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.gene46599.t1 | XP_027333039.1 | 100 | 42 | 0 | 0 | 34 | 75 | 78 | 119 | 2.70E-13 | 84.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene46599.t1 | Q9C5D3 | 85.7 | 42 | 6 | 0 | 34 | 75 | 101 | 142 | 1.2e-12 | 73.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene46599.t1 | A0A1S2YFJ5 | 100.0 | 42 | 0 | 0 | 34 | 75 | 84 | 125 | 2.0e-13 | 84.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene058515 | MS.gene46599 | 0.865478 | 5.74E-65 | -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.gene46599.t1 | MTR_8g096700 | 92.593 | 54 | 4 | 0 | 34 | 87 | 79 | 132 | 7.80e-28 | 103 |
| MS.gene46599.t1 | MTR_3g099030 | 78.182 | 55 | 11 | 1 | 34 | 88 | 62 | 115 | 1.66e-20 | 83.2 |
| MS.gene46599.t1 | MTR_4g006650 | 83.721 | 43 | 7 | 0 | 34 | 76 | 195 | 237 | 2.01e-19 | 80.9 |
| MS.gene46599.t1 | MTR_3g099040 | 86.047 | 43 | 6 | 0 | 34 | 76 | 62 | 104 | 7.61e-19 | 79.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene46599.t1 | AT5G50740 | 80.851 | 47 | 9 | 0 | 32 | 78 | 53 | 99 | 6.16e-21 | 82.0 |
| MS.gene46599.t1 | AT5G50740 | 80.851 | 47 | 9 | 0 | 32 | 78 | 60 | 106 | 8.24e-21 | 82.0 |
| MS.gene46599.t1 | AT5G50740 | 80.851 | 47 | 9 | 0 | 32 | 78 | 53 | 99 | 8.31e-20 | 81.6 |
| MS.gene46599.t1 | AT5G50740 | 80.851 | 47 | 9 | 0 | 32 | 78 | 53 | 99 | 8.31e-20 | 81.6 |
| MS.gene46599.t1 | AT5G50740 | 80.851 | 47 | 9 | 0 | 32 | 78 | 60 | 106 | 9.26e-20 | 81.6 |
| MS.gene46599.t1 | AT5G63530 | 73.846 | 65 | 16 | 1 | 32 | 96 | 99 | 162 | 7.48e-18 | 77.0 |
| MS.gene46599.t1 | AT5G63530 | 73.846 | 65 | 16 | 1 | 32 | 96 | 84 | 147 | 7.92e-18 | 77.0 |
Find 19 sgRNAs with CRISPR-Local
Find 58 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCTTGTTCTGAAGGTGGTTT+TGG | 0.150297 | 3.3:-24617498 | None:intergenic |
| TCTCACAAGGTTGTTGTTAA+AGG | 0.201668 | 3.3:+24617396 | MS.gene46599:CDS |
| TTCAAAATGGATGCATCATC+TGG | 0.349178 | 3.3:+24614753 | None:intergenic |
| CACACATACCTCAGAAGAAT+AGG | 0.379393 | 3.3:-24617249 | None:intergenic |
| GGATGATCTGCAATTCCGTT+TGG | 0.393696 | 3.3:-24617227 | None:intergenic |
| GATGATCTGCAATTCCGTTT+GGG | 0.412498 | 3.3:-24617226 | None:intergenic |
| ACTCTTTCAAGAACCTTCAA+TGG | 0.419505 | 3.3:-24617432 | None:intergenic |
| TCTGCAATTCCGTTTGGGAT+CGG | 0.488973 | 3.3:-24617221 | None:intergenic |
| ACACATACCTCAGAAGAATA+GGG | 0.489219 | 3.3:-24617248 | None:intergenic |
| CCTAGGTCGCCGATCCCAAA+CGG | 0.496575 | 3.3:+24617212 | MS.gene46599:intron |
| TAGCCACATGGAATTTCCCT+TGG | 0.526650 | 3.3:+24614778 | MS.gene46599:CDS |
| GGAAGAAAAGAAAGCTGAAG+AGG | 0.538975 | 3.3:+24617557 | MS.gene46599:CDS |
| GATTTATAATTATGAAGATG+TGG | 0.554215 | 3.3:+24617359 | MS.gene46599:intron |
| GAAAGAGAAACCTAAGCCAG+AGG | 0.586865 | 3.3:+24617536 | MS.gene46599:CDS |
| AGATCATCCCTATTCTTCTG+AGG | 0.615527 | 3.3:+24617241 | MS.gene46599:CDS |
| TACTGATTGCAAATCTCACA+AGG | 0.615533 | 3.3:+24617383 | MS.gene46599:CDS |
| CATCATCTGGAATAGCCACA+TGG | 0.642176 | 3.3:+24614766 | MS.gene46599:CDS |
| AGGTTCTTGAAAGAGTTCAG+AGG | 0.645167 | 3.3:+24617439 | MS.gene46599:CDS |
