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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0595740 | XP_024626574.1 | 60.323 | 310 | 44 | 5 | 1 | 309 | 1 | 232 | 1.94e-107 | 325 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0595740 | MtrunA17_Chr2g0287651 | 64.444 | 135 | 48 | 0 | 175 | 309 | 58 | 192 | 5.39e-56 | 196 |
| Msa0595740 | MtrunA17_Chr8g0389811 | 36.232 | 138 | 84 | 2 | 160 | 293 | 48 | 185 | 6.35e-21 | 89.4 |
| Msa0595740 | MtrunA17_Chr1g0203051 | 32.143 | 196 | 122 | 4 | 122 | 309 | 4 | 196 | 1.72e-20 | 92.8 |
| Msa0595740 | MtrunA17_Chr1g0171741 | 32.258 | 124 | 79 | 2 | 174 | 297 | 119 | 237 | 7.61e-19 | 85.1 |
| Msa0595740 | MtrunA17_Chr6g0458391 | 39.655 | 116 | 63 | 5 | 196 | 309 | 95 | 205 | 5.47e-14 | 73.2 |
| Msa0595740 | MtrunA17_Chr6g0458391 | 39.516 | 124 | 69 | 4 | 183 | 303 | 214 | 334 | 3.97e-13 | 70.5 |
| Msa0595740 | MtrunA17_Chr2g0329361 | 40.000 | 110 | 58 | 3 | 189 | 294 | 58 | 163 | 1.20e-13 | 70.1 |
| Msa0595740 | MtrunA17_Chr6g0473421 | 40.000 | 80 | 48 | 0 | 188 | 267 | 51 | 130 | 1.11e-12 | 65.1 |
| Msa0595740 | MtrunA17_Chr1g0203721 | 39.496 | 119 | 64 | 5 | 189 | 303 | 61 | 175 | 1.96e-12 | 68.6 |
| Msa0595740 | MtrunA17_Chr6g0479721 | 47.573 | 103 | 51 | 2 | 1 | 102 | 1 | 101 | 7.89e-12 | 62.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0595740 | AT3G07500.1 | 39.048 | 105 | 60 | 3 | 196 | 299 | 37 | 138 | 3.71e-12 | 65.5 |
Find 67 sgRNAs with CRISPR-Local
Find 308 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACAACAACAATGACTTTA+CGG | 0.325210 | 4_2:-25121325 | Msa0595740:CDS |
| AAACATATCCGATCATTGTT+GGG | 0.491804 | 4_2:-25121248 | Msa0595740:CDS |
| AACAATGACTTTACGGATTT+TGG | 0.057115 | 4_2:-25121318 | Msa0595740:CDS |
| AAGAATACTCAAAGGAATAC+AGG | 0.490976 | 4_2:-25121153 | Msa0595740:CDS |
| ACTTTGTACGAGTGAGACGT+CGG | 0.685988 | 4_2:+25120554 | None:intergenic |
| AGCATTTATCAAGGTTAGAT+AGG | 0.409294 | 4_2:-25120588 | Msa0595740:CDS |
| AGGGTGTAAATGCACAGCAT+TGG | 0.584309 | 4_2:+25120438 | None:intergenic |
| AGTATGTATGCAACAAGCAG+GGG | 0.634341 | 4_2:-25120624 | Msa0595740:CDS |
| AGTGAAGGTCATGGTAGTGA+AGG | 0.614950 | 4_2:-25120856 | Msa0595740:CDS |
| AGTGAAGGTGATGAAAGTGA+AGG | 0.717258 | 4_2:-25120871 | Msa0595740:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AAACATATCCGATCATTGTT+GGG | - | chr4_2:25119441-25119460 | Msa0595740:CDS | 30.0% | |
| AAGAATACTCAAAGGAATAC+AGG | - | chr4_2:25119536-25119555 | Msa0595740:intron | 30.0% | |
| TATAAGTACGGTAAGTGTAA+AGG | - | chr4_2:25119983-25120002 | Msa0595740:intron | 30.0% | |
| GATATTAGGCACAATGTTAA+CGG | - | chr4_2:25120025-25120044 | Msa0595740:intron | 30.0% | |
