Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene38439.t1 | XP_013460446.1 | 97.4 | 114 | 3 | 0 | 1 | 114 | 1 | 114 | 3.20E-60 | 240.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene38439.t1 | Q9ATH2 | 40.9 | 115 | 67 | 1 | 1 | 114 | 1 | 115 | 4.1e-19 | 95.5 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene38439.t1 | B7FGR3 | 97.4 | 114 | 3 | 0 | 1 | 114 | 1 | 114 | 2.3e-60 | 240.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene059868 | MS.gene38439 | 0.804464 | 2.13E-49 | -1.69E-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene38439.t1 | MTR_3g467100 | 97.368 | 114 | 3 | 0 | 1 | 114 | 1 | 114 | 2.80e-81 | 233 |
| MS.gene38439.t1 | MTR_4g029390 | 33.036 | 112 | 75 | 0 | 3 | 114 | 5 | 116 | 2.38e-19 | 77.0 |
| MS.gene38439.t1 | MTR_4g029350 | 33.929 | 112 | 74 | 0 | 3 | 114 | 5 | 116 | 8.09e-19 | 75.9 |
| MS.gene38439.t1 | MTR_4g027840 | 36.607 | 112 | 70 | 1 | 3 | 114 | 5 | 115 | 3.34e-18 | 74.7 |
| MS.gene38439.t1 | MTR_4g027800 | 34.821 | 112 | 72 | 1 | 3 | 114 | 5 | 115 | 4.24e-18 | 73.9 |
| MS.gene38439.t1 | MTR_4g029210 | 35.455 | 110 | 61 | 2 | 8 | 112 | 9 | 113 | 1.05e-16 | 70.5 |
| MS.gene38439.t1 | MTR_7g073150 | 34.906 | 106 | 68 | 1 | 7 | 111 | 11 | 116 | 7.26e-16 | 68.6 |
| MS.gene38439.t1 | MTR_4g428370 | 34.821 | 112 | 72 | 1 | 3 | 114 | 62 | 172 | 4.75e-15 | 67.4 |
| MS.gene38439.t1 | MTR_7g073170 | 35.922 | 103 | 64 | 2 | 12 | 113 | 16 | 117 | 1.58e-14 | 64.7 |
| MS.gene38439.t1 | MTR_4g028190 | 33.333 | 111 | 73 | 1 | 3 | 112 | 9 | 119 | 1.88e-14 | 64.7 |
| MS.gene38439.t1 | MTR_4g028180 | 32.456 | 114 | 68 | 4 | 8 | 113 | 13 | 125 | 9.02e-14 | 63.2 |
| MS.gene38439.t1 | MTR_7g073060 | 28.302 | 106 | 75 | 1 | 10 | 114 | 14 | 119 | 5.88e-13 | 60.8 |
| MS.gene38439.t1 | MTR_2g062600 | 29.358 | 109 | 73 | 3 | 7 | 113 | 8 | 114 | 6.39e-13 | 60.5 |
| MS.gene38439.t1 | MTR_4g028310 | 28.947 | 114 | 77 | 2 | 4 | 114 | 6 | 118 | 8.77e-13 | 60.8 |
| MS.gene38439.t1 | MTR_7g072930 | 29.703 | 101 | 70 | 1 | 12 | 111 | 16 | 116 | 1.03e-11 | 58.2 |
| MS.gene38439.t1 | MTR_7g073120 | 31.776 | 107 | 67 | 3 | 10 | 112 | 15 | 119 | 1.62e-11 | 57.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene38439.t1 | AT4G33355 | 32.710 | 107 | 72 | 0 | 6 | 112 | 11 | 117 | 4.96e-18 | 73.9 |
| MS.gene38439.t1 | AT4G33355 | 32.110 | 109 | 74 | 0 | 6 | 114 | 11 | 119 | 5.05e-18 | 73.9 |
| MS.gene38439.t1 | AT2G38540 | 33.945 | 109 | 70 | 2 | 8 | 114 | 10 | 118 | 3.04e-16 | 69.3 |
| MS.gene38439.t1 | AT5G59320 | 33.333 | 108 | 69 | 1 | 7 | 114 | 11 | 115 | 2.59e-15 | 66.6 |
| MS.gene38439.t1 | AT5G01870 | 30.357 | 112 | 73 | 2 | 8 | 114 | 5 | 116 | 5.33e-14 | 63.5 |
