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.gene80176.t1 | XP_003603279.1 | 99 | 100 | 1 | 0 | 1 | 100 | 1 | 100 | 1.20E-47 | 198.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene80176.t1 | Q9SK39 | 81.0 | 100 | 19 | 0 | 1 | 100 | 1 | 100 | 4.3e-41 | 168.3 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene80176.t1 | G7J9T0 | 99.0 | 100 | 1 | 0 | 1 | 100 | 1 | 100 | 8.9e-48 | 198.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene04920 | MS.gene80176 | -0.804461 | 2.14E-49 | -1.69E-46 |
| MS.gene051832 | MS.gene80176 | -0.820734 | 5.87E-53 | -1.69E-46 |
| MS.gene054641 | MS.gene80176 | -0.802636 | 5.11E-49 | -1.69E-46 |
| MS.gene054892 | MS.gene80176 | -0.81183 | 5.75E-51 | -1.69E-46 |
| MS.gene054893 | MS.gene80176 | -0.807767 | 4.30E-50 | -1.69E-46 |
| MS.gene058429 | MS.gene80176 | -0.805882 | 1.08E-49 | -1.69E-46 |
| MS.gene060259 | MS.gene80176 | -0.803096 | 4.10E-49 | -1.69E-46 |
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.gene80176.t1 | MTR_3g105860 | 99.000 | 100 | 1 | 0 | 1 | 100 | 1 | 100 | 6.31e-70 | 204 |
| MS.gene80176.t1 | MTR_6g027160 | 54.082 | 98 | 45 | 0 | 2 | 99 | 77 | 174 | 1.21e-36 | 122 |
| MS.gene80176.t1 | MTR_6g054890 | 53.608 | 97 | 45 | 0 | 2 | 98 | 72 | 168 | 3.04e-33 | 115 |
| MS.gene80176.t1 | MTR_1g100727 | 53.608 | 97 | 45 | 0 | 2 | 98 | 73 | 169 | 6.08e-33 | 114 |
| MS.gene80176.t1 | MTR_3g081290 | 44.330 | 97 | 54 | 0 | 3 | 99 | 35 | 131 | 1.10e-23 | 90.9 |
| MS.gene80176.t1 | MTR_6g027060 | 49.180 | 61 | 31 | 0 | 36 | 96 | 26 | 86 | 1.43e-15 | 66.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene80176.t1 | AT2G24940 | 81.000 | 100 | 19 | 0 | 1 | 100 | 1 | 100 | 4.00e-57 | 171 |
| MS.gene80176.t1 | AT5G52240 | 53.608 | 97 | 45 | 0 | 2 | 98 | 74 | 170 | 5.89e-35 | 118 |
| MS.gene80176.t1 | AT5G52240 | 53.608 | 97 | 45 | 0 | 2 | 98 | 74 | 170 | 2.28e-34 | 117 |
| MS.gene80176.t1 | AT3G48890 | 52.577 | 97 | 46 | 0 | 2 | 98 | 70 | 166 | 1.65e-32 | 113 |
| MS.gene80176.t1 | AT4G14965 | 42.268 | 97 | 56 | 0 | 3 | 99 | 42 | 138 | 1.17e-20 | 83.2 |
| MS.gene80176.t1 | AT4G14965 | 45.783 | 83 | 45 | 0 | 3 | 85 | 42 | 124 | 4.27e-20 | 80.5 |
Find 30 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACCCTTCACCGCCACGTAGA+TGG | 0.304041 | 3.4:-92415601 | None:intergenic |
| TGCTCTGCTAGCGTCTTTGC+CGG | 0.356636 | 3.4:-92415688 | None:intergenic |
| AGATCGGAGTTCTCAATGAT+TGG | 0.393020 | 3.4:+92415775 | MS.gene80176:CDS |
| CTAACGATGGTGGCAACAAC+AGG | 0.396192 | 3.4:-92415822 | None:intergenic |
