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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0048410 | KEH40490.1 | 95.670 | 485 | 20 | 1 | 1 | 485 | 1 | 484 | 0.0 | 959 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0048410 | sp|Q9C5W3|NADK2_ARATH | 62.953 | 359 | 127 | 2 | 30 | 388 | 34 | 386 | 1.20e-158 | 481 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0048410 | A0A072VQT8 | 95.670 | 485 | 20 | 1 | 1 | 485 | 1 | 484 | 0.0 | 959 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000610 | Msa0048410 | 0.886527 | 3.163923e-72 | -8.615850e-47 |
| Msa0000800 | Msa0048410 | -0.803237 | 3.836926e-49 | -8.615850e-47 |
| Msa0001040 | Msa0048410 | 0.814950 | 1.186691e-51 | -8.615850e-47 |
| Msa0001510 | Msa0048410 | 0.837468 | 5.105161e-57 | -8.615850e-47 |
| Msa0002110 | Msa0048410 | 0.857944 | 1.155383e-62 | -8.615850e-47 |
| Msa0002690 | Msa0048410 | 0.873752 | 1.152219e-67 | -8.615850e-47 |
| Msa0002700 | Msa0048410 | 0.873408 | 1.504401e-67 | -8.615850e-47 |
| Msa0003340 | Msa0048410 | 0.864191 | 1.451698e-64 | -8.615850e-47 |
| Msa0004180 | Msa0048410 | 0.857518 | 1.545328e-62 | -8.615850e-47 |
| Msa0005500 | Msa0048410 | 0.881953 | 1.563143e-70 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0048410 | MtrunA17_Chr1g0159621 | 93.600 | 500 | 31 | 1 | 1 | 500 | 1 | 499 | 0.0 | 957 |
| Msa0048410 | MtrunA17_Chr3g0125211 | 62.796 | 465 | 154 | 4 | 50 | 500 | 30 | 489 | 0.0 | 566 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0048410 | AT1G21640.1 | 62.953 | 359 | 127 | 2 | 30 | 388 | 34 | 386 | 1.22e-159 | 481 |
| Msa0048410 | AT1G21640.2 | 62.953 | 359 | 127 | 2 | 30 | 388 | 34 | 386 | 1.77e-159 | 481 |
Find 246 sgRNAs with CRISPR-Local
Find 494 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATGGAACAGTCAAGGCC+GGG | 0.593920 | 1_2:-691727 | Msa0048410:three_prime_UTR |
| AAACTTGTTAACAGTTGGAA+GGG | 0.572633 | 1_2:+688528 | None:intergenic |
| AAAGAAAGCTGAGATGTTCT+TGG | 0.308420 | 1_2:-691621 | Msa0048410:three_prime_UTR |
| AAAGCTTGGGGACGAACTAT+TGG | 0.380081 | 1_2:-691471 | Msa0048410:three_prime_UTR |
| AAAGGTCACGGAATCTTCTT+TGG | 0.291776 | 1_2:-691567 | Msa0048410:three_prime_UTR |
| AAATAGCTCTGCAAAACTGC+AGG | 0.538113 | 1_2:-692376 | Msa0048410:CDS |
| AAATCTCCAAGGCTTGAAAA+TGG | 0.303424 | 1_2:-691743 | Msa0048410:three_prime_UTR |
| AAATGGAATTTCTCCTGATA+AGG | 0.390422 | 1_2:-692202 | Msa0048410:CDS |
| AACAATAGATTCCTAGGCTT+GGG | 0.410558 | 1_2:-695435 | Msa0048410:CDS |
| AACAATATGCACGGAACGTT+TGG | 0.298253 | 1_2:+688942 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AATTAAAGAAGATCGTTGGT+AGG | - | chr1_2:688259-688278 | Msa0048410:three_prime_UTR | 30.0% | |
| AGAAGAAGTTGAATGAACTA+CGG | + | chr1_2:688330-688349 | None:intergenic | 30.0% | |
