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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG009064 | XP_013452469.2 | 48.851 | 174 | 61 | 2 | 1 | 174 | 1 | 146 | 4.52e-41 | 146 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG009064 | tr|A0A072UA39|A0A072UA39_MEDTR | 48.851 | 174 | 61 | 2 | 1 | 174 | 7 | 152 | 2.73e-41 | 146 |
| Gene ID | Type | Classification |
|---|---|---|
| MsaG009064 | TF | FAR1 |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsaG009064 | MtrunA17_Chr6g0473421 | 39.394 | 99 | 60 | 0 | 75 | 173 | 35 | 133 | 2.22e-19 | 80.1 |
| MsaG009064 | MtrunA17_Chr1g0172931 | 41.558 | 77 | 45 | 0 | 75 | 151 | 56 | 132 | 4.64e-16 | 71.6 |
| MsaG009064 | MtrunA17_Chr8g0389811 | 35.789 | 95 | 61 | 0 | 76 | 170 | 65 | 159 | 4.85e-16 | 72.4 |
| MsaG009064 | MtrunA17_Chr1g0203051 | 27.857 | 140 | 89 | 2 | 24 | 163 | 20 | 147 | 3.47e-15 | 72.4 |
| MsaG009064 | MtrunA17_Chr2g0331371 | 48.052 | 77 | 40 | 0 | 75 | 151 | 35 | 111 | 1.22e-14 | 68.9 |
| MsaG009064 | MtrunA17_Chr1g0171741 | 32.692 | 104 | 69 | 1 | 71 | 174 | 109 | 211 | 6.95e-11 | 59.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 31 sgRNAs with CRISPR-Local
Find sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTATCTTGTTACAGGATTT+AGG | 0.241914 | 2:-52466650 | MsaT009064.1:intron |
| TCTTGGTTTGCTAGAATGTC+TGG | 0.309748 | 2:-52466365 | MsaT009064.1:CDS |
| GCCTTGACAAAATATCTAAA+TGG | 0.312124 | 2:+52466172 | None:intergenic |
| ATACTTAGATGAACGTTTAC+TGG | 0.317917 | 2:-52466561 | MsaT009064.1:CDS |
| AAGGTATGAGTTTGTTAGGT+TGG | 0.331013 | 2:-52466408 | MsaT009064.1:CDS |
| TTTGTTCATGTCAAGGATAC+AGG | 0.344834 | 2:-52466277 | MsaT009064.1:CDS |
| TTCGTAAGAGGCAAGTTGTT+AGG | 0.349124 | 2:-52466334 | MsaT009064.1:CDS |
| TTGTTTGTGAATGCAGGTTT+GGG | 0.349590 | 2:-52466750 | MsaT009064.1:CDS |
| TGGAAAGGTATGAGTTTGTT+AGG | 0.350127 | 2:-52466412 | MsaT009064.1:CDS |
| GGAGGATAGGGGACTAACTA+TGG | 0.358554 | 2:-52466255 | MsaT009064.1:CDS |
| TCCGATTGTTATAAAAGATA+TGG | 0.384751 | 2:-52466480 | MsaT009064.1:CDS |
| TCAAGGATACAGGGAGGATA+GGG | 0.394949 | 2:-52466267 | MsaT009064.1:CDS |
| TTTGTTTGTGAATGCAGGTT+TGG | 0.395491 | 2:-52466751 | MsaT009064.1:CDS |
| GTATGAGTTTGTTAGGTTGG+AGG | 0.458750 | 2:-52466405 | MsaT009064.1:CDS |
| TCGTAAGAGGCAAGTTGTTA+GGG | 0.461755 | 2:-52466333 | MsaT009064.1:CDS |
| TTGGTAGCAACAGCCTAGAC+GGG | 0.499927 | 2:-52466616 | MsaT009064.1:CDS |
| GATTTAGGAGAAGAAAGTGT+TGG | 0.508233 | 2:-52466635 | MsaT009064.1:CDS |
| AATCCTTTGTTTGTGAATGC+AGG | 0.515684 | 2:-52466756 | MsaT009064.1:CDS |
| GTCAAGGATACAGGGAGGAT+AGG | 0.518923 | 2:-52466268 | MsaT009064.1:CDS |
| CAATGTAATGGAGATGTCGT+TGG | 0.554209 | 2:-52466590 | MsaT009064.1:CDS |
| GTTGGTAGCAACAGCCTAGA+CGG | 0.557965 | 2:-52466617 | MsaT009064.1:CDS |
| TTGTTCATGTCAAGGATACA+GGG | 0.566377 | 2:-52466276 | MsaT009064.1:CDS |
| TTTGTTTAGATGATGTGGAA+AGG | 0.567827 | 2:-52466427 | MsaT009064.1:CDS |
| TATAGGTATTCAAGCATGCA+AGG | 0.570599 | 2:-52466795 | None:intergenic |
| AAACCAAGAGTAAAACATGT+AGG | 0.581375 | 2:+52466379 | None:intergenic |
| AAACCTGCATTCACAAACAA+AGG | 0.614284 | 2:+52466753 | None:intergenic |
| CAAGGATACAGGGAGGATAG+GGG | 0.631155 | 2:-52466266 | MsaT009064.1:CDS |
| TGGTAGCAACAGCCTAGACG+GGG | 0.646492 | 2:-52466615 | MsaT009064.1:CDS |
| CAAGTTGTTAGGGATCACAA+AGG | 0.736584 | 2:-52466323 | MsaT009064.1:CDS |
| TTCATGTCAAGGATACAGGG+AGG | 0.738300 | 2:-52466273 | MsaT009064.1:CDS |
| GGTAGCAACAGCCTAGACGG+GGG | 0.745369 | 2:-52466614 | MsaT009064.1:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr2 | gene | 52466187 | 52466802 | 52466187 | ID=MsaG009064 |
| Chr2 | mRNA | 52466187 | 52466802 | 52466187 | ID=MsaT009064.1;Parent=MsaG009064 |
| Chr2 | exon | 52466187 | 52466657 | 52466187 | ID=MsaT009064.1.exon2;Parent=MsaT009064.1 |
| Chr2 | CDS | 52466187 | 52466657 | 52466187 | ID=cds.MsaT009064.1;Parent=MsaT009064.1 |
| Chr2 | exon | 52466740 | 52466802 | 52466740 | ID=MsaT009064.1.exon1;Parent=MsaT009064.1 |
| Chr2 | CDS | 52466740 | 52466802 | 52466740 | ID=cds.MsaT009064.1;Parent=MsaT009064.1 |
| Gene Sequence |
| Protein sequence |
