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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1378160 | XP_013444125.1 | 94.853 | 136 | 7 | 0 | 1 | 136 | 1 | 136 | 1.85e-88 | 263 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1378160 | sp|P82787|DEF19_ARATH | 50.000 | 74 | 34 | 1 | 9 | 79 | 5 | 78 | 4.69e-18 | 76.3 |
| Msa1378160 | sp|P82787|DEF19_ARATH | 54.717 | 53 | 24 | 0 | 84 | 136 | 26 | 78 | 4.42e-11 | 58.2 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1378160 | I3SZ44 | 94.853 | 136 | 7 | 0 | 1 | 136 | 1 | 136 | 8.82e-89 | 263 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1347270 | Msa1378160 | 0.865354 | 6.275332e-65 | -8.615850e-47 |
| Msa1378160 | Msa1378180 | 0.800217 | 1.598711e-48 | -8.615850e-47 |
| Msa1230790 | Msa1378160 | 0.850089 | 2.126713e-60 | -8.615850e-47 |
| Msa1273410 | Msa1378160 | 0.899738 | 1.471676e-77 | -8.615850e-47 |
PPI
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1378160 | MtrunA17_Chr8g0339681 | 94.853 | 136 | 7 | 0 | 1 | 136 | 1 | 136 | 1.70e-92 | 263 |
| Msa1378160 | MtrunA17_Chr8g0339701 | 87.342 | 79 | 10 | 0 | 1 | 79 | 1 | 79 | 2.92e-46 | 144 |
| Msa1378160 | MtrunA17_Chr8g0339701 | 64.706 | 68 | 24 | 0 | 69 | 136 | 12 | 79 | 2.89e-26 | 94.0 |
| Msa1378160 | MtrunA17_Chr8g0339721 | 67.089 | 79 | 26 | 0 | 1 | 79 | 1 | 79 | 2.86e-28 | 99.4 |
| Msa1378160 | MtrunA17_Chr8g0339721 | 66.667 | 54 | 18 | 0 | 83 | 136 | 26 | 79 | 1.42e-21 | 82.0 |
| Msa1378160 | MtrunA17_Chr8g0339691 | 82.353 | 51 | 9 | 0 | 27 | 77 | 1 | 51 | 7.59e-27 | 96.3 |
| Msa1378160 | MtrunA17_Chr8g0339691 | 76.471 | 51 | 12 | 0 | 84 | 134 | 1 | 51 | 1.80e-23 | 87.4 |
| Msa1378160 | MtrunA17_Chr8g0339741 | 52.500 | 80 | 37 | 1 | 1 | 79 | 1 | 80 | 6.02e-23 | 85.9 |
| Msa1378160 | MtrunA17_Chr8g0339741 | 49.091 | 55 | 27 | 1 | 83 | 136 | 26 | 80 | 6.95e-12 | 57.4 |
| Msa1378160 | MtrunA17_Chr8g0339711 | 51.250 | 80 | 37 | 2 | 1 | 79 | 1 | 79 | 1.83e-19 | 77.0 |
| Msa1378160 | MtrunA17_Chr8g0339711 | 58.182 | 55 | 22 | 1 | 83 | 136 | 25 | 79 | 3.41e-15 | 65.9 |
| Msa1378160 | MtrunA17_Chr8g0339751 | 58.228 | 79 | 32 | 1 | 1 | 79 | 1 | 78 | 1.13e-18 | 74.7 |
| Msa1378160 | MtrunA17_Chr8g0339751 | 61.111 | 54 | 20 | 1 | 83 | 136 | 26 | 78 | 3.51e-15 | 65.9 |
| Msa1378160 | MtrunA17_Chr3g0084701 | 50.633 | 79 | 37 | 1 | 1 | 79 | 1 | 77 | 1.13e-18 | 74.7 |
| Msa1378160 | MtrunA17_Chr8g0339651 | 46.835 | 79 | 37 | 2 | 4 | 79 | 13 | 89 | 4.55e-17 | 70.9 |
