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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0280009598.01.T01 | XP_013464217.1 | 95.6 | 250 | 8 | 1 | 1 | 250 | 1 | 247 | 3.63E-172 | 484 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0280009598.01.T01 | A0A072V8W9 | 95.600 | 250 | 8 | 1 | 1 | 250 | 1 | 247 | 1.73e-172 | 484 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsG0080048177.01 | MsG0280009598.01 | 0.803017 | 4.260963e-49 | 2.118098e-46 |
| MsG0080048205.01 | MsG0280009598.01 | 0.830078 | 3.595604e-55 | 3.748772e-52 |
| MsG0080048830.01 | MsG0280009598.01 | 0.843014 | 1.818347e-58 | 2.806762e-55 |
| MsG0080048982.01 | MsG0280009598.01 | 0.821512 | 3.881652e-53 | 3.164324e-50 |
| MsG0180000157.01 | MsG0280009598.01 | 0.828466 | 8.853152e-55 | 8.806936e-52 |
| MsG0180000235.01 | MsG0280009598.01 | 0.821530 | 3.845420e-53 | 3.136371e-50 |
| MsG0180000271.01 | MsG0280009598.01 | 0.804975 | 1.668414e-49 | 8.722743e-47 |
| MsG0180000363.01 | MsG0280009598.01 | 0.828614 | 8.151206e-55 | 8.143665e-52 |
| MsG0180000391.01 | MsG0280009598.01 | 0.813358 | 2.664820e-51 | 1.736524e-48 |
| MsG0180000475.01 | MsG0280009598.01 | 0.809407 | 1.920995e-50 | 1.126993e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0280009598.01.T01 | MTR_2g066700 | 95.600 | 250 | 8 | 1 | 1 | 250 | 1 | 247 | 4.39e-176 | 484 |
Find 59 sgRNAs with CRISPR-Local
Find 113 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAATTCAAGTCTTGAAGTTT+TGG | 0.307088 | 2:-54975132 | None:intergenic |
| AATACATAAGATAAGCAACC+AGG | 0.660615 | 2:-54975459 | None:intergenic |
| AATTTAGTTGGTTTAAAGAT+AGG | 0.327156 | 2:+54975670 | MsG0280009598.01.T01:three_prime_UTR |
| ACACTTTGGTAATTGCTTGT+TGG | 0.440772 | 2:-54975234 | None:intergenic |
| ACGGTAGGTAATGATTCTCA+TGG | 0.626022 | 2:+54973817 | MsG0280009598.01.T01:CDS |
| AGAATAATCCTAAGTGTCCT+AGG | 0.485771 | 2:+54975490 | MsG0280009598.01.T01:CDS |
| AGAATTGGATCTTGATTTAC+AGG | 0.260293 | 2:+54973903 | MsG0280009598.01.T01:CDS |
| AGCTCTCTTGTTAGGGTTCT+AGG | 0.222073 | 2:+54973754 | MsG0280009598.01.T01:CDS |
| AGGGTTCTAGGTGGTGGTGG+TGG | 0.444252 | 2:+54973766 | MsG0280009598.01.T01:CDS |
| ATAAGTGGTTTAAGGATAAT+TGG | 0.226069 | 2:+54975578 | MsG0280009598.01.T01:exon |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AAAAAGAACCCATAAGGAAA+AGG | + | Chr2:54975298-54975317 | MsG0280009598.01.T01:CDS | 30.0% | |
| AATACATAAGATAAGCAACC+AGG | - | Chr2:54975462-54975481 | None:intergenic | 30.0% | |
| AGAATTGGATCTTGATTTAC+AGG | + | Chr2:54973903-54973922 | MsG0280009598.01.T01:CDS | 30.0% | |
| CAAAAGGAAAATATACCTGA+AGG | - | Chr2:54973957-54973976 | None:intergenic | 30.0% | |
