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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1340180 | XP_013464663.1 | 92.437 | 119 | 6 | 1 | 1 | 119 | 1 | 116 | 1.29e-72 | 222 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1340180 | A0A072VB72 | 92.437 | 119 | 6 | 1 | 1 | 119 | 1 | 116 | 6.15e-73 | 222 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0215790 | Msa1340180 | 0.990891 | 7.751091e-185 | -8.615850e-47 |
| Msa0998700 | Msa1340180 | 0.821678 | 3.554517e-53 | -8.615850e-47 |
| Msa0333630 | Msa1340180 | 0.989841 | 6.886304e-180 | -8.615850e-47 |
| Msa0928010 | Msa1340180 | 0.815384 | 9.506003e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1340180 | MtrunA17_Chr2g0317051 | 92.437 | 119 | 6 | 1 | 1 | 119 | 1 | 116 | 1.18e-76 | 222 |
| Msa1340180 | MtrunA17_Chr1g0179711 | 93.939 | 99 | 6 | 0 | 1 | 99 | 1 | 99 | 3.19e-63 | 187 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 24 sgRNAs with CRISPR-Local
Find 28 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCTTGATTTATTGCTCCTAA+TGG | 0.262425 | tig0003965:+29760 | None:intergenic |
| AGAAGTAGTGAAGATTTATC+AGG | 0.364128 | tig0003965:-29583 | Msa1340180:CDS |
| AACAAAGAAAACTGTACAAT+TGG | 0.403825 | tig0003965:-29662 | Msa1340180:CDS |
| GTCTTTGCACTGAGCAAGAA+AGG | 0.411430 | tig0003965:+29973 | None:intergenic |
| ATTCAGGGTGGTGATCCATT+AGG | 0.431783 | tig0003965:-29775 | Msa1340180:intron |
| GTTGATAACTTTAGCAGCAT+TGG | 0.452113 | tig0003965:+29934 | None:intergenic |
| CTAGAGAGTGTTGAAGAAGT+TGG | 0.457188 | tig0003965:-29715 | Msa1340180:CDS |
| GAGTGTTGAAGAAGTTGGTA+AGG | 0.463197 | tig0003965:-29710 | Msa1340180:CDS |
| TCTTGCTCAGTGCAAAGACT+TGG | 0.489170 | tig0003965:-29969 | Msa1340180:CDS |
| AACTTGGAGATGGCTGTGAT+AGG | 0.503601 | tig0003965:-29558 | Msa1340180:CDS |
| AACTTTAGCAGCATTGGTAG+TGG | 0.505111 | tig0003965:+29940 | None:intergenic |
| CCATTAGGAGCAATAAATCA+AGG | 0.506320 | tig0003965:-29760 | Msa1340180:CDS |
| GAAGATTTATCAGGGCAACT+TGG | 0.516603 | tig0003965:-29574 | Msa1340180:CDS |
| AGGAAAATGTGGAAACTGCA+TGG | 0.519693 | tig0003965:-29690 | Msa1340180:CDS |
| TTATCAGGGCAACTTGGAGA+TGG | 0.537867 | tig0003965:-29568 | Msa1340180:CDS |
| AGAAGTTGGTAAGGAAAATG+TGG | 0.552960 | tig0003965:-29701 | Msa1340180:CDS |
| GAAGTAGTGAAGATTTATCA+GGG | 0.567179 | tig0003965:-29582 | Msa1340180:CDS |
| TCTTTGCACTGAGCAAGAAA+GGG | 0.570085 | tig0003965:+29974 | None:intergenic |
| AGGGTCAGAGAAAGCAAGAG+AGG | 0.619602 | tig0003965:-29740 | Msa1340180:CDS |
| GACTGAGACAACCACTGCTG+AGG | 0.629251 | tig0003965:-29638 | Msa1340180:CDS |
| TGAGGCTGATATGAATGTTG+TGG | 0.639431 | tig0003965:-29620 | Msa1340180:CDS |
| CATTAGGAGCAATAAATCAA+GGG | 0.647640 | tig0003965:-29759 | Msa1340180:CDS |
| ATTCATATCAGCCTCAGCAG+TGG | 0.674496 | tig0003965:+29627 | None:intergenic |
| GGAAAATGTGGAAACTGCAT+GGG | 0.686615 | tig0003965:-29689 | Msa1340180:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTGTGAAAGAAAAAAAATTG+AGG | + | tig0003965:29668-29687 | None:intergenic | 20.0% |
