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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0973800 | XP_013450912.1 | 84.000 | 225 | 13 | 3 | 1 | 225 | 1 | 202 | 5.21e-128 | 370 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0973800 | sp|Q9STS6|LBD27_ARATH | 55.340 | 103 | 46 | 0 | 5 | 107 | 30 | 132 | 3.19e-33 | 125 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0973800 | A0A072U5L7 | 84.000 | 225 | 13 | 3 | 1 | 225 | 1 | 202 | 2.49e-128 | 370 |
Co-expression Network
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0973800 | MtrunA17_Chr6g0452671 | 84.000 | 225 | 13 | 3 | 1 | 225 | 1 | 202 | 4.79e-132 | 370 |
| Msa0973800 | MtrunA17_Chr6g0452661 | 46.185 | 249 | 88 | 7 | 9 | 231 | 7 | 235 | 5.97e-61 | 192 |
| Msa0973800 | MtrunA17_Chr5g0439111 | 46.473 | 241 | 97 | 7 | 9 | 230 | 7 | 234 | 6.42e-53 | 171 |
| Msa0973800 | MtrunA17_Chr6g0452691 | 52.439 | 164 | 65 | 4 | 1 | 160 | 1 | 155 | 5.87e-49 | 159 |
| Msa0973800 | MtrunA17_Chr4g0055441 | 51.190 | 168 | 54 | 5 | 12 | 178 | 3 | 143 | 4.04e-48 | 156 |
| Msa0973800 | MtrunA17_Chr4g0059901 | 50.450 | 111 | 55 | 0 | 5 | 115 | 4 | 114 | 1.00e-34 | 125 |
| Msa0973800 | MtrunA17_Chr8g0342351 | 55.000 | 100 | 45 | 0 | 8 | 107 | 9 | 108 | 9.53e-34 | 122 |
| Msa0973800 | MtrunA17_Chr2g0330201 | 47.706 | 109 | 57 | 0 | 8 | 116 | 16 | 124 | 4.07e-30 | 114 |
| Msa0973800 | MtrunA17_Chr3g0115431 | 44.000 | 100 | 56 | 0 | 9 | 108 | 7 | 106 | 1.06e-26 | 102 |
| Msa0973800 | MtrunA17_Chr2g0311601 | 38.182 | 110 | 68 | 0 | 8 | 117 | 10 | 119 | 1.08e-26 | 101 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0973800 | AT3G47870.1 | 55.340 | 103 | 46 | 0 | 5 | 107 | 30 | 132 | 3.24e-34 | 125 |
| Msa0973800 | AT3G13850.1 | 43.137 | 153 | 82 | 3 | 10 | 159 | 35 | 185 | 1.36e-30 | 114 |
| Msa0973800 | AT1G72980.1 | 45.238 | 126 | 65 | 2 | 6 | 128 | 8 | 132 | 5.11e-29 | 108 |
| Msa0973800 | AT1G65620.1 | 49.398 | 83 | 42 | 0 | 8 | 90 | 6 | 88 | 1.37e-26 | 102 |
| Msa0973800 | AT1G65620.4 | 49.398 | 83 | 42 | 0 | 8 | 90 | 6 | 88 | 1.37e-26 | 102 |
| Msa0973800 | AT1G65620.3 | 49.398 | 83 | 42 | 0 | 8 | 90 | 6 | 88 | 1.37e-26 | 102 |
| Msa0973800 | AT1G65620.5 | 49.398 | 83 | 42 | 0 | 8 | 90 | 6 | 88 | 1.37e-26 | 102 |
| Msa0973800 | AT1G65620.2 | 49.398 | 83 | 42 | 0 | 8 | 90 | 6 | 88 | 1.37e-26 | 102 |
| Msa0973800 | AT3G27650.1 | 44.330 | 97 | 54 | 0 | 8 | 104 | 36 | 132 | 1.61e-26 | 100 |
| Msa0973800 | AT3G26660.1 | 43.158 | 95 | 54 | 0 | 10 | 104 | 4 | 98 | 1.65e-26 | 99.8 |
Find 42 sgRNAs with CRISPR-Local
Find 208 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATATCAGATGCCGATAA+AGG | 0.366493 | 6_4:+6520259 | Msa0973800:CDS |
| AAAATTTGATTTAAGGGAAA+AGG | 0.388332 | 6_4:+6520234 | Msa0973800:CDS |
| AACACTTGTGGTTTATCAGC+AGG | 0.459111 | 6_4:-6519683 | None:intergenic |
| AAGTCTGGTTTGGTATCAAT+TGG | 0.352922 | 6_4:-6520058 | None:intergenic |
| ACATCAAGACATCCACCAAC+AGG | 0.415425 | 6_4:-6519830 | None:intergenic |
