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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0150990 | XP_013466403.1 | 91.209 | 364 | 11 | 1 | 1 | 364 | 1 | 343 | 0.0 | 681 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0150990 | sp|P87055|YDJ7_SCHPO | 37.662 | 308 | 151 | 11 | 63 | 363 | 38 | 311 | 4.70e-56 | 188 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0150990 | A0A072VQQ2 | 91.209 | 364 | 11 | 1 | 1 | 364 | 1 | 343 | 0.0 | 681 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0007440 | Msa0150990 | 0.829242 | 5.745064e-55 | -8.615850e-47 |
| Msa0008220 | Msa0150990 | 0.800128 | 1.666592e-48 | -8.615850e-47 |
| Msa0011930 | Msa0150990 | 0.826511 | 2.606404e-54 | -8.615850e-47 |
| Msa0037540 | Msa0150990 | -0.823143 | 1.622997e-53 | -8.615850e-47 |
| Msa0037590 | Msa0150990 | -0.825626 | 4.231355e-54 | -8.615850e-47 |
| Msa0041720 | Msa0150990 | 0.825652 | 4.171967e-54 | -8.615850e-47 |
| Msa0043500 | Msa0150990 | 0.803578 | 3.261218e-49 | -8.615850e-47 |
| Msa0043650 | Msa0150990 | 0.807280 | 5.458796e-50 | -8.615850e-47 |
| Msa0056450 | Msa0150990 | 0.805600 | 1.234239e-49 | -8.615850e-47 |
| Msa0065010 | Msa0150990 | 0.826653 | 2.410857e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0150990 | MtrunA17_Chr1g0159241 | 91.209 | 364 | 11 | 1 | 1 | 364 | 1 | 343 | 0.0 | 681 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0150990 | AT1G21370.2 | 62.568 | 366 | 105 | 6 | 5 | 364 | 3 | 342 | 1.78e-159 | 451 |
| Msa0150990 | AT1G21370.1 | 62.568 | 366 | 105 | 6 | 5 | 364 | 3 | 342 | 1.78e-159 | 451 |
Find 93 sgRNAs with CRISPR-Local
Find 428 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACAAGATCCTCTGAATT+TGG | 0.236366 | 1_4:-12727027 | Msa0150990:five_prime_UTR |
| AAATTCCTCAGCTTCGAGAA+CGG | 0.606729 | 1_4:+12726595 | None:intergenic |
| AACCACCACTACTATGCCCA+CGG | 0.585593 | 1_4:+12721052 | None:intergenic |
| AAGAAGGAAGGTTTGTGCAC+AGG | 0.514159 | 1_4:-12722697 | Msa0150990:CDS |
| AAGCATATTGAGGAAGGAGT+TGG | 0.489403 | 1_4:-12726454 | Msa0150990:CDS |
| AAGCGATGCAATGGAATCAT+TGG | 0.393762 | 1_4:+12726933 | None:intergenic |
| AATCTACATCGATCTGCGAT+TGG | 0.533049 | 1_4:-12721322 | Msa0150990:CDS |
| AATGGAAGCAGGAAGAAGGA+AGG | 0.545131 | 1_4:-12722709 | Msa0150990:CDS |
| AATTACGCGAAAACTGATCT+GGG | 0.563506 | 1_4:-12726631 | Msa0150990:CDS |
| AATTGCGATTCCGTTCGGTT+TGG | 0.404393 | 1_4:-12727060 | Msa0150990:five_prime_UTR |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATATAAATTGCGATTCCGTT+CGG | - | chr1_4:12720822-12720841 | Msa0150990:three_prime_UTR | 30.0% | |
| AAAACAAGATCCTCTGAATT+TGG | - | chr1_4:12720860-12720879 | Msa0150990:three_prime_UTR | 30.0% | |
| ATTAGAAGATCCAAATTCAG+AGG | + | chr1_4:12720873-12720892 | None:intergenic | 30.0% | |
| AAGGATGAAGCTTGAAAAAA+TGG | + | chr1_4:12721156-12721175 | None:intergenic | 30.0% | |
| AGTAGTAAAATAGCTACGAA+AGG | + | chr1_4:12721175-12721194 | None:intergenic | 30.0% | |
| TTTCGCGTAATTGTTCAATT+GGG | + | chr1_4:12721248-12721267 | None:intergenic | 30.0% | |
| TTTCTATACGTAAATGTCTG+TGG | - | chr1_4:12721654-12721673 | Msa0150990:intron | 30.0% | |