| MS.gene38439.t1 | AT2G38530 | 30.275 | 109 | 74 | 2 | 8 | 114 | 10 | 118 | 6.40e-12 | 58.2 |
| MS.gene38439.t1 | AT3G08770 | 31.959 | 97 | 64 | 1 | 20 | 114 | 17 | 113 | 6.74e-12 | 57.8 |
| MS.gene38439.t1 | AT2G15050 | 30.769 | 117 | 76 | 3 | 3 | 114 | 6 | 122 | 1.37e-11 | 57.4 |
| MS.gene38439.t1 | AT5G59310 | 32.258 | 93 | 60 | 1 | 22 | 114 | 23 | 112 | 1.69e-11 | 57.0 |
| MS.gene38439.t1 | AT3G08770 | 32.979 | 94 | 61 | 1 | 20 | 111 | 17 | 110 | 3.41e-11 | 56.2 |
Find 26 sgRNAs with CRISPR-Local
Find 52 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TAGTTGTTTGCTCACATGTT+AGG | 0.273137 | 3.4:-63340377 | None:intergenic |
| TGCATACCCTATGGAATGTT+GGG | 0.441117 | 3.4:+63340414 | MS.gene38439:CDS |
| AGTTGTTTGCTCACATGTTA+GGG | 0.442335 | 3.4:-63340376 | None:intergenic |
| TTCGAGTATAATCAATCAAA+GGG | 0.448333 | 3.4:-63340551 | None:intergenic |
| TACTTATTGCAATCAGTTGA+GGG | 0.462134 | 3.4:-63340624 | None:intergenic |
| AGTTGAGGGGTAAACTTTGA+AGG | 0.485853 | 3.4:-63340610 | None:intergenic |
| ATGCATACCCTATGGAATGT+TGG | 0.496045 | 3.4:+63340413 | MS.gene38439:CDS |
| TTACTTATTGCAATCAGTTG+AGG | 0.500070 | 3.4:-63340625 | None:intergenic |
| ATGCCATTGCATTCAAGATA+CGG | 0.502113 | 3.4:+63340518 | MS.gene38439:CDS |
| ATAAATGCTGCATATAAGAA+TGG | 0.504762 | 3.4:+63340477 | MS.gene38439:CDS |
| CTAACTCCATGCATACCCTA+TGG | 0.507572 | 3.4:+63340405 | MS.gene38439:CDS |
| ATTCGAGTATAATCAATCAA+AGG | 0.524459 | 3.4:-63340552 | None:intergenic |
| AACATTCCATAGGGTATGCA+TGG | 0.530105 | 3.4:-63340411 | None:intergenic |
| CAGCCGTATCTTGAATGCAA+TGG | 0.548360 | 3.4:-63340521 | None:intergenic |
| ACTTCCTCCCAACATTCCAT+AGG | 0.556549 | 3.4:-63340421 | None:intergenic |
| TATACTCGAATTAATCAACT+TGG | 0.560190 | 3.4:+63340564 | MS.gene38439:CDS |
| GTGAATACCTTGGCAACACA+AGG | 0.565942 | 3.4:-63340451 | None:intergenic |
| AATCAACTTGGTGACCTATG+TGG | 0.587360 | 3.4:+63340576 | MS.gene38439:CDS |
| CTTCCTCCCAACATTCCATA+GGG | 0.593020 | 3.4:-63340420 | None:intergenic |
| GTATCACCCTTGTGTTGCCA+AGG | 0.601898 | 3.4:+63340444 | MS.gene38439:CDS |
| AGGGACATTTAGATCCACAT+AGG | 0.605617 | 3.4:-63340590 | None:intergenic |
| GTTGAGGGGTAAACTTTGAA+GGG | 0.611656 | 3.4:-63340609 | None:intergenic |
| ACTTATTGCAATCAGTTGAG+GGG | 0.616419 | 3.4:-63340623 | None:intergenic |
| CATTTATAGAGTGAATACCT+TGG | 0.623159 | 3.4:-63340461 | None:intergenic |
| ATACCCTATGGAATGTTGGG+AGG | 0.689160 | 3.4:+63340417 | MS.gene38439:CDS |
| TGAATACCTTGGCAACACAA+GGG | 0.714065 | 3.4:-63340450 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TGACTAATTTTTCTATATAA+CGG | - | chr3.4:63340975-63340994 | None:intergenic | 15.0% |
