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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0194080 | KEH36648.1 | 87.921 | 505 | 15 | 3 | 47 | 505 | 41 | 545 | 0.0 | 880 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0194080 | sp|Q9URW6|YIE2_SCHPO | 42.029 | 207 | 118 | 2 | 290 | 495 | 6 | 211 | 3.34e-40 | 153 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0194080 | A0A072V5L4 | 87.921 | 505 | 15 | 3 | 47 | 505 | 41 | 545 | 0.0 | 880 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0015090 | Msa0194080 | 0.812235 | 4.694792e-51 | -8.615850e-47 |
| Msa0016510 | Msa0194080 | 0.800200 | 1.611491e-48 | -8.615850e-47 |
| Msa0017320 | Msa0194080 | 0.807228 | 5.599093e-50 | -8.615850e-47 |
| Msa0026430 | Msa0194080 | 0.801451 | 8.950339e-49 | -8.615850e-47 |
| Msa0026910 | Msa0194080 | 0.811725 | 6.064005e-51 | -8.615850e-47 |
| Msa0028620 | Msa0194080 | 0.814852 | 1.247294e-51 | -8.615850e-47 |
| Msa0030300 | Msa0194080 | 0.816735 | 4.744022e-52 | -8.615850e-47 |
| Msa0032080 | Msa0194080 | 0.826242 | 3.021325e-54 | -8.615850e-47 |
| Msa0032100 | Msa0194080 | 0.801381 | 9.248779e-49 | -8.615850e-47 |
| Msa0032470 | Msa0194080 | 0.821109 | 4.807675e-53 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0194080 | MtrunA17_Chr2g0284511 | 98.104 | 211 | 4 | 0 | 295 | 505 | 1 | 211 | 8.40e-149 | 424 |
| Msa0194080 | MtrunA17_Chr2g0284521 | 76.829 | 246 | 11 | 3 | 47 | 246 | 41 | 286 | 7.44e-127 | 372 |
| Msa0194080 | MtrunA17_Chr4g0069971 | 52.923 | 325 | 126 | 1 | 202 | 499 | 152 | 476 | 1.90e-116 | 352 |
| Msa0194080 | MtrunA17_Chr2g0301721 | 51.840 | 326 | 130 | 1 | 201 | 499 | 97 | 422 | 4.74e-115 | 346 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0194080 | AT1G29800.1 | 69.595 | 444 | 102 | 3 | 92 | 502 | 51 | 494 | 0.0 | 647 |
| Msa0194080 | AT1G29800.2 | 69.595 | 444 | 102 | 3 | 92 | 502 | 51 | 494 | 0.0 | 647 |
| Msa0194080 | AT3G43230.1 | 53.106 | 322 | 124 | 1 | 208 | 502 | 162 | 483 | 3.50e-113 | 343 |
Find 131 sgRNAs with CRISPR-Local
Find 1025 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGTTTGTGTCAAGAGGG+GGG | 0.678344 | 2_1:-9941848 | Msa0194080:CDS |
| AAAGAACTTGGGATTCAAAG+GGG | 0.643138 | 2_1:-9941750 | Msa0194080:CDS |
| AAAGAATCAATATTCTCTTT+AGG | 0.299718 | 2_1:+9939805 | None:intergenic |
| AAAGGGTTTCATTCGAATGG+TGG | 0.559811 | 2_1:-9939559 | Msa0194080:CDS |
| AAAGTGTCTTCTTTGGCATC+AGG | 0.441563 | 2_1:-9939433 | Msa0194080:CDS |
| AACATAGGTGGAACAGAGAC+CGG | 0.536885 | 2_1:+9939607 | None:intergenic |
| AATACAAATCTGCAAGAGCA+CGG | 0.617570 | 2_1:+9929223 | None:intergenic |
| AATCATTCGAAAGGAATGAA+GGG | 0.530079 | 2_1:-9939717 | Msa0194080:CDS |
