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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0219990 | XP_003597078.2 | 71.021 | 421 | 75 | 8 | 1 | 400 | 57 | 451 | 0.0 | 559 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0219990 | sp|Q9LTC4|MYB15_ARATH | 36.747 | 166 | 83 | 4 | 1 | 145 | 58 | 222 | 3.16e-25 | 107 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0219990 | MtrunA17_Chr2g0323331 | 69.821 | 391 | 71 | 8 | 31 | 400 | 5 | 369 | 3.22e-178 | 500 |
| Msa0219990 | MtrunA17_Chr2g0323351 | 58.580 | 169 | 52 | 6 | 1 | 154 | 58 | 223 | 1.27e-51 | 173 |
| Msa0219990 | MtrunA17_Chr2g0323351 | 55.882 | 102 | 31 | 4 | 157 | 254 | 137 | 228 | 4.12e-15 | 74.7 |
| Msa0219990 | MtrunA17_Chr2g0323351 | 43.038 | 158 | 30 | 7 | 245 | 397 | 146 | 248 | 1.80e-13 | 69.7 |
| Msa0219990 | MtrunA17_Chr4g0022901 | 39.474 | 190 | 80 | 3 | 1 | 155 | 59 | 248 | 5.59e-35 | 130 |
| Msa0219990 | MtrunA17_Chr4g0022911 | 39.860 | 143 | 81 | 1 | 1 | 143 | 59 | 196 | 2.34e-27 | 110 |
| Msa0219990 | MtrunA17_Chr4g0022891 | 38.235 | 170 | 77 | 7 | 1 | 152 | 58 | 217 | 2.64e-26 | 105 |
| Msa0219990 | MtrunA17_Chr4g0022931 | 62.338 | 77 | 29 | 0 | 1 | 77 | 59 | 135 | 3.07e-26 | 106 |
| Msa0219990 | MtrunA17_Chr4g0022881 | 40.252 | 159 | 81 | 5 | 1 | 152 | 58 | 209 | 8.32e-26 | 104 |
| Msa0219990 | MtrunA17_Chr1g0187761 | 41.401 | 157 | 72 | 4 | 1 | 152 | 58 | 199 | 2.52e-25 | 103 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0219990 | AT3G23250.2 | 36.747 | 166 | 83 | 4 | 1 | 145 | 1 | 165 | 2.92e-27 | 108 |
| Msa0219990 | AT3G23250.1 | 36.747 | 166 | 83 | 4 | 1 | 145 | 58 | 222 | 3.21e-26 | 107 |
| Msa0219990 | AT2G31180.1 | 71.429 | 63 | 18 | 0 | 1 | 63 | 58 | 120 | 1.97e-24 | 101 |
| Msa0219990 | AT5G14750.4 | 63.235 | 68 | 24 | 1 | 1 | 67 | 1 | 68 | 2.25e-24 | 98.2 |
| Msa0219990 | AT5G14750.2 | 63.235 | 68 | 24 | 1 | 1 | 67 | 1 | 68 | 2.25e-24 | 98.2 |
| Msa0219990 | AT5G14750.3 | 63.235 | 68 | 24 | 1 | 1 | 67 | 28 | 95 | 7.21e-24 | 97.4 |
| Msa0219990 | AT5G35550.2 | 45.370 | 108 | 58 | 1 | 2 | 108 | 64 | 171 | 2.35e-23 | 98.6 |
| Msa0219990 | AT5G14750.1 | 63.235 | 68 | 24 | 1 | 1 | 67 | 62 | 129 | 2.42e-23 | 97.1 |
| Msa0219990 | AT1G16490.1 | 69.492 | 59 | 18 | 0 | 1 | 59 | 60 | 118 | 4.10e-23 | 98.2 |
| Msa0219990 | AT1G06180.1 | 71.186 | 59 | 17 | 0 | 1 | 59 | 58 | 116 | 7.42e-23 | 97.1 |
Find 92 sgRNAs with CRISPR-Local