| GAGAACTCCGATCTCTTTCT+CGG | 0.397488 | 3.4:-92415766 | None:intergenic |
| GCCCATCTACGTGGCGGTGA+AGG | 0.412629 | 3.4:+92415599 | MS.gene80176:CDS |
| CCCTTCACCGCCACGTAGAT+GGG | 0.426355 | 3.4:-92415600 | None:intergenic |
| AGCGTCTTTGCCGGCGAACA+TGG | 0.474656 | 3.4:-92415679 | None:intergenic |
| GATCGGAGTTCTCAATGATT+GGG | 0.479187 | 3.4:+92415776 | MS.gene80176:CDS |
| AGGGTACTTAGCTACGAACT+TGG | 0.494927 | 3.4:-92415802 | None:intergenic |
| GCCACGTAGATGGGCTTCGA+TGG | 0.508678 | 3.4:-92415591 | None:intergenic |
| GGTAAATCGTTCTACGGTCC+AGG | 0.513945 | 3.4:+92415645 | MS.gene80176:CDS |
| GGAGCCTACGCCATGTTCGC+CGG | 0.517126 | 3.4:+92415669 | MS.gene80176:CDS |
| AACATGGCGTAGGCTCCACC+TGG | 0.521990 | 3.4:-92415663 | None:intergenic |
| GATATCACCTCGTCGCTCGA+TGG | 0.532549 | 3.4:+92415738 | MS.gene80176:CDS |
| TGGACCGTAGAACGATTTAC+CGG | 0.538773 | 3.4:-92415643 | None:intergenic |
| CCCATCTACGTGGCGGTGAA+GGG | 0.540433 | 3.4:+92415600 | MS.gene80176:CDS |
| CCACGTAGATGGGCTTCGAT+GGG | 0.568442 | 3.4:-92415590 | None:intergenic |
| GGACTCACCGAGAAAGAGAT+CGG | 0.584108 | 3.4:+92415759 | MS.gene80176:CDS |
| ACCACCGGTAAATCGTTCTA+CGG | 0.585309 | 3.4:+92415639 | MS.gene80176:CDS |
| TTGAATTAATTAGCTAACGA+TGG | 0.596468 | 3.4:-92415835 | None:intergenic |
| AATTAATTAGCTAACGATGG+TGG | 0.596842 | 3.4:-92415832 | None:intergenic |
| TTTGCCGGCGAACATGGCGT+AGG | 0.602453 | 3.4:-92415673 | None:intergenic |
| AAATCGTTCTACGGTCCAGG+TGG | 0.624678 | 3.4:+92415648 | MS.gene80176:CDS |
| CCCATCGAAGCCCATCTACG+TGG | 0.686677 | 3.4:+92415590 | MS.gene80176:CDS |
| TAACGATGGTGGCAACAACA+GGG | 0.689123 | 3.4:-92415821 | None:intergenic |
| ATCGAAGCCCATCTACGTGG+CGG | 0.707583 | 3.4:+92415593 | MS.gene80176:CDS |
| ACCGTAGAACGATTTACCGG+TGG | 0.721812 | 3.4:-92415640 | None:intergenic |
| CAACAACTGAGCGAATACAA+CGG | 0.745415 | 3.4:+92415561 | MS.gene80176:CDS |
| GGTGAGTCCATCGAGCGACG+AGG | 0.747289 | 3.4:-92415745 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AGATCGGAGTTCTCAATGAT+TGG | + | chr3.4:92415775-92415794 | MS.gene80176:CDS | 40.0% | |
| CAACAACTGAGCGAATACAA+CGG | + | chr3.4:92415561-92415580 | MS.gene80176:CDS | 40.0% | |
| GATCGGAGTTCTCAATGATT+GGG | + | chr3.4:92415776-92415795 | MS.gene80176:CDS | 40.0% | |
| ACCACCGGTAAATCGTTCTA+CGG | + | chr3.4:92415639-92415658 | MS.gene80176:CDS | 45.0% | |
| GAGAACTCCGATCTCTTTCT+CGG | - | chr3.4:92415769-92415788 | None:intergenic | 45.0% | |
| TGGACCGTAGAACGATTTAC+CGG | - | chr3.4:92415646-92415665 | None:intergenic | 45.0% | |
