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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0186540 | XP_013462247.1 | 100.000 | 108 | 0 | 0 | 1 | 108 | 1 | 108 | 8.56e-70 | 214 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0186540 | A0A072V370 | 100.000 | 108 | 0 | 0 | 1 | 108 | 1 | 108 | 4.09e-70 | 214 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0026780 | Msa0186540 | 0.808887 | 2.482683e-50 | -8.615850e-47 |
| Msa0091730 | Msa0186540 | 0.809296 | 2.030112e-50 | -8.615850e-47 |
| Msa0097570 | Msa0186540 | 0.804921 | 1.713025e-49 | -8.615850e-47 |
| Msa0115870 | Msa0186540 | 0.812115 | 4.985600e-51 | -8.615850e-47 |
| Msa0122530 | Msa0186540 | 0.823083 | 1.676571e-53 | -8.615850e-47 |
| Msa0140700 | Msa0186540 | -0.823907 | 1.075942e-53 | -8.615850e-47 |
| Msa0186540 | Msa0190590 | 0.816763 | 4.676627e-52 | -8.615850e-47 |
| Msa0186540 | Msa0232790 | 0.828589 | 8.265254e-55 | -8.615850e-47 |
| Msa0186540 | Msa0256140 | 0.841909 | 3.569192e-58 | -8.615850e-47 |
| Msa0186540 | Msa0256570 | 0.844345 | 8.008092e-59 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0186540 | MtrunA17_Chr3g0143691 | 100.000 | 108 | 0 | 0 | 1 | 108 | 1 | 108 | 7.87e-74 | 214 |
| Msa0186540 | MtrunA17_Chr8g0373451 | 43.519 | 108 | 55 | 3 | 1 | 108 | 1 | 102 | 1.26e-20 | 79.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0186540 | AT1G20460.1 | 80.556 | 108 | 19 | 1 | 1 | 108 | 1 | 106 | 1.07e-52 | 160 |
| Msa0186540 | AT1G76185.1 | 77.778 | 108 | 22 | 1 | 1 | 108 | 1 | 106 | 6.05e-42 | 134 |
Find 90 sgRNAs with CRISPR-Local
Find 475 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATATAACTTACACTACA+GGG | 0.656372 | 2_1:-1252466 | Msa0186540:three_prime_UTR |
| AAACAAGCTTATCCGGTTGG+AGG | 0.575266 | 2_1:-1252966 | Msa0186540:three_prime_UTR |
| AAATTAAACAATAGTTGTGG+TGG | 0.589861 | 2_1:-1252625 | Msa0186540:three_prime_UTR |
| AACTAACCACATTCGTTTCT+AGG | 0.163156 | 2_1:-1258824 | Msa0186540:five_prime_UTR |
| AACTATCAAAGTTTGATCTT+GGG | 0.408392 | 2_1:-1253150 | Msa0186540:three_prime_UTR |
| AACTGGACGCTAGGAGCAGT+TGG | 0.454856 | 2_1:+1252318 | Msa0186530:CDS |
| AAGATTCGATCGCGTTATCA+TGG | 0.461012 | 2_1:+1258707 | None:intergenic |
| AAGGCTATTCGAAGCCACCT+TGG | 0.605278 | 2_1:-1252126 | Msa0186540:three_prime_UTR |
| AAGTTGACTAGAGAATATAA+AGG | 0.582501 | 2_1:-1253003 | Msa0186540:three_prime_UTR |
| AATACAACAAAGTTAATATG+TGG | 0.532838 | 2_1:+1252696 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TAAAATCAAAACGACGACTA+TGG | + | chr2_1:1252100-1252119 | Msa0186530:CDS | 30.0% | |
| GTCAAATTTGTGATTCAGAT+AGG | + | chr2_1:1252473-1252492 | None:intergenic | 30.0% | |
| TCTGAATCACAAATTTGACA+TGG | - | chr2_1:1252474-1252493 | Msa0186540:three_prime_UTR | 30.0% | |
| TTACAAACCAAAAGTTTCCT+TGG | - | chr2_1:1252817-1252836 | Msa0186540:three_prime_UTR | 30.0% | |
| ATTGAATAGAAAAGAGTCAC+GGG | + | chr2_1:1252901-1252920 | None:intergenic | 30.0% | |
| CGACAAGAAAAAGCTTAATA+AGG | + | chr2_1:1253051-1253070 | None:intergenic | 30.0% | |
| GGTACAATTGTAGAAACTTA+GGG | - | chr2_1:1253126-1253145 | Msa0186540:three_prime_UTR | 30.0% | |
| GACATTACTAAATAAGCACT+AGG | + | chr2_1:1253465-1253484 | None:intergenic | 30.0% | |
| TAGGATACTAGGGAATAATA+AGG | + | chr2_1:1253497-1253516 | None:intergenic | 30.0% | |
| ACAGTCAAAATGAAGAAGAA+AGG | - | chr2_1:1253966-1253985 | Msa0186540:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 1252056 | 1258851 | 1252056 | ID=Msa0186540;Name=Msa0186540 |
| chr2_1 | mRNA | 1252056 | 1258851 | 1252056 | ID=Msa0186540-mRNA-1;Parent=Msa0186540;Name=Msa0186540-mRNA-1;_AED=0.00;_eAED=0.00;_QI=124|1|1|1|0|1|2|1126|108 |
| chr2_1 | exon | 1252056 | 1253389 | 1252056 | ID=Msa0186540-mRNA-1:exon:548;Parent=Msa0186540-mRNA-1 |
| chr2_1 | exon | 1258609 | 1258851 | 1258609 | ID=Msa0186540-mRNA-1:exon:547;Parent=Msa0186540-mRNA-1 |
| chr2_1 | five_prime_UTR | 1258728 | 1258851 | 1258728 | ID=Msa0186540-mRNA-1:five_prime_utr;Parent=Msa0186540-mRNA-1 |
| chr2_1 | CDS | 1258609 | 1258727 | 1258609 | ID=Msa0186540-mRNA-1:cds;Parent=Msa0186540-mRNA-1 |
| chr2_1 | CDS | 1253182 | 1253389 | 1253182 | ID=Msa0186540-mRNA-1:cds;Parent=Msa0186540-mRNA-1 |
| chr2_1 | three_prime_UTR | 1252056 | 1253181 | 1252056 | ID=Msa0186540-mRNA-1:three_prime_utr;Parent=Msa0186540-mRNA-1 |
| Gene Sequence |
>Msa0186540 ATGATAACGCGATCGAATCTTGCAGAACAGCTGCGAGATTATCAGATTCGATCCAAACATGACTGGGCCTCTGTCTCCTTCTTCTCTTCTACTTCTTCCAATATCACCAACACTTCCAAGGTGGATGTGGTGGTCTTTGTAATATGGGAACTTGTTATATTAGCTTTCTTGGTTTTTTCAGTTGTTTCTTTGTACTTTAAGCACATCCAGCTTGCTTTTATATTAGTCTGCATCACAGTGCTTTTGCTTTTATGCATGAAAATTACAAAGCAAGTAAGACTGGCAAGGAAGAAGAAACGAAGGATGCTTCTTCCATTGTCAATGTAA |
| Protein sequence |
>Msa0186540 MITRSNLAEQLRDYQIRSKHDWASVSFFSSTSSNITNTSKVDVVVFVIWELVILAFLVFSVVSLYFKHIQLAFILVCITVLLLLCMKITKQVRLARKKKRRMLLPLSM* |