| ATACCAAGGGAAATTCCATG+TGG | 0.749820 | 3.3:-24614781 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATCATTCTAAATTATAATA+TGG | - | chr3.3:24614957-24614976 | None:intergenic | 10.0% |
| !! | ATCATTCTAAATTATAATAT+GGG | - | chr3.3:24614956-24614975 | None:intergenic | 10.0% |
| !! | TATAAAATCTATTTATTTGT+GGG | + | chr3.3:24614919-24614938 | MS.gene46599:intron | 10.0% |
| !! | CTATAAAATCTATTTATTTG+TGG | + | chr3.3:24614918-24614937 | MS.gene46599:intron | 15.0% |
| !! | TCATTCTAAATTATAATATG+GGG | - | chr3.3:24614955-24614974 | None:intergenic | 15.0% |
| !!! | AGTTGGTTTTTAAAATTAAT+CGG | - | chr3.3:24615030-24615049 | None:intergenic | 15.0% |
| !!! | AGTTGTTTTTAAAATGAAAT+TGG | - | chr3.3:24616883-24616902 | None:intergenic | 15.0% |
| !!! | CAAATAAATAGATTTTATAG+TGG | - | chr3.3:24614918-24614937 | None:intergenic | 15.0% |
| !!! | GTTGTTTTTTAAAATGAAAT+CGG | - | chr3.3:24615213-24615232 | None:intergenic | 15.0% |
| !! | GATTTATAATTATGAAGATG+TGG | + | chr3.3:24617359-24617378 | MS.gene46599:intron | 20.0% |
| !!! | AATAAGTTGTTTTGAATAAG+CGG | - | chr3.3:24614989-24615008 | None:intergenic | 20.0% |
| !!! | AGTTGTTTTGTATAAATAAG+CGG | - | chr3.3:24615414-24615433 | None:intergenic | 20.0% |
| !!! | ATAAGCTATTTTGAATAAGT+TGG | - | chr3.3:24615047-24615066 | None:intergenic | 20.0% |
| ! | CCAAGTGAAAAGAATTATTT+GGG | + | chr3.3:24614891-24614910 | MS.gene46599:intron | 25.0% |
| ! | CTTATTCGAAACAACTTATT+AGG | + | chr3.3:24615080-24615099 | MS.gene46599:intron | 25.0% |
| ! | GTGTAGAAAACAATTATGTA+CGG | - | chr3.3:24614848-24614867 | None:intergenic | 25.0% |
| !! | CAAATAATTCTTTTCACTTG+GGG | - | chr3.3:24614892-24614911 | None:intergenic | 25.0% |
| !! | CCAAATAATTCTTTTCACTT+GGG | - | chr3.3:24614893-24614912 | None:intergenic | 25.0% |
| !! | GAGATTTCAATTTTGAATTG+CGG | + | chr3.3:24617313-24617332 | MS.gene46599:intron | 25.0% |
| !! | TTTGCATAAATAAGCTGTTT+TGG | - | chr3.3:24615130-24615149 | None:intergenic | 25.0% |
| !!! | AATAAGCTGTTTTGAATAAG+CGG | - | chr3.3:24615122-24615141 | None:intergenic | 25.0% |
| !!! | ATAAGCGGTTTTAATAAAAG+TGG | - | chr3.3:24615760-24615779 | None:intergenic | 25.0% |
| !!! | ATTTTTTTCTCTTGTTCTGA+AGG | - | chr3.3:24617510-24617529 | None:intergenic | 25.0% |
| !!! | TTATAATATGGGGCTTTATT+AGG | - | chr3.3:24614945-24614964 | None:intergenic | 25.0% |
| CCCAAGTGAAAAGAATTATT+TGG | + | chr3.3:24614890-24614909 | MS.gene46599:intron | 30.0% | |
| GGCAAAAGTTATTATGCATA+AGG | + | chr3.3:24614809-24614828 | MS.gene46599:intron | 30.0% | |
| GTGTAGAAAGCAATTATGTT+TGG | - | chr3.3:24614870-24614889 | None:intergenic | 30.0% | |
| TGTTGTTAAAGGAGAAAAAG+CGG | + | chr3.3:24617407-24617426 | MS.gene46599:CDS | 30.0% | |
| ! | CCCAAATAATTCTTTTCACT+TGG | - | chr3.3:24614894-24614913 | None:intergenic | 30.0% |
| AAACAGCTTATTCGATTCCT+AGG | + | chr3.3:24617195-24617214 | MS.gene46599:intron | 35.0% | |
| ACAATTATGTACGGTGCATA+AGG | - | chr3.3:24614839-24614858 | None:intergenic | 35.0% | |
| ACACATACCTCAGAAGAATA+GGG | - | chr3.3:24617251-24617270 | None:intergenic | 35.0% | |
| ACTCTTTCAAGAACCTTCAA+TGG | - | chr3.3:24617435-24617454 | None:intergenic | 35.0% | |
