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.gene46275.t1 | XP_003606781.2 | 64.1 | 131 | 3 | 1 | 1 | 87 | 23 | 153 | 1.40E-34 | 155.2 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene46275.t1 | Q8GWP3 | 40.5 | 116 | 23 | 2 | 9 | 78 | 24 | 139 | 3.7e-12 | 72.0 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene46275.t1 | G7JDP2 | 64.1 | 131 | 3 | 1 | 1 | 87 | 23 | 153 | 9.9e-35 | 155.2 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049549 | MS.gene46275 | 0.803104 | 4.09E-49 | -1.69E-46 |
| MS.gene05244 | MS.gene46275 | 0.816796 | 4.60E-52 | -1.69E-46 |
| MS.gene053406 | MS.gene46275 | 0.829951 | 3.86E-55 | -1.69E-46 |
| MS.gene054421 | MS.gene46275 | 0.837204 | 5.96E-57 | -1.69E-46 |
| MS.gene054742 | MS.gene46275 | 0.815504 | 8.94E-52 | -1.69E-46 |
| MS.gene055595 | MS.gene46275 | 0.829899 | 3.98E-55 | -1.69E-46 |
| MS.gene055597 | MS.gene46275 | 0.816259 | 6.07E-52 | -1.69E-46 |
| MS.gene056330 | MS.gene46275 | 0.806189 | 9.28E-50 | -1.69E-46 |
| MS.gene056920 | MS.gene46275 | 0.801836 | 7.46E-49 | -1.69E-46 |
| MS.gene056923 | MS.gene46275 | 0.809529 | 1.81E-50 | -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.gene46275.t1 | MTR_4g065660 | 61.345 | 119 | 2 | 1 | 13 | 87 | 35 | 153 | 3.98e-41 | 132 |
| MS.gene46275.t1 | MTR_4g064963 | 50.000 | 120 | 15 | 2 | 13 | 87 | 46 | 165 | 2.61e-29 | 102 |
| MS.gene46275.t1 | MTR_4g065123 | 47.826 | 115 | 17 | 1 | 5 | 76 | 23 | 137 | 1.21e-27 | 97.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene46275.t1 | AT2G26975 | 40.171 | 117 | 24 | 2 | 9 | 79 | 24 | 140 | 2.48e-17 | 71.6 |
| MS.gene46275.t1 | AT5G59030 | 34.677 | 124 | 32 | 3 | 13 | 87 | 45 | 168 | 1.71e-15 | 67.4 |
| MS.gene46275.t1 | AT3G46900 | 35.537 | 121 | 30 | 3 | 14 | 86 | 34 | 154 | 4.30e-14 | 63.5 |
| MS.gene46275.t1 | AT2G37925 | 31.304 | 115 | 31 | 2 | 8 | 74 | 28 | 142 | 4.19e-12 | 58.2 |
Find 16 sgRNAs with CRISPR-Local
Find 32 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CATTGATTCTCTTTGATAAT+TGG | 0.164937 | 4.4:+40900068 | MS.gene46275:CDS |
| TAGGGTTGGCTTAGCTTATT+TGG | 0.182024 | 4.4:+40900229 | MS.gene46275:intron |
| TTTCAATGGTGGAGTGTTCT+TGG | 0.286706 | 4.4:+40900271 | MS.gene46275:CDS |
| AATTGGCCTGCTGGTAATTC+TGG | 0.314673 | 4.4:+40900085 | MS.gene46275:CDS |
| TGATGCACATGACATTCTTC+TGG | 0.316430 | 4.4:+40900035 | MS.gene46275:CDS |
| CTCTTTGATAATTGGCCTGC+TGG | 0.345995 | 4.4:+40900076 | MS.gene46275:CDS |
| CTTAGCTTATTTGGTTATGT+TGG | 0.348391 | 4.4:+40900238 | MS.gene46275:CDS |
| CTGTGCTTGGTCATGCTGTT+GGG | 0.361371 | 4.4:+40900297 | MS.gene46275:CDS |
| GCTGTGCTTGGTCATGCTGT+TGG | 0.390679 | 4.4:+40900296 | MS.gene46275:CDS |
| GTGTTCTTGGTTGCTGTGCT+TGG | 0.406869 | 4.4:+40900284 | MS.gene46275:CDS |
| TTGGCTCTCATGTCTTTCAA+TGG | 0.439850 | 4.4:+40900257 | MS.gene46275:CDS |
| GATGCACATGACATTCTTCT+GGG | 0.480501 | 4.4:+40900036 | MS.gene46275:CDS |
| GCTCTCATGTCTTTCAATGG+TGG | 0.527046 | 4.4:+40900260 | MS.gene46275:CDS |
| TACTTACCAGAATTACCAGC+AGG | 0.597954 | 4.4:-40900091 | None:intergenic |
| AATAATTAACAAGATAACGG+AGG | 0.670863 | 4.4:-40900377 | None:intergenic |
| ATGCACATGACATTCTTCTG+GGG | 0.703114 | 4.4:+40900037 | MS.gene46275:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TAATTCTGGTAAGTATGTAT+TGG | + | chr4.4:40900099-40900118 | MS.gene46275:intron | 25.0% |
| !!! | CATTGATTCTCTTTGATAAT+TGG | + | chr4.4:40900068-40900087 | MS.gene46275:CDS | 25.0% |
