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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1008520 | XP_024626129.1 | 70.588 | 119 | 35 | 0 | 1 | 119 | 1 | 119 | 1.13e-42 | 151 |
| Msa1008520 | XP_024626129.1 | 71.765 | 85 | 24 | 0 | 6 | 90 | 178 | 262 | 1.07e-32 | 125 |
| Msa1008520 | XP_024626129.1 | 75.926 | 108 | 26 | 0 | 12 | 119 | 98 | 205 | 3.20e-47 | 163 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1008520 | sp|O04539|SNL4_ARATH | 36.752 | 117 | 69 | 3 | 3 | 116 | 4 | 118 | 2.42e-13 | 68.6 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1008520 | A0A396GZV2 | 70.588 | 119 | 35 | 0 | 1 | 119 | 1 | 119 | 5.39e-43 | 151 |
| Msa1008520 | A0A396GZV2 | 71.765 | 85 | 24 | 0 | 6 | 90 | 178 | 262 | 5.09e-33 | 125 |
| Msa1008520 | A0A396GZV2 | 75.926 | 108 | 26 | 0 | 12 | 119 | 98 | 205 | 1.53e-47 | 163 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa1008520 | TR | Others |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1008520 | MtrunA17_Chr7g0218891 | 75.926 | 108 | 26 | 0 | 12 | 119 | 98 | 205 | 2.94e-51 | 163 |
| Msa1008520 | MtrunA17_Chr7g0218891 | 70.588 | 119 | 35 | 0 | 1 | 119 | 1 | 119 | 1.04e-46 | 151 |
| Msa1008520 | MtrunA17_Chr7g0218891 | 71.765 | 85 | 24 | 0 | 6 | 90 | 178 | 262 | 9.81e-37 | 125 |
| Msa1008520 | MtrunA17_Chr8g0364231 | 43.333 | 90 | 49 | 1 | 29 | 116 | 56 | 145 | 2.34e-17 | 76.6 |
| Msa1008520 | MtrunA17_Chr1g0205801 | 42.308 | 78 | 43 | 1 | 13 | 90 | 12 | 87 | 1.61e-14 | 64.7 |
| Msa1008520 | MtrunA17_Chr5g0415031 | 40.909 | 88 | 50 | 1 | 29 | 114 | 57 | 144 | 1.10e-13 | 66.2 |
| Msa1008520 | MtrunA17_Chr1g0205811 | 41.026 | 78 | 44 | 1 | 13 | 90 | 14 | 89 | 1.31e-13 | 62.4 |
| Msa1008520 | MtrunA17_Chr3g0077891 | 37.168 | 113 | 63 | 3 | 14 | 120 | 9 | 119 | 1.48e-13 | 63.5 |
| Msa1008520 | MtrunA17_Chr1g0205861 | 40.260 | 77 | 44 | 1 | 14 | 90 | 17 | 91 | 4.94e-13 | 60.8 |
| Msa1008520 | MtrunA17_Chr6g0452021 | 35.714 | 98 | 61 | 1 | 14 | 111 | 44 | 139 | 6.26e-13 | 63.9 |
| Msa1008520 | MtrunA17_Chr3g0077881 | 35.644 | 101 | 58 | 2 | 14 | 108 | 9 | 108 | 1.04e-11 | 58.5 |
| Msa1008520 | MtrunA17_Chr6g0452001 | 37.864 | 103 | 60 | 3 | 14 | 114 | 64 | 164 | 2.58e-11 | 59.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1008520 | AT1G70060.2 | 36.752 | 117 | 69 | 3 | 3 | 116 | 4 | 118 | 2.46e-14 | 68.6 |
| Msa1008520 | AT1G70060.1 | 36.752 | 117 | 69 | 3 | 3 | 116 | 4 | 118 | 2.46e-14 | 68.6 |
| Msa1008520 | AT1G24190.3 | 36.207 | 116 | 70 | 3 | 3 | 116 | 4 | 117 | 4.71e-14 | 67.4 |
| Msa1008520 | AT1G24190.1 | 36.207 | 116 | 70 | 3 | 3 | 116 | 4 | 117 | 4.85e-14 | 67.4 |
| Msa1008520 | AT1G24190.2 | 36.207 | 116 | 70 | 3 | 3 | 116 | 4 | 117 | 5.14e-14 | 67.4 |
| Msa1008520 | AT5G15020.1 | 39.796 | 98 | 57 | 2 | 14 | 111 | 53 | 148 | 8.17e-13 | 63.9 |
