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.gene043716.t1 | RHN45637.1 | 81.3 | 166 | 30 | 1 | 16 | 181 | 116 | 280 | 2.60E-72 | 281.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene043716.t1 | Q9XIB5 | 30.7 | 127 | 82 | 2 | 38 | 164 | 101 | 221 | 7.9e-09 | 62.0 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene043716.t1 | A0A396H3W8 | 81.3 | 166 | 30 | 1 | 16 | 181 | 116 | 280 | 1.9e-72 | 281.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene043716.t1 | TF | B3 |
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.gene043716.t1 | MTR_7g050560 | 81.481 | 162 | 29 | 1 | 16 | 177 | 143 | 303 | 1.05e-96 | 283 |
| MS.gene043716.t1 | MTR_7g050590 | 73.214 | 168 | 42 | 3 | 16 | 181 | 131 | 297 | 2.16e-84 | 251 |
| MS.gene043716.t1 | MTR_3g098790 | 65.868 | 167 | 55 | 2 | 16 | 181 | 151 | 316 | 6.87e-73 | 223 |
| MS.gene043716.t1 | MTR_7g050580 | 68.485 | 165 | 42 | 2 | 14 | 177 | 148 | 303 | 2.37e-72 | 221 |
| MS.gene043716.t1 | MTR_7g050710 | 63.314 | 169 | 58 | 3 | 16 | 181 | 157 | 324 | 4.63e-65 | 202 |
| MS.gene043716.t1 | MTR_7g050720 | 52.174 | 161 | 67 | 6 | 16 | 166 | 157 | 317 | 2.60e-46 | 154 |
| MS.gene043716.t1 | MTR_1g035460 | 42.342 | 111 | 52 | 4 | 55 | 164 | 188 | 287 | 3.44e-18 | 81.3 |
| MS.gene043716.t1 | MTR_1g108780 | 31.944 | 144 | 83 | 4 | 21 | 164 | 162 | 290 | 7.07e-17 | 77.8 |
| MS.gene043716.t1 | MTR_8g103940 | 36.134 | 119 | 66 | 2 | 46 | 164 | 223 | 331 | 6.78e-14 | 69.3 |
| MS.gene043716.t1 | MTR_5g044670 | 33.333 | 120 | 75 | 2 | 52 | 171 | 196 | 310 | 1.99e-12 | 64.7 |
| MS.gene043716.t1 | MTR_4g068320 | 30.769 | 130 | 83 | 3 | 41 | 169 | 270 | 393 | 6.84e-12 | 63.2 |
| MS.gene043716.t1 | MTR_1g034240 | 28.244 | 131 | 87 | 3 | 41 | 170 | 274 | 398 | 3.20e-11 | 61.2 |
| MS.gene043716.t1 | MTR_1g021320 | 35.971 | 139 | 73 | 5 | 27 | 156 | 463 | 594 | 8.65e-11 | 60.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene043716.t1 | AT1G49480 | 30.645 | 124 | 80 | 2 | 41 | 164 | 104 | 221 | 4.21e-12 | 62.8 |
| MS.gene043716.t1 | AT1G49480 | 30.645 | 124 | 80 | 2 | 41 | 164 | 104 | 221 | 4.21e-12 | 62.8 |
| MS.gene043716.t1 | AT1G49480 | 30.645 | 124 | 80 | 2 | 41 | 164 | 104 | 221 | 4.21e-12 | 62.8 |
Find 28 sgRNAs with CRISPR-Local
Find 60 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGTTGTTAAATGAAGGAATT+TGG | 0.170862 | 7.4:-52708210 | MS.gene043716:CDS |
| CTAATCAGGATGACCCTTAC+AGG | 0.316093 | 7.4:-52708175 | MS.gene043716:CDS |
| TGGTAATAGACACTTTGATT+TGG | 0.391800 | 7.4:-52708257 | MS.gene043716:CDS |
| GGCCTGCAAAATATCTAATC+AGG | 0.406587 | 7.4:-52708189 | MS.gene043716:CDS |
| ATTTATTTGTTGTTAAATGA+AGG | 0.421453 | 7.4:-52708217 | MS.gene043716:CDS |
| CAGAATATACCACGTTCGTT+TGG | 0.431161 | 7.4:-52708277 | MS.gene043716:CDS |
