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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0224580 | XP_003597638.2 | 80.294 | 883 | 66 | 5 | 1 | 775 | 1 | 883 | 0.0 | 1400 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0224580 | sp|O65924|Y2921_ARATH | 41.101 | 854 | 375 | 19 | 4 | 738 | 6 | 850 | 0.0 | 595 |
Co-expression Network
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0224580 | MtrunA17_Chr2g0330591 | 80.294 | 883 | 66 | 5 | 1 | 775 | 1 | 883 | 0.0 | 1400 |
| Msa0224580 | MtrunA17_Chr8g0341011 | 39.784 | 832 | 376 | 17 | 19 | 738 | 25 | 843 | 0.0 | 566 |
| Msa0224580 | MtrunA17_Chr8g0340931 | 38.588 | 850 | 397 | 17 | 1 | 738 | 3 | 839 | 0.0 | 561 |
| Msa0224580 | MtrunA17_Chr8g0340891 | 38.941 | 850 | 391 | 17 | 1 | 738 | 5 | 838 | 0.0 | 543 |
| Msa0224580 | MtrunA17_Chr8g0341151 | 43.658 | 678 | 314 | 12 | 10 | 636 | 8 | 668 | 5.35e-178 | 532 |
| Msa0224580 | MtrunA17_Chr8g0341151 | 40.952 | 105 | 61 | 1 | 635 | 738 | 729 | 833 | 5.73e-21 | 98.6 |
| Msa0224580 | MtrunA17_Chr8g0340911 | 43.523 | 687 | 320 | 11 | 1 | 636 | 5 | 674 | 8.94e-176 | 527 |
| Msa0224580 | MtrunA17_Chr8g0340911 | 35.606 | 132 | 74 | 2 | 608 | 738 | 718 | 839 | 9.51e-21 | 97.8 |
| Msa0224580 | MtrunA17_Chr8g0340881 | 43.314 | 688 | 322 | 15 | 1 | 636 | 8 | 679 | 6.11e-174 | 522 |
| Msa0224580 | MtrunA17_Chr8g0340881 | 40.566 | 106 | 62 | 1 | 634 | 738 | 739 | 844 | 2.02e-20 | 96.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0224580 | AT4G29990.1 | 42.312 | 865 | 369 | 19 | 3 | 749 | 5 | 857 | 0.0 | 623 |
| Msa0224580 | AT2G19210.1 | 41.101 | 854 | 375 | 19 | 4 | 738 | 6 | 850 | 0.0 | 595 |
| Msa0224580 | AT2G19230.1 | 40.423 | 851 | 377 | 16 | 5 | 738 | 6 | 843 | 0.0 | 579 |
| Msa0224580 | AT2G19230.2 | 40.541 | 851 | 375 | 18 | 5 | 738 | 6 | 842 | 0.0 | 578 |
| Msa0224580 | AT1G05700.1 | 38.778 | 851 | 397 | 15 | 5 | 741 | 6 | 846 | 0.0 | 577 |
| Msa0224580 | AT4G29990.2 | 45.852 | 687 | 309 | 13 | 3 | 636 | 5 | 681 | 0.0 | 577 |
| Msa0224580 | AT1G51790.3 | 39.384 | 876 | 388 | 19 | 8 | 755 | 9 | 869 | 0.0 | 571 |
| Msa0224580 | AT1G51790.1 | 39.384 | 876 | 388 | 19 | 8 | 755 | 9 | 869 | 0.0 | 571 |
| Msa0224580 | AT1G05700.2 | 37.970 | 877 | 399 | 17 | 5 | 741 | 6 | 877 | 0.0 | 570 |
| Msa0224580 | AT1G51790.2 | 37.744 | 922 | 393 | 20 | 7 | 755 | 8 | 921 | 0.0 | 560 |
Find 155 sgRNAs with CRISPR-Local
Find 555 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACGGTAATATATTGAGT+TGG | 0.538228 | 2_1:+74482159 | Msa0224580:CDS |
| AAAATGGAACATACTTGAAT+TGG | 0.349013 | 2_1:-74480857 | None:intergenic |
