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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0329380 | XP_039686572.1 | 86.239 | 109 | 15 | 0 | 33 | 141 | 180 | 288 | 7.33e-60 | 196 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0329380 | sp|Q84X53|MTEF1_ARATH | 50.667 | 75 | 37 | 0 | 40 | 114 | 197 | 271 | 3.90e-17 | 78.6 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Gene ID | Type | Classification |
|---|---|---|
| Msa0329380 | TR | mTERF |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0120980 | Msa0329380 | 0.808844 | 2.536903e-50 | -8.615850e-47 |
| Msa0329380 | Msa0447810 | 0.806921 | 6.503639e-50 | -8.615850e-47 |
| Msa0329380 | Msa1162470 | 0.801623 | 8.251077e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0329380 | MtrunA17_Chr2g0311181 | 86.239 | 109 | 15 | 0 | 33 | 141 | 220 | 328 | 1.44e-63 | 197 |
| Msa0329380 | MtrunA17_Chr2g0304101 | 48.276 | 87 | 41 | 1 | 31 | 113 | 219 | 305 | 2.49e-20 | 84.7 |
| Msa0329380 | MtrunA17_Chr5g0417641 | 45.333 | 75 | 41 | 0 | 40 | 114 | 220 | 294 | 8.12e-16 | 72.4 |
| Msa0329380 | MtrunA17_Chr7g0250261 | 41.489 | 94 | 50 | 3 | 23 | 112 | 187 | 279 | 1.49e-12 | 63.2 |
| Msa0329380 | MtrunA17_Chr0c29g0494001 | 41.489 | 94 | 50 | 3 | 23 | 112 | 187 | 279 | 1.49e-12 | 63.2 |
| Msa0329380 | MtrunA17_Chr1g0212691 | 34.951 | 103 | 63 | 2 | 37 | 139 | 377 | 475 | 1.71e-12 | 63.5 |
| Msa0329380 | MtrunA17_Chr4g0034981 | 37.349 | 83 | 52 | 0 | 47 | 129 | 520 | 602 | 6.95e-11 | 58.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0329380 | AT2G36000.1 | 48.120 | 133 | 66 | 2 | 7 | 137 | 201 | 332 | 8.03e-33 | 118 |
| Msa0329380 | AT2G36000.2 | 48.246 | 114 | 56 | 2 | 7 | 118 | 201 | 313 | 8.95e-28 | 104 |
| Msa0329380 | AT2G03050.2 | 50.667 | 75 | 37 | 0 | 40 | 114 | 197 | 271 | 3.97e-18 | 78.6 |
| Msa0329380 | AT2G03050.1 | 50.667 | 75 | 37 | 0 | 40 | 114 | 196 | 270 | 4.00e-18 | 78.6 |
| Msa0329380 | AT2G34620.1 | 46.250 | 80 | 42 | 1 | 37 | 116 | 216 | 294 | 4.09e-17 | 76.3 |
| Msa0329380 | AT2G44020.1 | 35.955 | 89 | 54 | 2 | 37 | 124 | 382 | 468 | 3.61e-11 | 60.1 |
| Msa0329380 | AT2G21710.1 | 42.857 | 70 | 40 | 0 | 47 | 116 | 527 | 596 | 9.28e-11 | 58.9 |
Find 29 sgRNAs with CRISPR-Local
Find 33 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAAAATAGCTGAGAAAATTT+TGG | 0.125603 | 2_4:-42531654 | None:intergenic |
| TCGATTATTGCGCAAAATAT+TGG | 0.221810 | 2_4:+42531600 | Msa0329380:CDS |
| TTATAGTATTAAGAATAATT+TGG | 0.227622 | 2_4:+42531677 | Msa0329380:intron |
| ACCACAAAGTAATTGTATTT+AGG | 0.292252 | 2_4:-42531702 | None:intergenic |
| CAATTACTTTGTGGTGGAAA+TGG | 0.302908 | 2_4:+42531710 | Msa0329380:CDS |
| ACATAAACGGTGTGTAGAAA+TGG | 0.346811 | 2_4:+42531806 | Msa0329380:CDS |
| AATTACTTTGTGGTGGAAAT+GGG | 0.364045 | 2_4:+42531711 | Msa0329380:CDS |