| GATCAATTTGTGGTCCTGTA+AGG | 0.446598 | 7.4:+52708161 | None:intergenic |
| CATATCTGAAAAGCAGAAGA+TGG | 0.486489 | 7.4:+52709100 | None:intergenic |
| ACTTTGAGATGCTGAACAAT+TGG | 0.487702 | 7.4:+52708006 | None:intergenic |
| TGAAGTTGAGAAATTGCAAA+AGG | 0.487851 | 7.4:-52708938 | MS.gene043716:CDS |
| ATTGTTCAGCATCTCAAAGT+AGG | 0.493760 | 7.4:-52708003 | MS.gene043716:CDS |
| TCTAAAGATGTGAACAATGA+AGG | 0.509907 | 7.4:+52708048 | None:intergenic |
| GAGGACAATAACTTGAAAGT+TGG | 0.514989 | 7.4:-52708112 | MS.gene043716:CDS |
| CCAACTGTGAGATCAATTTG+TGG | 0.524959 | 7.4:+52708151 | None:intergenic |
| TGCAACTTACCAGACGAAAA+CGG | 0.547167 | 7.4:+52708613 | None:intergenic |
| TGATCTCACAGTTGGATGGA+AGG | 0.547939 | 7.4:-52708143 | MS.gene043716:CDS |
| ATCAATTTGTGGTCCTGTAA+GGG | 0.548089 | 7.4:+52708162 | None:intergenic |
| CGCATGGCAACAACAAAGGA+TGG | 0.550805 | 7.4:+52708654 | None:intergenic |
| CCACAAATTGATCTCACAGT+TGG | 0.558906 | 7.4:-52708151 | MS.gene043716:CDS |
| GTAGCAACTTTAAATCATGC+TGG | 0.574431 | 7.4:-52708916 | MS.gene043716:CDS |
| TTTGATTTGGATAAGAAGAG+AGG | 0.576081 | 7.4:-52708244 | MS.gene043716:CDS |
| AAATTGATCTCACAGTTGGA+TGG | 0.578678 | 7.4:-52708147 | MS.gene043716:CDS |
| CATTGTTCACATCTTTAGAG+AGG | 0.596070 | 7.4:-52708044 | MS.gene043716:CDS |
| TTCAACGTATGATGCACGCA+TGG | 0.638803 | 7.4:+52708638 | None:intergenic |
| TGCACGCATGGCAACAACAA+AGG | 0.639444 | 7.4:+52708650 | None:intergenic |
| TGGATGGAAGGTATTTGCAG+AGG | 0.645492 | 7.4:-52708131 | MS.gene043716:CDS |
| TGTCTATTACCAAACGAACG+TGG | 0.725731 | 7.4:+52708268 | None:intergenic |
| CATGCTGGCAGAGAGTCCAG+AGG | 0.757168 | 7.4:-52708901 | MS.gene043716:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATATATATTGGAATATCAAA+TGG | - | chr7.4:52708602-52708621 | MS.gene043716:intron | 15.0% |
| !!! | AAAAATTAGAAAGTTTTTGT+TGG | + | chr7.4:52708769-52708788 | None:intergenic | 15.0% |
| !!! | ATTTATTTGTTGTTAAATGA+AGG | - | chr7.4:52708881-52708900 | MS.gene043716:intron | 15.0% |
| !! | TCACATAGATGTTTAATTAT+TGG | - | chr7.4:52708656-52708675 | MS.gene043716:CDS | 20.0% |
| ! | ATATTGGAATATCAAATGGA+GGG | - | chr7.4:52708606-52708625 | MS.gene043716:intron | 25.0% |
| ! | GTAAAGACTAGAGAAATAAT+TGG | + | chr7.4:52708564-52708583 | None:intergenic | 25.0% |
| ! | TATATTGGAATATCAAATGG+AGG | - | chr7.4:52708605-52708624 | MS.gene043716:intron | 25.0% |
| ! | TATCTGATTGGATAATTGTT+AGG | + | chr7.4:52708633-52708652 | None:intergenic | 25.0% |
| ! | TGCAAAATTTGAACACAATA+AGG | + | chr7.4:52708352-52708371 | None:intergenic | 25.0% |
| ! | TGTTAACATAAATCTTTAGC+AGG | - | chr7.4:52708284-52708303 | MS.gene043716:intron | 25.0% |
| ! | TGTTGTTAAATGAAGGAATT+TGG | - | chr7.4:52708888-52708907 | MS.gene043716:intron | 25.0% |