| Msa1008520 | AT5G15020.2 | 39.796 | 98 | 57 | 2 | 14 | 111 | 53 | 148 | 8.49e-13 | 63.9 |
| Msa1008520 | AT1G59890.2 | 37.864 | 103 | 62 | 2 | 14 | 116 | 46 | 146 | 9.10e-13 | 63.9 |
| Msa1008520 | AT1G59890.3 | 37.864 | 103 | 62 | 2 | 14 | 116 | 46 | 146 | 9.74e-13 | 63.9 |
| Msa1008520 | AT1G59890.1 | 37.864 | 103 | 62 | 2 | 14 | 116 | 46 | 146 | 9.74e-13 | 63.9 |
| Msa1008520 | AT1G59890.4 | 37.864 | 103 | 62 | 2 | 14 | 116 | 46 | 146 | 1.03e-12 | 63.5 |
| Msa1008520 | AT3G01320.2 | 38.835 | 103 | 58 | 3 | 14 | 114 | 58 | 157 | 8.71e-12 | 61.2 |
| Msa1008520 | AT3G01320.1 | 38.835 | 103 | 58 | 3 | 14 | 114 | 58 | 157 | 8.97e-12 | 61.2 |
Find 23 sgRNAs with CRISPR-Local
Find 28 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGACAAATTCTTCGGCATTT+TGG | 0.119790 | 7_1:+8963511 | None:intergenic |
| AAAATATTGAAGGAATTATT+TGG | 0.197037 | 7_1:-8963636 | Msa1008520:CDS |
| AACTTCATTGACAAATTCTT+TGG | 0.276334 | 7_1:+8963872 | None:intergenic |
| GGAACATTGTGAAGCCAAAA+AGG | 0.355327 | 7_1:-8963895 | Msa1008520:CDS |
| ATAGACTTATTCAAGATAAC+AGG | 0.403886 | 7_1:-8963476 | Msa1008520:CDS |
| AACTTCAATGACAAATTCTT+CGG | 0.410704 | 7_1:+8963503 | None:intergenic |
| ATCGGAGGAAGAACAATCTC+TGG | 0.462699 | 7_1:-8963547 | Msa1008520:CDS |
| TGATGACTTTCTGAAAGTCT+TGG | 0.476784 | 7_1:-8963811 | Msa1008520:CDS |
| AGCTTGATTTCATATCCATC+TGG | 0.485942 | 7_1:+8963573 | None:intergenic |
| TGACTTTCTGAAAGTCTTGG+AGG | 0.503843 | 7_1:-8963808 | Msa1008520:CDS |
| AGGATTGATGTTGCGAATCT+CGG | 0.508764 | 7_1:-8963660 | Msa1008520:CDS |
| ACAGGAGGGATAAGTATTGA+AGG | 0.519951 | 7_1:-8963458 | None:intergenic |
| AGAGATTGTTCTTCCTCCGA+TGG | 0.523937 | 7_1:+8963549 | None:intergenic |
| GAATCTCGGTAAAATATTGA+AGG | 0.524482 | 7_1:-8963646 | Msa1008520:CDS |
| GACTTTCTGAAAGTCTTGGA+GGG | 0.543760 | 7_1:-8963807 | Msa1008520:CDS |
| ATATTGAAGGAATTATTTGG+AGG | 0.565074 | 7_1:-8963633 | Msa1008520:CDS |
| TTGAAATACTACATGCCAGA+TGG | 0.575885 | 7_1:-8963588 | Msa1008520:CDS |
| GACTTATTCAAGATAACAGG+AGG | 0.601734 | 7_1:-8963473 | Msa1008520:CDS |
| TGAAATCAAGCTTCCATCGG+AGG | 0.614151 | 7_1:-8963562 | Msa1008520:CDS |
| GGGCAACCCGAGATAATGAA+AGG | 0.629230 | 7_1:-8963927 | None:intergenic |
| TGGAGGGTTACAAGACACAA+AGG | 0.650188 | 7_1:-8963791 | Msa1008520:intron |
| ATATGAAATCAAGCTTCCAT+CGG | 0.662074 | 7_1:-8963565 | Msa1008520:CDS |
| ACTTATTCAAGATAACAGGA+GGG | 0.709522 | 7_1:-8963472 | Msa1008520:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTTTATTATATTGTTAGA+TGG | - | chr7_1:8963633-8963652 | Msa1008520:CDS | 10.0% |
| !! | AAAATATTGAAGGAATTATT+TGG | - | chr7_1:8963737-8963756 | Msa1008520:intron | 15.0% |
| !!! | ATCTAATTTATCTATCCTTT+TGG | - | chr7_1:8963680-8963699 | Msa1008520:intron | 20.0% |
| ! | AACTTCATTGACAAATTCTT+TGG | + | chr7_1:8963504-8963523 | None:intergenic | 25.0% |