| AATGATTCTTCAGGTAATTC+AGG | 0.265030 | 2_1:+9939733 | None:intergenic |
| AATGCAACAGATATACTTCT+TGG | 0.265184 | 2_1:-9929282 | Msa0194080:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GATATTCAAATGAGTAACAC+TGG | + | chr2_1:9929200-9929219 | None:intergenic | 30.0% | |
| GAGGATAAAATCACAACAAT+AGG | + | chr2_1:9929831-9929850 | None:intergenic | 30.0% | |
| TTTCTTTCAAAAACTTGTGC+GGG | + | chr2_1:9930101-9930120 | None:intergenic | 30.0% | |
| CAACAACGTTAAAACTCTTA+GGG | + | chr2_1:9930416-9930435 | None:intergenic | 30.0% | |
| TCATCTCATCTAAATGTTCT+TGG | - | chr2_1:9930492-9930511 | Msa0194080:intron | 30.0% | |
| CATCTCATCTAAATGTTCTT+GGG | - | chr2_1:9930493-9930512 | Msa0194080:intron | 30.0% | |
| ACAAAAAGTTTGTGTCAAGA+GGG | - | chr2_1:9930684-9930703 | Msa0194080:CDS | 30.0% | |
| TATTAAAACGGAACGGTTTA+GGG | + | chr2_1:9931641-9931660 | None:intergenic | 30.0% | |
| TTATTAAAACGGAACGGTTT+AGG | + | chr2_1:9931642-9931661 | None:intergenic | 30.0% | |
| GGAAAATCGTAAATTCAAAG+GGG | - | chr2_1:9931671-9931690 | Msa0194080:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 9928866 | 9943691 | 9928866 | ID=Msa0194080;Name=Msa0194080 |
| chr2_1 | mRNA | 9928866 | 9943691 | 9928866 | ID=Msa0194080-mRNA-1;Parent=Msa0194080;Name=Msa0194080-mRNA-1;_AED=0.12;_eAED=0.12;_QI=0|0.37|0.33|0.77|0.62|0.55|9|337|505 |
| chr2_1 | exon | 9928866 | 9929390 | 9928866 | ID=Msa0194080-mRNA-1:exon:4542;Parent=Msa0194080-mRNA-1 |
| chr2_1 | exon | 9929655 | 9929850 | 9929655 | ID=Msa0194080-mRNA-1:exon:4541;Parent=Msa0194080-mRNA-1 |
| chr2_1 | exon | 9930531 | 9930731 | 9930531 | ID=Msa0194080-mRNA-1:exon:4540;Parent=Msa0194080-mRNA-1 |
| chr2_1 | exon | 9938937 | 9939178 | 9938937 | ID=Msa0194080-mRNA-1:exon:4539;Parent=Msa0194080-mRNA-1 |
| chr2_1 | exon | 9939260 | 9939506 | 9939260 | ID=Msa0194080-mRNA-1:exon:4538;Parent=Msa0194080-mRNA-1 |
| chr2_1 | exon | 9939522 | 9939762 | 9939522 | ID=Msa0194080-mRNA-1:exon:4537;Parent=Msa0194080-mRNA-1 |
| chr2_1 | exon | 9939805 | 9939869 | 9939805 | ID=Msa0194080-mRNA-1:exon:4536;Parent=Msa0194080-mRNA-1 |
| chr2_1 | exon | 9941743 | 9941875 | 9941743 | ID=Msa0194080-mRNA-1:exon:4535;Parent=Msa0194080-mRNA-1 |
| chr2_1 | exon | 9943687 | 9943691 | 9943687 | ID=Msa0194080-mRNA-1:exon:4534;Parent=Msa0194080-mRNA-1 |
| chr2_1 | CDS | 9943687 | 9943691 | 9943687 | ID=Msa0194080-mRNA-1:cds;Parent=Msa0194080-mRNA-1 |
| chr2_1 | CDS | 9941743 | 9941875 | 9941743 | ID=Msa0194080-mRNA-1:cds;Parent=Msa0194080-mRNA-1 |
| chr2_1 | CDS | 9939805 | 9939869 | 9939805 | ID=Msa0194080-mRNA-1:cds;Parent=Msa0194080-mRNA-1 |
| chr2_1 | CDS | 9939522 | 9939762 | 9939522 | ID=Msa0194080-mRNA-1:cds;Parent=Msa0194080-mRNA-1 |