| AGAATGATCAATTGATAAGT+AGG | 0.435407 | 6_4:-6519966 | None:intergenic |
| AGGGTTACACAATTGATTAG+TGG | 0.501559 | 6_4:+6520106 | Msa0973800:CDS |
| AGTCTGGTTTGGTATCAATT+GGG | 0.496674 | 6_4:-6520057 | None:intergenic |
| AGTGGTGTTAGCAATAGTGG+TGG | 0.717746 | 6_4:+6520124 | Msa0973800:CDS |
| ATAAAATTAGTTTCAAAGTC+TGG | 0.359506 | 6_4:-6520073 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GGGATGTCATAATAAGAATT+CGG | - | chr6_4:6520019-6520038 | None:intergenic | 30.0% | |
| GGTTAATAGTAACATTACGA+GGG | - | chr6_4:6520039-6520058 | None:intergenic | 30.0% | |
| GGAAGAAAAATCTAACTTGA+TGG | + | chr6_4:6520159-6520178 | Msa0973800:CDS | 30.0% | |
| GATCCAATAATTCTTCACAA+TGG | - | chr6_4:6520201-6520220 | None:intergenic | 30.0% | |
| AAAATATCAGATGCCGATAA+AGG | + | chr6_4:6520259-6520278 | Msa0973800:CDS | 30.0% | |
| ATTATGGAAAAGAATGTGCA+CGG | - | chr6_4:6520636-6520655 | None:intergenic | 30.0% | |
| GAAATTCAAAATAAAGGACC+AGG | - | chr6_4:6520742-6520761 | None:intergenic | 30.0% | |
| AGACTAGATTGTAGAGAATA+GGG | - | chr6_4:6521066-6521085 | None:intergenic | 30.0% | |
| GGGATGTCATAATAAGAATT+CGG | - | chr6_4:6520019-6520038 | None:intergenic | 30.0% | |
| GGTTAATAGTAACATTACGA+GGG | - | chr6_4:6520039-6520058 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_4 | gene | 6519587 | 6521377 | 6519587 | ID=Msa0973800;Name=Msa0973800 |
| chr6_4 | mRNA | 6519587 | 6521377 | 6519587 | ID=Msa0973800-mRNA-1;Parent=Msa0973800;Name=Msa0973800-mRNA-1;_AED=0.28;_eAED=0.28;_QI=0|0|0|0.5|1|1|2|0|241 |
| chr6_4 | exon | 6519587 | 6520291 | 6519587 | ID=Msa0973800-mRNA-1:exon:2633;Parent=Msa0973800-mRNA-1 |
| chr6_4 | exon | 6521357 | 6521377 | 6521357 | ID=Msa0973800-mRNA-1:exon:2634;Parent=Msa0973800-mRNA-1 |
| chr6_4 | CDS | 6519587 | 6520291 | 6519587 | ID=Msa0973800-mRNA-1:cds;Parent=Msa0973800-mRNA-1 |
| chr6_4 | CDS | 6521357 | 6521377 | 6521357 | ID=Msa0973800-mRNA-1:cds;Parent=Msa0973800-mRNA-1 |
| Gene Sequence |
>Msa0973800 ATGAATATCAACAGAGGAGACACAAGCAAGGCTTGTGCATCCTGCAAATTCCAAAGAAGAAAGTGTTCAAAAGATTGTCTTCTAGCTCCTTATTTTCCTGCTGATAAACCACAAGTGTTCGGCAACGCTCATCGTTTGTTTGGTGTTTCCAACATATCGAAGATATTAAAGCAAGTTAAGGAAAAATATAGAGATGAAGCAATGAAATCAATTATTTTTGAGTCGGATATGCGTGCTCAATTCCCTGTTGGTGGATGTCTTGATGTTATTATGATGTATTATGGTATGATCAAACACTCTGAGCAAGAACTAAATTCTGTTAAATTCTTACTAGATCATTGTAAGGTAAATTACCCTTTGCAACAACAAAATCTTGAACCCTACTTATCAATTGATCATTCTTCCACTCCTTCTAGTAGCACTCGAGTTCCGAATTCTTATTATGACATCCCTCGTAATGTTACTATTAACCCAATTGATACCAAACCAGACTTTGAAACTAATTTTATGGATGCAGCAAGGGTTACACAATTGATTAGTGGTGTTAGCAATAGTGGTGGTGGCAATGCAATGGAAGAAAAATCTAACTTGATGGTAACACAAGGACTATTCCATTGTGAAGAATTATTGGATCTTAATGGTAGTACAAAATTTGATTTAAGGGAAAAGGAGAAAATATCAGATGCCGATAAAGGAGTAACTGAGATCAAACAAATTGCTAAATGA |
| Protein sequence |
>Msa0973800 MNINRGDTSKACASCKFQRRKCSKDCLLAPYFPADKPQVFGNAHRLFGVSNISKILKQVKEKYRDEAMKSIIFESDMRAQFPVGGCLDVIMMYYGMIKHSEQELNSVKFLLDHCKVNYPLQQQNLEPYLSIDHSSTPSSSTRVPNSYYDIPRNVTINPIDTKPDFETNFMDAARVTQLISGVSNSGGGNAMEEKSNLMVTQGLFHCEELLDLNGSTKFDLREKEKISDADKGVTEIKQIAK* |
