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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0581110 | KEH24379.1 | 87.963 | 216 | 19 | 2 | 1 | 216 | 1 | 209 | 5.12e-89 | 271 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0581110 | sp|P0C8Z0|Y8359_ORYSI | 74.336 | 113 | 29 | 0 | 1 | 113 | 1 | 113 | 2.01e-59 | 188 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0581110 | A0A072U3U0 | 87.963 | 216 | 19 | 2 | 1 | 216 | 1 | 209 | 2.45e-89 | 271 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0001450 | Msa0581110 | 0.903550 | 3.090998e-79 | -8.615850e-47 |
| Msa0002750 | Msa0581110 | 0.812404 | 4.312890e-51 | -8.615850e-47 |
| Msa0002790 | Msa0581110 | 0.814235 | 1.708159e-51 | -8.615850e-47 |
| Msa0003700 | Msa0581110 | 0.815258 | 1.013798e-51 | -8.615850e-47 |
| Msa0003720 | Msa0581110 | 0.867292 | 1.523985e-65 | -8.615850e-47 |
| Msa0003780 | Msa0581110 | 0.810803 | 9.611335e-51 | -8.615850e-47 |
| Msa0004540 | Msa0581110 | 0.824561 | 7.550555e-54 | -8.615850e-47 |
| Msa0007850 | Msa0581110 | 0.825918 | 3.607028e-54 | -8.615850e-47 |
| Msa0008090 | Msa0581110 | 0.843902 | 1.053138e-58 | -8.615850e-47 |
| Msa0008200 | Msa0581110 | 0.849473 | 3.160780e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0581110 | MtrunA17_Chr7g0269271 | 99.074 | 108 | 1 | 0 | 1 | 108 | 1 | 108 | 3.96e-76 | 229 |
| Msa0581110 | MtrunA17_Chr1g0195701 | 56.757 | 222 | 51 | 6 | 1 | 216 | 1 | 183 | 1.47e-72 | 218 |
| Msa0581110 | MtrunA17_Chr6g0465301 | 51.724 | 116 | 56 | 0 | 1 | 116 | 1 | 116 | 2.83e-38 | 131 |
| Msa0581110 | MtrunA17_Chr6g0460991 | 48.624 | 109 | 55 | 1 | 1 | 109 | 1 | 108 | 3.89e-33 | 116 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0581110 | AT4G02450.2 | 62.832 | 113 | 41 | 1 | 1 | 113 | 1 | 112 | 2.19e-48 | 159 |
| Msa0581110 | AT4G02450.1 | 62.832 | 113 | 41 | 1 | 1 | 113 | 1 | 112 | 2.25e-48 | 159 |
| Msa0581110 | AT3G03773.1 | 43.836 | 146 | 77 | 3 | 1 | 143 | 1 | 144 | 5.42e-35 | 121 |
| Msa0581110 | AT3G03773.3 | 52.212 | 113 | 52 | 2 | 1 | 113 | 1 | 111 | 6.41e-35 | 120 |
| Msa0581110 | AT3G03773.2 | 46.565 | 131 | 65 | 3 | 1 | 128 | 55 | 183 | 2.53e-33 | 119 |
Find 99 sgRNAs with CRISPR-Local
Find 242 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGTTGATCTTACTCCAGA+AGG | 0.549028 | 4_1:+86454739 | Msa0581110:CDS |
| AAGAGGTTGCTGCGTGGAGA+AGG | 0.527175 | 4_1:+86455101 | Msa0581110:CDS |
| AATGGAAGGACTGGGAGGAA+TGG | 0.482020 | 4_1:+86455768 | Msa0581110:CDS |
| AATGGGAGGAATGGGAGGCA+TGG | 0.503653 | 4_1:+86455693 | Msa0581110:CDS |
| AATGGGAGGCATGGGAGGAA+TGG | 0.435114 | 4_1:+86455750 | Msa0581110:CDS |
| AATGGGAGGCATGGGCGGCT+TGG | 0.421152 | 4_1:+86455702 | Msa0581110:CDS |
| ACACAGCAAAGAGGACACAA+AGG | 0.705271 | 4_1:-86457300 | None:intergenic |
| ACTAAACTCATCGCATTGAA+CGG | 0.543164 | 4_1:+86457564 | Msa0581110:three_prime_UTR |
| ACTAACCAAAGAAGGAATTA+GGG | 0.393297 | 4_1:+86454072 | Msa0581110:five_prime_UTR |
| ACTACTGTGATTAAACCTTG+TGG | 0.578622 | 4_1:-86457488 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ACTAACCAAAGAAGGAATTA+GGG | + | chr4_1:86454072-86454091 | Msa0581110:five_prime_UTR | 30.0% | |
| TAAAACCCTAATTCCTTCTT+TGG | - | chr4_1:86454080-86454099 | None:intergenic | 30.0% | |
| GATTGAAGATGAGAAAAAAG+AGG | - | chr4_1:86454112-86454131 | None:intergenic | 30.0% | |
| AACAAGTCGTCAAATTCAAA+GGG | - | chr4_1:86454334-86454353 | None:intergenic | 30.0% | |
| AAACAAGTCGTCAAATTCAA+AGG | - | chr4_1:86454335-86454354 | None:intergenic | 30.0% | |
