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.gene033975.t1 | XP_013454752.1 | 88.3 | 240 | 25 | 3 | 1 | 239 | 1 | 238 | 8.20E-93 | 350.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene033975.t1 | Q9S7T5 | 42.4 | 255 | 98 | 10 | 1 | 227 | 1 | 234 | 3.8e-14 | 80.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene033975.t1 | A0A072UI43 | 88.3 | 240 | 25 | 3 | 1 | 239 | 1 | 238 | 5.9e-93 | 350.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene033975.t1 | TF | OFP |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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.gene033975.t1 | MTR_4g012060 | 85.833 | 240 | 31 | 3 | 1 | 239 | 1 | 238 | 1.23e-121 | 348 |
| MS.gene033975.t1 | MTR_2g102140 | 43.629 | 259 | 112 | 9 | 1 | 232 | 1 | 252 | 6.06e-49 | 163 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene033975.t1 | AT1G79960 | 34.375 | 256 | 117 | 10 | 1 | 227 | 1 | 234 | 9.56e-25 | 100 |
Find 47 sgRNAs with CRISPR-Local
Find 64 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GAGACCAATCCATTTCTTAG+AGG | 0.317572 | 4.3:-84688134 | None:intergenic |
| TTCGTTTATCCTCTAAGAAA+TGG | 0.318720 | 4.3:+84688125 | MS.gene033975:CDS |
| AAAGAGAAAGAAGGAGTTCT+AGG | 0.365664 | 4.3:-84688172 | None:intergenic |
| CGAACGCTCCGCGGCTTCCC+TGG | 0.369632 | 4.3:-84688835 | None:intergenic |
| AACACAACAACACAATTATC+AGG | 0.372043 | 4.3:-84688601 | None:intergenic |
| TGAAAATGAACTAACATTGA+AGG | 0.381622 | 4.3:-84688557 | None:intergenic |
| GGAACAATGAAAGTGTTGAT+TGG | 0.389592 | 4.3:+84688692 | MS.gene033975:CDS |
| ACAAACACATTTGAAGAAAC+AGG | 0.393177 | 4.3:+84688505 | MS.gene033975:CDS |
| AAGTGTTGATTGGGATTTCA+TGG | 0.402630 | 4.3:+84688702 | MS.gene033975:CDS |
| CAGGGAAGCCGCGGAGCGTT+CGG | 0.404751 | 4.3:+84688836 | MS.gene033975:CDS |
| GAACAATGAAAGTGTTGATT+GGG | 0.405122 | 4.3:+84688693 | MS.gene033975:CDS |
| GCGTTCGGACGGTTAGGATT+GGG | 0.405374 | 4.3:+84688851 | MS.gene033975:CDS |
| TGCTTCCACCGTTTCTTGCA+TGG | 0.412023 | 4.3:-84688662 | None:intergenic |
| TTTAGTGTTGTTGTTACAAT+CGG | 0.422967 | 4.3:-84688305 | None:intergenic |
| CGGTTTCTTTGTCATCTTCG+AGG | 0.434566 | 4.3:-84688285 | None:intergenic |
| AGCGTTCGGACGGTTAGGAT+TGG | 0.441450 | 4.3:+84688850 | MS.gene033975:CDS |
| AAACGGTGGAAGCAAGGTTA+AGG | 0.446924 | 4.3:+84688671 | MS.gene033975:CDS |
| CGCGGAGCGTTCGGACGGTT+AGG | 0.454970 | 4.3:+84688845 | MS.gene033975:CDS |
| AGGATAAACGAAGTTGTGTT+GGG | 0.458162 | 4.3:-84688114 | None:intergenic |
| ACGAAGTTGTGTTGGGCGAT+TGG | 0.459516 | 4.3:-84688107 | None:intergenic |
| CGAAAATCATCATAAGGACT+TGG | 0.467264 | 4.3:-84688634 | None:intergenic |
| GAGACACCATTGGATCTTTG+TGG | 0.467751 | 4.3:+84688427 | MS.gene033975:CDS |
| GATCTTCGAAAATCATCATA+AGG | 0.481189 | 4.3:-84688640 | None:intergenic |