| ! | AGGGTACTTAGCTACGAACT+TGG | - | chr3.4:92415805-92415824 | None:intergenic | 45.0% |
| ! | TAACGATGGTGGCAACAACA+GGG | - | chr3.4:92415824-92415843 | None:intergenic | 45.0% |
| AAATCGTTCTACGGTCCAGG+TGG | + | chr3.4:92415648-92415667 | MS.gene80176:CDS | 50.0% | |
| ACCGTAGAACGATTTACCGG+TGG | - | chr3.4:92415643-92415662 | None:intergenic | 50.0% | |
| GGACTCACCGAGAAAGAGAT+CGG | + | chr3.4:92415759-92415778 | MS.gene80176:CDS | 50.0% | |
| GGTAAATCGTTCTACGGTCC+AGG | + | chr3.4:92415645-92415664 | MS.gene80176:CDS | 50.0% | |
| ! | CTAACGATGGTGGCAACAAC+AGG | - | chr3.4:92415825-92415844 | None:intergenic | 50.0% |
| ATCGAAGCCCATCTACGTGG+CGG | + | chr3.4:92415593-92415612 | MS.gene80176:CDS | 55.0% | |
| GATATCACCTCGTCGCTCGA+TGG | + | chr3.4:92415738-92415757 | MS.gene80176:CDS | 55.0% | |
| TGCTCTGCTAGCGTCTTTGC+CGG | - | chr3.4:92415691-92415710 | None:intergenic | 55.0% | |
| ! | CCACGTAGATGGGCTTCGAT+GGG | - | chr3.4:92415593-92415612 | None:intergenic | 55.0% |
| AACATGGCGTAGGCTCCACC+TGG | - | chr3.4:92415666-92415685 | None:intergenic | 60.0% | |
| ACCCTTCACCGCCACGTAGA+TGG | - | chr3.4:92415604-92415623 | None:intergenic | 60.0% | |
| AGCGTCTTTGCCGGCGAACA+TGG | - | chr3.4:92415682-92415701 | None:intergenic | 60.0% | |
| CCCATCGAAGCCCATCTACG+TGG | + | chr3.4:92415590-92415609 | MS.gene80176:CDS | 60.0% | |
| CCCATCTACGTGGCGGTGAA+GGG | + | chr3.4:92415600-92415619 | MS.gene80176:CDS | 60.0% | |
| CCCTTCACCGCCACGTAGAT+GGG | - | chr3.4:92415603-92415622 | None:intergenic | 60.0% | |
| TTTGCCGGCGAACATGGCGT+AGG | - | chr3.4:92415676-92415695 | None:intergenic | 60.0% | |
| ! | CGCGTTTTCGACGTCACCAC+CGG | + | chr3.4:92415624-92415643 | MS.gene80176:CDS | 60.0% |
| ! | GCCACGTAGATGGGCTTCGA+TGG | - | chr3.4:92415594-92415613 | None:intergenic | 60.0% |
| GCCCATCTACGTGGCGGTGA+AGG | + | chr3.4:92415599-92415618 | MS.gene80176:CDS | 65.0% | |
| GGAGCCTACGCCATGTTCGC+CGG | + | chr3.4:92415669-92415688 | MS.gene80176:CDS | 65.0% | |
| GGTGAGTCCATCGAGCGACG+AGG | - | chr3.4:92415748-92415767 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 92415546 | 92415848 | 92415546 | ID=MS.gene80176 |
| chr3.4 | mRNA | 92415546 | 92415848 | 92415546 | ID=MS.gene80176.t1;Parent=MS.gene80176 |
| chr3.4 | exon | 92415546 | 92415848 | 92415546 | ID=MS.gene80176.t1.exon1;Parent=MS.gene80176.t1 |
| chr3.4 | CDS | 92415546 | 92415848 | 92415546 | ID=cds.MS.gene80176.t1;Parent=MS.gene80176.t1 |
| Gene Sequence |
| Protein sequence |