Find 328 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGGCACTTGGACTCATG+AGG | 0.629560 | 2_1:+67983822 | Msa0219990:five_prime_UTR |
| AAGAATATTAAGTCTAAGCG+TGG | 0.575339 | 2_1:+67988369 | Msa0219990:CDS |
| AATAGTGTAGCTTCTTCAGT+TGG | 0.519397 | 2_1:-67989296 | None:intergenic |
| ACACACCAAGAATTTGGTGG+TGG | 0.653554 | 2_1:+67983724 | None:intergenic |
| ACAGGTACACACCAAGAATT+TGG | 0.313612 | 2_1:+67983718 | None:intergenic |
| ACCGGGGAGAACCGATAATG+AGG | 0.590459 | 2_1:+67988305 | Msa0219990:CDS |
| ACCTCATTATCGGTTCTCCC+CGG | 0.550386 | 2_1:-67988306 | None:intergenic |
| ACTTGTTCCAACAGAACTCC+AGG | 0.542485 | 2_1:+67984101 | Msa0219990:five_prime_UTR |
| AGAACCCCTTGTGACAATAA+TGG | 0.416910 | 2_1:+67983793 | Msa0219990:five_prime_UTR |
| AGACTGTGAGTGGGAATGAT+TGG | 0.449963 | 2_1:+67989252 | Msa0219990:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TCAATCCATTATTGTCACAA+GGG | - | chr2_1:67983801-67983820 | None:intergenic | 30.0% | |
| AGTTGATTGCTTATGTTACT+AGG | + | chr2_1:67983854-67983873 | Msa0219990:five_prime_UTR | 30.0% | |
| ATTGCTTATGTTACTAGGTA+TGG | + | chr2_1:67983859-67983878 | Msa0219990:five_prime_UTR | 30.0% | |
| TATACGATACCTGCAAATTT+AGG | - | chr2_1:67983907-67983926 | None:intergenic | 30.0% | |
| AACATACGACATTGAATGAT+TGG | - | chr2_1:67983999-67984018 | None:intergenic | 30.0% | |
| AACAATTCTCTCGAGTTTAA+AGG | - | chr2_1:67984229-67984248 | None:intergenic | 30.0% | |
| CATCAAACTTCATGAAAAAC+TGG | + | chr2_1:67984354-67984373 | Msa0219990:CDS | 30.0% | |
| TTCATGAAAAACTGGGTAAT+AGG | + | chr2_1:67984362-67984381 | Msa0219990:CDS | 30.0% | |
| AACATATCAACACTCTATCA+TGG | + | chr2_1:67984389-67984408 | Msa0219990:intron | 30.0% | |
| TCATAAAAAATCCATGGGTT+AGG | - | chr2_1:67984415-67984434 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 67983730 | 67989391 | 67983730 | ID=Msa0219990;Name=Msa0219990 |
| chr2_1 | mRNA | 67983730 | 67989391 | 67983730 | ID=Msa0219990-mRNA-1;Parent=Msa0219990;Name=Msa0219990-mRNA-1;_AED=0.03;_eAED=0.03;_QI=298|1|0.75|1|0.33|0.75|4|0|400 |
| chr2_1 | exon | 67983730 | 67983916 | 67983730 | ID=Msa0219990-mRNA-1:exon:19225;Parent=Msa0219990-mRNA-1 |
| chr2_1 | exon | 67984098 | 67984170 | 67984098 | ID=Msa0219990-mRNA-1:exon:19226;Parent=Msa0219990-mRNA-1 |
| chr2_1 | exon | 67984254 | 67984383 | 67984254 | ID=Msa0219990-mRNA-1:exon:19227;Parent=Msa0219990-mRNA-1 |