| !!! | TTTTTTTTTTAAATTCAGGG+TGG | - | tig0003965:29748-29767 | Msa1340180:CDS | 20.0% |
| ! | AACAAAGAAAACTGTACAAT+TGG | - | tig0003965:29873-29892 | Msa1340180:intron | 25.0% |
| CATTAGGAGCAATAAATCAA+GGG | - | tig0003965:29776-29795 | Msa1340180:intron | 30.0% | |
| AGAAGTAGTGAAGATTTATC+AGG | - | tig0003965:29952-29971 | Msa1340180:CDS | 30.0% | |
| GAAGTAGTGAAGATTTATCA+GGG | - | tig0003965:29953-29972 | Msa1340180:CDS | 30.0% | |
| !! | GTTGATAACTTTAGCAGCAT+TGG | + | tig0003965:29604-29623 | None:intergenic | 35.0% |
| CCTTGATTTATTGCTCCTAA+TGG | + | tig0003965:29778-29797 | None:intergenic | 35.0% | |
| CCATTAGGAGCAATAAATCA+AGG | - | tig0003965:29775-29794 | Msa1340180:intron | 35.0% | |
| !! | AGAAGTTGGTAAGGAAAATG+TGG | - | tig0003965:29834-29853 | Msa1340180:intron | 35.0% |
| TCTTTGCACTGAGCAAGAAA+GGG | + | tig0003965:29564-29583 | None:intergenic | 40.0% | |
| !! | AACTTTAGCAGCATTGGTAG+TGG | + | tig0003965:29598-29617 | None:intergenic | 40.0% |
| !! | CTAGAGAGTGTTGAAGAAGT+TGG | - | tig0003965:29820-29839 | Msa1340180:intron | 40.0% |
| !! | GAGTGTTGAAGAAGTTGGTA+AGG | - | tig0003965:29825-29844 | Msa1340180:intron | 40.0% |
| AGGAAAATGTGGAAACTGCA+TGG | - | tig0003965:29845-29864 | Msa1340180:intron | 40.0% | |
| GGAAAATGTGGAAACTGCAT+GGG | - | tig0003965:29846-29865 | Msa1340180:intron | 40.0% | |
| TGAGGCTGATATGAATGTTG+TGG | - | tig0003965:29915-29934 | Msa1340180:CDS | 40.0% | |
| GAAGATTTATCAGGGCAACT+TGG | - | tig0003965:29961-29980 | Msa1340180:CDS | 40.0% | |
| GTCTTTGCACTGAGCAAGAA+AGG | + | tig0003965:29565-29584 | None:intergenic | 45.0% | |
| TCTTGCTCAGTGCAAAGACT+TGG | - | tig0003965:29566-29585 | Msa1340180:CDS | 45.0% | |
| ATTCAGGGTGGTGATCCATT+AGG | - | tig0003965:29760-29779 | Msa1340180:CDS | 45.0% | |
| ATTCATATCAGCCTCAGCAG+TGG | + | tig0003965:29911-29930 | None:intergenic | 45.0% | |
| TTATCAGGGCAACTTGGAGA+TGG | - | tig0003965:29967-29986 | Msa1340180:CDS | 45.0% | |
| AACTTGGAGATGGCTGTGAT+AGG | - | tig0003965:29977-29996 | Msa1340180:CDS | 45.0% | |
| !!! | TTTTTTTTTTTTTTAAATTC+AGG | - | tig0003965:29744-29763 | Msa1340180:CDS | 5.0% |
| !!! | TTTTTTTTTTTTTAAATTCA+GGG | - | tig0003965:29745-29764 | Msa1340180:CDS | 5.0% |
| AGGGTCAGAGAAAGCAAGAG+AGG | - | tig0003965:29795-29814 | Msa1340180:intron | 50.0% | |
| GACTGAGACAACCACTGCTG+AGG | - | tig0003965:29897-29916 | Msa1340180:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0003965 | gene | 29546 | 30011 | 29546 | ID=Msa1340180;Name=Msa1340180 |
| tig0003965 | mRNA | 29546 | 30011 | 29546 | ID=Msa1340180-mRNA-1;Parent=Msa1340180;Name=Msa1340180-mRNA-1;_AED=0.08;_eAED=0.08;_QI=0|0|0|1|1|1|2|0|119 |
| tig0003965 | exon | 29898 | 30011 | 29898 | ID=Msa1340180-mRNA-1:exon:2476;Parent=Msa1340180-mRNA-1 |
| tig0003965 | exon | 29546 | 29791 | 29546 | ID=Msa1340180-mRNA-1:exon:2475;Parent=Msa1340180-mRNA-1 |
| tig0003965 | CDS | 29898 | 30011 | 29898 | ID=Msa1340180-mRNA-1:cds;Parent=Msa1340180-mRNA-1 |
| tig0003965 | CDS | 29546 | 29791 | 29546 | ID=Msa1340180-mRNA-1:cds;Parent=Msa1340180-mRNA-1 |
| Gene Sequence |
| Protein sequence |