| !! | AACCAAGTAAATATAAAAGT+TGG | - | chr3.4:63340682-63340701 | None:intergenic | 20.0% |
| !! | AATGATTTATTTGATTCAGT+TGG | + | chr3.4:63340994-63341013 | MS.gene38439:intron | 20.0% |
| !! | ACAAGTTAAGAAGTTAAAAA+AGG | - | chr3.4:63340830-63340849 | None:intergenic | 20.0% |
| !! | TTACATCAAAATCCATAATT+AGG | - | chr3.4:63341152-63341171 | None:intergenic | 20.0% |
| !!! | TATTTACTTGGTTTGTTTTT+AGG | + | chr3.4:63340689-63340708 | MS.gene38439:intron | 20.0% |
| ! | ATAAATGCTGCATATAAGAA+TGG | + | chr3.4:63340477-63340496 | MS.gene38439:CDS | 25.0% |
| ! | ATTCGAGTATAATCAATCAA+AGG | - | chr3.4:63340555-63340574 | None:intergenic | 25.0% |
| ! | TAGCAAACATATCCTAATTA+TGG | + | chr3.4:63341137-63341156 | MS.gene38439:intron | 25.0% |
| ! | TATACTCGAATTAATCAACT+TGG | + | chr3.4:63340564-63340583 | MS.gene38439:CDS | 25.0% |
| ! | TGATAATCGACTAGAAATAA+TGG | - | chr3.4:63341068-63341087 | None:intergenic | 25.0% |
| ! | TTCGAGTATAATCAATCAAA+GGG | - | chr3.4:63340554-63340573 | None:intergenic | 25.0% |
| !! | GTCCAACTTTTATATTTACT+TGG | + | chr3.4:63340677-63340696 | MS.gene38439:intron | 25.0% |
| !! | TAATTAGCACAAAACTTTTG+AGG | + | chr3.4:63340879-63340898 | MS.gene38439:intron | 25.0% |
| !! | TTTAGACTAATCTTTGAGTT+AGG | - | chr3.4:63340934-63340953 | None:intergenic | 25.0% |
| !!! | GGTTGCATTATTTATTTTGA+TGG | + | chr3.4:63340317-63340336 | MS.gene38439:CDS | 25.0% |
| CATTTATAGAGTGAATACCT+TGG | - | chr3.4:63340464-63340483 | None:intergenic | 30.0% | |
| TACTTATTGCAATCAGTTGA+GGG | - | chr3.4:63340627-63340646 | None:intergenic | 30.0% | |
| TTACTTATTGCAATCAGTTG+AGG | - | chr3.4:63340628-63340647 | None:intergenic | 30.0% | |
| !!! | CTTGGTTTGTTTTTAGGTTA+AGG | + | chr3.4:63340695-63340714 | MS.gene38439:intron | 30.0% |
| ACTTATTGCAATCAGTTGAG+GGG | - | chr3.4:63340626-63340645 | None:intergenic | 35.0% | |
| AGTTGTTTGCTCACATGTTA+GGG | - | chr3.4:63340379-63340398 | None:intergenic | 35.0% | |
| ATGCCATTGCATTCAAGATA+CGG | + | chr3.4:63340518-63340537 | MS.gene38439:CDS | 35.0% | |
| GAGTTAGGATATGACCAAAA+TGG | - | chr3.4:63340919-63340938 | None:intergenic | 35.0% | |
| TACTAGATACAAGAGAGAGA+AGG | - | chr3.4:63340652-63340671 | None:intergenic | 35.0% | |
| TAGTCGATTATCAAGCTTAC+AGG | + | chr3.4:63341075-63341094 | MS.gene38439:intron | 35.0% | |
| TAGTTGTTTGCTCACATGTT+AGG | - | chr3.4:63340380-63340399 | None:intergenic | 35.0% | |
| TTAGTCTAAACAGTTGCATG+TGG | + | chr3.4:63340944-63340963 | MS.gene38439:intron | 35.0% | |
| ! | AGATCTTTACTGCACCATTT+TGG | + | chr3.4:63340902-63340921 | MS.gene38439:intron | 35.0% |
| ! | CATGCTAATTTGTGTCCTTA+GGG | - | chr3.4:63340854-63340873 | None:intergenic | 35.0% |