| GAAAATGATTTCATCACCAA+TGG | + | Chr2:54975425-54975444 | MsG0280009598.01.T01:CDS | 30.0% | |
| GACATAAATACAGAGTACAT+AGG | - | Chr2:54974582-54974601 | None:intergenic | 30.0% | |
| GATGAAGAAGAAGAATATGA+AGG | - | Chr2:54975360-54975379 | None:intergenic | 30.0% | |
| GATTCATCAAATAGGTTCAA+TGG | - | Chr2:54975180-54975199 | None:intergenic | 30.0% | |
| GTAAATCAAGATCCAATTCT+TGG | - | Chr2:54973903-54973922 | None:intergenic | 30.0% | |
| TTCAATTGAATCCCAAGAAT+TGG | + | Chr2:54973888-54973907 | MsG0280009598.01.T01:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr2 | gene | 54973650 | 54975789 | 54973650 | ID=MsG0280009598.01;Name=MsG0280009598.01 |
| Chr2 | mRNA | 54973650 | 54975789 | 54973650 | ID=MsG0280009598.01.T01;Parent=MsG0280009598.01;Name=MsG0280009598.01.T01;_AED=0.48;_eAED=0.48;_QI=89|1|1|1|1|1|2|211|250 |
| Chr2 | exon | 54975048 | 54975789 | 54975048 | ID=MsG0280009598.01.T01:exon:18376;Parent=MsG0280009598.01.T01 |
| Chr2 | exon | 54973650 | 54973960 | 54973650 | ID=MsG0280009598.01.T01:exon:18375;Parent=MsG0280009598.01.T01 |
| Chr2 | five_prime_UTR | 54973650 | 54973738 | 54973650 | ID=MsG0280009598.01.T01:five_prime_utr;Parent=MsG0280009598.01.T01 |
| Chr2 | CDS | 54973739 | 54973960 | 54973739 | ID=MsG0280009598.01.T01:cds;Parent=MsG0280009598.01.T01 |
| Chr2 | CDS | 54975048 | 54975578 | 54975048 | ID=MsG0280009598.01.T01:cds;Parent=MsG0280009598.01.T01 |
| Chr2 | three_prime_UTR | 54975579 | 54975789 | 54975579 | ID=MsG0280009598.01.T01:three_prime_utr;Parent=MsG0280009598.01.T01 |
| Gene Sequence |
>MsG0280009598.01.T01 ATGGCTGCTGAAGTTAGCTCTCTTGTTAGGGTTCTAGGTGGTGGTGGTGGTGGTGGATACAAAGAAGAGCAACATCGAACGGTAGGTAATGATTCTCATGGTGAGAAATCAACGGCTCTGATTACAAGAGACTTGCTTGGTGGGTCCTCTTCAATTGAATCCCAAGAATTGGATCTTGATTTACAGGTTCCTAGTGGCTGGGAAAAACGTCTTGACCTTCAGTCAGGGAAAGTTTATATTCAAAGATGCAACACATTAACCCAATCACCAATTTCTGAACAAAAAAATCAAGGAAAATCAACAACACCAAAACTTCAAGACTTGAATTTCCCATCAACACAAACAAATGTTCCATTGAACCTATTTGATGAATCAAATTTAGACCTAAAACTTGTTTCATCTGCTTTACCAACAAGCAATTACCAAAGTGTATGCACTCTTGACAAAGTGAAATCAGCACTTGAAAGAGCTGAAAAAGAACCCATAAGGAAAAGGTCATCATTCTTGAAATCGTCGATTTCAGCAACATCGCCTTCATATTCTTCTTCTTCATCGTCGTTAAGAGAACCAAATCATCAAGAAGAAGAAAGTGATCAAGAGAAAATGATTTCATCACCAATGGCTGCAGGGTGTCCTGGTTGCTTATCTTATGTATTGATTATGAAGAATAATCCTAAGTGTCCTAGGTGTAACTCTATTGTACCAATTCCAACTATGAAGAAACCTAGGATTGATCTTAATATTTCAATTTAA |
| Protein sequence |
>MsG0280009598.01.T01 MAAEVSSLVRVLGGGGGGGYKEEQHRTVGNDSHGEKSTALITRDLLGGSSSIESQELDLDLQVPSGWEKRLDLQSGKVYIQRCNTLTQSPISEQKNQGKSTTPKLQDLNFPSTQTNVPLNLFDESNLDLKLVSSALPTSNYQSVCTLDKVKSALERAEKEPIRKRSSFLKSSISATSPSYSSSSSSLREPNHQEEESDQEKMISSPMAAGCPGCLSYVLIMKNNPKCPRCNSIVPIPTMKKPRIDLNISI* |
