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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0512930 | XP_003601450.1 | 95.896 | 268 | 8 | 2 | 1 | 267 | 1 | 266 | 0.0 | 527 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0512930 | sp|R4HZ96|D27_MEDTR | 37.727 | 220 | 136 | 1 | 43 | 262 | 32 | 250 | 6.65e-52 | 172 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000180 | Msa0512930 | 0.804091 | 2.551495e-49 | -8.615850e-47 |
| Msa0000220 | Msa0512930 | 0.835265 | 1.855232e-56 | -8.615850e-47 |
| Msa0000610 | Msa0512930 | 0.849550 | 3.009458e-60 | -8.615850e-47 |
| Msa0000800 | Msa0512930 | -0.806971 | 6.347825e-50 | -8.615850e-47 |
| Msa0001040 | Msa0512930 | 0.832078 | 1.160256e-55 | -8.615850e-47 |
| Msa0001510 | Msa0512930 | 0.868036 | 8.798911e-66 | -8.615850e-47 |
| Msa0002110 | Msa0512930 | 0.883341 | 4.872062e-71 | -8.615850e-47 |
| Msa0002690 | Msa0512930 | 0.909847 | 3.621472e-82 | -8.615850e-47 |
| Msa0002700 | Msa0512930 | 0.904782 | 8.565064e-80 | -8.615850e-47 |
| Msa0003340 | Msa0512930 | 0.903273 | 4.112315e-79 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0512930 | MtrunA17_Chr3g0119841 | 95.896 | 268 | 8 | 2 | 1 | 267 | 1 | 266 | 0.0 | 527 |
| Msa0512930 | MtrunA17_Chr1g0184911 | 37.727 | 220 | 136 | 1 | 43 | 262 | 40 | 258 | 4.97e-53 | 173 |
| Msa0512930 | MtrunA17_Chr7g0260531 | 46.746 | 169 | 89 | 1 | 94 | 262 | 80 | 247 | 6.11e-51 | 167 |
| Msa0512930 | MtrunA17_Chr1g0194531 | 33.468 | 248 | 136 | 7 | 23 | 261 | 17 | 244 | 6.21e-37 | 131 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0512930 | AT1G64680.1 | 75.000 | 240 | 53 | 1 | 28 | 267 | 18 | 250 | 1.66e-134 | 380 |
| Msa0512930 | AT1G64680.2 | 76.684 | 193 | 38 | 1 | 28 | 220 | 18 | 203 | 2.31e-105 | 304 |
| Msa0512930 | AT1G03055.1 | 36.100 | 241 | 133 | 3 | 8 | 248 | 32 | 251 | 6.26e-49 | 162 |
| Msa0512930 | AT4G01995.3 | 41.176 | 153 | 83 | 4 | 108 | 256 | 66 | 215 | 4.24e-31 | 115 |
| Msa0512930 | AT4G01995.1 | 41.176 | 153 | 83 | 4 | 108 | 256 | 97 | 246 | 5.25e-31 | 116 |
| Msa0512930 | AT1G03055.2 | 29.775 | 178 | 104 | 3 | 7 | 184 | 31 | 187 | 3.30e-17 | 78.2 |
Find 77 sgRNAs with CRISPR-Local
Find 215 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGAAGGAAAAGAAAGGT+TGG | 0.484991 | 3_4:+62970762 | Msa0512930:CDS |
| AAACTCATAAGTATATTTGG+TGG | 0.577668 | 3_4:+62970409 | Msa0512930:five_prime_UTR |
| AAAGGAGCAGGTTCACCAGA+TGG | 0.579959 | 3_4:-62970632 | None:intergenic |
| AAATATGCTCCAAGAGGAAA+TGG | 0.435825 | 3_4:+62970575 | Msa0512930:CDS |
| AACTCTGCAGCCCATCTTGT+CGG | 0.474565 | 3_4:-62971772 | None:intergenic |
| AATGGGGTGAAGCAAAAGAG+TGG | 0.694674 | 3_4:+62972646 | Msa0512930:CDS |
| AATTATTTCCACCGACAAGA+TGG | 0.485076 | 3_4:+62971761 | Msa0512930:CDS |
| AATTGAGATTAACCGGCCTT+TGG | 0.412665 | 3_4:-62973796 | None:intergenic |
| ACCTGAGCAGGCGCACCTGG+AGG | 0.601220 | 3_4:-62970902 | None:intergenic |
| ACTGGGTCGTCTTCAAATGA+AGG | 0.561598 | 3_4:-62973372 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TAGATTATGGATGGGTATAT+TGG | - | chr3_4:62970388-62970407 | None:intergenic | 30.0% | |
| ATTTATCAAGTACAAGCAGA+AGG | + | chr3_4:62970470-62970489 | Msa0512930:five_prime_UTR | 30.0% | |
| AGGGAATGCTAAAAAAAAGA+AGG | + | chr3_4:62970748-62970767 | Msa0512930:CDS | 30.0% | |
| AAAAGAAGGAAAAGAAAGGT+TGG | + | chr3_4:62970762-62970781 | Msa0512930:CDS | 30.0% | |
| AAGTATCTATGTTTCTTTCC+AGG | + | chr3_4:62970983-62971002 | Msa0512930:intron | 30.0% | |