| AGAAGATGATGAAGAAGAAG+AGG | 0.493363 | 4.3:+84688348 | MS.gene033975:CDS |
| GAGGATAAACGAAGTTGTGT+TGG | 0.494329 | 4.3:-84688115 | None:intergenic |
| TGATAATTGTGTTGTTGTGT+TGG | 0.495366 | 4.3:+84688603 | MS.gene033975:CDS |
| TGAAATTCTCGAAGAGAAAA+CGG | 0.503837 | 4.3:-84688252 | None:intergenic |
| TTATCCTCTAAGAAATGGAT+TGG | 0.514704 | 4.3:+84688130 | MS.gene033975:CDS |
| AAGAGTTCGGAGACTAAACC+AGG | 0.517918 | 4.3:+84688817 | MS.gene033975:intron |
| TCGAAGATCCATGCAAGAAA+CGG | 0.523834 | 4.3:+84688654 | MS.gene033975:CDS |
| TTCATCCAACGAGACACCAT+TGG | 0.547786 | 4.3:+84688417 | MS.gene033975:CDS |
| TTAGGATTGGGACTGAGGTA+AGG | 0.548983 | 4.3:+84688863 | MS.gene033975:CDS |
| TGCAAGAAACGGTGGAAGCA+AGG | 0.552104 | 4.3:+84688665 | MS.gene033975:CDS |
| TTGTTGTCAAAAGAGAAAGA+AGG | 0.565659 | 4.3:-84688181 | None:intergenic |
| GACGGTTAGGATTGGGACTG+AGG | 0.576913 | 4.3:+84688858 | MS.gene033975:CDS |
| AAGATCCAATGGTGTCTCGT+TGG | 0.579089 | 4.3:-84688422 | None:intergenic |
| AAGAAATGGATTGGTCTCAA+AGG | 0.580257 | 4.3:+84688139 | MS.gene033975:CDS |
| CTCGTTGGATGAATCAAACA+AGG | 0.592816 | 4.3:-84688407 | None:intergenic |
| GAAGCCGCGGAGCGTTCGGA+CGG | 0.601979 | 4.3:+84688840 | MS.gene033975:CDS |
| AGACTAAACCAGGGAAGCCG+CGG | 0.604751 | 4.3:+84688827 | MS.gene033975:CDS |
| TTAGATCCACAAAGATCCAA+TGG | 0.615900 | 4.3:-84688433 | None:intergenic |
| ACGGTCAACATCTTCGAGTG+TGG | 0.632740 | 4.3:-84688233 | None:intergenic |
| TTGGATGAATCAAACAAGGT+GGG | 0.642701 | 4.3:-84688403 | None:intergenic |
| AAGATCCATGCAAGAAACGG+TGG | 0.645271 | 4.3:+84688657 | MS.gene033975:CDS |
| GTTGGATGAATCAAACAAGG+TGG | 0.690695 | 4.3:-84688404 | None:intergenic |
| AGAGTTCGGAGACTAAACCA+GGG | 0.713620 | 4.3:+84688818 | MS.gene033975:intron |
| CTAACCGTCCGAACGCTCCG+CGG | 0.714481 | 4.3:-84688844 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GAAGAAAAATATTCAAAACA+AGG | + | chr4.3:84688379-84688398 | MS.gene033975:CDS | 20.0% |
| !!! | GTTTTGAATATTTTTCTTCA+CGG | - | chr4.3:84688378-84688397 | None:intergenic | 20.0% |
| !!! | TTTTGAATATTTTTCTTCAC+GGG | - | chr4.3:84688377-84688396 | None:intergenic | 20.0% |
| ! | TGAAAATGAACTAACATTGA+AGG | - | chr4.3:84688560-84688579 | None:intergenic | 25.0% |
| !! | CAATGTTAGTTCATTTTCAA+AGG | + | chr4.3:84688561-84688580 | MS.gene033975:CDS | 25.0% |
| !! | TTTAGTGTTGTTGTTACAAT+CGG | - | chr4.3:84688308-84688327 | None:intergenic | 25.0% |
| AACACAACAACACAATTATC+AGG | - | chr4.3:84688604-84688623 | None:intergenic | 30.0% | |
| ACAAACACATTTGAAGAAAC+AGG | + | chr4.3:84688505-84688524 | MS.gene033975:CDS | 30.0% | |
| CAAGAAAAACAATGACAACA+AGG | + | chr4.3:84688201-84688220 | MS.gene033975:CDS | 30.0% | |
| GATCTTCGAAAATCATCATA+AGG | - | chr4.3:84688643-84688662 | None:intergenic | 30.0% | |