| chr2_1 | exon | 67988281 | 67989391 | 67988281 | ID=Msa0219990-mRNA-1:exon:19228;Parent=Msa0219990-mRNA-1 |
| chr2_1 | five_prime_UTR | 67983730 | 67983916 | 67983730 | ID=Msa0219990-mRNA-1:five_prime_utr;Parent=Msa0219990-mRNA-1 |
| chr2_1 | five_prime_UTR | 67984098 | 67984170 | 67984098 | ID=Msa0219990-mRNA-1:five_prime_utr;Parent=Msa0219990-mRNA-1 |
| chr2_1 | five_prime_UTR | 67984254 | 67984291 | 67984254 | ID=Msa0219990-mRNA-1:five_prime_utr;Parent=Msa0219990-mRNA-1 |
| chr2_1 | CDS | 67984292 | 67984383 | 67984292 | ID=Msa0219990-mRNA-1:cds;Parent=Msa0219990-mRNA-1 |
| chr2_1 | CDS | 67988281 | 67989391 | 67988281 | ID=Msa0219990-mRNA-1:cds;Parent=Msa0219990-mRNA-1 |
| Gene Sequence |
>Msa0219990 ATGAACTATCTGAGGCCAAATATCAAAAGAGGGAACTTTAATCAACAAGAGGAAGATATTATCATCAAACTTCATGAAAAACTGGGTAATAGATGGACCGTGATTGCTTCAAATTTACCGGGGAGAACCGATAATGAGGTAAAGAATCACTGGCACACTACCTTGAAGAAGCGTTTTATAAAGAATATTAAGTCTAAGCGTGGAAGGAGAAAAGCCAAAGATTCAAATTCAAATAATCACCCTATATTGGAAGAAGCCAATAAATTTGAAGGAGTTTTAGAGAACAATGATCCTAATATTGCAAATCAAATATCTTCACAACCAGCTTCAAGCGATTTGTCTTGCATAACAATGGAAACTGCAATTTTTGATGATAGTGACCTTTCTTTTATGGAAACATACATGGACAATTTTAGTGAGAATTTTTGGACAGAGCCATATATGATAGACAATTCATATGTCCCCTATAATCACCCTACAATGGAAGAAACCAAGAAACTTGACGGAGTTTTTGAGAACAACATCGATGCCAATATTACGAGTTCACTATCTTCGCAACCATCTTCAAGCGGATTCTCTTGCATAACAACCGAAAATTTAGCTTCCACTATATCACATGAAAATTCAGTTTTTGATGGCAATGACCTTCCTTTTATGGATGCATTATTCATGGAGACTGTGAGTGAAAATTTTATGACTGAGCCATATATGATAGACACTTTCTATGCCAATAAACTTGAAGGAGTTTTAGAGAACAGTGATCCTAATATTGCAAGTCGATTGTCTTCACAACCATCTTCAAGTGCATTCTCTTGCATAACAATGGATACTGCATCTACCACAATATCATATGAGAATCCAATTCTTGATGACAATGACCTTCATTTTATGGATGCATTCATAGAGGATTTGAGTGAGAATTTCTGGTCAGAGCCTTATATGATAGACAGTTCACATGTCCTCCATAATCACCTTACAATGGAAAATGTTACTTCCACAACATCACATGAAAATTTTGTTCTTGATGAAAATGACCTTGCTTTAATGGATGCATTATTCATGGAGACTGTGAGTGGGAATGATTGGATAAACAGTTTTTATGTCCCTCCAACTGAAGAAGCTACACTATTTCCTGCAGAGTGTGAACATGAATACTTTAGTTCTGTGTACGATGTTGAATTTTGGAGCCATATTGCAGAATAA |
| Protein sequence |
>Msa0219990 MNYLRPNIKRGNFNQQEEDIIIKLHEKLGNRWTVIASNLPGRTDNEVKNHWHTTLKKRFIKNIKSKRGRRKAKDSNSNNHPILEEANKFEGVLENNDPNIANQISSQPASSDLSCITMETAIFDDSDLSFMETYMDNFSENFWTEPYMIDNSYVPYNHPTMEETKKLDGVFENNIDANITSSLSSQPSSSGFSCITTENLASTISHENSVFDGNDLPFMDALFMETVSENFMTEPYMIDTFYANKLEGVLENSDPNIASRLSSQPSSSAFSCITMDTASTTISYENPILDDNDLHFMDAFIEDLSENFWSEPYMIDSSHVLHNHLTMENVTSTTSHENFVLDENDLALMDALFMETVSGNDWINSFYVPPTEEATLFPAECEHEYFSSVYDVEFWSHIAE* |
