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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0385740 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0385740 | A0A072V370 | 100.000 | 108 | 0 | 0 | 1 | 108 | 1 | 108 | 4.09e-70 | 214 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0077370 | Msa0385740 | 0.808485 | 3.026109e-50 | -8.615850e-47 |
| Msa0082420 | Msa0385740 | 0.802691 | 4.975193e-49 | -8.615850e-47 |
| Msa0122530 | Msa0385740 | 0.817801 | 2.731668e-52 | -8.615850e-47 |
| Msa0131270 | Msa0385740 | 0.802964 | 4.370368e-49 | -8.615850e-47 |
| Msa0186540 | Msa0385740 | 0.977216 | 2.433419e-143 | -8.615850e-47 |
| Msa0232790 | Msa0385740 | 0.808788 | 2.607356e-50 | -8.615850e-47 |
| Msa0256140 | Msa0385740 | 0.831769 | 1.383204e-55 | -8.615850e-47 |
| Msa0256570 | Msa0385740 | 0.854775 | 9.834865e-62 | -8.615850e-47 |
| Msa0272300 | Msa0385740 | 0.809255 | 2.070912e-50 | -8.615850e-47 |
| Msa0295710 | Msa0385740 | 0.849565 | 2.979570e-60 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0385740 | MtrunA17_Chr3g0143691 | 100.000 | 108 | 0 | 0 | 1 | 108 | 1 | 108 | 7.87e-74 | 214 |
| Msa0385740 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0385740 | AT1G20460.1 | 80.556 | 108 | 19 | 1 | 1 | 108 | 1 | 106 | 1.07e-52 | 160 |
| Msa0385740 | AT1G76185.1 | 77.778 | 108 | 22 | 1 | 1 | 108 | 1 | 106 | 6.05e-42 | 134 |
Find 90 sgRNAs with CRISPR-Local
Find 474 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATATAACTTACACTACA+GGG | 0.656372 | 3_1:+89445444 | Msa0385740:three_prime_UTR |
| AAACAAGCTTATCCGGTTGG+AGG | 0.575266 | 3_1:+89444944 | Msa0385740:three_prime_UTR |
| AAATTAAACAATAGTTGTGG+TGG | 0.589861 | 3_1:+89445285 | Msa0385740:three_prime_UTR |
| AACTAACCACATTCGTTTCT+AGG | 0.163156 | 3_1:+89439096 | Msa0385740:five_prime_UTR |
| AACTATCAAAGTTTGATCTT+GGG | 0.408392 | 3_1:+89444760 | Msa0385740:three_prime_UTR |
| AACTGGACGCTAGGAGCAGT+TGG | 0.454856 | 3_1:-89445592 | Msa0385750:CDS |
| AAGATTCGATCGCGTTATCA+TGG | 0.461012 | 3_1:-89439213 | None:intergenic |
| AAGGCTATTCGAAGCCACCT+TGG | 0.605278 | 3_1:+89445784 | Msa0385740:three_prime_UTR |
| AAGTTGACTAGAGAATATAA+AGG | 0.582501 | 3_1:+89444907 | Msa0385740:three_prime_UTR |
| AATACAACAAAGTTAATATG+TGG | 0.532838 | 3_1:-89445214 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TAAAATCAAAACGACGACTA+TGG | - | chr3_1:89439135-89439154 | None:intergenic | 30.0% | |
| GTCAAATTTGTGATTCAGAT+AGG | - | chr3_1:89439508-89439527 | None:intergenic | 30.0% | |
| TCTGAATCACAAATTTGACA+TGG | + | chr3_1:89439509-89439528 | Msa0385740:intron | 30.0% | |
| TTACAAACCAAAAGTTTCCT+TGG | + | chr3_1:89439852-89439871 | Msa0385740:intron | 30.0% | |
| ATTGAATAGAAAAGAGTCAC+GGG | - | chr3_1:89439936-89439955 | None:intergenic | 30.0% | |
| CGACAAGAAAAAGCTTAATA+AGG | - | chr3_1:89440086-89440105 | None:intergenic | 30.0% | |
| GGTACAATTGTAGAAACTTA+GGG | + | chr3_1:89440161-89440180 | Msa0385740:intron | 30.0% | |
| GACATTACTAAATAAGCACT+AGG | - | chr3_1:89440500-89440519 | None:intergenic | 30.0% | |
| TAGGATACTAGGGAATAATA+AGG | - | chr3_1:89440532-89440551 | None:intergenic | 30.0% | |
| ACAGTCAAAATGAAGAAGAA+AGG | + | chr3_1:89440991-89441010 | Msa0385740:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 89439091 | 89445876 | 89439091 | ID=Msa0385740;Name=Msa0385740 |
| chr3_1 | mRNA | 89439091 | 89445876 | 89439091 | ID=Msa0385740-mRNA-1;Parent=Msa0385740;Name=Msa0385740-mRNA-1;_AED=0.00;_eAED=0.00;_QI=124|1|1|1|1|1|2|1126|108 |
| chr3_1 | exon | 89439091 | 89439333 | 89439091 | ID=Msa0385740-mRNA-1:exon:24333;Parent=Msa0385740-mRNA-1 |
| chr3_1 | exon | 89444543 | 89445876 | 89444543 | ID=Msa0385740-mRNA-1:exon:24334;Parent=Msa0385740-mRNA-1 |
| chr3_1 | five_prime_UTR | 89439091 | 89439214 | 89439091 | ID=Msa0385740-mRNA-1:five_prime_utr;Parent=Msa0385740-mRNA-1 |
| chr3_1 | CDS | 89439215 | 89439333 | 89439215 | ID=Msa0385740-mRNA-1:cds;Parent=Msa0385740-mRNA-1 |
| chr3_1 | CDS | 89444543 | 89444750 | 89444543 | ID=Msa0385740-mRNA-1:cds;Parent=Msa0385740-mRNA-1 |
| chr3_1 | three_prime_UTR | 89444751 | 89445876 | 89444751 | ID=Msa0385740-mRNA-1:three_prime_utr;Parent=Msa0385740-mRNA-1 |
| Gene Sequence |
>Msa0385740 ATGATAACGCGATCGAATCTTGCAGAACAGCTGCGAGATTATCAGATTCGATCCAAACATGACTGGGCCTCTGTCTCCTTCTTCTCTTCTACTTCTTCCAATATCACCAACACTTCCAAGGTGGATGTGGTGGTCTTTGTAATATGGGAACTTGTTATATTAGCTTTCTTGGTTTTTTCAGTTGTTTCTTTGTACTTTAAGCACATCCAGCTTGCTTTTATATTAGTCTGCATCACAGTGCTTTTGCTTTTATGCATGAAAATTACAAAGCAAGTAAGACTGGCAAGGAAGAAGAAACGAAGGATGCTTCTTCCATTGTCAATGTAA |
| Protein sequence |
>Msa0385740 MITRSNLAEQLRDYQIRSKHDWASVSFFSSTSSNITNTSKVDVVVFVIWELVILAFLVFSVVSLYFKHIQLAFILVCITVLLLLCMKITKQVRLARKKKRRMLLPLSM* |
