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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0704790 | XP_039685179.1 | 97.619 | 336 | 2 | 1 | 1 | 330 | 1 | 336 | 0.0 | 668 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0704790 | A0A396GR42 | 97.619 | 336 | 2 | 1 | 1 | 330 | 1 | 336 | 0.0 | 668 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000180 | Msa0704790 | 0.833459 | 5.269438e-56 | -8.615850e-47 |
| Msa0000220 | Msa0704790 | 0.828233 | 1.007548e-54 | -8.615850e-47 |
| Msa0000610 | Msa0704790 | 0.878193 | 3.422433e-69 | -8.615850e-47 |
| Msa0000800 | Msa0704790 | -0.847845 | 8.938200e-60 | -8.615850e-47 |
| Msa0001040 | Msa0704790 | 0.826269 | 2.976930e-54 | -8.615850e-47 |
| Msa0001420 | Msa0704790 | 0.816146 | 6.428629e-52 | -8.615850e-47 |
| Msa0001510 | Msa0704790 | 0.913165 | 8.444316e-84 | -8.615850e-47 |
| Msa0001540 | Msa0704790 | 0.833356 | 5.590047e-56 | -8.615850e-47 |
| Msa0001550 | Msa0704790 | 0.816258 | 6.068229e-52 | -8.615850e-47 |
| Msa0002110 | Msa0704790 | 0.888450 | 5.842803e-73 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0704790 | MtrunA17_Chr8g0383001 | 97.619 | 336 | 2 | 1 | 1 | 330 | 1 | 336 | 0.0 | 668 |
| Msa0704790 | MtrunA17_Chr2g0310591 | 35.088 | 171 | 99 | 2 | 166 | 327 | 218 | 385 | 1.82e-21 | 94.0 |
| Msa0704790 | MtrunA17_Chr7g0273361 | 28.931 | 159 | 100 | 3 | 182 | 329 | 178 | 334 | 5.94e-13 | 68.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0704790 | AT2G21960.1 | 83.039 | 283 | 48 | 0 | 48 | 330 | 50 | 332 | 2.73e-172 | 481 |
| Msa0704790 | AT1G56180.1 | 32.143 | 168 | 105 | 1 | 171 | 329 | 217 | 384 | 1.34e-19 | 89.0 |
| Msa0704790 | AT5G27290.1 | 31.447 | 159 | 96 | 4 | 182 | 329 | 179 | 335 | 6.63e-14 | 72.0 |
Find 88 sgRNAs with CRISPR-Local
Find 221 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGCTGCTAATAGCTGCT+TGG | 0.552163 | 4_4:+77285253 | None:intergenic |
| AAATTGGTTGGGCCAAGAAA+TGG | 0.440413 | 4_4:-77287038 | Msa0704790:CDS |
| AACTGGATTCTTGGGTATTC+TGG | 0.263208 | 4_4:-77286284 | Msa0704790:CDS |
| AAGCTCTGGTTGTGAATTTA+GGG | 0.294762 | 4_4:+77287403 | None:intergenic |
| AATGGCATCGATGGCAAAGA+AGG | 0.499709 | 4_4:-77284214 | Msa0704790:CDS |
| AATTGTTCCAACCTCATTGG+AGG | 0.533072 | 4_4:+77287562 | None:intergenic |
| ACCGTACGACGTGAAACATA+TGG | 0.511639 | 4_4:+77287006 | None:intergenic |
| ACTCTAGCTCTAGAGATCAA+TGG | 0.513577 | 4_4:+77283968 | None:intergenic |
| AGAAGGTTTAACATATGACA+AGG | 0.674545 | 4_4:-77284618 | Msa0704790:CDS |
