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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1461490 | AFK42516.1 | 99.038 | 104 | 1 | 0 | 1 | 104 | 1 | 104 | 1.13e-68 | 213 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1461490 | sp|Q9LQI7|CIA30_ARATH | 63.810 | 105 | 37 | 1 | 1 | 104 | 1 | 105 | 3.16e-44 | 146 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0004950 | Msa1461490 | 0.807227 | 5.603448e-50 | -8.615850e-47 |
| Msa0016670 | Msa1461490 | 0.820613 | 6.251587e-53 | -8.615850e-47 |
| Msa0018620 | Msa1461490 | 0.816087 | 6.625708e-52 | -8.615850e-47 |
| Msa0021810 | Msa1461490 | 0.808856 | 2.521555e-50 | -8.615850e-47 |
| Msa0023440 | Msa1461490 | 0.801939 | 7.105233e-49 | -8.615850e-47 |
| Msa0027260 | Msa1461490 | 0.823541 | 1.310365e-53 | -8.615850e-47 |
| Msa0030280 | Msa1461490 | 0.801549 | 8.542848e-49 | -8.615850e-47 |
| Msa0031510 | Msa1461490 | 0.814276 | 1.673413e-51 | -8.615850e-47 |
| Msa0032260 | Msa1461490 | 0.801401 | 9.161021e-49 | -8.615850e-47 |
| Msa0032580 | Msa1461490 | 0.811159 | 8.049775e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1461490 | MtrunA17_Chr8g0344731 | 99.038 | 104 | 1 | 0 | 1 | 104 | 1 | 104 | 7.92e-72 | 213 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1461490 | AT1G17350.3 | 63.810 | 105 | 37 | 1 | 1 | 104 | 1 | 105 | 3.21e-45 | 146 |
| Msa1461490 | AT1G17350.5 | 63.810 | 105 | 37 | 1 | 1 | 104 | 1 | 105 | 3.21e-45 | 146 |
| Msa1461490 | AT1G17350.1 | 63.810 | 105 | 37 | 1 | 1 | 104 | 1 | 105 | 3.21e-45 | 146 |
| Msa1461490 | AT1G17350.4 | 63.810 | 105 | 37 | 1 | 1 | 104 | 1 | 105 | 3.21e-45 | 146 |
| Msa1461490 | AT1G17350.2 | 63.810 | 105 | 37 | 1 | 1 | 104 | 1 | 105 | 4.95e-45 | 146 |
| Msa1461490 | AT1G72420.3 | 60.952 | 105 | 40 | 1 | 1 | 104 | 1 | 105 | 6.95e-42 | 135 |
| Msa1461490 | AT1G72420.6 | 60.952 | 105 | 40 | 1 | 1 | 104 | 1 | 105 | 6.95e-42 | 135 |
| Msa1461490 | AT1G72420.5 | 60.952 | 105 | 40 | 1 | 1 | 104 | 1 | 105 | 1.53e-41 | 135 |
| Msa1461490 | AT1G72420.1 | 60.952 | 105 | 40 | 1 | 1 | 104 | 1 | 105 | 1.04e-40 | 134 |
| Msa1461490 | AT1G72420.2 | 60.952 | 105 | 40 | 1 | 1 | 104 | 1 | 105 | 1.04e-40 | 134 |
Find 21 sgRNAs with CRISPR-Local
Find 78 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAGACTGTTCCAAGCATCAA+TGG | 0.543179 | tig0041568:-1514 | Msa1461490:CDS |
| AAGCTATCTTGTAGAGCTTA+TGG | 0.342086 | tig0041568:-798 | Msa1461490:three_prime_UTR |
| AAGTGGAATATTAGTAGAGG+TGG | 0.553563 | tig0041568:-1092 | Msa1461490:CDS |
| AGGTTACTCAAGGTGCTAAG+TGG | 0.593770 | tig0041568:-1109 | Msa1461490:CDS |
| ATTACTAGTGTTGTCAAATA+TGG | 0.280574 | tig0041568:-961 | Msa1461490:three_prime_UTR |
| CAATGTTAATATATTATTGA+TGG | 0.329432 | tig0041568:+912 | None:intergenic |
| CAGATACCTGAATCTGAAAA+TGG | 0.295053 | tig0041568:-1170 | Msa1461490:CDS |