| Msa1378160 | MtrunA17_Chr8g0339651 | 48.148 | 54 | 26 | 1 | 83 | 136 | 38 | 89 | 3.02e-11 | 55.8 |
| Msa1378160 | MtrunA17_Chr8g0345161 | 49.351 | 77 | 35 | 2 | 3 | 79 | 4 | 76 | 1.18e-16 | 69.7 |
| Msa1378160 | MtrunA17_Chr7g0260561 | 43.902 | 82 | 40 | 4 | 1 | 79 | 1 | 79 | 2.93e-16 | 68.6 |
| Msa1378160 | MtrunA17_Chr8g0357271 | 50.617 | 81 | 35 | 4 | 1 | 79 | 1 | 78 | 2.43e-15 | 66.2 |
| Msa1378160 | MtrunA17_Chr8g0339501 | 35.075 | 134 | 66 | 4 | 1 | 132 | 1 | 115 | 4.52e-14 | 63.9 |
| Msa1378160 | MtrunA17_Chr8g0339481 | 45.000 | 80 | 43 | 1 | 1 | 79 | 1 | 80 | 3.25e-13 | 60.8 |
| Msa1378160 | MtrunA17_Chr8g0339571 | 46.835 | 79 | 39 | 2 | 1 | 79 | 9 | 84 | 5.73e-12 | 57.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1378160 | AT1G19610.1 | 50.000 | 74 | 34 | 1 | 9 | 79 | 5 | 78 | 4.76e-19 | 76.3 |
| Msa1378160 | AT1G19610.1 | 54.717 | 53 | 24 | 0 | 84 | 136 | 26 | 78 | 4.50e-12 | 58.2 |
| Msa1378160 | AT2G26020.1 | 41.250 | 80 | 42 | 1 | 5 | 79 | 1 | 80 | 7.91e-12 | 57.8 |
Find 25 sgRNAs with CRISPR-Local
Find 38 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTTCTCCTTTCACAAAGTTT+TGG | 0.209669 | tig0020056:+41613 | None:intergenic |
| TTGTACCAGATGTGGAAATA+AGG | 0.351907 | tig0020056:+42107 | None:intergenic |
| GCTTGTCATCGTCAAGGCTT+TGG | 0.378692 | tig0020056:-41874 | Msa1378160:CDS |
| CAACTCCTTATTTCCACATC+TGG | 0.416261 | tig0020056:-42112 | Msa1378160:intron |
| AATGTGGAGCATGCTACTTT+TGG | 0.451256 | tig0020056:-41898 | Msa1378160:CDS |
| AAGCAAAACCAATGCCTTGA+CGG | 0.461808 | tig0020056:+41503 | None:intergenic |
| GCTTGTCACCGTCAAGGCAT+TGG | 0.463579 | tig0020056:-41511 | Msa1378160:CDS |
| AGGAGAAGCAAAACATGGTC+AGG | 0.478213 | tig0020056:-41598 | Msa1378160:CDS |
| AAACGAAGTAAAACATGGTC+AGG | 0.485517 | tig0020056:-41961 | Msa1378160:CDS |
| TGATTAATTTGTACCAGATG+TGG | 0.499404 | tig0020056:+42099 | None:intergenic |
| AGATGTGGAAATAAGGAGTT+GGG | 0.502839 | tig0020056:+42114 | None:intergenic |
| AATGTGGAGCATGCAACTTC+TGG | 0.503666 | tig0020056:-41535 | Msa1378160:CDS |
| TCAGGACCTTGTCTTATCTC+AGG | 0.512067 | tig0020056:-41580 | Msa1378160:CDS |
| CAGTTTCCTGTGTTAAGACA+AGG | 0.529102 | tig0020056:+41937 | None:intergenic |
| TTTGGTGCTTGTCATCGTCA+AGG | 0.545774 | tig0020056:-41880 | Msa1378160:CDS |
| CAGATGTGGAAATAAGGAGT+TGG | 0.545781 | tig0020056:+42113 | None:intergenic |
| TAAAAGACAATGCGTTAATG+TGG | 0.555166 | tig0020056:-41914 | Msa1378160:CDS |
