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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1104880 | XP_024625522.1 | 85.012 | 814 | 122 | 0 | 1 | 814 | 7 | 820 | 0.0 | 1437 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1104880 | sp|Q9SXB8|Y1133_ARATH | 50.428 | 817 | 374 | 11 | 26 | 814 | 29 | 842 | 0.0 | 825 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1104880 | A0A396GXQ7 | 84.767 | 814 | 117 | 2 | 1 | 814 | 1 | 807 | 0.0 | 1435 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1055900 | Msa1104880 | 0.815796 | 7.694171e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1104880 | MtrunA17_Chr7g0236551 | 84.767 | 814 | 117 | 2 | 1 | 814 | 1 | 807 | 0.0 | 1435 |
| Msa1104880 | MtrunA17_Chr7g0236511 | 82.555 | 814 | 121 | 1 | 1 | 814 | 7 | 799 | 0.0 | 1384 |
| Msa1104880 | MtrunA17_Chr7g0236651 | 75.926 | 810 | 179 | 2 | 5 | 814 | 3 | 796 | 0.0 | 1271 |
| Msa1104880 | MtrunA17_Chr7g0236341 | 74.109 | 842 | 180 | 4 | 1 | 814 | 1 | 832 | 0.0 | 1263 |
| Msa1104880 | MtrunA17_Chr7g0236691 | 76.313 | 819 | 189 | 1 | 1 | 814 | 1 | 819 | 0.0 | 1255 |
| Msa1104880 | MtrunA17_Chr7g0236561 | 74.024 | 820 | 182 | 3 | 25 | 814 | 5 | 823 | 0.0 | 1235 |
| Msa1104880 | MtrunA17_Chr7g0236641 | 69.550 | 844 | 227 | 2 | 1 | 814 | 1 | 844 | 0.0 | 1192 |
| Msa1104880 | MtrunA17_Chr7g0236121 | 65.747 | 797 | 263 | 8 | 8 | 796 | 10 | 804 | 0.0 | 1087 |
| Msa1104880 | MtrunA17_Chr7g0236471 | 77.811 | 667 | 131 | 4 | 157 | 814 | 1 | 659 | 0.0 | 1063 |
| Msa1104880 | MtrunA17_Chr7g0236201 | 63.391 | 814 | 257 | 9 | 8 | 814 | 10 | 789 | 0.0 | 1045 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1104880 | AT1G11330.2 | 50.428 | 817 | 374 | 11 | 26 | 814 | 29 | 842 | 0.0 | 825 |
| Msa1104880 | AT1G11330.1 | 50.613 | 816 | 372 | 12 | 26 | 814 | 29 | 840 | 0.0 | 824 |
| Msa1104880 | AT1G11300.1 | 49.208 | 821 | 385 | 11 | 13 | 814 | 13 | 820 | 0.0 | 800 |
| Msa1104880 | AT1G11300.2 | 49.082 | 817 | 377 | 11 | 13 | 814 | 13 | 805 | 0.0 | 791 |
| Msa1104880 | AT1G11303.1 | 48.477 | 821 | 391 | 11 | 13 | 814 | 13 | 820 | 0.0 | 783 |
| Msa1104880 | AT1G11350.1 | 48.477 | 821 | 396 | 11 | 18 | 814 | 13 | 830 | 0.0 | 769 |
| Msa1104880 | AT1G11330.3 | 52.235 | 716 | 311 | 11 | 26 | 713 | 29 | 741 | 0.0 | 743 |
| Msa1104880 | AT4G21390.1 | 44.431 | 853 | 414 | 16 | 10 | 814 | 9 | 849 | 0.0 | 695 |
| Msa1104880 | AT1G61610.1 | 45.377 | 822 | 405 | 16 | 28 | 814 | 30 | 842 | 0.0 | 694 |