| ! | TCATGCTAATTTGTGTCCTT+AGG | - | chr3.4:63340855-63340874 | None:intergenic | 35.0% |
| !! | GATTTTGATGTAATTGCGCA+GGG | + | chr3.4:63341159-63341178 | MS.gene38439:intron | 35.0% |
| AAATGCTACCTTCTGCTCTA+AGG | + | chr3.4:63340719-63340738 | MS.gene38439:intron | 40.0% | |
| AACATTCCATAGGGTATGCA+TGG | - | chr3.4:63340414-63340433 | None:intergenic | 40.0% | |
| AATGCTACCTTCTGCTCTAA+GGG | + | chr3.4:63340720-63340739 | MS.gene38439:intron | 40.0% | |
| AGGGACATTTAGATCCACAT+AGG | - | chr3.4:63340593-63340612 | None:intergenic | 40.0% | |
| AGTTGAGGGGTAAACTTTGA+AGG | - | chr3.4:63340613-63340632 | None:intergenic | 40.0% | |
| ATGCATACCCTATGGAATGT+TGG | + | chr3.4:63340413-63340432 | MS.gene38439:CDS | 40.0% | |
| GTTGAGGGGTAAACTTTGAA+GGG | - | chr3.4:63340612-63340631 | None:intergenic | 40.0% | |
| TGAATACCTTGGCAACACAA+GGG | - | chr3.4:63340453-63340472 | None:intergenic | 40.0% | |
| TGCATACCCTATGGAATGTT+GGG | + | chr3.4:63340414-63340433 | MS.gene38439:CDS | 40.0% | |
| ! | AATCAACTTGGTGACCTATG+TGG | + | chr3.4:63340576-63340595 | MS.gene38439:CDS | 40.0% |
| !! | ACTTCTTAACTTGTGCCCTA+AGG | + | chr3.4:63340836-63340855 | MS.gene38439:intron | 40.0% |
| !! | GGATTTTGATGTAATTGCGC+AGG | + | chr3.4:63341158-63341177 | MS.gene38439:intron | 40.0% |
| ACTTCCTCCCAACATTCCAT+AGG | - | chr3.4:63340424-63340443 | None:intergenic | 45.0% | |
| ATACCCTATGGAATGTTGGG+AGG | + | chr3.4:63340417-63340436 | MS.gene38439:CDS | 45.0% | |
| CAGCCGTATCTTGAATGCAA+TGG | - | chr3.4:63340524-63340543 | None:intergenic | 45.0% | |
| CTAACTCCATGCATACCCTA+TGG | + | chr3.4:63340405-63340424 | MS.gene38439:CDS | 45.0% | |
| CTTCCTCCCAACATTCCATA+GGG | - | chr3.4:63340423-63340442 | None:intergenic | 45.0% | |
| GTGAATACCTTGGCAACACA+AGG | - | chr3.4:63340454-63340473 | None:intergenic | 45.0% | |
| GTATCACCCTTGTGTTGCCA+AGG | + | chr3.4:63340444-63340463 | MS.gene38439:CDS | 50.0% | |
| TCTTGTGCCCTTAGAGCAGA+AGG | - | chr3.4:63340730-63340749 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 63340309 | 63341189 | 63340309 | ID=MS.gene38439 |
| chr3.4 | mRNA | 63340309 | 63341189 | 63340309 | ID=MS.gene38439.t1;Parent=MS.gene38439 |
| chr3.4 | exon | 63340309 | 63340643 | 63340309 | ID=MS.gene38439.t1.exon1;Parent=MS.gene38439.t1 |
| chr3.4 | CDS | 63340309 | 63340643 | 63340309 | ID=cds.MS.gene38439.t1;Parent=MS.gene38439.t1 |
| chr3.4 | exon | 63341180 | 63341189 | 63341180 | ID=MS.gene38439.t1.exon2;Parent=MS.gene38439.t1 |
| chr3.4 | CDS | 63341180 | 63341189 | 63341180 | ID=cds.MS.gene38439.t1;Parent=MS.gene38439.t1 |
| Gene Sequence |
| Protein sequence |