| GTTTATCGAAACAAAGTCTA+AGG | + | chr3_4:62971190-62971209 | Msa0512930:intron | 30.0% | |
| ATTAATTATGCATCCCTTTC+TGG | - | chr3_4:62971235-62971254 | None:intergenic | 30.0% | |
| AGGATCCATATTACTAGTAA+TGG | - | chr3_4:62971437-62971456 | None:intergenic | 30.0% | |
| AAATTCTTCAATGAATAGCC+AGG | - | chr3_4:62971589-62971608 | None:intergenic | 30.0% | |
| TCTACATTATGCATGCAATA+TGG | + | chr3_4:62971681-62971700 | Msa0512930:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 62970371 | 62973806 | 62970371 | ID=Msa0512930;Name=Msa0512930 |
| chr3_4 | mRNA | 62970371 | 62973806 | 62970371 | ID=Msa0512930-mRNA-1;Parent=Msa0512930;Name=Msa0512930-mRNA-1;_AED=0.03;_eAED=0.03;_QI=156|1|1|1|1|1|6|256|267 |
| chr3_4 | exon | 62970371 | 62970922 | 62970371 | ID=Msa0512930-mRNA-1:exon:15630;Parent=Msa0512930-mRNA-1 |
| chr3_4 | exon | 62971754 | 62971846 | 62971754 | ID=Msa0512930-mRNA-1:exon:15631;Parent=Msa0512930-mRNA-1 |
| chr3_4 | exon | 62972628 | 62972689 | 62972628 | ID=Msa0512930-mRNA-1:exon:15632;Parent=Msa0512930-mRNA-1 |
| chr3_4 | exon | 62973081 | 62973187 | 62973081 | ID=Msa0512930-mRNA-1:exon:15633;Parent=Msa0512930-mRNA-1 |
| chr3_4 | exon | 62973328 | 62973423 | 62973328 | ID=Msa0512930-mRNA-1:exon:15634;Parent=Msa0512930-mRNA-1 |
| chr3_4 | exon | 62973501 | 62973806 | 62973501 | ID=Msa0512930-mRNA-1:exon:15635;Parent=Msa0512930-mRNA-1 |
| chr3_4 | five_prime_UTR | 62970371 | 62970526 | 62970371 | ID=Msa0512930-mRNA-1:five_prime_utr;Parent=Msa0512930-mRNA-1 |
| chr3_4 | CDS | 62970527 | 62970922 | 62970527 | ID=Msa0512930-mRNA-1:cds;Parent=Msa0512930-mRNA-1 |
| chr3_4 | CDS | 62971754 | 62971846 | 62971754 | ID=Msa0512930-mRNA-1:cds;Parent=Msa0512930-mRNA-1 |
| chr3_4 | CDS | 62972628 | 62972689 | 62972628 | ID=Msa0512930-mRNA-1:cds;Parent=Msa0512930-mRNA-1 |
| chr3_4 | CDS | 62973081 | 62973187 | 62973081 | ID=Msa0512930-mRNA-1:cds;Parent=Msa0512930-mRNA-1 |
| chr3_4 | CDS | 62973328 | 62973423 | 62973328 | ID=Msa0512930-mRNA-1:cds;Parent=Msa0512930-mRNA-1 |
| chr3_4 | CDS | 62973501 | 62973550 | 62973501 | ID=Msa0512930-mRNA-1:cds;Parent=Msa0512930-mRNA-1 |
| chr3_4 | three_prime_UTR | 62973551 | 62973806 | 62973551 | ID=Msa0512930-mRNA-1:three_prime_utr;Parent=Msa0512930-mRNA-1 |
| Gene Sequence |
>Msa0512930 ATGGTGGTTCTTAACTTTCAGCTTGTTCCTCAGCTAATAACTCCACCAAAATATGCTCCAAGAGGAAATGGTGCTACTGCTACCATCCGTTGTGGTATAGCTGAACCATCTGGTGAACCTGCTCCTTTAGGACAAAAGACACGTTACAATGACAGTATTTTTGAGAAGGTTTTCATGACTTTGTTTGCACGAAAAATGGAACCATTTGCAGAGCCTGTAATAGGGAATGCTAAAAAAAAGAAGGAAAAGAAAGGTTGGTTGGATATTTGGGAGTATGATTATGAGAGTTTTGTGGATGTGTCGAAAAGAGTAATGTTGCGTCGGTCTCGTTTGCAGCAACAGCAAGTTGTTCGTGAGGTTCTTCTCTCTATGCTTCCTCCAGGTGCGCCTGCTCAGTTTAGGAAATTATTTCCACCGACAAGATGGGCTGCAGAGTTTAATGCTGCATTGACAGTGCCTTTCTTCCACTGGCTAGTTGGTCCTTCTGAGGTTATAGAAGTGGAGATAAATGGGGTGAAGCAAAAGAGTGGCGTCCATATAAAGAAATGCAGGTACCTGGAGAACAGTGGATGTGTTGGACAGTGTGTTAATATGTGCAAGATTCCTACCCAAGATTTTTTCACTAATGAATTTGGACTTCCATTAACAATGATTCCAAATTTTGAAGACATGAGCTGTGATATGGTTTATGGCCAAACCCCGCCTTCATTTGAAGACGACCCAGTCTCCAAACAACCTTGCTATGCTGATATATGTTCTGTAGCGAATCCAAACTCAAGTATATGTCCTAAGCTACAATCATGA |
| Protein sequence |
>Msa0512930 MVVLNFQLVPQLITPPKYAPRGNGATATIRCGIAEPSGEPAPLGQKTRYNDSIFEKVFMTLFARKMEPFAEPVIGNAKKKKEKKGWLDIWEYDYESFVDVSKRVMLRRSRLQQQQVVREVLLSMLPPGAPAQFRKLFPPTRWAAEFNAALTVPFFHWLVGPSEVIEVEINGVKQKSGVHIKKCRYLENSGCVGQCVNMCKIPTQDFFTNEFGLPLTMIPNFEDMSCDMVYGQTPPSFEDDPVSKQPCYADICSVANPNSSICPKLQS* |