| Msa1104880 | AT1G61370.1 | 44.214 | 821 | 432 | 13 | 7 | 814 | 7 | 814 | 0.0 | 676 |
Find 180 sgRNAs with CRISPR-Local
Find 238 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACAAACTCCTGGATTGG+AGG | 0.503973 | 7_3:+42722652 | Msa1104880:CDS |
| AAAAGGCTTTCTAGAGCATC+TGG | 0.395218 | 7_3:+42722307 | Msa1104880:CDS |
| AAAAGTTATGCTATAATATA+AGG | 0.314518 | 7_3:-42720406 | None:intergenic |
| AAACATCACATTCTGCGTAT+TGG | 0.412477 | 7_3:-42721301 | None:intergenic |
| AAACTTGGACAGGGTGGTTT+TGG | 0.280733 | 7_3:+42722162 | Msa1104880:CDS |
| AAAGACGGTAACTTCACCTT+TGG | 0.402111 | 7_3:+42720585 | Msa1104880:CDS |
| AAAGGAGGAGATGATGGAGA+AGG | 0.465100 | 7_3:+42721149 | Msa1104880:CDS |
| AAAGGTGAAGTTACCGTCTT+TGG | 0.255629 | 7_3:-42720583 | None:intergenic |
| AACCCTGGAACATTCAAGAA+TGG | 0.450748 | 7_3:+42721396 | Msa1104880:CDS |
| AACCGCTGAATGATTCTAAT+GGG | 0.445169 | 7_3:+42720697 | Msa1104880:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CTGCCCTTAATGTAATAAAA+AGG | + | chr7_3:42720354-42720373 | Msa1104880:five_prime_UTR | 30.0% | |
| TATACTAACAATCTCCCTTA+TGG | + | chr7_3:42720434-42720453 | Msa1104880:exon | 30.0% | |
| TATTTGCCTTATGTTAGTGT+TGG | + | chr7_3:42720507-42720526 | Msa1104880:CDS | 30.0% | |
| GATAAATTGAGATGATGTGA+TGG | - | chr7_3:42720541-42720560 | None:intergenic | 30.0% | |
| AGTCTCAATCTACAATCATA+TGG | + | chr7_3:42720658-42720677 | Msa1104880:CDS | 30.0% | |
| GTCTCAATCTACAATCATAT+GGG | + | chr7_3:42720659-42720678 | Msa1104880:CDS | 30.0% | |
| GGAAATCTTGTGGTATTAAA+TGG | + | chr7_3:42720741-42720760 | Msa1104880:CDS | 30.0% | |
| CTTTCTATCAACAAAAGAAC+AGG | + | chr7_3:42720927-42720946 | Msa1104880:CDS | 30.0% | |
| TGGAATAAAAACAACTGGAT+TGG | + | chr7_3:42721416-42721435 | Msa1104880:CDS | 30.0% | |
| AAATTCACCTTCTATTGATG+AGG | + | chr7_3:42721995-42722014 | Msa1104880:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_3 | gene | 42720266 | 42723586 | 42720266 | ID=Msa1104880;Name=Msa1104880 |
| chr7_3 | mRNA | 42720266 | 42723586 | 42720266 | ID=Msa1104880-mRNA-1;Parent=Msa1104880;Name=Msa1104880-mRNA-1;_AED=0.28;_eAED=0.28;_QI=187|1|1|1|1|1|7|64|814 |
| chr7_3 | exon | 42720266 | 42721731 | 42720266 | ID=Msa1104880-mRNA-1:exon:8684;Parent=Msa1104880-mRNA-1 |
| chr7_3 | exon | 42721850 | 42721957 | 42721850 | ID=Msa1104880-mRNA-1:exon:8685;Parent=Msa1104880-mRNA-1 |