| ATCGATAAAATTACTAGCGA+TGG | - | chr1_4:12721768-12721787 | Msa0150990:intron | 30.0% | |
| CAAATGTTCCAACAAAATCA+CGG | + | chr1_4:12722040-12722059 | None:intergenic | 30.0% | |
| TTTATCTCATACTCTTCAGT+TGG | - | chr1_4:12722323-12722342 | Msa0150990:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_4 | gene | 12720792 | 12727117 | 12720792 | ID=Msa0150990;Name=Msa0150990 |
| chr1_4 | mRNA | 12720792 | 12727117 | 12720792 | ID=Msa0150990-mRNA-1;Parent=Msa0150990;Name=Msa0150990-mRNA-1;_AED=0.05;_eAED=0.05;_QI=197|0.33|0.75|0.75|1|1|4|271|364 |
| chr1_4 | exon | 12720792 | 12721380 | 12720792 | ID=Msa0150990-mRNA-1:exon:5100;Parent=Msa0150990-mRNA-1 |
| chr1_4 | exon | 12722675 | 12722737 | 12722675 | ID=Msa0150990-mRNA-1:exon:5099;Parent=Msa0150990-mRNA-1 |
| chr1_4 | exon | 12724871 | 12724995 | 12724871 | ID=Msa0150990-mRNA-1:exon:5098;Parent=Msa0150990-mRNA-1 |
| chr1_4 | exon | 12726332 | 12727117 | 12726332 | ID=Msa0150990-mRNA-1:exon:5097;Parent=Msa0150990-mRNA-1 |
| chr1_4 | five_prime_UTR | 12726921 | 12727117 | 12726921 | ID=Msa0150990-mRNA-1:five_prime_utr;Parent=Msa0150990-mRNA-1 |
| chr1_4 | CDS | 12726332 | 12726920 | 12726332 | ID=Msa0150990-mRNA-1:cds;Parent=Msa0150990-mRNA-1 |
| chr1_4 | CDS | 12724871 | 12724995 | 12724871 | ID=Msa0150990-mRNA-1:cds;Parent=Msa0150990-mRNA-1 |
| chr1_4 | CDS | 12722675 | 12722737 | 12722675 | ID=Msa0150990-mRNA-1:cds;Parent=Msa0150990-mRNA-1 |
| chr1_4 | CDS | 12721063 | 12721380 | 12721063 | ID=Msa0150990-mRNA-1:cds;Parent=Msa0150990-mRNA-1 |
| chr1_4 | three_prime_UTR | 12720792 | 12721062 | 12720792 | ID=Msa0150990-mRNA-1:three_prime_utr;Parent=Msa0150990-mRNA-1 |
| Gene Sequence |
>Msa0150990 ATGAACAATTTCTCATTCACATCACAATCCTACAAATCTTTCCCCGCATACCCAAAATCCGATTTCGATTTAGAATCTGCCATTCCCACAACCACAATCAAACGAACCAGAAAACCCAAAAACTCACCAATTTTCCACCTTTTCAAAATGCTCAAAAAATTCCACCATTTTTTCAAGCTTCATCCTTTCGTAGCTATTTTACTACTATCTTTAACTTTCGGCATAACCCTTTTCGTTTTTCTTTCTTATAACGCAACCCAATTGAACAATTACGCGAAAACTGATCTGGGTTTTGATGATTATCCGTTCTCGAAGCTGAGGAATTTGGTTATGGTTGCTGGTCATTCGATTTATACGAGCAGTGGTTGTGAGAAGATTGAGAAAGAGGATTCGTGGTATTTGGAGAGTTATCAGAAGAATCCTGGTCAGGCTGCTACGTTTGTGAAGCATATTGAGGAAGGAGTTGGGATTGTTGATAAGGATGAGAAGGGTTTGCTTTTGTTTAGTGGTGGTGAGACGAGGAAAGACGCGGGGCCGAGGAGTGAGGCGCAGAGTTATTGGGCTGTTGCTGATTTTAAAGGATGGTTTGGTAAGGAAGAAAGTGTGAAATGGAGAGCACTTACGGAAGAACATGCAAGGGACAGCTTTGAAAATCTTCTATTTAGTGTCTGTCGGTTCCGAGAGCTTACTGGCACCTATCCTCAAAATATTACTAAATTGAATGGAAGCAGGAAGAAGGAAGGTTTGTGCACAGGGAAGAAAAAGAAGGAAGGGAAAGTTGTAAGTTATGATTTCAAGGAAGACAGATTTGCAAATCTACATCGATCTGCGATTGGCTTTCCAGCATCAAGGTTCTTCTACGCTGGCACACCTGCTACATCAAATGCAAAAGCAGCTGCTTTAAAAGGTGAAGAATTGGTGAGAACGCAATTCTCAAGAGATCCGTACGGATGTCGAGGTTCACTCTATCACAAAAAGCTAAAGCGTGACCCTTTTCATCGGTCAATTCCGTATCCTAATGGATGTCCAGAAATTGAACGCTTGTTCAGATACTGTGGACCAGCTCCATATCCTGGTGCACTCCCGTGGGCATAG |
| Protein sequence |
>Msa0150990 MNNFSFTSQSYKSFPAYPKSDFDLESAIPTTTIKRTRKPKNSPIFHLFKMLKKFHHFFKLHPFVAILLLSLTFGITLFVFLSYNATQLNNYAKTDLGFDDYPFSKLRNLVMVAGHSIYTSSGCEKIEKEDSWYLESYQKNPGQAATFVKHIEEGVGIVDKDEKGLLLFSGGETRKDAGPRSEAQSYWAVADFKGWFGKEESVKWRALTEEHARDSFENLLFSVCRFRELTGTYPQNITKLNGSRKKEGLCTGKKKKEGKVVSYDFKEDRFANLHRSAIGFPASRFFYAGTPATSNAKAAALKGEELVRTQFSRDPYGCRGSLYHKKLKRDPFHRSIPYPNGCPEIERLFRYCGPAPYPGALPWA* |
