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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0380017040.01.T01 | XP_013461687.1 | 82.707 | 133 | 12 | 2 | 1 | 122 | 1 | 133 | 3.11E-69 | 214 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0380017040.01.T01 | A0A072V1K5 | 82.707 | 133 | 12 | 2 | 1 | 122 | 1 | 133 | 1.49e-69 | 214 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsG0080047814.01 | MsG0380017040.01 | 0.802264 | 6.092593e-49 | 2.971275e-46 |
| MsG0080047869.01 | MsG0380017040.01 | 0.821147 | 4.711156e-53 | 3.801990e-50 |
| MsG0080047912.01 | MsG0380017040.01 | 0.807792 | 4.250890e-50 | 2.389647e-47 |
| MsG0080047944.01 | MsG0380017040.01 | 0.819576 | 1.080122e-52 | 8.344274e-50 |
| MsG0080047957.01 | MsG0380017040.01 | 0.819466 | 1.144270e-52 | 8.812824e-50 |
| MsG0080047959.01 | MsG0380017040.01 | 0.817539 | 3.129684e-52 | 2.285547e-49 |
| MsG0080048461.01 | MsG0380017040.01 | 0.812898 | 3.361871e-51 | 2.163602e-48 |
| MsG0080048462.01 | MsG0380017040.01 | 0.800595 | 1.339056e-48 | 6.259760e-46 |
| MsG0080048856.01 | MsG0380017040.01 | 0.825645 | 4.188024e-54 | 3.839881e-51 |
| MsG0080048952.01 | MsG0380017040.01 | 0.801729 | 7.849058e-49 | 3.775958e-46 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0380017040.01.T01 | MTR_3g099773 | 82.707 | 133 | 12 | 2 | 1 | 122 | 1 | 133 | 3.77e-73 | 214 |
| MsG0380017040.01.T01 | MTR_5g065550 | 64.885 | 131 | 35 | 3 | 2 | 122 | 3 | 132 | 4.48e-54 | 166 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0380017040.01.T01 | AT4G14600 | 53.906 | 128 | 46 | 2 | 7 | 122 | 11 | 137 | 4.43e-44 | 140 |
| MsG0380017040.01.T01 | AT1G29060 | 53.383 | 133 | 49 | 2 | 2 | 122 | 3 | 134 | 3.15e-38 | 125 |
| MsG0380017040.01.T01 | AT1G29060 | 61.111 | 72 | 28 | 0 | 51 | 122 | 22 | 93 | 5.88e-24 | 88.6 |
Find 41 sgRNAs with CRISPR-Local
Find 131 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGGACCACGTGAACAATA+TGG | 0.426700 | 3:+91071820 | None:intergenic |
| AACAGGAGTATCGTGCGAAA+TGG | 0.487568 | 3:-91071849 | MsG0380017040.01.T01:CDS |
| AATACGCAATTGAATTTCAT+CGG | 0.502875 | 3:+91073566 | None:intergenic |
| AATATCTAAGAAGATTGAAC+AGG | 0.473210 | 3:-91071866 | MsG0380017040.01.T01:CDS |
| AATTCAATTCAATTCATTCA+AGG | 0.441725 | 3:-91073781 | MsG0380017040.01.T01:five_prime_UTR |
| AATTGCGTATTGATCCTGTT+GGG | 0.495977 | 3:-91073554 | MsG0380017040.01.T01:CDS |
| ACAGTGGCAAAGGCTCAAGC+TGG | 0.467813 | 3:-91071897 | MsG0380017040.01.T01:CDS |
| ACGCAATTGAATTTCATCGG+AGG | 0.672382 | 3:+91073569 | None:intergenic |
| AGGGCAAACATCGCCGTAAA+AGG | 0.333417 | 3:+91073717 | None:intergenic |
| AGGGTGTTTGTTACCTTGAT+CGG | 0.467925 | 3:+91073692 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AATTCATTCAAATGCAGTGA+GGG | - | Chr3:91071863-91071882 | MsG0380017040.01.T01:CDS | 30.0% | |