| TGAAATTCTCGAAGAGAAAA+CGG | - | chr4.3:84688255-84688274 | None:intergenic | 30.0% | |
| TTGTTGTCAAAAGAGAAAGA+AGG | - | chr4.3:84688184-84688203 | None:intergenic | 30.0% | |
| ! | AATAGATTCTTTTTGACACG+TGG | + | chr4.3:84688454-84688473 | MS.gene033975:CDS | 30.0% |
| ! | GAACTAACATTGAAGGTTTT+TGG | - | chr4.3:84688553-84688572 | None:intergenic | 30.0% |
| ! | TGATAATTGTGTTGTTGTGT+TGG | + | chr4.3:84688603-84688622 | MS.gene033975:CDS | 30.0% |
| ! | TGTTAGTTCATTTTCAAAGG+AGG | + | chr4.3:84688564-84688583 | MS.gene033975:CDS | 30.0% |
| ! | TTATCCTCTAAGAAATGGAT+TGG | + | chr4.3:84688130-84688149 | MS.gene033975:CDS | 30.0% |
| ! | TTCGTTTATCCTCTAAGAAA+TGG | + | chr4.3:84688125-84688144 | MS.gene033975:CDS | 30.0% |
| ! | TTTGGAGAGGTAATTTTGAA+GGG | - | chr4.3:84688080-84688099 | None:intergenic | 30.0% |
| !! | AGGGATTTTTGAAAGTTCTT+TGG | - | chr4.3:84688061-84688080 | None:intergenic | 30.0% |
| !! | GAACAATGAAAGTGTTGATT+GGG | + | chr4.3:84688693-84688712 | MS.gene033975:CDS | 30.0% |
| !! | TTTTGGAGAGGTAATTTTGA+AGG | - | chr4.3:84688081-84688100 | None:intergenic | 30.0% |
| AAAGAGAAAGAAGGAGTTCT+AGG | - | chr4.3:84688175-84688194 | None:intergenic | 35.0% | |
| AGAAGATGATGAAGAAGAAG+AGG | + | chr4.3:84688348-84688367 | MS.gene033975:CDS | 35.0% | |
| AGGATAAACGAAGTTGTGTT+GGG | - | chr4.3:84688117-84688136 | None:intergenic | 35.0% | |
| CGAAAATCATCATAAGGACT+TGG | - | chr4.3:84688637-84688656 | None:intergenic | 35.0% | |
| TTAGATCCACAAAGATCCAA+TGG | - | chr4.3:84688436-84688455 | None:intergenic | 35.0% | |
| TTGGATGAATCAAACAAGGT+GGG | - | chr4.3:84688406-84688425 | None:intergenic | 35.0% | |
| !! | AAGAAATGGATTGGTCTCAA+AGG | + | chr4.3:84688139-84688158 | MS.gene033975:CDS | 35.0% |
| !! | AAGTGTTGATTGGGATTTCA+TGG | + | chr4.3:84688702-84688721 | MS.gene033975:CDS | 35.0% |
| !! | GGAACAATGAAAGTGTTGAT+TGG | + | chr4.3:84688692-84688711 | MS.gene033975:CDS | 35.0% |
| !!! | GATTGGTTTTGATTTTGGAG+AGG | - | chr4.3:84688093-84688112 | None:intergenic | 35.0% |
| CTCGTTGGATGAATCAAACA+AGG | - | chr4.3:84688410-84688429 | None:intergenic | 40.0% | |
| CTCTATCATGAGGAAGAGTT+CGG | + | chr4.3:84688804-84688823 | MS.gene033975:intron | 40.0% | |
| GAGACCAATCCATTTCTTAG+AGG | - | chr4.3:84688137-84688156 | None:intergenic | 40.0% | |
| GAGGATAAACGAAGTTGTGT+TGG | - | chr4.3:84688118-84688137 | None:intergenic | 40.0% | |
| GTGACTTGATCTCTATCATG+AGG | + | chr4.3:84688794-84688813 | MS.gene033975:intron | 40.0% | |
| GTTGGATGAATCAAACAAGG+TGG | - | chr4.3:84688407-84688426 | None:intergenic | 40.0% | |
| TCGAAGATCCATGCAAGAAA+CGG | + | chr4.3:84688654-84688673 | MS.gene033975:CDS | 40.0% | |
| !! | GTTTGTTGTTGTTGTTGTCG+TGG | - | chr4.3:84688491-84688510 | None:intergenic | 40.0% |
| !!! | TGGGCGATTGGTTTTGATTT+TGG | - | chr4.3:84688098-84688117 | None:intergenic | 40.0% |