| !! | TGAAAAAACTTCTCTTTTTG+AGG | - | chr7.4:52708019-52708038 | MS.gene043716:CDS | 25.0% |
| !! | TTATTGTGTTCAAATTTTGC+AGG | - | chr7.4:52708351-52708370 | MS.gene043716:intron | 25.0% |
| AAGGGGTGAGAAATATATAT+TGG | - | chr7.4:52708590-52708609 | MS.gene043716:intron | 30.0% | |
| GGAAGGATAATTTATCTCTA+AGG | + | chr7.4:52708066-52708085 | None:intergenic | 30.0% | |
| GTAAGTTGCAAAGAAACATT+TGG | - | chr7.4:52708498-52708517 | MS.gene043716:intron | 30.0% | |
| TCTAAAGATGTGAACAATGA+AGG | + | chr7.4:52709053-52709072 | None:intergenic | 30.0% | |
| TCTATGTGATGATATCTGAT+TGG | + | chr7.4:52708645-52708664 | None:intergenic | 30.0% | |
| TGAAGTTGAGAAATTGCAAA+AGG | - | chr7.4:52708160-52708179 | MS.gene043716:CDS | 30.0% | |
| TGGTAATAGACACTTTGATT+TGG | - | chr7.4:52708841-52708860 | MS.gene043716:intron | 30.0% | |
| ! | ACAGTGTGTATTTTCTTACA+TGG | + | chr7.4:52708738-52708757 | None:intergenic | 30.0% |
| ! | ATCCTGATTAGATATTTTGC+AGG | + | chr7.4:52708914-52708933 | None:intergenic | 30.0% |
| ! | TCTAGTCTTTACCAGATTAA+GGG | - | chr7.4:52708572-52708591 | MS.gene043716:intron | 30.0% |
| !! | CATTTGTCGTTTCTTTTGAT+TGG | - | chr7.4:52708798-52708817 | MS.gene043716:intron | 30.0% |
| !! | TTTGATTTGGATAAGAAGAG+AGG | - | chr7.4:52708854-52708873 | MS.gene043716:intron | 30.0% |
| AAATTGATCTCACAGTTGGA+TGG | - | chr7.4:52708951-52708970 | MS.gene043716:CDS | 35.0% | |
| ATATTTCTCACCCCTTAATC+TGG | + | chr7.4:52708586-52708605 | None:intergenic | 35.0% | |
| ATCAATTTGTGGTCCTGTAA+GGG | + | chr7.4:52708939-52708958 | None:intergenic | 35.0% | |
| ATTGTTCAGCATCTCAAAGT+AGG | - | chr7.4:52709095-52709114 | MS.gene043716:CDS | 35.0% | |
| CATATCTGAAAAGCAGAAGA+TGG | + | chr7.4:52708001-52708020 | None:intergenic | 35.0% | |
| CTATTGCTTCCAATTTCACA+TGG | + | chr7.4:52708134-52708153 | None:intergenic | 35.0% | |
| GACACAAAATTGTATACCTC+TGG | + | chr7.4:52708216-52708235 | None:intergenic | 35.0% | |
| GAGATAAATTATCCTTCCAG+TGG | - | chr7.4:52708068-52708087 | MS.gene043716:CDS | 35.0% | |
| GAGGACAATAACTTGAAAGT+TGG | - | chr7.4:52708986-52709005 | MS.gene043716:intron | 35.0% | |
| GTAGCAACTTTAAATCATGC+TGG | - | chr7.4:52708182-52708201 | MS.gene043716:CDS | 35.0% | |
| TTCCAATTTCACATGGTTGA+TGG | + | chr7.4:52708127-52708146 | None:intergenic | 35.0% | |
| TTCCATCAACCATGTGAAAT+TGG | - | chr7.4:52708122-52708141 | MS.gene043716:CDS | 35.0% | |
| ! | AGCTTTTATCTTTTGACCAC+TGG | + | chr7.4:52708087-52708106 | None:intergenic | 35.0% |
| ! | CATTGTTCACATCTTTAGAG+AGG | - | chr7.4:52709054-52709073 | MS.gene043716:intron | 35.0% |
| ! | CTAGTCTTTACCAGATTAAG+GGG | - | chr7.4:52708573-52708592 | MS.gene043716:intron | 35.0% |
| ! | CTCTAGTCTTTACCAGATTA+AGG | - | chr7.4:52708571-52708590 | MS.gene043716:intron | 35.0% |