| CAATTTCCTGAGATAAGACA+AGG | 0.570373 | tig0020056:+41574 | None:intergenic |
| TGGAACCAAAACTTTGTGAA+AGG | 0.587476 | tig0020056:-41618 | Msa1378160:CDS |
| TGGAAATAAGGAGTTGGGCA+AGG | 0.599764 | tig0020056:+42119 | None:intergenic |
| TCTGGTGCTTGTCACCGTCA+AGG | 0.605234 | tig0020056:-41517 | Msa1378160:CDS |
| GCTGTAGAATTTACTAACAG+AGG | 0.613722 | tig0020056:+42159 | None:intergenic |
| GTGAAAGGAGAAGCAAAACA+TGG | 0.650226 | tig0020056:-41603 | Msa1378160:CDS |
| TAAAAGACAGTGCATCAATG+TGG | 0.668011 | tig0020056:-41551 | Msa1378160:CDS |
| TCAGGACCTTGTCTTAACAC+AGG | 0.703356 | tig0020056:-41943 | Msa1378160:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAATGAACAATTATTAATAT+AGG | + | tig0020056:41947-41966 | None:intergenic | 10.0% |
| !! | AATTATTAGGAACATAAATA+AGG | + | tig0020056:41607-41626 | None:intergenic | 15.0% |
| !! | TAATAATGAAGCAAATTATT+AGG | + | tig0020056:41620-41639 | None:intergenic | 15.0% |
| !!! | ATATGGTTATATTATAGTTT+TGG | + | tig0020056:41877-41896 | None:intergenic | 15.0% |
| !! | GATTAATTGTTACATTTATA+TGG | + | tig0020056:41894-41913 | None:intergenic | 15.0% |
| !! | AAATTAAGAACACAAAAATA+TGG | + | tig0020056:41976-41995 | None:intergenic | 15.0% |
| !!! | TTTTTTCTTTTTATATGAAG+AGG | - | tig0020056:42005-42024 | Msa1378160:intron | 15.0% |
| !! | AATGTTAACAATATACTCTT+TGG | + | tig0020056:41829-41848 | None:intergenic | 20.0% |
| ! | AACAATTAATCAGATACATG+TGG | - | tig0020056:41903-41922 | Msa1378160:CDS | 25.0% |
| !! | TTTCTTTTTATATGAAGAGG+TGG | - | tig0020056:42008-42027 | Msa1378160:intron | 25.0% |
| !! | TGATTAATTTGTACCAGATG+TGG | + | tig0020056:41550-41569 | None:intergenic | 30.0% |
| ! | TTTTTGCTTTCTATGTGTAG+AGG | - | tig0020056:41642-41661 | Msa1378160:intron | 30.0% |
| GTCAAAAACGAAGTAAAACA+TGG | - | tig0020056:41680-41699 | Msa1378160:intron | 30.0% | |
| TAAAAGACAATGCGTTAATG+TGG | - | tig0020056:41732-41751 | Msa1378160:intron | 30.0% | |
| GCTGTAGAATTTACTAACAG+AGG | + | tig0020056:41490-41509 | None:intergenic | 35.0% | |
| AGATGTGGAAATAAGGAGTT+GGG | + | tig0020056:41535-41554 | None:intergenic | 35.0% | |
| TTGTACCAGATGTGGAAATA+AGG | + | tig0020056:41542-41561 | None:intergenic | 35.0% | |
| AAACGAAGTAAAACATGGTC+AGG | - | tig0020056:41685-41704 | Msa1378160:intron | 35.0% | |
| TGGAACCAAAACTTTGTGAA+AGG | - | tig0020056:42028-42047 | Msa1378160:intron | 35.0% | |
| ! | CTTCTCCTTTCACAAAGTTT+TGG | + | tig0020056:42036-42055 | None:intergenic | 35.0% |
| CAATTTCCTGAGATAAGACA+AGG | + | tig0020056:42075-42094 | None:intergenic | 35.0% | |
