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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1006810 | XP_003621176.1 | 96.767 | 433 | 13 | 1 | 1 | 432 | 1 | 433 | 0.0 | 857 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1006810 | sp|Q9LH89|Y3885_ARATH | 52.620 | 458 | 159 | 16 | 1 | 431 | 1 | 427 | 1.58e-124 | 370 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0002680 | Msa1006810 | 0.802227 | 6.201323e-49 | -8.615850e-47 |
| Msa0002710 | Msa1006810 | 0.807110 | 5.931179e-50 | -8.615850e-47 |
| Msa0007990 | Msa1006810 | 0.812785 | 3.559225e-51 | -8.615850e-47 |
| Msa0030160 | Msa1006810 | 0.848012 | 8.037582e-60 | -8.615850e-47 |
| Msa0035120 | Msa1006810 | 0.838796 | 2.324331e-57 | -8.615850e-47 |
| Msa0035130 | Msa1006810 | 0.813142 | 2.973160e-51 | -8.615850e-47 |
| Msa0056450 | Msa1006810 | 0.814157 | 1.777693e-51 | -8.615850e-47 |
| Msa0079110 | Msa1006810 | 0.814237 | 1.706946e-51 | -8.615850e-47 |
| Msa0090570 | Msa1006810 | 0.815592 | 8.540993e-52 | -8.615850e-47 |
| Msa0092410 | Msa1006810 | 0.825079 | 5.700387e-54 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1006810 | MtrunA17_Chr7g0217121 | 96.767 | 433 | 13 | 1 | 1 | 432 | 1 | 433 | 0.0 | 857 |
| Msa1006810 | MtrunA17_Chr6g0453031 | 51.957 | 460 | 157 | 13 | 1 | 432 | 1 | 424 | 8.21e-142 | 411 |
| Msa1006810 | MtrunA17_Chr3g0089011 | 67.296 | 159 | 43 | 3 | 278 | 432 | 2 | 155 | 6.00e-59 | 189 |
| Msa1006810 | MtrunA17_Chr1g0171871 | 38.754 | 289 | 144 | 8 | 162 | 431 | 90 | 364 | 1.16e-52 | 180 |
| Msa1006810 | MtrunA17_Chr8g0352771 | 47.977 | 173 | 68 | 4 | 262 | 431 | 102 | 255 | 3.85e-41 | 147 |
| Msa1006810 | MtrunA17_Chr3g0105871 | 49.398 | 166 | 64 | 4 | 265 | 430 | 87 | 232 | 3.47e-40 | 143 |
| Msa1006810 | MtrunA17_Chr5g0437471 | 40.887 | 203 | 99 | 3 | 230 | 432 | 59 | 240 | 4.99e-39 | 140 |
| Msa1006810 | MtrunA17_Chr7g0256501 | 36.929 | 241 | 119 | 8 | 203 | 431 | 206 | 425 | 8.94e-39 | 144 |
| Msa1006810 | MtrunA17_Chr3g0083531 | 45.455 | 165 | 71 | 3 | 266 | 430 | 115 | 260 | 4.08e-38 | 139 |
| Msa1006810 | MtrunA17_Chr7g0267591 | 40.828 | 169 | 88 | 3 | 263 | 431 | 123 | 279 | 1.30e-35 | 132 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1006810 | AT3G28850.1 | 52.620 | 458 | 159 | 16 | 1 | 431 | 1 | 427 | 1.61e-125 | 370 |
| Msa1006810 | AT5G39865.1 | 46.171 | 457 | 152 | 11 | 1 | 431 | 1 | 389 | 8.59e-125 | 367 |