| ! | ATATTGAAGGAATTATTTGG+AGG | - | chr7_1:8963740-8963759 | Msa1008520:intron | 25.0% |
| ! | AACTTCAATGACAAATTCTT+CGG | + | chr7_1:8963873-8963892 | None:intergenic | 25.0% |
| ! | ATAGACTTATTCAAGATAAC+AGG | - | chr7_1:8963897-8963916 | Msa1008520:CDS | 25.0% |
| ! | ATCCTTTTGGTACATTTTGT+AGG | - | chr7_1:8963693-8963712 | Msa1008520:intron | 30.0% |
| ATCCTACAAAATGTACCAAA+AGG | + | chr7_1:8963698-8963717 | None:intergenic | 30.0% | |
| GAATCTCGGTAAAATATTGA+AGG | - | chr7_1:8963727-8963746 | Msa1008520:intron | 30.0% | |
| ATATGAAATCAAGCTTCCAT+CGG | - | chr7_1:8963808-8963827 | Msa1008520:CDS | 30.0% | |
| ACTTATTCAAGATAACAGGA+GGG | - | chr7_1:8963901-8963920 | Msa1008520:CDS | 30.0% | |
| !! | GACAAATTCTTTGGCCTTTT+TGG | + | chr7_1:8963495-8963514 | None:intergenic | 35.0% |
| ! | TGATGACTTTCTGAAAGTCT+TGG | - | chr7_1:8963562-8963581 | Msa1008520:CDS | 35.0% |
| TTGAAATACTACATGCCAGA+TGG | - | chr7_1:8963785-8963804 | Msa1008520:intron | 35.0% | |
| AGCTTGATTTCATATCCATC+TGG | + | chr7_1:8963803-8963822 | None:intergenic | 35.0% | |
| ! | GACAAATTCTTCGGCATTTT+GGG | + | chr7_1:8963864-8963883 | None:intergenic | 35.0% |
| ! | TGACAAATTCTTCGGCATTT+TGG | + | chr7_1:8963865-8963884 | None:intergenic | 35.0% |
| GACTTATTCAAGATAACAGG+AGG | - | chr7_1:8963900-8963919 | Msa1008520:CDS | 35.0% | |
| GGAACATTGTGAAGCCAAAA+AGG | - | chr7_1:8963478-8963497 | Msa1008520:CDS | 40.0% | |
| ! | TGACTTTCTGAAAGTCTTGG+AGG | - | chr7_1:8963565-8963584 | Msa1008520:CDS | 40.0% |
| ! | GACTTTCTGAAAGTCTTGGA+GGG | - | chr7_1:8963566-8963585 | Msa1008520:CDS | 40.0% |
| AGGATTGATGTTGCGAATCT+CGG | - | chr7_1:8963713-8963732 | Msa1008520:intron | 40.0% | |
| TGGAGGGTTACAAGACACAA+AGG | - | chr7_1:8963582-8963601 | Msa1008520:CDS | 45.0% | |
| TGAAATCAAGCTTCCATCGG+AGG | - | chr7_1:8963811-8963830 | Msa1008520:CDS | 45.0% | |
| AGAGATTGTTCTTCCTCCGA+TGG | + | chr7_1:8963827-8963846 | None:intergenic | 45.0% | |
| ATCGGAGGAAGAACAATCTC+TGG | - | chr7_1:8963826-8963845 | Msa1008520:CDS | 45.0% | |
| !! | TAATAAAAAAAATAAATTAG+TGG | + | chr7_1:8963623-8963642 | None:intergenic | 5.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_1 | gene | 8963461 | 8963934 | 8963461 | ID=Msa1008520;Name=Msa1008520 |
| chr7_1 | mRNA | 8963461 | 8963934 | 8963461 | ID=Msa1008520-mRNA-1;Parent=Msa1008520;Name=Msa1008520-mRNA-1;_AED=0.39;_eAED=0.39;_QI=0|0|0|1|1|1|2|0|120 |
| chr7_1 | exon | 8963792 | 8963934 | 8963792 | ID=Msa1008520-mRNA-1:exon:2606;Parent=Msa1008520-mRNA-1 |
| chr7_1 | exon | 8963461 | 8963680 | 8963461 | ID=Msa1008520-mRNA-1:exon:2605;Parent=Msa1008520-mRNA-1 |
| chr7_1 | CDS | 8963792 | 8963934 | 8963792 | ID=Msa1008520-mRNA-1:cds;Parent=Msa1008520-mRNA-1 |
| chr7_1 | CDS | 8963461 | 8963680 | 8963461 | ID=Msa1008520-mRNA-1:cds;Parent=Msa1008520-mRNA-1 |
| Gene Sequence |
| Protein sequence |
