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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0876030 | XP_013451290.2 | 95.486 | 288 | 6 | 1 | 1 | 281 | 1 | 288 | 0.0 | 560 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0876030 | sp|Q55403|Y575_SYNY3 | 36.702 | 188 | 103 | 5 | 90 | 272 | 4 | 180 | 7.41e-28 | 108 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0876030 | A0A396HF23 | 95.486 | 288 | 6 | 1 | 1 | 281 | 1 | 288 | 0.0 | 560 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000220 | Msa0876030 | 0.844922 | 5.598728e-59 | -8.615850e-47 |
| Msa0001040 | Msa0876030 | 0.805589 | 1.240940e-49 | -8.615850e-47 |
| Msa0001510 | Msa0876030 | 0.869084 | 4.034974e-66 | -8.615850e-47 |
| Msa0002110 | Msa0876030 | 0.829205 | 5.864350e-55 | -8.615850e-47 |
| Msa0002690 | Msa0876030 | 0.848265 | 6.841868e-60 | -8.615850e-47 |
| Msa0002700 | Msa0876030 | 0.841254 | 5.310741e-58 | -8.615850e-47 |
| Msa0003340 | Msa0876030 | 0.854904 | 9.017662e-62 | -8.615850e-47 |
| Msa0004180 | Msa0876030 | 0.850565 | 1.564450e-60 | -8.615850e-47 |
| Msa0004340 | Msa0876030 | 0.833773 | 4.398994e-56 | -8.615850e-47 |
| Msa0005190 | Msa0876030 | 0.859130 | 5.117994e-63 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0876030 | MtrunA17_Chr6g0457151 | 95.486 | 288 | 6 | 1 | 1 | 281 | 1 | 288 | 0.0 | 560 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0876030 | AT5G38660.1 | 81.863 | 204 | 36 | 1 | 78 | 280 | 81 | 284 | 1.37e-122 | 352 |
| Msa0876030 | AT5G38660.2 | 83.889 | 180 | 29 | 0 | 78 | 257 | 81 | 260 | 2.63e-109 | 323 |
Find 80 sgRNAs with CRISPR-Local
Find 260 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACGATTTATATGAGGTT+CGG | 0.442396 | 6_1:-13409847 | Msa0876030:CDS |
| AAATAGAAAAGCAATTGAAA+AGG | 0.486550 | 6_1:-13409646 | Msa0876030:three_prime_UTR |
| AAGATAGTGGAACCGGTGAC+CGG | 0.507708 | 6_1:+13414941 | None:intergenic |
| AAGGAAGAGCCTAGCCAATG+TGG | 0.631463 | 6_1:-13409627 | Msa0876030:three_prime_UTR |
| AAGTGCACCCATTCTACAGA+TGG | 0.605114 | 6_1:-13411638 | Msa0876030:CDS |
| AATAACTTACTAGACCATAT+TGG | 0.381211 | 6_1:+13412044 | None:intergenic |
| AATGTGAAAGATAAAGAATG+AGG | 0.557360 | 6_1:-13415101 | None:intergenic |
| ACAAGATGGAAAATATTCTT+TGG | 0.355807 | 6_1:-13411225 | Msa0876030:CDS |
| ACAAGTGTCCTACTATCAAC+TGG | 0.433759 | 6_1:+13414756 | None:intergenic |
| ACACGTAATCTCAAATTTGG+CGG | 0.552221 | 6_1:-13415078 | Msa0876030:five_prime_UTR |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CTTAGCATGAAAACATGAAA+TGG | + | chr6_1:13409847-13409866 | None:intergenic | 30.0% | |
| GATAATGAAAAAGGAACTGA+GGG | + | chr6_1:13410018-13410037 | None:intergenic | 30.0% | |
| AGATAATGAAAAAGGAACTG+AGG | + | chr6_1:13410019-13410038 | None:intergenic | 30.0% | |
| TTATTTGCAGCTTATATCAC+AGG | - | chr6_1:13410233-13410252 | Msa0876030:intron | 30.0% | |
| ATAAGCTCGTAAGAAAACAA+CGG | - | chr6_1:13410723-13410742 | Msa0876030:intron | 30.0% | |
| CTTCAGTACATAGGTAAAAT+TGG | + | chr6_1:13410887-13410906 | None:intergenic | 30.0% | |
| CTCAATGATAAAATACACAC+AGG | + | chr6_1:13411284-13411303 | None:intergenic | 30.0% | |
| TTGTATATCAATGAAGAAGG+TGG | + | chr6_1:13411482-13411501 | None:intergenic | 30.0% | |
| GCATACTTTAATATTCTTCC+TGG | - | chr6_1:13411573-13411592 | Msa0876030:intron | 30.0% | |
| ATGTGAATCAAGTTATACGA+TGG | - | chr6_1:13411682-13411701 | Msa0876030:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_1 | gene | 13409621 | 13415114 | 13409621 | ID=Msa0876030;Name=Msa0876030 |