| CAATGGTTCCATTAGGAGAT+TGG | 0.366760 | 2_4:+42531496 | None:intergenic |
| TCTCATTTAGCTTAGAGAAT+AGG | 0.372077 | 2_4:+42531772 | Msa0329380:CDS |
| CCTTGATCAATGGTTCCATT+AGG | 0.387450 | 2_4:+42531489 | None:intergenic |
| CCTTGAAAACATCTCCTTTG+TGG | 0.416787 | 2_4:+42531916 | Msa0329380:CDS |
| ATAACCAACCAATCTCCTAA+TGG | 0.433765 | 2_4:-42531504 | None:intergenic |
| ACATCTCCTTTGTGGTGTGC+TGG | 0.485125 | 2_4:+42531924 | Msa0329380:CDS |
| CATAAACGGTGTGTAGAAAT+GGG | 0.489419 | 2_4:+42531807 | Msa0329380:CDS |
| GCCTAAATACAATTACTTTG+TGG | 0.489751 | 2_4:+42531701 | Msa0329380:CDS |
| GGATTAAGCCTCGACATAAA+CGG | 0.510017 | 2_4:+42531793 | Msa0329380:CDS |
| GGAAATGGGGAGAGATTTGA+AGG | 0.522542 | 2_4:+42531725 | Msa0329380:CDS |
| GGTTCCATTAGGAGATTGGT+TGG | 0.528280 | 2_4:+42531500 | Msa0329380:CDS |
| GTCTTTAATAACAAAGGAAG+AGG | 0.541502 | 2_4:-42531840 | None:intergenic |
| TAAATACAATTACTTTGTGG+TGG | 0.543115 | 2_4:+42531704 | Msa0329380:CDS |
| AAGCTAAATGAGAAATAATG+AGG | 0.567357 | 2_4:-42531762 | None:intergenic |
| TCACTAGTCTTTAATAACAA+AGG | 0.568382 | 2_4:-42531846 | None:intergenic |
| TTTGCGCAATAATCGATTAG+GGG | 0.578630 | 2_4:-42531593 | None:intergenic |
| ATTACTTTGTGGTGGAAATG+GGG | 0.596286 | 2_4:+42531712 | Msa0329380:CDS |
| TCTATACTTGATCAATATCA+CGG | 0.596870 | 2_4:-42531947 | None:intergenic |
| TCTACACACCGTTTATGTCG+AGG | 0.610087 | 2_4:-42531801 | None:intergenic |
| AATGGGGAGAGATTTGAAGG+AGG | 0.634987 | 2_4:+42531728 | Msa0329380:CDS |
| TCACGGCCAGCACACCACAA+AGG | 0.684243 | 2_4:-42531930 | None:intergenic |
| GGAACATCGAAGTTGTGTCG+CGG | 0.700260 | 2_4:-42531632 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTATAGTATTAAGAATAATT+TGG | + | chr2_4:42531677-42531696 | Msa0329380:intron | 10.0% |
| !!! | AAAATAGCTGAGAAAATTTT+GGG | - | chr2_4:42531656-42531675 | None:intergenic | 20.0% |
| !! | CAAAATAGCTGAGAAAATTT+TGG | - | chr2_4:42531657-42531676 | None:intergenic | 25.0% |
| ! | ACCACAAAGTAATTGTATTT+AGG | - | chr2_4:42531705-42531724 | None:intergenic | 25.0% |
| ! | TAAATACAATTACTTTGTGG+TGG | + | chr2_4:42531704-42531723 | Msa0329380:CDS | 25.0% |
| ! | AAGCTAAATGAGAAATAATG+AGG | - | chr2_4:42531765-42531784 | None:intergenic | 25.0% |
| !!! | TCACTAGTCTTTAATAACAA+AGG | - | chr2_4:42531849-42531868 | None:intergenic | 25.0% |
| ! | TTTTGCGCAATAATCGATTA+GGG | - | chr2_4:42531597-42531616 | None:intergenic | 30.0% |
| ! | ATTTTGCGCAATAATCGATT+AGG | - | chr2_4:42531598-42531617 | None:intergenic | 30.0% |
| TCGATTATTGCGCAAAATAT+TGG | + | chr2_4:42531600-42531619 | Msa0329380:CDS | 30.0% | |
| GCCTAAATACAATTACTTTG+TGG | + | chr2_4:42531701-42531720 | Msa0329380:CDS | 30.0% | |
| ! | AATTACTTTGTGGTGGAAAT+GGG | + | chr2_4:42531711-42531730 | Msa0329380:CDS | 30.0% |