| CTTAGCTTATTTGGTTATGT+TGG | + | chr4.4:40900238-40900257 | MS.gene46275:CDS | 30.0% | |
| !!! | GATGTTGTTTTTTGAAAGCA+CGG | - | chr4.4:40900337-40900356 | None:intergenic | 30.0% |
| ! | AGACACTTTTGCATGTTCTT+AGG | + | chr4.4:40900210-40900229 | MS.gene46275:intron | 35.0% |
| ! | GACACTTTTGCATGTTCTTA+GGG | + | chr4.4:40900211-40900230 | MS.gene46275:intron | 35.0% |
| AAACTCGATGAGTATGGACA+TGG | - | chr4.4:40900143-40900162 | None:intergenic | 40.0% | |
| AGTATGGACATGGCAAAAAC+AGG | - | chr4.4:40900133-40900152 | None:intergenic | 40.0% | |
| ATGCACATGACATTCTTCTG+GGG | + | chr4.4:40900037-40900056 | MS.gene46275:CDS | 40.0% | |
| GATGCACATGACATTCTTCT+GGG | + | chr4.4:40900036-40900055 | MS.gene46275:CDS | 40.0% | |
| GTATGGACATGGCAAAAACA+GGG | - | chr4.4:40900132-40900151 | None:intergenic | 40.0% | |
| TACTTACCAGAATTACCAGC+AGG | - | chr4.4:40900094-40900113 | None:intergenic | 40.0% | |
| TGATGCACATGACATTCTTC+TGG | + | chr4.4:40900035-40900054 | MS.gene46275:CDS | 40.0% | |
| ! | CTTTTGCATGTTCTTAGGGT+TGG | + | chr4.4:40900215-40900234 | MS.gene46275:intron | 40.0% |
| ! | TTGGCTCTCATGTCTTTCAA+TGG | + | chr4.4:40900257-40900276 | MS.gene46275:CDS | 40.0% |
| ! | TTTCAATGGTGGAGTGTTCT+TGG | + | chr4.4:40900271-40900290 | MS.gene46275:CDS | 40.0% |
| !! | CAAAAGTGTCTGAACCAACA+GGG | - | chr4.4:40900201-40900220 | None:intergenic | 40.0% |
| !! | TAGGGTTGGCTTAGCTTATT+TGG | + | chr4.4:40900229-40900248 | MS.gene46275:intron | 40.0% |
| GCTCTCATGTCTTTCAATGG+TGG | + | chr4.4:40900260-40900279 | MS.gene46275:CDS | 45.0% | |
| GGAGAGAAACTCGATGAGTA+TGG | - | chr4.4:40900149-40900168 | None:intergenic | 45.0% | |
| TGAACCAACAGGGTTTGAAC+CGG | - | chr4.4:40900191-40900210 | None:intergenic | 45.0% | |
| ! | AATTGGCCTGCTGGTAATTC+TGG | + | chr4.4:40900085-40900104 | MS.gene46275:CDS | 45.0% |
| ! | CTCTTTGATAATTGGCCTGC+TGG | + | chr4.4:40900076-40900095 | MS.gene46275:CDS | 45.0% |
| !! | GCAAAAGTGTCTGAACCAAC+AGG | - | chr4.4:40900202-40900221 | None:intergenic | 45.0% |
| AAACCCGGTTCAAACCCTGT+TGG | + | chr4.4:40900184-40900203 | MS.gene46275:intron | 50.0% | |
| AGCACGCGGTTCATTAAACC+CGG | + | chr4.4:40900169-40900188 | MS.gene46275:intron | 50.0% | |
| CTGTGCTTGGTCATGCTGTT+GGG | + | chr4.4:40900297-40900316 | MS.gene46275:CDS | 50.0% | |
| GAACCAACAGGGTTTGAACC+GGG | - | chr4.4:40900190-40900209 | None:intergenic | 50.0% | |
| GTGTTCTTGGTTGCTGTGCT+TGG | + | chr4.4:40900284-40900303 | MS.gene46275:CDS | 50.0% | |
| GCTGTGCTTGGTCATGCTGT+TGG | + | chr4.4:40900296-40900315 | MS.gene46275:CDS | 55.0% | |
| GGGTTTAATGAACCGCGTGC+TGG | - | chr4.4:40900170-40900189 | None:intergenic | 55.0% | |
| TCGAGTTTCTCTCCAGCACG+CGG | + | chr4.4:40900155-40900174 | MS.gene46275:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 40900010 | 40900394 | 40900010 | ID=MS.gene46275 |
| chr4.4 | mRNA | 40900010 | 40900394 | 40900010 | ID=MS.gene46275.t1;Parent=MS.gene46275 |
| chr4.4 | exon | 40900010 | 40900110 | 40900010 | ID=MS.gene46275.t1.exon1;Parent=MS.gene46275.t1 |
| chr4.4 | CDS | 40900010 | 40900110 | 40900010 | ID=cds.MS.gene46275.t1;Parent=MS.gene46275.t1 |
| chr4.4 | exon | 40900232 | 40900394 | 40900232 | ID=MS.gene46275.t1.exon2;Parent=MS.gene46275.t1 |
| chr4.4 | CDS | 40900232 | 40900394 | 40900232 | ID=cds.MS.gene46275.t1;Parent=MS.gene46275.t1 |
| Gene Sequence |
| Protein sequence |