| AGACAGCAATGCAGTTAAAG+AGG | 0.489669 | 4_4:-77287079 | Msa0704790:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AATGTAATGGTCAATTACCT+TGG | + | chr4_4:77284215-77284234 | None:intergenic | 30.0% | |
| TGGATTGAATACAATTTCAC+GGG | + | chr4_4:77284360-77284379 | None:intergenic | 30.0% | |
| CAATCCATTGTTCATTGAAA+TGG | - | chr4_4:77284373-77284392 | Msa0704790:intron | 30.0% | |
| ACTACCATTTCAATGAACAA+TGG | + | chr4_4:77284380-77284399 | None:intergenic | 30.0% | |
| AAATGGTAGTTTATACCGTT+TGG | - | chr4_4:77284390-77284409 | Msa0704790:intron | 30.0% | |
| AATGGTAGTTTATACCGTTT+GGG | - | chr4_4:77284391-77284410 | Msa0704790:intron | 30.0% | |
| GTTCAGTTATATTACCCAAA+CGG | + | chr4_4:77284408-77284427 | None:intergenic | 30.0% | |
| CAATGTAACAATATGTGTTG+TGG | + | chr4_4:77284692-77284711 | None:intergenic | 30.0% | |
| AATATTTAACTAGTGCCCTA+AGG | - | chr4_4:77284926-77284945 | Msa0704790:intron | 30.0% | |
| ATATTTAACTAGTGCCCTAA+GGG | - | chr4_4:77284927-77284946 | Msa0704790:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 77283930 | 77287633 | 77283930 | ID=Msa0704790;Name=Msa0704790 |
| chr4_4 | mRNA | 77283930 | 77287633 | 77283930 | ID=Msa0704790-mRNA-1;Parent=Msa0704790;Name=Msa0704790-mRNA-1;_AED=0.07;_eAED=0.07;_QI=107|1|1|1|1|1|10|240|330 |
| chr4_4 | exon | 77283930 | 77284289 | 77283930 | ID=Msa0704790-mRNA-1:exon:24424;Parent=Msa0704790-mRNA-1 |
| chr4_4 | exon | 77284417 | 77284482 | 77284417 | ID=Msa0704790-mRNA-1:exon:24423;Parent=Msa0704790-mRNA-1 |
| chr4_4 | exon | 77284583 | 77284673 | 77284583 | ID=Msa0704790-mRNA-1:exon:24422;Parent=Msa0704790-mRNA-1 |
| chr4_4 | exon | 77284941 | 77285070 | 77284941 | ID=Msa0704790-mRNA-1:exon:24421;Parent=Msa0704790-mRNA-1 |
| chr4_4 | exon | 77285193 | 77285281 | 77285193 | ID=Msa0704790-mRNA-1:exon:24420;Parent=Msa0704790-mRNA-1 |
| chr4_4 | exon | 77285367 | 77285443 | 77285367 | ID=Msa0704790-mRNA-1:exon:24419;Parent=Msa0704790-mRNA-1 |
| chr4_4 | exon | 77286267 | 77286335 | 77286267 | ID=Msa0704790-mRNA-1:exon:24418;Parent=Msa0704790-mRNA-1 |
| chr4_4 | exon | 77286459 | 77286533 | 77286459 | ID=Msa0704790-mRNA-1:exon:24417;Parent=Msa0704790-mRNA-1 |
| chr4_4 | exon | 77287008 | 77287103 | 77287008 | ID=Msa0704790-mRNA-1:exon:24416;Parent=Msa0704790-mRNA-1 |
| chr4_4 | exon | 77287347 | 77287633 | 77287347 | ID=Msa0704790-mRNA-1:exon:24415;Parent=Msa0704790-mRNA-1 |
| chr4_4 | five_prime_UTR | 77287527 | 77287633 | 77287527 | ID=Msa0704790-mRNA-1:five_prime_utr;Parent=Msa0704790-mRNA-1 |