| AAACGGTGGAAGCAAGGTTA+AGG | + | chr4.3:84688671-84688690 | MS.gene033975:CDS | 45.0% | |
| AAGAGTTCGGAGACTAAACC+AGG | + | chr4.3:84688817-84688836 | MS.gene033975:intron | 45.0% | |
| AAGATCCAATGGTGTCTCGT+TGG | - | chr4.3:84688425-84688444 | None:intergenic | 45.0% | |
| AAGATCCATGCAAGAAACGG+TGG | + | chr4.3:84688657-84688676 | MS.gene033975:CDS | 45.0% | |
| AGAGTTCGGAGACTAAACCA+GGG | + | chr4.3:84688818-84688837 | MS.gene033975:intron | 45.0% | |
| CGGTTTCTTTGTCATCTTCG+AGG | - | chr4.3:84688288-84688307 | None:intergenic | 45.0% | |
| GAGACACCATTGGATCTTTG+TGG | + | chr4.3:84688427-84688446 | MS.gene033975:CDS | 45.0% | |
| TTCATCCAACGAGACACCAT+TGG | + | chr4.3:84688417-84688436 | MS.gene033975:CDS | 45.0% | |
| ! | CTTTTTGACACGTGGCTTCT+CGG | + | chr4.3:84688462-84688481 | MS.gene033975:CDS | 45.0% |
| ! | TTTTTGACACGTGGCTTCTC+GGG | + | chr4.3:84688463-84688482 | MS.gene033975:CDS | 45.0% |
| ACGAAGTTGTGTTGGGCGAT+TGG | - | chr4.3:84688110-84688129 | None:intergenic | 50.0% | |
| ACGGTCAACATCTTCGAGTG+TGG | - | chr4.3:84688236-84688255 | None:intergenic | 50.0% | |
| TGCAAGAAACGGTGGAAGCA+AGG | + | chr4.3:84688665-84688684 | MS.gene033975:CDS | 50.0% | |
| TGCTTCCACCGTTTCTTGCA+TGG | - | chr4.3:84688665-84688684 | None:intergenic | 50.0% | |
| AGACTAAACCAGGGAAGCCG+CGG | + | chr4.3:84688827-84688846 | MS.gene033975:CDS | 55.0% | |
| AGCGTTCGGACGGTTAGGAT+TGG | + | chr4.3:84688850-84688869 | MS.gene033975:CDS | 55.0% | |
| GACGGTTAGGATTGGGACTG+AGG | + | chr4.3:84688858-84688877 | MS.gene033975:CDS | 55.0% | |
| GCGTTCGGACGGTTAGGATT+GGG | + | chr4.3:84688851-84688870 | MS.gene033975:CDS | 55.0% | |
| CTAACCGTCCGAACGCTCCG+CGG | - | chr4.3:84688847-84688866 | None:intergenic | 65.0% | |
| ! | CAGGGAAGCCGCGGAGCGTT+CGG | + | chr4.3:84688836-84688855 | MS.gene033975:CDS | 70.0% |
| ! | CGCGGAGCGTTCGGACGGTT+AGG | + | chr4.3:84688845-84688864 | MS.gene033975:CDS | 70.0% |
| ! | GAAGCCGCGGAGCGTTCGGA+CGG | + | chr4.3:84688840-84688859 | MS.gene033975:CDS | 70.0% |
| CGAACGCTCCGCGGCTTCCC+TGG | - | chr4.3:84688838-84688857 | None:intergenic | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.3 | gene | 84688055 | 84688883 | 84688055 | ID=MS.gene033975 |
| chr4.3 | mRNA | 84688055 | 84688883 | 84688055 | ID=MS.gene033975.t1;Parent=MS.gene033975 |
| chr4.3 | exon | 84688055 | 84688734 | 84688055 | ID=MS.gene033975.t1.exon1;Parent=MS.gene033975.t1 |
| chr4.3 | CDS | 84688055 | 84688734 | 84688055 | ID=cds.MS.gene033975.t1;Parent=MS.gene033975.t1 |
| chr4.3 | exon | 84688820 | 84688883 | 84688820 | ID=MS.gene033975.t1.exon2;Parent=MS.gene033975.t1 |
| chr4.3 | CDS | 84688820 | 84688883 | 84688820 | ID=cds.MS.gene033975.t1;Parent=MS.gene033975.t1 |
| Gene Sequence |
| Protein sequence |