| chr6_1 | mRNA | 13409621 | 13415114 | 13409621 | ID=Msa0876030-mRNA-1;Parent=Msa0876030;Name=Msa0876030-mRNA-1;_AED=0.01;_eAED=0.01;_QI=117|1|1|1|1|1|9|184|281 |
| chr6_1 | exon | 13409621 | 13409878 | 13409621 | ID=Msa0876030-mRNA-1:exon:3947;Parent=Msa0876030-mRNA-1 |
| chr6_1 | exon | 13410091 | 13410136 | 13410091 | ID=Msa0876030-mRNA-1:exon:3946;Parent=Msa0876030-mRNA-1 |
| chr6_1 | exon | 13411172 | 13411252 | 13411172 | ID=Msa0876030-mRNA-1:exon:3945;Parent=Msa0876030-mRNA-1 |
| chr6_1 | exon | 13411627 | 13411680 | 13411627 | ID=Msa0876030-mRNA-1:exon:3944;Parent=Msa0876030-mRNA-1 |
| chr6_1 | exon | 13412054 | 13412137 | 13412054 | ID=Msa0876030-mRNA-1:exon:3943;Parent=Msa0876030-mRNA-1 |
| chr6_1 | exon | 13412497 | 13412583 | 13412497 | ID=Msa0876030-mRNA-1:exon:3942;Parent=Msa0876030-mRNA-1 |
| chr6_1 | exon | 13413073 | 13413175 | 13413073 | ID=Msa0876030-mRNA-1:exon:3941;Parent=Msa0876030-mRNA-1 |
| chr6_1 | exon | 13413276 | 13413322 | 13413276 | ID=Msa0876030-mRNA-1:exon:3940;Parent=Msa0876030-mRNA-1 |
| chr6_1 | exon | 13414728 | 13415114 | 13414728 | ID=Msa0876030-mRNA-1:exon:3939;Parent=Msa0876030-mRNA-1 |
| chr6_1 | five_prime_UTR | 13414998 | 13415114 | 13414998 | ID=Msa0876030-mRNA-1:five_prime_utr;Parent=Msa0876030-mRNA-1 |
| chr6_1 | CDS | 13414728 | 13414997 | 13414728 | ID=Msa0876030-mRNA-1:cds;Parent=Msa0876030-mRNA-1 |
| chr6_1 | CDS | 13413276 | 13413322 | 13413276 | ID=Msa0876030-mRNA-1:cds;Parent=Msa0876030-mRNA-1 |
| chr6_1 | CDS | 13413073 | 13413175 | 13413073 | ID=Msa0876030-mRNA-1:cds;Parent=Msa0876030-mRNA-1 |
| chr6_1 | CDS | 13412497 | 13412583 | 13412497 | ID=Msa0876030-mRNA-1:cds;Parent=Msa0876030-mRNA-1 |
| chr6_1 | CDS | 13412054 | 13412137 | 13412054 | ID=Msa0876030-mRNA-1:cds;Parent=Msa0876030-mRNA-1 |
| chr6_1 | CDS | 13411627 | 13411680 | 13411627 | ID=Msa0876030-mRNA-1:cds;Parent=Msa0876030-mRNA-1 |
| chr6_1 | CDS | 13411172 | 13411252 | 13411172 | ID=Msa0876030-mRNA-1:cds;Parent=Msa0876030-mRNA-1 |
| chr6_1 | CDS | 13410091 | 13410136 | 13410091 | ID=Msa0876030-mRNA-1:cds;Parent=Msa0876030-mRNA-1 |
| chr6_1 | CDS | 13409805 | 13409878 | 13409805 | ID=Msa0876030-mRNA-1:cds;Parent=Msa0876030-mRNA-1 |
| chr6_1 | three_prime_UTR | 13409621 | 13409804 | 13409621 | ID=Msa0876030-mRNA-1:three_prime_utr;Parent=Msa0876030-mRNA-1 |
| Gene Sequence |
>Msa0876030 ATGATGTTATTTGAATGCAAAGCCGTGTCCTCCTCCGGTCACCGGTTCCACTATCTTCCTCCTCTTCAACTCACAAAGTCTCCACTTGTTTCTGTTCATCCTCAATCCATTTCATGTTTTCATGCTAAGCTTTTCTTCAAAAGCAATAGGTTTAGTTTTGTTCCGGTAAGAGCTGCTGATTCTTCAACTACTACAGCTTCTCAGTCTTCTTCTGGTGTTCCAGTTGATAGTAGGACACTTGTTCCTGATGATGAAATCTCCATCACTAAGATTTCATTCGGTACGATTGGACTAAGTCTTGGAGTCTCACTCTTGTCGTATGGTTTTGGAGCATACTTTAATATTCTTCCTGGATCTGAATGGTCTGCTATAATGTTAACATATGGTTTCCCTCTTGCTATCATTGGCATGGCACTCAAGTATGCAGAACTCAAGCCAGTACCTTGCCTCACATATTCAGATGCTTACAAATTGCAAGAAAAATGTGCAACTCCTATTCTTAAACAGGTGAAGAGTGATGTTACCAGATTTCGCTATGGGGATGAACAACATTTAGAGGAGGCATTGAAACGGATTTTCCAATATGGTCTAGGAAATGGAATCCCTAGAAGAAGTGCACCCATTCTACAGATGGTTCGTGAAGAGGTCACACAAGATGGAAAATATTCTTTGGTCTTGGTTTTCGAGGCTAAGGCTCTAAAGTTGTCAGATTTTGAACAGAGACAGGCTAAATTTACTTCATTCTTTGGGCCTGGAATTACAGCAGAAGTTGGTAAGGGCGAAAACGATTTATATGAGGTTCGGCTTATCTCAAATACAGACCCTAATGCTGCATCTTCTCCATGA |
| Protein sequence |
>Msa0876030 MMLFECKAVSSSGHRFHYLPPLQLTKSPLVSVHPQSISCFHAKLFFKSNRFSFVPVRAADSSTTTASQSSSGVPVDSRTLVPDDEISITKISFGTIGLSLGVSLLSYGFGAYFNILPGSEWSAIMLTYGFPLAIIGMALKYAELKPVPCLTYSDAYKLQEKCATPILKQVKSDVTRFRYGDEQHLEEALKRIFQYGLGNGIPRRSAPILQMVREEVTQDGKYSLVLVFEAKALKLSDFEQRQAKFTSFFGPGITAEVGKGENDLYEVRLISNTDPNAASSP* |