| AAATACTTGACCAGTCTTAT+AGG | 0.228182 | 2_1:+74481780 | Msa0224580:CDS |
| AACATCCCAAGTGTAAAAGA+TGG | 0.524377 | 2_1:-74475428 | None:intergenic |
| AACCATGAGGCATGTAGTTA+TGG | 0.434194 | 2_1:+74483046 | Msa0224580:CDS |
| AAGGACTTACAAATATTCTA+TGG | 0.304937 | 2_1:-74479898 | None:intergenic |
| AAGTAAGAAACTGAAGTACA+AGG | 0.624424 | 2_1:-74479639 | None:intergenic |
| AATCATTTATGCTGCATCCT+CGG | 0.535140 | 2_1:+74475729 | Msa0224580:CDS |
| AATCCAGATCTTTGCTCCTC+AGG | 0.404497 | 2_1:+74481001 | Msa0224580:CDS |
| AATGAGATACGCGTGTTGCA+CGG | 0.505288 | 2_1:+74483200 | Msa0224580:three_prime_UTR |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TGTGTTTAGATGATATGCTA+TGG | - | chr2_1:74475477-74475496 | None:intergenic | 30.0% | |
| TAGCATATCATCTAAACACA+AGG | + | chr2_1:74475477-74475496 | Msa0224580:CDS | 30.0% | |
| ATTCCAAAACTGTCTTTCAA+GGG | - | chr2_1:74475506-74475525 | None:intergenic | 30.0% | |
| ACTTCCTTGTGAAACAAAAA+GGG | - | chr2_1:74475566-74475585 | None:intergenic | 30.0% | |
| TACTTCCTTGTGAAACAAAA+AGG | - | chr2_1:74475567-74475586 | None:intergenic | 30.0% | |
| GTAGCAAGAAATATTTAGTC+AGG | + | chr2_1:74475584-74475603 | Msa0224580:CDS | 30.0% | |
| CCAAGATAGATATCAAATTC+AGG | - | chr2_1:74475652-74475671 | None:intergenic | 30.0% | |
| CCTGAATTTGATATCTATCT+TGG | + | chr2_1:74475649-74475668 | Msa0224580:CDS | 30.0% | |
| TTCATCTAGTGTAATTAGCA+AGG | + | chr2_1:74475705-74475724 | Msa0224580:CDS | 30.0% | |
| TTGTTTGTTTAATACTGGCA+AGG | + | chr2_1:74475765-74475784 | Msa0224580:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 74475105 | 74483347 | 74475105 | ID=Msa0224580;Name=Msa0224580 |
| chr2_1 | mRNA | 74475105 | 74483347 | 74475105 | ID=Msa0224580-mRNA-1;Parent=Msa0224580;Name=Msa0224580-mRNA-1;_AED=0.14;_eAED=0.14;_QI=0|0.18|0.16|1|1|1|12|148|775 |
| chr2_1 | exon | 74475105 | 74475186 | 74475105 | ID=Msa0224580-mRNA-1:exon:22054;Parent=Msa0224580-mRNA-1 |
| chr2_1 | exon | 74475368 | 74475872 | 74475368 | ID=Msa0224580-mRNA-1:exon:22055;Parent=Msa0224580-mRNA-1 |
| chr2_1 | exon | 74479076 | 74479449 | 74479076 | ID=Msa0224580-mRNA-1:exon:22056;Parent=Msa0224580-mRNA-1 |
| chr2_1 | exon | 74479580 | 74479718 | 74479580 | ID=Msa0224580-mRNA-1:exon:22057;Parent=Msa0224580-mRNA-1 |
| chr2_1 | exon | 74479839 | 74479910 | 74479839 | ID=Msa0224580-mRNA-1:exon:22058;Parent=Msa0224580-mRNA-1 |
| chr2_1 | exon | 74480015 | 74480086 | 74480015 | ID=Msa0224580-mRNA-1:exon:22059;Parent=Msa0224580-mRNA-1 |
| chr2_1 | exon | 74480785 | 74480865 | 74480785 | ID=Msa0224580-mRNA-1:exon:22060;Parent=Msa0224580-mRNA-1 |