| ATTAAGGAAGAACCAATAGA+TGG | + | Chr3:91073087-91073106 | None:intergenic | 30.0% | |
| CAGAGAATCAAAAACGAAAA+CGG | + | Chr3:91072541-91072560 | None:intergenic | 30.0% | |
| CATTCATAAACAAGCAATAC+AGG | + | Chr3:91072179-91072198 | None:intergenic | 30.0% | |
| CTGTATTCTACTCATACATT+GGG | - | Chr3:91072695-91072714 | MsG0380017040.01.T01:intron | 30.0% | |
| GATTCTCTGCATATAACTTT+GGG | - | Chr3:91072552-91072571 | MsG0380017040.01.T01:intron | 30.0% | |
| GATTTCGATGATGAAATTAC+CGG | - | Chr3:91071949-91071968 | MsG0380017040.01.T01:intron | 30.0% | |
| GCATGCATATTCTTTCTAAA+AGG | + | Chr3:91073518-91073537 | None:intergenic | 30.0% | |
| GCTTTATGATATCAGGAAAA+TGG | - | Chr3:91072757-91072776 | MsG0380017040.01.T01:intron | 30.0% | |
| GTTACATGCTTTATGATATC+AGG | - | Chr3:91072750-91072769 | MsG0380017040.01.T01:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr3 | gene | 91071602 | 91073901 | 91071602 | ID=MsG0380017040.01;Name=MsG0380017040.01 |
| Chr3 | mRNA | 91071602 | 91073901 | 91071602 | ID=MsG0380017040.01.T01;Parent=MsG0380017040.01;Name=MsG0380017040.01.T01;_AED=0.07;_eAED=0.07;_QI=137|0.66|0.75|1|1|1|4|162|122 |
| Chr3 | exon | 91071602 | 91071925 | 91071602 | ID=MsG0380017040.01.T01:exon:5210;Parent=MsG0380017040.01.T01 |
| Chr3 | exon | 91072858 | 91072914 | 91072858 | ID=MsG0380017040.01.T01:exon:5209;Parent=MsG0380017040.01.T01 |
| Chr3 | exon | 91073533 | 91073623 | 91073533 | ID=MsG0380017040.01.T01:exon:5208;Parent=MsG0380017040.01.T01 |
| Chr3 | exon | 91073706 | 91073901 | 91073706 | ID=MsG0380017040.01.T01:exon:5207;Parent=MsG0380017040.01.T01 |
| Chr3 | five_prime_UTR | 91073765 | 91073901 | 91073765 | ID=MsG0380017040.01.T01:five_prime_utr;Parent=MsG0380017040.01.T01 |
| Chr3 | CDS | 91073706 | 91073764 | 91073706 | ID=MsG0380017040.01.T01:cds;Parent=MsG0380017040.01.T01 |
| Chr3 | CDS | 91073533 | 91073623 | 91073533 | ID=MsG0380017040.01.T01:cds;Parent=MsG0380017040.01.T01 |
| Chr3 | CDS | 91072858 | 91072914 | 91072858 | ID=MsG0380017040.01.T01:cds;Parent=MsG0380017040.01.T01 |
| Chr3 | CDS | 91071764 | 91071925 | 91071764 | ID=MsG0380017040.01.T01:cds;Parent=MsG0380017040.01.T01 |
| Chr3 | three_prime_UTR | 91071602 | 91071763 | 91071602 | ID=MsG0380017040.01.T01:three_prime_utr;Parent=MsG0380017040.01.T01 |
| Gene Sequence |
>MsG0380017040.01.T01 ATGTCGAATTCGCTTAGAGGTGGATCCTTTTACGGCGATGTTTGCCCTTTCCGATCAAGTGAGGGACTTAGCACCAGAACTCCTGCTGGTTCCTCCGATGAAATTCAATTGCGTATTGATCCTGTTGGGATTTCGATGATGAAATTACCGGTTGCTGAAGAGATAGGTACAGAAGTCAAGACTCAAAAAGATTTTCTGGAACAGCTGCAAATGACAGTGGCAAAGGCTCAAGCTGGGGTGAAGAAATATCTAAGAAGATTGAACAGGAGTATCGTGCGAAATGGTTCAAACCATATTGTTCACGTGGTCCTTTTCGCATTAATATGTTTCACTATTGTGTATCTTTGGTCGAAGATGTCCAGAAAGTGA |
| Protein sequence |
>MsG0380017040.01.T01 MSNSLRGGSFYGDVCPFRSSEGLSTRTPAGSSDEIQLRIDPVGISMMKLPVAEEIGTEVKTQKDFLEQLQMTVAKAQAGVKKYLRRLNRSIVRNGSNHIVHVVLFALICFTIVYLWSKMSRK* |