| CCAAGCAAGAATTATCAAAA+TGG | 0.360136 | tig0041568:-1340 | Msa1461490:CDS |
| CTCTGGGAATCTTTCACTTG+AGG | 0.435126 | tig0041568:-1129 | Msa1461490:CDS |
| CTTTCACTTGAGGTTACTCA+AGG | 0.540859 | tig0041568:-1119 | Msa1461490:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TTGATTTCAACAGCTATATC+TGG | - | tig0041568:920-939 | Msa1461490:three_prime_UTR | 30.0% | |
| CCAAGCAAGAATTATCAAAA+TGG | - | tig0041568:996-1015 | Msa1461490:three_prime_UTR | 30.0% | |
| TATTCTGATTCTGAATTTGG+AGG | - | tig0041568:1025-1044 | Msa1461490:exon | 30.0% | |
| TCTGAAAATGGTAAAACTAC+TGG | - | tig0041568:1178-1197 | Msa1461490:CDS | 30.0% | |
| TTGATTTCAACAGCTATATC+TGG | - | tig0041568:920-939 | Msa1461490:three_prime_UTR | 30.0% | |
| CCAAGCAAGAATTATCAAAA+TGG | - | tig0041568:996-1015 | Msa1461490:three_prime_UTR | 30.0% | |
| TATTCTGATTCTGAATTTGG+AGG | - | tig0041568:1025-1044 | Msa1461490:exon | 30.0% | |
| TCTGAAAATGGTAAAACTAC+TGG | - | tig0041568:1178-1197 | Msa1461490:CDS | 30.0% | |
| TCAATGGATGCTACTAAGAA+AGG | - | tig0041568:838-857 | Msa1461490:three_prime_UTR | 35.0% | |
| CAGATACCTGAATCTGAAAA+TGG | - | tig0041568:1166-1185 | Msa1461490:CDS | 35.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0041568 | gene | 785 | 1573 | 785 | ID=Msa1461490;Name=Msa1461490 |
| tig0041568 | mRNA | 785 | 1573 | 785 | ID=Msa1461490-mRNA-1;Parent=Msa1461490;Name=Msa1461490-mRNA-1;_AED=0.03;_eAED=0.03;_QI=23|1|1|1|1|1|3|255|112 |
| tig0041568 | exon | 785 | 1212 | 785 | ID=Msa1461490-mRNA-1:exon:23215;Parent=Msa1461490-mRNA-1 |
| tig0041568 | exon | 1312 | 1425 | 1312 | ID=Msa1461490-mRNA-1:exon:23214;Parent=Msa1461490-mRNA-1 |
| tig0041568 | exon | 1499 | 1573 | 1499 | ID=Msa1461490-mRNA-1:exon:23213;Parent=Msa1461490-mRNA-1 |
| tig0041568 | five_prime_UTR | 1551 | 1573 | 1551 | ID=Msa1461490-mRNA-1:five_prime_utr;Parent=Msa1461490-mRNA-1 |
| tig0041568 | CDS | 1499 | 1550 | 1499 | ID=Msa1461490-mRNA-1:cds;Parent=Msa1461490-mRNA-1 |
| tig0041568 | CDS | 1312 | 1425 | 1312 | ID=Msa1461490-mRNA-1:cds;Parent=Msa1461490-mRNA-1 |
| tig0041568 | CDS | 1040 | 1212 | 1040 | ID=Msa1461490-mRNA-1:cds;Parent=Msa1461490-mRNA-1 |
| tig0041568 | three_prime_UTR | 785 | 1039 | 785 | ID=Msa1461490-mRNA-1:three_prime_utr;Parent=Msa1461490-mRNA-1 |
| Gene Sequence |
>Msa1461490 ATGTCAAGAATACGAAGACTGTTCCAAGCATCAATGGATGCTACTAAGAAAGCTATATCTGGTAGTTTTGATGATTTGATGCCACCACCTGAAAAATATATATTCAACTTCAATTCCAAGCAAGAATTATCAAAATGGCATTTGTATTCTGATTCTGAATTTGGAGGTTTGTCATCTGCATCATTGCAGATACCTGAATCTGAAAATGGTAAAACTACTGGAATTTTCTCTGGGAATCTTTCACTTGAGGTTACTCAAGGTGCTAAGTGGAATATTAGTAGAGGTGGATTTTGTGGAATGCGCTCCAAAAAGGTGGCTTTTTTAACTCAAAGACTTTAG |
| Protein sequence |
>Msa1461490 MSRIRRLFQASMDATKKAISGSFDDLMPPPEKYIFNFNSKQELSKWHLYSDSEFGGLSSASLQIPESENGKTTGIFSGNLSLEVTQGAKWNISRGGFCGMRSKKVAFLTQRL* |