| Msa1006810 | AT3G57070.1 | 36.499 | 337 | 129 | 12 | 157 | 431 | 103 | 416 | 2.54e-50 | 176 |
| Msa1006810 | AT2G41330.1 | 31.519 | 441 | 201 | 18 | 19 | 431 | 34 | 401 | 1.90e-49 | 173 |
| Msa1006810 | AT5G13810.1 | 42.365 | 203 | 85 | 5 | 229 | 430 | 101 | 272 | 2.30e-40 | 145 |
| Msa1006810 | AT5G58530.1 | 41.026 | 195 | 86 | 4 | 248 | 432 | 92 | 267 | 4.41e-40 | 144 |
| Msa1006810 | AT5G03870.1 | 34.535 | 333 | 136 | 11 | 159 | 430 | 72 | 383 | 4.69e-38 | 142 |
| Msa1006810 | AT1G64500.1 | 45.614 | 171 | 76 | 5 | 263 | 430 | 209 | 365 | 6.10e-37 | 139 |
| Msa1006810 | AT4G10630.1 | 35.959 | 292 | 142 | 9 | 154 | 430 | 72 | 333 | 4.28e-35 | 133 |
| Msa1006810 | AT5G06470.1 | 43.452 | 168 | 80 | 4 | 263 | 430 | 86 | 238 | 1.81e-34 | 129 |
Find 74 sgRNAs with CRISPR-Local
Find 196 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATTGAGGATAGTAGTGG+TGG | 0.600502 | 7_1:+5662741 | Msa1006810:CDS |
| AACACATGGGAGTTAATGGA+AGG | 0.623703 | 7_1:+5662150 | Msa1006810:CDS |
| AACCAGAAACAATCAACACA+TGG | 0.603332 | 7_1:+5662136 | Msa1006810:CDS |
| AAGAAAAGGAAAATGAGAAA+AGG | 0.368729 | 7_1:+5661962 | Msa1006810:CDS |
| AAGATTGTTCCTAGTGTTAA+TGG | 0.198810 | 7_1:+5661850 | Msa1006810:CDS |
| AATCAACACATGGGAGTTAA+TGG | 0.270519 | 7_1:+5662146 | Msa1006810:CDS |
| AATGCATTTAGGATTCAAGG+AGG | 0.743777 | 7_1:+5662575 | Msa1006810:CDS |
| AATGTGGCTTCAAATTACCG+AGG | 0.717932 | 7_1:+5662266 | Msa1006810:CDS |
| ACAAACATCAATTGATGAAG+AGG | 0.514395 | 7_1:+5662389 | Msa1006810:CDS |
| ACACCAACAAGAACACCACC+TGG | 0.657599 | 7_1:+5662111 | Msa1006810:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TTTGAAGAAGAAGAATTGAG+TGG | - | chr7_1:5661826-5661845 | None:intergenic | 30.0% | |
| AAGATTGTTCCTAGTGTTAA+TGG | + | chr7_1:5661850-5661869 | Msa1006810:CDS | 30.0% | |
| GCAAAAACTCAAGAAAGAAA+AGG | + | chr7_1:5661948-5661967 | Msa1006810:CDS | 30.0% | |
| CTAAATGATGAAATCACATC+AGG | - | chr7_1:5662324-5662343 | None:intergenic | 30.0% | |
| ACAAACATCAATTGATGAAG+AGG | + | chr7_1:5662389-5662408 | Msa1006810:CDS | 30.0% | |
| AGAGATGTATCAATGCATTT+AGG | + | chr7_1:5662564-5662583 | Msa1006810:CDS | 30.0% | |
| TTCTTACCAACAAAAACCTT+TGG | - | chr7_1:5662645-5662664 | None:intergenic | 30.0% | |
| ATTGAGAAACTTCATGAAGA+TGG | + | chr7_1:5662687-5662706 | Msa1006810:CDS | 30.0% | |
| TTTGAAGAAGAAGAATTGAG+TGG | - | chr7_1:5661826-5661845 | None:intergenic | 30.0% | |