| ! | GTTGTAATTTTCTCAGCAGT+AGG | + | chr7.4:52708390-52708409 | None:intergenic | 35.0% |
| ! | TTTATCTTTTGACCACTGGA+AGG | + | chr7.4:52708083-52708102 | None:intergenic | 35.0% |
| !! | ACTTTGAGATGCTGAACAAT+TGG | + | chr7.4:52709095-52709114 | None:intergenic | 35.0% |
| !! | TGGTTGATGGAATTCAAAAG+AGG | + | chr7.4:52708114-52708133 | None:intergenic | 35.0% |
| CAGAATATACCACGTTCGTT+TGG | - | chr7.4:52708821-52708840 | MS.gene043716:intron | 40.0% | |
| CCAACTGTGAGATCAATTTG+TGG | + | chr7.4:52708950-52708969 | None:intergenic | 40.0% | |
| CCACAAATTGATCTCACAGT+TGG | - | chr7.4:52708947-52708966 | MS.gene043716:CDS | 40.0% | |
| GATCAATTTGTGGTCCTGTA+AGG | + | chr7.4:52708940-52708959 | None:intergenic | 40.0% | |
| GGCCTGCAAAATATCTAATC+AGG | - | chr7.4:52708909-52708928 | MS.gene043716:CDS | 40.0% | |
| TGCAACTTACCAGACGAAAA+CGG | + | chr7.4:52708488-52708507 | None:intergenic | 40.0% | |
| TGTCTATTACCAAACGAACG+TGG | + | chr7.4:52708833-52708852 | None:intergenic | 40.0% | |
| CTAATCAGGATGACCCTTAC+AGG | - | chr7.4:52708923-52708942 | MS.gene043716:CDS | 45.0% | |
| TGATCTCACAGTTGGATGGA+AGG | - | chr7.4:52708955-52708974 | MS.gene043716:intron | 45.0% | |
| TTCAACGTATGATGCACGCA+TGG | + | chr7.4:52708463-52708482 | None:intergenic | 45.0% | |
| !! | TGGATGGAAGGTATTTGCAG+AGG | - | chr7.4:52708967-52708986 | MS.gene043716:intron | 45.0% |
| CGCATGGCAACAACAAAGGA+TGG | + | chr7.4:52708447-52708466 | None:intergenic | 50.0% | |
| TGCACGCATGGCAACAACAA+AGG | + | chr7.4:52708451-52708470 | None:intergenic | 50.0% | |
| ! | CGTTGAACACCGTTTTCGTC+TGG | - | chr7.4:52708476-52708495 | MS.gene043716:intron | 50.0% |
| CATGCTGGCAGAGAGTCCAG+AGG | - | chr7.4:52708197-52708216 | MS.gene043716:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7.4 | gene | 52707994 | 52709126 | 52707994 | ID=MS.gene043716 |
| chr7.4 | mRNA | 52707994 | 52709126 | 52707994 | ID=MS.gene043716.t1;Parent=MS.gene043716 |
| chr7.4 | exon | 52709080 | 52709126 | 52709080 | ID=MS.gene043716.t1.exon1;Parent=MS.gene043716.t1 |
| chr7.4 | CDS | 52709080 | 52709126 | 52709080 | ID=cds.MS.gene043716.t1;Parent=MS.gene043716.t1 |
| chr7.4 | exon | 52708902 | 52708972 | 52708902 | ID=MS.gene043716.t1.exon2;Parent=MS.gene043716.t1 |
| chr7.4 | CDS | 52708902 | 52708972 | 52708902 | ID=cds.MS.gene043716.t1;Parent=MS.gene043716.t1 |
| chr7.4 | exon | 52708623 | 52708747 | 52708623 | ID=MS.gene043716.t1.exon3;Parent=MS.gene043716.t1 |
| chr7.4 | CDS | 52708623 | 52708747 | 52708623 | ID=cds.MS.gene043716.t1;Parent=MS.gene043716.t1 |
| chr7.4 | exon | 52707994 | 52708296 | 52707994 | ID=MS.gene043716.t1.exon4;Parent=MS.gene043716.t1 |
| chr7.4 | CDS | 52707994 | 52708296 | 52707994 | ID=cds.MS.gene043716.t1;Parent=MS.gene043716.t1 |
| Gene Sequence |
| Protein sequence |