| AGCATTTATCAAGGTTAGAT+AGG | - | chr4_2:25120101-25120120 | Msa0595740:intron | 30.0% | |
| GAATATTCACAAAAGGAATG+TGG | + | chr4_2:25120510-25120529 | None:intergenic | 30.0% | |
| CAAATATAACTGTTTGTGAG+TGG | + | chr4_2:25120686-25120705 | None:intergenic | 30.0% | |
| CACTCACAAACAGTTATATT+TGG | - | chr4_2:25120684-25120703 | Msa0595740:CDS | 30.0% | |
| CATATGAGAACAAAGAATTG+TGG | - | chr4_2:25121039-25121058 | Msa0595740:CDS | 30.0% | |
| AAGAGTTATGTTAGGAAGAA+AGG | - | chr4_2:25121140-25121159 | Msa0595740:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_2 | gene | 25119359 | 25121352 | 25119359 | ID=Msa0595740;Name=Msa0595740 |
| chr4_2 | mRNA | 25119359 | 25121352 | 25119359 | ID=Msa0595740-mRNA-1;Parent=Msa0595740;Name=Msa0595740-mRNA-1;_AED=0.21;_eAED=0.21;_QI=0|0|0|1|0|0|2|0|347 |
| chr4_2 | exon | 25120418 | 25121352 | 25120418 | ID=Msa0595740-mRNA-1:exon:6781;Parent=Msa0595740-mRNA-1 |
| chr4_2 | exon | 25119359 | 25119464 | 25119359 | ID=Msa0595740-mRNA-1:exon:6780;Parent=Msa0595740-mRNA-1 |
| chr4_2 | CDS | 25120418 | 25121352 | 25120418 | ID=Msa0595740-mRNA-1:cds;Parent=Msa0595740-mRNA-1 |
| chr4_2 | CDS | 25119359 | 25119464 | 25119359 | ID=Msa0595740-mRNA-1:cds;Parent=Msa0595740-mRNA-1 |
| Gene Sequence |
>Msa0595740 ATGGAAAACAACAACAATGACTTTACGGATTTTGGTACACCGAAACATGATTACGGTTCTACGGATGTGGATTTGAGTGACGAAACATATCCGATCATTGTTGGGAGTGGTGGTAAATCTACTGAGAATGTTGAACAGAATGTAGATGATGATGATGTGAGTCATGGTAATTTTACGAAGAATACTCAAAGGAATACAGGTGATGAGCGATATGATGAAACTGGAGACAATGAAAGTGATGATGGTGGTTGTTCTGGTGATTATAGTGCTGGTGATAAAGGTGAAGATGATGGAAGTGAATGTGATGAAAGTCAAGGTGTTGAAGGTGAACGTGATGAAGGTGAAAGTGATGAAAGTGAAGGTGATGAACGTGAAGGTGATGAAGGTGAACGTGATGAAGGTGGAGGTGATGAAAGTGAAGGTGATGAAAGTGAAGGTCATGGTAGTGAAGTTGATGAAAGTGAAGGTGATGAAAGTGAAGGTCATGGTAGTGAAGGTGATAACAATTTAGCTGAAGATGATGATGTAGTTGTTGGTGAGGAAATGGTAAGGATAAATTCATTAACTGCTGAAGGAATAAGGAAAATGGAATTTGCGAGTGTTGATGAAGCTTACGATTTTTATTATAAGTACGGTAAGTGTAAAGGTTTTGCTGTTAGGAAGAGTGATATTAGGCACAATGTTAACGGTGAGATTGTAATGAGGCAGTATGTATGCAACAAGCAGGGGTTCAGAGCGAAGAAGCATTTATCAAGGTTAGATAGGCAAAGAGATCACCGACGTCTCACTCGTACAAAGTGTCCAGCTAGGCTCCATGTTCATTACAGACCCAAAAAGGGTAGATATGTTGTGTCTATTTTTGAAGAGGGTCACAACCATGAACCTACTCCAACCAATGCTGTGCATTTACACCCTGTTTATCGAAAATATCCGAGGTTTTCATCCCCTGTGCTGACAACTCATCTGCGTTGTCTTGAACGCGAGGCTGCTGAAATCTATACGGCAGAGATCTTTCAAGAAGTGAAAGAAGAGATTATGAAA |
| Protein sequence |
>Msa0595740 MENNNNDFTDFGTPKHDYGSTDVDLSDETYPIIVGSGGKSTENVEQNVDDDDVSHGNFTKNTQRNTGDERYDETGDNESDDGGCSGDYSAGDKGEDDGSECDESQGVEGERDEGESDESEGDEREGDEGERDEGGGDESEGDESEGHGSEVDESEGDESEGHGSEGDNNLAEDDDVVVGEEMVRINSLTAEGIRKMEFASVDEAYDFYYKYGKCKGFAVRKSDIRHNVNGEIVMRQYVCNKQGFRAKKHLSRLDRQRDHRRLTRTKCPARLHVHYRPKKGRYVVSIFEEGHNHEPTPTNAVHLHPVYRKYPRFSSPVLTTHLRCLEREAAEIYTAEIFQEVKEEIMK |