| AAGATCACTTGTGTTATGTT+AGG | - | chr1_2:688825-688844 | Msa0048410:intron | 30.0% | |
| AGACTAGACAAGATAAGATT+AGG | - | chr1_2:689015-689034 | Msa0048410:intron | 30.0% | |
| ACACAATTAGAGAGAAAGTT+CGG | - | chr1_2:689042-689061 | Msa0048410:intron | 30.0% | |
| TAGAAAAGATGATAGAAACC+AGG | - | chr1_2:689078-689097 | Msa0048410:intron | 30.0% | |
| TTGATCGAATTATGCCATAA+TGG | + | chr1_2:689249-689268 | None:intergenic | 30.0% | |
| AGCTTAAATTGGTATTAGAG+TGG | + | chr1_2:689414-689433 | None:intergenic | 30.0% | |
| TTTAACATGGTATTAGAGTC+GGG | + | chr1_2:689590-689609 | None:intergenic | 30.0% | |
| GACTCTAATACCATGTTAAA+TGG | - | chr1_2:689590-689609 | Msa0048410:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 688125 | 695721 | 688125 | ID=Msa0048410;Name=Msa0048410 |
| chr1_2 | mRNA | 688125 | 695721 | 688125 | ID=Msa0048410-mRNA-1;Parent=Msa0048410;Name=Msa0048410-mRNA-1;_AED=0.05;_eAED=0.05;_QI=154|1|1|1|0.62|0.44|9|1691|549 |
| chr1_2 | exon | 688125 | 688653 | 688125 | ID=Msa0048410-mRNA-1:exon:134;Parent=Msa0048410-mRNA-1 |
| chr1_2 | exon | 688869 | 688970 | 688869 | ID=Msa0048410-mRNA-1:exon:133;Parent=Msa0048410-mRNA-1 |
| chr1_2 | exon | 689936 | 690010 | 689936 | ID=Msa0048410-mRNA-1:exon:132;Parent=Msa0048410-mRNA-1 |
| chr1_2 | exon | 690168 | 690392 | 690168 | ID=Msa0048410-mRNA-1:exon:131;Parent=Msa0048410-mRNA-1 |
| chr1_2 | exon | 690850 | 690990 | 690850 | ID=Msa0048410-mRNA-1:exon:130;Parent=Msa0048410-mRNA-1 |
| chr1_2 | exon | 691078 | 691196 | 691078 | ID=Msa0048410-mRNA-1:exon:129;Parent=Msa0048410-mRNA-1 |
| chr1_2 | exon | 691457 | 693378 | 691457 | ID=Msa0048410-mRNA-1:exon:128;Parent=Msa0048410-mRNA-1 |
| chr1_2 | exon | 695320 | 695565 | 695320 | ID=Msa0048410-mRNA-1:exon:127;Parent=Msa0048410-mRNA-1 |
| chr1_2 | exon | 695586 | 695721 | 695586 | ID=Msa0048410-mRNA-1:exon:126;Parent=Msa0048410-mRNA-1 |
| chr1_2 | five_prime_UTR | 695586 | 695721 | 695586 | ID=Msa0048410-mRNA-1:five_prime_utr;Parent=Msa0048410-mRNA-1 |
| chr1_2 | five_prime_UTR | 695548 | 695565 | 695548 | ID=Msa0048410-mRNA-1:five_prime_utr;Parent=Msa0048410-mRNA-1 |
| chr1_2 | CDS | 695320 | 695547 | 695320 | ID=Msa0048410-mRNA-1:cds;Parent=Msa0048410-mRNA-1 |
| chr1_2 | CDS | 691957 | 693378 | 691957 | ID=Msa0048410-mRNA-1:cds;Parent=Msa0048410-mRNA-1 |
| chr1_2 | three_prime_UTR | 691457 | 691956 | 691457 | ID=Msa0048410-mRNA-1:three_prime_utr;Parent=Msa0048410-mRNA-1 |
| chr1_2 | three_prime_UTR | 691078 | 691196 | 691078 | ID=Msa0048410-mRNA-1:three_prime_utr;Parent=Msa0048410-mRNA-1 |
| chr1_2 | three_prime_UTR | 690850 | 690990 | 690850 | ID=Msa0048410-mRNA-1:three_prime_utr;Parent=Msa0048410-mRNA-1 |