| TAAAAGACAGTGCATCAATG+TGG | - | tig0020056:42095-42114 | Msa1378160:intron | 35.0% | |
| CAGATGTGGAAATAAGGAGT+TGG | + | tig0020056:41536-41555 | None:intergenic | 40.0% | |
| ! | CAACTCCTTATTTCCACATC+TGG | - | tig0020056:41534-41553 | Msa1378160:CDS | 40.0% |
| TTGCTTTCTATGTGTAGAGG+TGG | - | tig0020056:41645-41664 | Msa1378160:intron | 40.0% | |
| CAGTTTCCTGTGTTAAGACA+AGG | + | tig0020056:41712-41731 | None:intergenic | 40.0% | |
| !!! | AATGTGGAGCATGCTACTTT+TGG | - | tig0020056:41748-41767 | Msa1378160:intron | 40.0% |
| GTGAAAGGAGAAGCAAAACA+TGG | - | tig0020056:42043-42062 | Msa1378160:intron | 40.0% | |
| AAGCAAAACCAATGCCTTGA+CGG | + | tig0020056:42146-42165 | None:intergenic | 40.0% | |
| TGGAAATAAGGAGTTGGGCA+AGG | + | tig0020056:41530-41549 | None:intergenic | 45.0% | |
| TCAGGACCTTGTCTTAACAC+AGG | - | tig0020056:41703-41722 | Msa1378160:intron | 45.0% | |
| !! | TTTGGTGCTTGTCATCGTCA+AGG | - | tig0020056:41766-41785 | Msa1378160:intron | 45.0% |
| AGGAGAAGCAAAACATGGTC+AGG | - | tig0020056:42048-42067 | Msa1378160:intron | 45.0% | |
| TCAGGACCTTGTCTTATCTC+AGG | - | tig0020056:42066-42085 | Msa1378160:intron | 45.0% | |
| AATGTGGAGCATGCAACTTC+TGG | - | tig0020056:42111-42130 | Msa1378160:intron | 45.0% | |
| GCTTGTCATCGTCAAGGCTT+TGG | - | tig0020056:41772-41791 | Msa1378160:intron | 50.0% | |
| TCTGGTGCTTGTCACCGTCA+AGG | - | tig0020056:42129-42148 | Msa1378160:CDS | 55.0% | |
| GCTTGTCACCGTCAAGGCAT+TGG | - | tig0020056:42135-42154 | Msa1378160:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0020056 | gene | 41480 | 42188 | 41480 | ID=Msa1378160;Name=Msa1378160 |
| tig0020056 | mRNA | 41480 | 42188 | 41480 | ID=Msa1378160-mRNA-1;Parent=Msa1378160;Name=Msa1378160-mRNA-1;_AED=0.39;_eAED=0.40;_QI=0|0|0|1|0.5|0.33|3|0|136 |
| tig0020056 | exon | 42113 | 42188 | 42113 | ID=Msa1378160-mRNA-1:exon:6005;Parent=Msa1378160-mRNA-1 |
| tig0020056 | exon | 41836 | 42006 | 41836 | ID=Msa1378160-mRNA-1:exon:6004;Parent=Msa1378160-mRNA-1 |
| tig0020056 | exon | 41480 | 41643 | 41480 | ID=Msa1378160-mRNA-1:exon:6003;Parent=Msa1378160-mRNA-1 |
| tig0020056 | CDS | 42113 | 42188 | 42113 | ID=Msa1378160-mRNA-1:cds;Parent=Msa1378160-mRNA-1 |
| tig0020056 | CDS | 41836 | 42006 | 41836 | ID=Msa1378160-mRNA-1:cds;Parent=Msa1378160-mRNA-1 |
| tig0020056 | CDS | 41480 | 41643 | 41480 | ID=Msa1378160-mRNA-1:cds;Parent=Msa1378160-mRNA-1 |
| Gene Sequence |
| Protein sequence |