| ! | TCTCATTTAGCTTAGAGAAT+AGG | + | chr2_4:42531772-42531791 | Msa0329380:CDS | 30.0% |
| GTCTTTAATAACAAAGGAAG+AGG | - | chr2_4:42531843-42531862 | None:intergenic | 30.0% | |
| ATAACCAACCAATCTCCTAA+TGG | - | chr2_4:42531507-42531526 | None:intergenic | 35.0% | |
| ACTACATGACAGAAAATGGT+AGG | - | chr2_4:42531555-42531574 | None:intergenic | 35.0% | |
| CAACACTACATGACAGAAAA+TGG | - | chr2_4:42531559-42531578 | None:intergenic | 35.0% | |
| TTTGCGCAATAATCGATTAG+GGG | - | chr2_4:42531596-42531615 | None:intergenic | 35.0% | |
| ! | CAATTACTTTGTGGTGGAAA+TGG | + | chr2_4:42531710-42531729 | Msa0329380:CDS | 35.0% |
| ! | ATTACTTTGTGGTGGAAATG+GGG | + | chr2_4:42531712-42531731 | Msa0329380:CDS | 35.0% |
| ACATAAACGGTGTGTAGAAA+TGG | + | chr2_4:42531806-42531825 | Msa0329380:CDS | 35.0% | |
| CATAAACGGTGTGTAGAAAT+GGG | + | chr2_4:42531807-42531826 | Msa0329380:CDS | 35.0% | |
| ! | CACAAAGGAGATGTTTTCAA+GGG | - | chr2_4:42531918-42531937 | None:intergenic | 35.0% |
| GGATTAAGCCTCGACATAAA+CGG | + | chr2_4:42531793-42531812 | Msa0329380:CDS | 40.0% | |
| ! | CCACAAAGGAGATGTTTTCA+AGG | - | chr2_4:42531919-42531938 | None:intergenic | 40.0% |
| CCTTGAAAACATCTCCTTTG+TGG | + | chr2_4:42531916-42531935 | Msa0329380:CDS | 40.0% | |
| GGTTCCATTAGGAGATTGGT+TGG | + | chr2_4:42531500-42531519 | Msa0329380:CDS | 45.0% | |
| GGAAATGGGGAGAGATTTGA+AGG | + | chr2_4:42531725-42531744 | Msa0329380:CDS | 45.0% | |
| AATGGGGAGAGATTTGAAGG+AGG | + | chr2_4:42531728-42531747 | Msa0329380:CDS | 45.0% | |
| TCTACACACCGTTTATGTCG+AGG | - | chr2_4:42531804-42531823 | None:intergenic | 45.0% | |
| GGAACATCGAAGTTGTGTCG+CGG | - | chr2_4:42531635-42531654 | None:intergenic | 50.0% | |
| ACATCTCCTTTGTGGTGTGC+TGG | + | chr2_4:42531924-42531943 | Msa0329380:CDS | 50.0% | |
| TCACGGCCAGCACACCACAA+AGG | - | chr2_4:42531933-42531952 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_4 | gene | 42531498 | 42531968 | 42531498 | ID=Msa0329380;Name=Msa0329380 |
| chr2_4 | mRNA | 42531498 | 42531968 | 42531498 | ID=Msa0329380-mRNA-1;Parent=Msa0329380;Name=Msa0329380-mRNA-1;_AED=0.43;_eAED=0.57;_QI=0|0|0|1|0|0|3|0|141 |
| chr2_4 | exon | 42531498 | 42531549 | 42531498 | ID=Msa0329380-mRNA-1:exon:13156;Parent=Msa0329380-mRNA-1 |
| chr2_4 | exon | 42531587 | 42531681 | 42531587 | ID=Msa0329380-mRNA-1:exon:13157;Parent=Msa0329380-mRNA-1 |
| chr2_4 | exon | 42531690 | 42531968 | 42531690 | ID=Msa0329380-mRNA-1:exon:13158;Parent=Msa0329380-mRNA-1 |
| chr2_4 | CDS | 42531498 | 42531549 | 42531498 | ID=Msa0329380-mRNA-1:cds;Parent=Msa0329380-mRNA-1 |
| chr2_4 | CDS | 42531587 | 42531681 | 42531587 | ID=Msa0329380-mRNA-1:cds;Parent=Msa0329380-mRNA-1 |
| chr2_4 | CDS | 42531690 | 42531968 | 42531690 | ID=Msa0329380-mRNA-1:cds;Parent=Msa0329380-mRNA-1 |
| Gene Sequence |
| Protein sequence |