| chr1_2 | three_prime_UTR | 690168 | 690392 | 690168 | ID=Msa0048410-mRNA-1:three_prime_utr;Parent=Msa0048410-mRNA-1 |
| chr1_2 | three_prime_UTR | 689936 | 690010 | 689936 | ID=Msa0048410-mRNA-1:three_prime_utr;Parent=Msa0048410-mRNA-1 |
| chr1_2 | three_prime_UTR | 688869 | 688970 | 688869 | ID=Msa0048410-mRNA-1:three_prime_utr;Parent=Msa0048410-mRNA-1 |
| chr1_2 | three_prime_UTR | 688125 | 688653 | 688125 | ID=Msa0048410-mRNA-1:three_prime_utr;Parent=Msa0048410-mRNA-1 |
| Gene Sequence |
>Msa0048410 ATGGTAGCATGTATCGACATGGCATTCTCCGTAGTTCATTCAACTTCTTCTTATCCATGTTTGTTCTCAAACTCTTCTCCATTCTTCACCAACAATAGATTCCTAGGCTTGGGCTTGGGCTTTGAGTATCAAAGGAAAGGAAGAAGGATACTAAGGAGACATGTCAAGTTTGTTATCAGTGCACAGCTTTCCAAGTCATTTTCATTCACCTTCGGGCTTGACTCTCCGAATTTGAATTCCTTCCAATCCCATGATCTATCAAAATTGTCGTGGAGGGGACCAGTTCCGGGTGATATTGCTGAAGTCGAGGCATATTGTAGGATCTTTAGAAACTCCGAAAGGCTTCATTCTGCATTAATGGATGCATTATGCAATCCGTTGACTGGGGAATGTAGCGTCTCGTATGAGGTTTCATCAGATGAGAAACCTCAACTTGAAGATAAAATAGTTTCTGTTCTTGGATGCATGGTATCCCTCGTGAACAAAGGCAGGGACGATGTTCTTACTGGAAGGTCCTCAATTATGAACCCCTTTCTTGACGCAGAGATTAGCGAGATTGAGGATAAGCTCCCTCCACTTGCCGTTTTCAGAAGCGAGATGAAAAGGTGTTCCGAGAGTTTACATGTTGCCCTTCAGAATTATTTAATGCCTGATGATGATCGGAGCTTAAATGTATGGAGGAAACTTCAGAAACTGAAGAATGTCTGCTATGATTCTGGTTTTCCTCGTGGTGAGGGTTATCCCTGTCCTACACTATTTGCTAATTGGTGTCCTGTATATTTTTCTTCTTCTAAAGAAGACACGGAGTCTGAAGAATTAGAAACGGCTTTTTGGACTGGTGGTCAGGTAACAGAAGAAGGACTAACGTGGTTACTAGATAAAGGATATAAAACAATTATAGATATCAGAGCCGAGACTGTAAGAGACAATTTCTATCAAGCGGCCGTGAACGATGCTATTTCATCTGGCAAAATTAATTTAGTAAAAATCCCAGTTGAAGTTATGACTGCACCAACAATGGAACAGGTTGCGAGGTTTGCATCTTATGTTACAGATAGCAGCAAAAGGCCTATCTATCTTCATAGCAAGGAAGGAGTTTGGAGATCATCTGCTATGGTGTCTAGATGGAGGCAGTATATGACTCGCTCTTCGTCACAGAATGTTTCTAGTCCACCAATTACCCCCTCTAACATGTTATCACATTCTACAAATAGCTCTGCAAAACTGCAGGATTCTTCAGCGACTGCAGAAAGATCCTCCCTCAAAAAGGATATTACTTCTGTGCAAGACAATTTCGATGCAACATGCAGTTCTATTGGAACATCCGACAGAAGTGTCTCTGAAAAGAAGTATGATGAGAAAACACAAGGTAATGCAGCCTTAAATGGAATTTCTCCTGATAAGGAAGGATCTTTTCCAAGTTTTTCCAGCAAGATTAACCCTTTAAAAGCTCAGTTCCTCCTCCGGATATCTTTTCCAAAAAAGCGATGTCCACATTTTTGGGTAGCAGGAAGATCTCACCTCCCGATTATGTCAATTATCAAATCAAAAGGGCGAAATTCTTACCGCAATTTAAGGACATGGCTATTGGAAGACGTGAAGGAGATGTGGTTGTTTCCAATGGTACTATTGTGGGTCCTGATAGTTTAA |
| Protein sequence |
>Msa0048410 MVACIDMAFSVVHSTSSYPCLFSNSSPFFTNNRFLGLGLGFEYQRKGRRILRRHVKFVISAQLSKSFSFTFGLDSPNLNSFQSHDLSKLSWRGPVPGDIAEVEAYCRIFRNSERLHSALMDALCNPLTGECSVSYEVSSDEKPQLEDKIVSVLGCMVSLVNKGRDDVLTGRSSIMNPFLDAEISEIEDKLPPLAVFRSEMKRCSESLHVALQNYLMPDDDRSLNVWRKLQKLKNVCYDSGFPRGEGYPCPTLFANWCPVYFSSSKEDTESEELETAFWTGGQVTEEGLTWLLDKGYKTIIDIRAETVRDNFYQAAVNDAISSGKINLVKIPVEVMTAPTMEQVARFASYVTDSSKRPIYLHSKEGVWRSSAMVSRWRQYMTRSSSQNVSSPPITPSNMLSHSTNSSAKLQDSSATAERSSLKKDITSVQDNFDATCSSIGTSDRSVSEKKYDEKTQGNAALNGISPDKEGSFPSFSSKINPLKAQFLLRISFPKKRCPHFWVAGRSHLPIMSIIKSKGRNSYRNLRTWLLEDVKEMWLFPMVLLWVLIV* |