| AAGATTGTTCCTAGTGTTAA+TGG | + | chr7_1:5661850-5661869 | Msa1006810:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_1 | gene | 5661661 | 5662959 | 5661661 | ID=Msa1006810;Name=Msa1006810 |
| chr7_1 | mRNA | 5661661 | 5662959 | 5661661 | ID=Msa1006810-mRNA-1;Parent=Msa1006810;Name=Msa1006810-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|432 |
| chr7_1 | exon | 5661661 | 5662959 | 5661661 | ID=Msa1006810-mRNA-1:exon:1810;Parent=Msa1006810-mRNA-1 |
| chr7_1 | CDS | 5661661 | 5662959 | 5661661 | ID=Msa1006810-mRNA-1:cds;Parent=Msa1006810-mRNA-1 |
| Gene Sequence |
>Msa1006810 ATGGGTTGTGCAAATTCCAAGCAAAAGCGATGTAGACATTGCAACAATACTTATTCACCTGTTCCAAGAAGCTATTCAATGCATGTTCATCACCCACCTCAATCTGAAGATGACAGTTACCATGTTGTTGCACTCACATCAACCACATTAGGTACTCTCAAACCACTCAATTCTTCTTCTTCAAATCAAAAGATTGTTCCTAGTGTTAATGGTGTTCATGATTTCAAGTTTTGTAATGGGAAAGTTAAAGAGAGTGAAAGTTTTAGGTTTGATAGAGAAAGTTTAATGCAAAAACTCAAGAAAGAAAAGGAAAATGAGAAAAGGGAGAAGGAGAAGAAGGAAGAAGCATTGAAGAGTGATGAGAAAGTGAAAGAATTTTCAATGGGGTTGATTGAGGCAAAGACTTGGTCTAATATGATTGAAGAAAAGTTAACAAAAGTTGTTCCAAAGACACCAACAAGAACACCACCTGGTGAACCAGAAACAATCAACACATGGGAGTTAATGGAAGGTCTTGAAGATATTAGTCCTTTTCGATCGCCGAATCACCTCAAAAGCTTCTCTTTTGATGTCAATGGTGGTGAAGGTGTTGATCCTCCTAAATCAATGTGGCTTCAAATTACCGAGGAAGAATCAAAACTCAACCAAGTTGATTTTGATCCTGATGTGATTTCATCATTTAGAAAATCCTTACAAGAACTCTCTCAAGATAGCCCTTTTTACCTTAAACAAACATCAATTGATGAAGAGGAAATGAAAGATGATGTTTTTGTGGATGTTAAGGTTGGTGGAAAGGAAAAGGTTGTGTTCTACTTCACAAGCTTAAGAGGGGTGAGAAAGACTTATGAAGATTGTTGCCAAGTGAGGATGATTTTGAGAGGGTTAGGAGTGAGAGTTGATGAGAGAGATGTATCAATGCATTTAGGATTCAAGGAGGAGCTAAGAGAGCTTTTAGGTGATTTGTATGGTGGAGGAAGATTGCCAAAGGTTTTTGTTGGTAAGAATTACATTGGTGGAGTTGAGGAAATTGAGAAACTTCATGAAGATGGAAAGCTTGAGAAATTGTTGGAATGTTGTGAGAAAATTGAGGATAGTAGTGGTGGATGTGAGAATTGTGGTGATATAAGGTTTGTTCCTTGTGAAACTTGTTTTGGAAGTTGTAAAATCTACTATGAAGATGGTGATGACGACGAGGAAGAATATGATGATCATGGTCGTGAAGAAGGCGAGTTTGGATTCCAACGTTGTCCGGATTGTAATGAAAATGGACTAATTCGCTGCCCCGTGTGCTGCTACTAG |
| Protein sequence |
>Msa1006810 MGCANSKQKRCRHCNNTYSPVPRSYSMHVHHPPQSEDDSYHVVALTSTTLGTLKPLNSSSSNQKIVPSVNGVHDFKFCNGKVKESESFRFDRESLMQKLKKEKENEKREKEKKEEALKSDEKVKEFSMGLIEAKTWSNMIEEKLTKVVPKTPTRTPPGEPETINTWELMEGLEDISPFRSPNHLKSFSFDVNGGEGVDPPKSMWLQITEEESKLNQVDFDPDVISSFRKSLQELSQDSPFYLKQTSIDEEEMKDDVFVDVKVGGKEKVVFYFTSLRGVRKTYEDCCQVRMILRGLGVRVDERDVSMHLGFKEELRELLGDLYGGGRLPKVFVGKNYIGGVEEIEKLHEDGKLEKLLECCEKIEDSSGGCENCGDIRFVPCETCFGSCKIYYEDGDDDEEEYDDHGREEGEFGFQRCPDCNENGLIRCPVCCY* |