| GAATTTCCCTTGGTATGTAA+CGG | + | chr3.3:24614788-24614807 | MS.gene46599:intron | 35.0% | |
| ! | TACTGATTGCAAATCTCACA+AGG | + | chr3.3:24617383-24617402 | MS.gene46599:CDS | 35.0% |
| ! | TCTCACAAGGTTGTTGTTAA+AGG | + | chr3.3:24617396-24617415 | MS.gene46599:CDS | 35.0% |
| !!! | TTTTTCTCTTGTTCTGAAGG+TGG | - | chr3.3:24617507-24617526 | None:intergenic | 35.0% |
| AGAAAAAGCGGATCCATTGA+AGG | + | chr3.3:24617419-24617438 | MS.gene46599:CDS | 40.0% | |
| AGATCATCCCTATTCTTCTG+AGG | + | chr3.3:24617241-24617260 | MS.gene46599:CDS | 40.0% | |
| AGGTTCTTGAAAGAGTTCAG+AGG | + | chr3.3:24617439-24617458 | MS.gene46599:CDS | 40.0% | |
| ATACCAAGGGAAATTCCATG+TGG | - | chr3.3:24614784-24614803 | None:intergenic | 40.0% | |
| CACACATACCTCAGAAGAAT+AGG | - | chr3.3:24617252-24617271 | None:intergenic | 40.0% | |
| GATGATCTGCAATTCCGTTT+GGG | - | chr3.3:24617229-24617248 | None:intergenic | 40.0% | |
| GGAAGAAAAGAAAGCTGAAG+AGG | + | chr3.3:24617557-24617576 | MS.gene46599:CDS | 40.0% | |
| ! | ACTTTTGCCGTTACATACCA+AGG | - | chr3.3:24614798-24614817 | None:intergenic | 40.0% |
| ! | CTTTTGCCGTTACATACCAA+GGG | - | chr3.3:24614797-24614816 | None:intergenic | 40.0% |
| ! | TCAGCTTTCTTTTCTTCCTC+TGG | - | chr3.3:24617555-24617574 | None:intergenic | 40.0% |
| !! | TTCTTTTCTTCCTCTGGCTT+AGG | - | chr3.3:24617549-24617568 | None:intergenic | 40.0% |
| !!! | CTTGTTCTGAAGGTGGTTTT+GGG | - | chr3.3:24617500-24617519 | None:intergenic | 40.0% |
| !!! | TCTTGTTCTGAAGGTGGTTT+TGG | - | chr3.3:24617501-24617520 | None:intergenic | 40.0% |
| GAAAGAGAAACCTAAGCCAG+AGG | + | chr3.3:24617536-24617555 | MS.gene46599:CDS | 45.0% | |
| GGATGATCTGCAATTCCGTT+TGG | - | chr3.3:24617230-24617249 | None:intergenic | 45.0% | |
| TAGCCACATGGAATTTCCCT+TGG | + | chr3.3:24614778-24614797 | MS.gene46599:CDS | 45.0% | |
| ! | CATCATCTGGAATAGCCACA+TGG | + | chr3.3:24614766-24614785 | MS.gene46599:CDS | 45.0% |
| ! | TCTGCAATTCCGTTTGGGAT+CGG | - | chr3.3:24617224-24617243 | None:intergenic | 45.0% |
| !!! | TCTGAAGGTGGTTTTGGGAT+CGG | - | chr3.3:24617495-24617514 | None:intergenic | 45.0% |
| CCTAGGTCGCCGATCCCAAA+CGG | + | chr3.3:24617212-24617231 | MS.gene46599:intron | 60.0% | |
| ! | CCGTTTGGGATCGGCGACCT+AGG | - | chr3.3:24617215-24617234 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.3 | gene | 24614759 | 24617587 | 24614759 | ID=MS.gene46599 |
| chr3.3 | mRNA | 24614759 | 24617587 | 24614759 | ID=MS.gene46599.t1;Parent=MS.gene46599 |
| chr3.3 | exon | 24614759 | 24614799 | 24614759 | ID=MS.gene46599.t1.exon1;Parent=MS.gene46599.t1 |
| chr3.3 | CDS | 24614759 | 24614799 | 24614759 | ID=cds.MS.gene46599.t1;Parent=MS.gene46599.t1 |
| chr3.3 | exon | 24617217 | 24617262 | 24617217 | ID=MS.gene46599.t1.exon2;Parent=MS.gene46599.t1 |
| chr3.3 | CDS | 24617217 | 24617262 | 24617217 | ID=cds.MS.gene46599.t1;Parent=MS.gene46599.t1 |
| chr3.3 | exon | 24617360 | 24617587 | 24617360 | ID=MS.gene46599.t1.exon3;Parent=MS.gene46599.t1 |
| chr3.3 | CDS | 24617360 | 24617587 | 24617360 | ID=cds.MS.gene46599.t1;Parent=MS.gene46599.t1 |
| Gene Sequence |
| Protein sequence |