| chr4_4 | CDS | 77287347 | 77287526 | 77287347 | ID=Msa0704790-mRNA-1:cds;Parent=Msa0704790-mRNA-1 |
| chr4_4 | CDS | 77287008 | 77287103 | 77287008 | ID=Msa0704790-mRNA-1:cds;Parent=Msa0704790-mRNA-1 |
| chr4_4 | CDS | 77286459 | 77286533 | 77286459 | ID=Msa0704790-mRNA-1:cds;Parent=Msa0704790-mRNA-1 |
| chr4_4 | CDS | 77286267 | 77286335 | 77286267 | ID=Msa0704790-mRNA-1:cds;Parent=Msa0704790-mRNA-1 |
| chr4_4 | CDS | 77285367 | 77285443 | 77285367 | ID=Msa0704790-mRNA-1:cds;Parent=Msa0704790-mRNA-1 |
| chr4_4 | CDS | 77285193 | 77285281 | 77285193 | ID=Msa0704790-mRNA-1:cds;Parent=Msa0704790-mRNA-1 |
| chr4_4 | CDS | 77284941 | 77285070 | 77284941 | ID=Msa0704790-mRNA-1:cds;Parent=Msa0704790-mRNA-1 |
| chr4_4 | CDS | 77284583 | 77284673 | 77284583 | ID=Msa0704790-mRNA-1:cds;Parent=Msa0704790-mRNA-1 |
| chr4_4 | CDS | 77284417 | 77284482 | 77284417 | ID=Msa0704790-mRNA-1:cds;Parent=Msa0704790-mRNA-1 |
| chr4_4 | CDS | 77284170 | 77284289 | 77284170 | ID=Msa0704790-mRNA-1:cds;Parent=Msa0704790-mRNA-1 |
| chr4_4 | three_prime_UTR | 77283930 | 77284169 | 77283930 | ID=Msa0704790-mRNA-1:three_prime_utr;Parent=Msa0704790-mRNA-1 |
| Gene Sequence |
>Msa0704790 ATGTTGATCACAACCATGCCTTACTCATCATCTTTACCCAAACCATATTATAATTTTTACCATAATCATCATCACCACCAAACATGCTTCAACATCAACCTCCCTAAATTCACAACCAGAGCTTCTTCCTCTGCTGCACCTGGTGTCGACCTCAACACTCTTGATTCTGCCATTGCCAAGAAAGACAGCAATGCAGTTAAAGAGGCACTTGATCAACTGAGTGAAATTGGTTGGGCCAAGAAATGGAGTTCTCAGCCATATGTTTCACGTCGTACGACATCACTTCGAGAGCTGACAACTTTAGGGATTAAAAATGCGGAGAACCTTGCAATTCCTAGTGTCAGAAATGATGCAGCTTTTCTCTTTACTGTGGTTGGAACAACTGGATTCTTGGGTATTCTGGCTGGCCAGCTTCCCGGGGATTGGGGCTTCTTTGTACCATACTTGATTGGGAGTATTTCCTTAGTGGTATTGGGTATAGGCAGCACATCTCCTGGGCTTCTCCAAGCAGCTATTAGCAGCTTTTCAGTTGTTTTTCCTGATTATCAAGAAAGGATTGCTAGACATGAAGCAGCCCACTTTTTGATTGCTTATCTGCTTGGCTTACCCATTTTGGGATATTCACTGGATATTGGAAAAGAGCATGTCAATCTCATTGATGATAGGCTTGAAAAGCTTCTCTATAGTGGTCAGCTTGATGCTAAGGAGATAGATAGATTGGCTGTTGTATCAATGGCTGGACTGGCAGCAGAAGGTTTAACATATGACAAGGTTGTTGGTCAATCTGCTGATCTTTTCACTCTCCAGAGGTTTATAAACAGAACCAAACCACAACTCAGCAAAGATCAGCAACAAAATCTCACTAGATGGGCAGTTTTGTTCGCTGCTTCTCTATTGAAAAACAACAAGTCGATCCATGAAGCCTTAATGGCATCGATGGCAAAGAAGGCAAGTGTACTCGAGTGCATTCAAACAATCGAAAGTGCATCATAG |
| Protein sequence |
>Msa0704790 MLITTMPYSSSLPKPYYNFYHNHHHHQTCFNINLPKFTTRASSSAAPGVDLNTLDSAIAKKDSNAVKEALDQLSEIGWAKKWSSQPYVSRRTTSLRELTTLGIKNAENLAIPSVRNDAAFLFTVVGTTGFLGILAGQLPGDWGFFVPYLIGSISLVVLGIGSTSPGLLQAAISSFSVVFPDYQERIARHEAAHFLIAYLLGLPILGYSLDIGKEHVNLIDDRLEKLLYSGQLDAKEIDRLAVVSMAGLAAEGLTYDKVVGQSADLFTLQRFINRTKPQLSKDQQQNLTRWAVLFAASLLKNNKSIHEALMASMAKKASVLECIQTIESAS* |