| chr2_1 | CDS | 9939260 | 9939506 | 9939260 | ID=Msa0194080-mRNA-1:cds;Parent=Msa0194080-mRNA-1 |
| chr2_1 | CDS | 9938937 | 9939178 | 9938937 | ID=Msa0194080-mRNA-1:cds;Parent=Msa0194080-mRNA-1 |
| chr2_1 | CDS | 9930531 | 9930731 | 9930531 | ID=Msa0194080-mRNA-1:cds;Parent=Msa0194080-mRNA-1 |
| chr2_1 | CDS | 9929655 | 9929850 | 9929655 | ID=Msa0194080-mRNA-1:cds;Parent=Msa0194080-mRNA-1 |
| chr2_1 | CDS | 9929203 | 9929390 | 9929203 | ID=Msa0194080-mRNA-1:cds;Parent=Msa0194080-mRNA-1 |
| chr2_1 | three_prime_UTR | 9928866 | 9929202 | 9928866 | ID=Msa0194080-mRNA-1:three_prime_utr;Parent=Msa0194080-mRNA-1 |
| Gene Sequence |
>Msa0194080 ATGTCTGACAAAAAGTTTGTGTCAAGAGGGGGGTCTGGTATAGGTGCACTACCACGTGTACAGCAAGGAGCAAAGGGAGGTTTGGAGTTGAAGAAGCTGGCAGCCAAGAAAGAACTTGGGATTCAAAGGGGTTCCGGGGATGATGAGGTGGACGGTAATATGACGAATCATCATCATGTTCCTAAAGAGAATATTGATTCTTTGTTATATCCTGAATTACCTGAAGAATCATTCGAAAGGAATGAAGGGGATATGGAGTCTTTAGGTGATATTCAGAATCAGAGAAAGTACTTCTGTTATGATGCTCCGTTGAATGAGGATACTGGAGTTTGGATACCGGTCTCTGTTCCACCTATGTTGGAGGATGATCATAAAGAATGGGAAAAAGGGTTTCATTCGAATGGTGGTTTTTTTCCGGACGATGATATGGGGTGGAATCAATATGAATTGACTATGTGGGAAGTGTTGGTAGAAATTTTACTTGCAGCTAGGGGAAAAGTGTCTTCTTTGGCATCAGGAGATATTCATACATATAGCTTTTCATGGCTAACAAGCCATGTACTTGAACAAGCTTGGAGAGAGATGGCACAAACTCTAACAGAAGCTAGCTTTGGTAATGTGAAGGAACTAATAGAAGCAGAACCTCCGAAATGGTTGGCAGATAGTGCTGCTGCTGCTTGTATGCTTTGTGGGCGGAGCTTGATGCCATCAAAGTTTCGAGTTTCTGACCCACAAAGAGTCTGCGATGTATGCTTTGTTCGACTTGAGTCTATACAGCCTTATTTGATGGATCATGTAAGTAATGCTGCTCAGCTGCCAACTCACGACCTGACAGATCTCAGCACTTTGAGATCATGGGTTAATTTTCCTTGGGGGCAGACCATGGAATATGAAATTTACAAGGCAACTAACACTATCAAGTCTTATAATCAGATAGGTTTATTAAAGCCTGAGAAGACAATTCCAGATGCCATTCTTAGGCAAGCAAAAGGCCTTGCAATCATCACTGTGGTCAAAGTAGGAGTGGTGGTTACTTATAATATTGGAACAGGAATTGTGGTTGCGCGTAGGCAAGATGGTTCGTGGTCTCCACCATCTGCTGTTTCGACATTCGGAGTGGGATGGGGGGCTCAGGCTGGAGGGGAGTTAACAGATTTCATCATTGTTCTGAGAACAAATGAAGCTGTCAAGACATTTAGTGGTAATGCACATGTTTCACTTGGAGCTGGTATGAGTGCTGCAGTTGGCGTTGTTGGAAGGGCAGTTGAAGCTGATGTTCGAGCTGGTGATGGTGGCTATGCTGCTTGTTATACATACAGCTGCAGTAAAGGTGCATTTGTTGGTTGTTCGCTTGAAGGCAGTATTGTCACCACTCGCACACATGAAAATTGTCGTTTTTATGGCAGCCAGTCTTTAAATGCAACAGATATACTTCTTGGCTCCTTGCCTAGGCCACCTGCTGCAGCTATTCTCTACCGTGCTCTTGCAGATTTGTATTTGAAGATTGATGGTTATTGA |
| Protein sequence |
>Msa0194080 MSDKKFVSRGGSGIGALPRVQQGAKGGLELKKLAAKKELGIQRGSGDDEVDGNMTNHHHVPKENIDSLLYPELPEESFERNEGDMESLGDIQNQRKYFCYDAPLNEDTGVWIPVSVPPMLEDDHKEWEKGFHSNGGFFPDDDMGWNQYELTMWEVLVEILLAARGKVSSLASGDIHTYSFSWLTSHVLEQAWREMAQTLTEASFGNVKELIEAEPPKWLADSAAAACMLCGRSLMPSKFRVSDPQRVCDVCFVRLESIQPYLMDHVSNAAQLPTHDLTDLSTLRSWVNFPWGQTMEYEIYKATNTIKSYNQIGLLKPEKTIPDAILRQAKGLAIITVVKVGVVVTYNIGTGIVVARRQDGSWSPPSAVSTFGVGWGAQAGGELTDFIIVLRTNEAVKTFSGNAHVSLGAGMSAAVGVVGRAVEADVRAGDGGYAACYTYSCSKGAFVGCSLEGSIVTTRTHENCRFYGSQSLNATDILLGSLPRPPAAAILYRALADLYLKIDGY* |