| chr7_3 | exon | 42722049 | 42722197 | 42722049 | ID=Msa1104880-mRNA-1:exon:8686;Parent=Msa1104880-mRNA-1 |
| chr7_3 | exon | 42722274 | 42722484 | 42722274 | ID=Msa1104880-mRNA-1:exon:8687;Parent=Msa1104880-mRNA-1 |
| chr7_3 | exon | 42722643 | 42722880 | 42722643 | ID=Msa1104880-mRNA-1:exon:8688;Parent=Msa1104880-mRNA-1 |
| chr7_3 | exon | 42722971 | 42723121 | 42722971 | ID=Msa1104880-mRNA-1:exon:8689;Parent=Msa1104880-mRNA-1 |
| chr7_3 | exon | 42723214 | 42723586 | 42723214 | ID=Msa1104880-mRNA-1:exon:8690;Parent=Msa1104880-mRNA-1 |
| chr7_3 | five_prime_UTR | 42720266 | 42720452 | 42720266 | ID=Msa1104880-mRNA-1:five_prime_utr;Parent=Msa1104880-mRNA-1 |
| chr7_3 | CDS | 42720453 | 42721731 | 42720453 | ID=Msa1104880-mRNA-1:cds;Parent=Msa1104880-mRNA-1 |
| chr7_3 | CDS | 42721850 | 42721957 | 42721850 | ID=Msa1104880-mRNA-1:cds;Parent=Msa1104880-mRNA-1 |
| chr7_3 | CDS | 42722049 | 42722197 | 42722049 | ID=Msa1104880-mRNA-1:cds;Parent=Msa1104880-mRNA-1 |
| chr7_3 | CDS | 42722274 | 42722484 | 42722274 | ID=Msa1104880-mRNA-1:cds;Parent=Msa1104880-mRNA-1 |
| chr7_3 | CDS | 42722643 | 42722880 | 42722643 | ID=Msa1104880-mRNA-1:cds;Parent=Msa1104880-mRNA-1 |
| chr7_3 | CDS | 42722971 | 42723121 | 42722971 | ID=Msa1104880-mRNA-1:cds;Parent=Msa1104880-mRNA-1 |
| chr7_3 | CDS | 42723214 | 42723522 | 42723214 | ID=Msa1104880-mRNA-1:cds;Parent=Msa1104880-mRNA-1 |
| chr7_3 | three_prime_UTR | 42723523 | 42723586 | 42723523 | ID=Msa1104880-mRNA-1:three_prime_utr;Parent=Msa1104880-mRNA-1 |
| Gene Sequence |
>Msa1104880 ATGGATTTCAGCTACTGTGCGTATCTGCTTTCTGTTGTATTCATTTTGTGTTGCTATTTGCCTTATGTTAGTGTTGGTGTAGATACCATCACATCATCTCAATTTATCAAAGACCCCGAAACTCTAATCTCCAAAGACGGTAACTTCACCTTTGGATTCTTTAGCCCTAAAAATTCTACAAACCGCTACGTTGGAATTTGGTGGAAGTCTCAATCTACAATCATATGGGTGGCTAACAGAAACCAACCGCTGAATGATTCTAATGGGATTGTCACAATATCCGAAGATGGAAATCTTGTGGTATTAAATGGACAGCAACGAGTCATTTGGTCATCAAATGTTTCCAACATTGCATCCAATACCACTTCCGAGTTTTCAGACTTCGGTAACCTTATGCTATTGGAGAGAAGAACCGGGAACATTTTATGGCAGAGTATTCAGCAACCTTCAGATACATTACTGCCAAACATGAAACTTTCTATCAACAAAAGAACAGGTAAGAGCATAAAACTCAGAGCATGGAGAAGTCCTTCTGACCCATCTGTTGGCAACTTCTCTTGTAGTATTGATGAACGCAAAAATACAATTGAAGCGTTCATTTGGAATGATACTCGACCATATTGGCGCAGTGGTCCTTGGAATGGTGGGGTCTTCACCGGAATACAGACAATGACAGTTGCATACTTCTATGGTTTTAAAGGAGGAGATGATGGAGAAGGGAATATTAACATATATTACACGGTGCAAAATAATGAGAAATTTTATATCTATCGTCTGAATTCACAAGGAATATTAGAAGAAATTTGGTGGGATGATAAGAAGAATGAAATGAACGTGACATGGAAAAGCCAATACGCAGAATGTGATGTTTATGGTCTATGTGGGGCATTTGCAAGCTGTAATTCATTGAGCTCACCAATATGCAGTTGTTTGAAAGGATTTGAACCCTGGAACATTCAAGAATGGAATAAAAACAACTGGATTGGCGGGTGTGTTAGGAGGAGACCTTTGCAGTGTGAAACGGTCAGCAATAAAAGCGCGAGTAGAAATGAAGATGGGTTTTTGAAACTGCAGATGGTTAAAGTTCCAGATCTTTCTGAAGATTTTGCTGTTAAACCAGACATATGCAGAATCTTATGTTTGAAGAATTGCTCTTGTGCTGCGTATTCTCATGATGCTGTGATTGGTTGTATGTCTTGGACTGGCAATCTACTTGACATAAATCAACTCCGAAGTGGAGGACTTGAACTATATGTTCGCGTATCCTATTTAGAACTTGATAGAGGGAGAAACAAGACAATCCTCCTCGCAAGTACAGTGATAATTGGAACTCTTATTATTGTCATCTGTGCATATATCACATGGAGAAGGACATCAAACCACCCAGCTAATTCTAGTGACAACATAATTGGAGAAATGTCCCAAGATAAACTACAAGAGCTATTAAAATTTGATTTCGAAAAAATTGCAACTGCCACAAACAACTTTGACCTGTCAAACAAACTTGGACAGGGTGGTTTTGGTCCTGTATACAAGGGGAGACTGCAAGATGGTCGAGAAATAGCAGTTAAAAGGCTTTCTAGAGCATCTGGACAAGGGTTGGAGGAATTCATGAACGAAGTAGTGGTAATTTGTAAGCTTCAACACCGCAACCTTGTAAGACTTATTGGCTGCTGTGTTGAAGGTGATGAAAAGATGTTGATGTATGAATACATGCCAAACAAAAGTTTGGACGCATTCATCTTTGATCCATCAAAAAACAAACTCCTGGATTGGAGGACACGGTATAGCATTATAGAAGGAATTGCTCGAGGGTTGCTATATCTTCACAGAGATTCTAGACTAAGAATTATTCACAGAGATTTGAAGGCAAGTAATGTCCTGTTAGATGAGGAGTTGAATCCAAAAATCTCAGACTTTGGTATGGCTAGAATCTTTAGAGGAGATGAAGATGAGGCCAATACTAGAAGAATTGTTGGAACTTATGGTTACATGTCTCCTGAATATGCAATGCAAGGATTATTTTCGGAGAAATCAGATGTTTTTAGCTTTGGTGTATTGCTACTAGAGATTGTTATCGGGAGAAGAAACTCAAGTTTTTATGACGATGAGCATAATCTGAGCCTTTTAGGATATGTATGGACACAATGGAGTGAAGACAATATTTTGTCTCTAATAGATCAAGAAATATATGATCATAGTCATCATAATTATATTTCAAGGTGCATACATATAGGACTATTGTGTGCACAAGAACTTGCCGGAGATAGGCCCACTATGGCTGCAGTAATTTCTATGCTTAACAGTGAAACTTCATTACTTCCTCCTCCTAGTAAACCTGCATTCATCCTGAGGGAGAATATGTTAAATTCAAAGTTGGCTGAAGAATGTCAAATTGGCTGTTCCATCAATAATATCAGTATTACAGACATCAGTGGCAGATAG |
| Protein sequence |
>Msa1104880 MDFSYCAYLLSVVFILCCYLPYVSVGVDTITSSQFIKDPETLISKDGNFTFGFFSPKNSTNRYVGIWWKSQSTIIWVANRNQPLNDSNGIVTISEDGNLVVLNGQQRVIWSSNVSNIASNTTSEFSDFGNLMLLERRTGNILWQSIQQPSDTLLPNMKLSINKRTGKSIKLRAWRSPSDPSVGNFSCSIDERKNTIEAFIWNDTRPYWRSGPWNGGVFTGIQTMTVAYFYGFKGGDDGEGNINIYYTVQNNEKFYIYRLNSQGILEEIWWDDKKNEMNVTWKSQYAECDVYGLCGAFASCNSLSSPICSCLKGFEPWNIQEWNKNNWIGGCVRRRPLQCETVSNKSASRNEDGFLKLQMVKVPDLSEDFAVKPDICRILCLKNCSCAAYSHDAVIGCMSWTGNLLDINQLRSGGLELYVRVSYLELDRGRNKTILLASTVIIGTLIIVICAYITWRRTSNHPANSSDNIIGEMSQDKLQELLKFDFEKIATATNNFDLSNKLGQGGFGPVYKGRLQDGREIAVKRLSRASGQGLEEFMNEVVVICKLQHRNLVRLIGCCVEGDEKMLMYEYMPNKSLDAFIFDPSKNKLLDWRTRYSIIEGIARGLLYLHRDSRLRIIHRDLKASNVLLDEELNPKISDFGMARIFRGDEDEANTRRIVGTYGYMSPEYAMQGLFSEKSDVFSFGVLLLEIVIGRRNSSFYDDEHNLSLLGYVWTQWSEDNILSLIDQEIYDHSHHNYISRCIHIGLLCAQELAGDRPTMAAVISMLNSETSLLPPPSKPAFILRENMLNSKLAEECQIGCSINNISITDISGR* |