| chr2_1 | exon | 74480991 | 74481145 | 74480991 | ID=Msa0224580-mRNA-1:exon:22061;Parent=Msa0224580-mRNA-1 |
| chr2_1 | exon | 74481403 | 74481638 | 74481403 | ID=Msa0224580-mRNA-1:exon:22062;Parent=Msa0224580-mRNA-1 |
| chr2_1 | exon | 74481753 | 74481879 | 74481753 | ID=Msa0224580-mRNA-1:exon:22063;Parent=Msa0224580-mRNA-1 |
| chr2_1 | exon | 74482156 | 74482222 | 74482156 | ID=Msa0224580-mRNA-1:exon:22064;Parent=Msa0224580-mRNA-1 |
| chr2_1 | exon | 74482782 | 74483347 | 74482782 | ID=Msa0224580-mRNA-1:exon:22065;Parent=Msa0224580-mRNA-1 |
| chr2_1 | CDS | 74475105 | 74475186 | 74475105 | ID=Msa0224580-mRNA-1:cds;Parent=Msa0224580-mRNA-1 |
| chr2_1 | CDS | 74475368 | 74475872 | 74475368 | ID=Msa0224580-mRNA-1:cds;Parent=Msa0224580-mRNA-1 |
| chr2_1 | CDS | 74479076 | 74479449 | 74479076 | ID=Msa0224580-mRNA-1:cds;Parent=Msa0224580-mRNA-1 |
| chr2_1 | CDS | 74479580 | 74479718 | 74479580 | ID=Msa0224580-mRNA-1:cds;Parent=Msa0224580-mRNA-1 |
| chr2_1 | CDS | 74479839 | 74479910 | 74479839 | ID=Msa0224580-mRNA-1:cds;Parent=Msa0224580-mRNA-1 |
| chr2_1 | CDS | 74480015 | 74480086 | 74480015 | ID=Msa0224580-mRNA-1:cds;Parent=Msa0224580-mRNA-1 |
| chr2_1 | CDS | 74480785 | 74480865 | 74480785 | ID=Msa0224580-mRNA-1:cds;Parent=Msa0224580-mRNA-1 |
| chr2_1 | CDS | 74480991 | 74481145 | 74480991 | ID=Msa0224580-mRNA-1:cds;Parent=Msa0224580-mRNA-1 |
| chr2_1 | CDS | 74481403 | 74481638 | 74481403 | ID=Msa0224580-mRNA-1:cds;Parent=Msa0224580-mRNA-1 |
| chr2_1 | CDS | 74481753 | 74481879 | 74481753 | ID=Msa0224580-mRNA-1:cds;Parent=Msa0224580-mRNA-1 |
| chr2_1 | CDS | 74482156 | 74482222 | 74482156 | ID=Msa0224580-mRNA-1:cds;Parent=Msa0224580-mRNA-1 |
| chr2_1 | CDS | 74482782 | 74483199 | 74482782 | ID=Msa0224580-mRNA-1:cds;Parent=Msa0224580-mRNA-1 |
| chr2_1 | three_prime_UTR | 74483200 | 74483347 | 74483200 | ID=Msa0224580-mRNA-1:three_prime_utr;Parent=Msa0224580-mRNA-1 |
| Gene Sequence |
>Msa0224580 ATGGCAAGATACTTGCTATGTATAGTGTTTATACTTTGTTTCGCTCTTCCTTTCATTGTTCATGCTCAGAACAACCAATCAGGCTTCATTAGTATTGACTGTGGACTAGTGGATGAACCAAGCTACACAGATGAAACTACTTCCATCTTTTACACTTGGGATGTTAACTTCACAGATACCGGTATAAGCCATAGCATATCATCTAAACACAAGGCATCCCTTGAAAGACAGTTTTGGAATGTTAGAAGCTTCCCAGAAGGAACACGGAACTGCTACACCCTTTTTGTTTCACAAGGAAGTAGCAAGAAATATTTAGTCAGGGCCAGTTTTGTGTATGGTAATTATGATGGTAAAGACTCTCTTCCTGAATTTGATATCTATCTTGGAGCCAAATGGTGGGAATCTGTGGTGTTTGAGAATTCATCTAGTGTAATTAGCAAGGAAATCATTTATGCTGCATCCTCGGATTATGTTCATGTTTGTTTGTTTAATACTGGCAAGGGTACACCTTTTATTTCAGTTTTAGAGCTTAGAGTTCTTAGCAGTGATGATGCCTATCTTGATAACTCTTTGGAGCTTTTGGGGAGCTTTATGCCGGTGCCACCCTCTACTGTGATGCGAACAACATCAATTCCAGCAAATGCCAGTGACAACATGGAATTTTCCTTCCTTCCAAAGTATAATTCCTCCAGATATCATGTGTACATGTACTTTGCTGAAATCCAGAAGCTCCAGGAAAATCAAATCAGAGAGTTCAACATTTTTGTAAATGGGAAGCTTCTAAGTAGTGAAGTCAATCCTTTGTATCTTCAAAACCTGTATTATTCAAGAGCTGTAAGTGAAACTAAATTAGAACTTTGGCTTAATAAGACTAGTAGATCAACTCTTCCACCGCTATTCAATGCGGTTGAGATATATATGTCAAAGGACTTCTTACAATCAGAAACATATCAAACCGATGTTGATGCTATCCTAAACGTCAAGTCAATTTATGGGATCAAGAGAAATTGGCAAGGAGATCCTTGTACTTCAGTTTCTTACTTGTGGAATGGTTTAAACTGCAGCTATGCTGGTACTGATTCACCAAGGATCATATACTTGAACTTAACTTCCAGCGGTTTAAATGGAACTATAGCTGCTGGCATATCCAATCTGAAGTCCATAGAATATTTGGATTTGTCAAATAACAATTTGACTGGTGCTGTGCCTGATTTCCTATCTCAGCTGCGCTTCTTGAGAGTTCTAAACCTTGAAGGAAATCAGTTATCAGGAGCAATTCCAATACAACTCCTTGCACGGTCAGAGAATACTACGCTCCAATTCAATTTTGGTGGAAATCCAGATCTTTGCTCCTCAGGTTCATGCAACAAAAGGAATGGGAATAAGGTTGTAGTTCCATTGGTAACATCAATTGGTGGAGCTTTCTTGATACTAGCAGTAGCAGTGATTTCTTTTCGCATTTACAACAAGAGATACCGAGTTTCCCATAAGGTGATCAAGCTAGGTGCTAATTCAAGAATAAAGCAGGAACTAGAGTCAAAGAAACAAGAATTCACCTATGAAGAAGTATTAAGAATTACCAGAAACTTTGAAAAGATTCTAGGGAAAGGAGCATCTGGAACAGTATACCATGGCTGGATTGATCATAATACTGAGGTAGCTGTTAAAATGCTATCTTCCTCATCAGCTCAAGGATATCTGCAATTTCAAGCAGAGGCCAAATTTTTTGCTACAGTTCATCATAAATACTTGACCAGTCTTATAGGTTACTGTGATGATGGCACCAACATGGCTCTCATCTATGAGTATATGGCTAATGGAGACTTATCCAACCATTTATCAGATAAAAACGGTAATATATTGAGTTGGAATCAAAGACTTCAAATTGCAGTGGATACTGCAGAAGGTGAGTACAATAGATTAAGCAGGTTGAGAGAAAAAAGTGATGTTTTCAGCTTTGGAGTAGTTTTGCTTGAGATAATTACAGGACAACCAGCCATAACCAAAACCGAAAACAAAATCCATATTGTTCAATTGGTTAGTGACATGCTGCTGGAAAGAGAGGTAAAAGATATTGTTGATCCCAGATTACAGGGAGACTTTGATATTAACTATGCTACTAAAGCTTTGGATACCGCAATGGCTTGTGTAGCACAATCTTCCATCAATAGACCAACCATGAGGCATGTAGTTATGGAACTGAAACAATGTTTGGAAAACAAGATCACTTATCCGTCCGACTCCAAATACACTCTTGAGAGTTTACCTAGTGCATTATACTCTGTCTCCTTTGATAGAATCAGTGGCGAGAGCTCTCTAGCGAGGTAG |
| Protein sequence |
>Msa0224580 MARYLLCIVFILCFALPFIVHAQNNQSGFISIDCGLVDEPSYTDETTSIFYTWDVNFTDTGISHSISSKHKASLERQFWNVRSFPEGTRNCYTLFVSQGSSKKYLVRASFVYGNYDGKDSLPEFDIYLGAKWWESVVFENSSSVISKEIIYAASSDYVHVCLFNTGKGTPFISVLELRVLSSDDAYLDNSLELLGSFMPVPPSTVMRTTSIPANASDNMEFSFLPKYNSSRYHVYMYFAEIQKLQENQIREFNIFVNGKLLSSEVNPLYLQNLYYSRAVSETKLELWLNKTSRSTLPPLFNAVEIYMSKDFLQSETYQTDVDAILNVKSIYGIKRNWQGDPCTSVSYLWNGLNCSYAGTDSPRIIYLNLTSSGLNGTIAAGISNLKSIEYLDLSNNNLTGAVPDFLSQLRFLRVLNLEGNQLSGAIPIQLLARSENTTLQFNFGGNPDLCSSGSCNKRNGNKVVVPLVTSIGGAFLILAVAVISFRIYNKRYRVSHKVIKLGANSRIKQELESKKQEFTYEEVLRITRNFEKILGKGASGTVYHGWIDHNTEVAVKMLSSSSAQGYLQFQAEAKFFATVHHKYLTSLIGYCDDGTNMALIYEYMANGDLSNHLSDKNGNILSWNQRLQIAVDTAEGEYNRLSRLREKSDVFSFGVVLLEIITGQPAITKTENKIHIVQLVSDMLLEREVKDIVDPRLQGDFDINYATKALDTAMACVAQSSINRPTMRHVVMELKQCLENKITYPSDSKYTLESLPSALYSVSFDRISGESSLAR* |
