTTATGCAATATCTGCAAAA+TGG | 0.262466 | 2_3:-50431622 | None:intergenic |
| AGATACAAGATTGGTATAAT+TGG | 0.287922 | 2_3:+50431987 | Msa0296860:CDS |
| AACAATATGTAAAAGTAATA+AGG | 0.299722 | 2_3:-50432059 | None:intergenic |
| CAATCTTGTATCTCATTGAT+TGG | 0.323377 | 2_3:-50431977 | None:intergenic |
| TACAAGTATTTGGACATTCT+AGG | 0.354638 | 2_3:+50431894 | Msa0296860:CDS |
| AATCTTGTATCTCATTGATT+GGG | 0.448397 | 2_3:-50431976 | None:intergenic |
| CGTCTTAAAGACGTCAGTAT+AGG | 0.449989 | 2_3:-50431862 | None:intergenic |
| CAATCAATGAGATACAAGAT+TGG | 0.552028 | 2_3:+50431978 | Msa0296860:CDS |
| AATATGTCAAAGAAATCTTG+TGG | 0.552311 | 2_3:+50432034 | Msa0296860:CDS |
| ATATGTCAAAGAAATCTTGT+GGG | 0.553602 | 2_3:+50432035 | Msa0296860:CDS |
| CGACTGTATTCATAAACAAG+AGG | 0.573759 | 2_3:+50431946 | Msa0296860:CDS |
| AGGATATGATGGTTATGCCC+TGG | 0.608474 | 2_3:+50431495 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTATTTGATTTTTTTTACTT+TGG | + | chr2_3:50431786-50431805 | Msa0296860:intron | 10.0% |
| !!! | TATTTGATTTTTTTTACTTT+GGG | + | chr2_3:50431787-50431806 | Msa0296860:intron | 10.0% |
| !! | AACAATATGTAAAAGTAATA+AGG | - | chr2_3:50432062-50432081 | None:intergenic | 15.0% |
| !! | GATTGATATTTACAAGTATT+TGG | + | chr2_3:50431884-50431903 | Msa0296860:CDS | 20.0% |
| ! | TTTATGCAATATCTGCAAAA+TGG | - | chr2_3:50431625-50431644 | None:intergenic | 25.0% |
| ! | ATTTGTAGTTGCAAATATCA+AGG | - | chr2_3:50431826-50431845 | None:intergenic | 25.0% |
| !! | AATCTTGTATCTCATTGATT+GGG | - | chr2_3:50431979-50431998 | None:intergenic | 25.0% |
| ! | AGATACAAGATTGGTATAAT+TGG | + | chr2_3:50431987-50432006 | Msa0296860:CDS | 25.0% |
| ! | AATATGTCAAAGAAATCTTG+TGG | + | chr2_3:50432034-50432053 | Msa0296860:CDS | 25.0% |
| ! | ATATGTCAAAGAAATCTTGT+GGG | + | chr2_3:50432035-50432054 | Msa0296860:CDS | 25.0% |
| !!! | GCTCATATTTTGACTCATTT+GGG | - | chr2_3:50431570-50431589 | None:intergenic | 30.0% |
| GATATTTGCAACTACAAATC+AGG | + | chr2_3:50431827-50431846 | Msa0296860:intron | 30.0% | |
| TACAAGTATTTGGACATTCT+AGG | + | chr2_3:50431894-50431913 | Msa0296860:CDS | 30.0% | |
| ! | TATCTCATTGATTGGGAATA+AGG | - | chr2_3:50431972-50431991 | None:intergenic | 30.0% |
| CAATCTTGTATCTCATTGAT+TGG | - | chr2_3:50431980-50431999 | None:intergenic | 30.0% | |
| CAATCAATGAGATACAAGAT+TGG | + | chr2_3:50431978-50431997 | Msa0296860:CDS | 30.0% | |
| !! | TGGAAGCAATTTTTCAACCA+GGG | - | chr2_3:50431515-50431534 | None:intergenic | 35.0% |
| !! | TTGGAAGCAATTTTTCAACC+AGG | - | chr2_3:50431516-50431535 | None:intergenic | 35.0% |
| TCAGTGAAAAATGCAGTGAT+TGG | - | chr2_3:50431535-50431554 | None:intergenic | 35.0% | |
| !!! | CGCTCATATTTTGACTCATT+TGG | - | chr2_3:50431571-50431590 | None:intergenic | 35.0% |
| ! | TGACTGTTGTTTAAAGCGAT+AGG | + | chr2_3:50431677-50431696 | Msa0296860:intron | 35.0% |
| CGACTGTATTCATAAACAAG+AGG | + | chr2_3:50431946-50431965 | Msa0296860:CDS | 35.0% | |
| ! | CGCTTTAAACAACAGTCACT+TGG | - | chr2_3:50431675-50431694 | None:intergenic | 40.0% |
| TTGCAACTACAAATCAGGTG+AGG | + | chr2_3:50431832-50431851 | Msa0296860:intron | 40.0% | |
| CGTCTTAAAGACGTCAGTAT+AGG | - | chr2_3:50431865-50431884 | None:intergenic | 40.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_3 | gene | 50431499 | 50432082 | 50431499 | ID=Msa0296860;Name=Msa0296860 |
| chr2_3 | mRNA | 50431499 | 50432082 | 50431499 | ID=Msa0296860-mRNA-1;Parent=Msa0296860;Name=Msa0296860-mRNA-1;_AED=0.14;_eAED=0.18;_QI=0|0|0|1|0|0|2|0|134 |
| chr2_3 | exon | 50431499 | 50431666 | 50431499 | ID=Msa0296860-mRNA-1:exon:15882;Parent=Msa0296860-mRNA-1 |
| chr2_3 | exon | 50431849 | 50432082 | 50431849 | ID=Msa0296860-mRNA-1:exon:15883;Parent=Msa0296860-mRNA-1 |
| chr2_3 | CDS | 50431499 | 50431666 | 50431499 | ID=Msa0296860-mRNA-1:cds;Parent=Msa0296860-mRNA-1 |
| chr2_3 | CDS | 50431849 | 50432082 | 50431849 | ID=Msa0296860-mRNA-1:cds;Parent=Msa0296860-mRNA-1 |
| Gene Sequence |
| Protein sequence |