| CTATGTCCTAAAATGAAAGA+TGG | + | chr4_1:86454853-86454872 | Msa0581110:intron | 30.0% | |
| CATTCAGGTAAACATTCATA+AGG | - | chr4_1:86454880-86454899 | None:intergenic | 30.0% | |
| TTAAGGAAACCAAAAGTAGT+AGG | + | chr4_1:86455426-86455445 | Msa0581110:intron | 30.0% | |
| CAACGTAAAACATCAATAGA+AGG | - | chr4_1:86455622-86455641 | None:intergenic | 30.0% | |
| GTACAGTAAATGTAAACAAG+AGG | + | chr4_1:86456307-86456326 | Msa0581110:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_1 | gene | 86454057 | 86457604 | 86454057 | ID=Msa0581110;Name=Msa0581110 |
| chr4_1 | mRNA | 86454057 | 86457604 | 86454057 | ID=Msa0581110-mRNA-1;Parent=Msa0581110;Name=Msa0581110-mRNA-1;_AED=0.19;_eAED=0.19;_QI=87|0.83|0.85|1|1|1|7|400|216 |
| chr4_1 | exon | 86454057 | 86454148 | 86454057 | ID=Msa0581110-mRNA-1:exon:31929;Parent=Msa0581110-mRNA-1 |
| chr4_1 | exon | 86454660 | 86454846 | 86454660 | ID=Msa0581110-mRNA-1:exon:31930;Parent=Msa0581110-mRNA-1 |
| chr4_1 | exon | 86455032 | 86455188 | 86455032 | ID=Msa0581110-mRNA-1:exon:31931;Parent=Msa0581110-mRNA-1 |
| chr4_1 | exon | 86455286 | 86455296 | 86455286 | ID=Msa0581110-mRNA-1:exon:31932;Parent=Msa0581110-mRNA-1 |
| chr4_1 | exon | 86455664 | 86455798 | 86455664 | ID=Msa0581110-mRNA-1:exon:31933;Parent=Msa0581110-mRNA-1 |
| chr4_1 | exon | 86455884 | 86455941 | 86455884 | ID=Msa0581110-mRNA-1:exon:31934;Parent=Msa0581110-mRNA-1 |
| chr4_1 | exon | 86457107 | 86457604 | 86457107 | ID=Msa0581110-mRNA-1:exon:31935;Parent=Msa0581110-mRNA-1 |
| chr4_1 | five_prime_UTR | 86454057 | 86454143 | 86454057 | ID=Msa0581110-mRNA-1:five_prime_utr;Parent=Msa0581110-mRNA-1 |
| chr4_1 | CDS | 86454144 | 86454148 | 86454144 | ID=Msa0581110-mRNA-1:cds;Parent=Msa0581110-mRNA-1 |
| chr4_1 | CDS | 86454660 | 86454846 | 86454660 | ID=Msa0581110-mRNA-1:cds;Parent=Msa0581110-mRNA-1 |
| chr4_1 | CDS | 86455032 | 86455188 | 86455032 | ID=Msa0581110-mRNA-1:cds;Parent=Msa0581110-mRNA-1 |
| chr4_1 | CDS | 86455286 | 86455296 | 86455286 | ID=Msa0581110-mRNA-1:cds;Parent=Msa0581110-mRNA-1 |
| chr4_1 | CDS | 86455664 | 86455798 | 86455664 | ID=Msa0581110-mRNA-1:cds;Parent=Msa0581110-mRNA-1 |
| chr4_1 | CDS | 86455884 | 86455941 | 86455884 | ID=Msa0581110-mRNA-1:cds;Parent=Msa0581110-mRNA-1 |
| chr4_1 | CDS | 86457107 | 86457204 | 86457107 | ID=Msa0581110-mRNA-1:cds;Parent=Msa0581110-mRNA-1 |
| chr4_1 | three_prime_UTR | 86457205 | 86457604 | 86457205 | ID=Msa0581110-mRNA-1:three_prime_utr;Parent=Msa0581110-mRNA-1 |
| Gene Sequence |
>Msa0581110 ATGAGTCGTCATCCCGAGGTTAAGTGGGCACAGAGAGTAGACAAGGTCTACATCACAGTGCAGTTGGCTGATTCCAAAAATTCCAAAGTTGATCTTACTCCAGAAGGTGATTTTACCTTTTCTGGTAGTGCTGGTGCTGGAGACAATCAGTATGAGCTGAAACTTGAGCTCTTTGACAAGGTTAATGTAGAGGAGAGCAAAATCAGTGTAGGAGTGCGAAACATATTCTGTGTAGTGCAGAAGGCTGAGAGTGGATGGTGGAAGAGGTTGCTGCGTGGAGAAGGCAAGGCTCCTCATTATGTGAAAATAGATTGGGATAAATGGGTCGATGAAGATGAGGCTGAAGAAGGTGGTGGTGATAAATTCGGCGGGATGGGTGGTGATGATCCAATGGGAGGAATGGGAGGCATGGGCGGCTTGGGAGGAATGATGGGGGGCATGGGAGGAATGGGAGGCATGGGAGGAATGGAAGGACTGGGAGGAATGGACTTCTCTAAATTTGCTGGGATGGGTGGTGATGCAATGGATGATATTGACGAGAGTGACGATGAAGATCAAGAAGTGTCAAAGCCTGGAGAGCAAGATGCTGCTGGCAAGAGCGCTGGTGAGGCAGCTACAGAGAGTAAAGTAGAAGCTACCCCGAGCACATAA |
| Protein sequence |
>Msa0581110 MSRHPEVKWAQRVDKVYITVQLADSKNSKVDLTPEGDFTFSGSAGAGDNQYELKLELFDKVNVEESKISVGVRNIFCVVQKAESGWWKRLLRGEGKAPHYVKIDWDKWVDEDEAEEGGGDKFGGMGGDDPMGGMGGMGGLGGMMGGMGGMGGMGGMEGLGGMDFSKFAGMGGDAMDDIDESDDEDQEVSKPGEQDAAGKSAGEAATESKVEATPST* |
