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.gene008020.t1 | XP_024632961.1 | 95.6 | 251 | 11 | 0 | 1 | 251 | 1 | 251 | 4.90E-120 | 440.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene008020.t1 | G7I8T1 | 95.2 | 251 | 12 | 0 | 1 | 251 | 1 | 251 | 4.6e-120 | 440.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene008020.t1 | TF | FAR1 |
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.gene008020.t1 | MTR_1g083640 | 93.254 | 252 | 17 | 0 | 1 | 252 | 1 | 252 | 1.30e-179 | 495 |
| MS.gene008020.t1 | MTR_0558s0020 | 87.698 | 252 | 16 | 1 | 1 | 252 | 1 | 237 | 9.10e-165 | 458 |
| MS.gene008020.t1 | MTR_2g014100 | 87.795 | 254 | 22 | 2 | 1 | 253 | 1 | 246 | 3.38e-164 | 454 |
| MS.gene008020.t1 | MTR_3g008240 | 83.486 | 218 | 21 | 1 | 1 | 218 | 1 | 203 | 7.33e-132 | 371 |
| MS.gene008020.t1 | MTR_4g040430 | 83.945 | 218 | 15 | 2 | 1 | 218 | 1 | 198 | 3.51e-131 | 369 |
| MS.gene008020.t1 | MTR_8g446020 | 72.619 | 252 | 14 | 2 | 1 | 252 | 1 | 197 | 1.12e-123 | 352 |
| MS.gene008020.t1 | MTR_0337s0040 | 70.635 | 252 | 20 | 2 | 1 | 252 | 1 | 198 | 6.70e-119 | 339 |
| MS.gene008020.t1 | MTR_5g071590 | 86.339 | 183 | 22 | 1 | 1 | 183 | 1 | 180 | 7.95e-117 | 332 |
| MS.gene008020.t1 | MTR_6g090505 | 88.953 | 172 | 19 | 0 | 81 | 252 | 1 | 172 | 2.37e-111 | 325 |
| MS.gene008020.t1 | MTR_1g055240 | 93.662 | 142 | 9 | 0 | 107 | 248 | 3 | 144 | 2.11e-97 | 282 |
| MS.gene008020.t1 | MTR_0019s0290 | 88.235 | 153 | 15 | 1 | 100 | 249 | 8 | 160 | 1.96e-96 | 280 |
| MS.gene008020.t1 | MTR_1281s0010 | 94.495 | 109 | 6 | 0 | 35 | 143 | 1 | 109 | 2.54e-72 | 217 |
| MS.gene008020.t1 | MTR_8g046060 | 79.167 | 96 | 11 | 2 | 1 | 95 | 91 | 178 | 8.00e-41 | 140 |
| MS.gene008020.t1 | MTR_4g008820 | 76.842 | 95 | 7 | 1 | 1 | 95 | 125 | 204 | 1.98e-38 | 142 |
| MS.gene008020.t1 | MTR_0402s0040 | 25.946 | 185 | 118 | 4 | 65 | 249 | 40 | 205 | 1.07e-14 | 73.6 |
| MS.gene008020.t1 | MTR_6g051425 | 27.368 | 190 | 123 | 4 | 56 | 245 | 22 | 196 | 4.62e-13 | 68.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 36 sgRNAs with CRISPR-Local
Find 50 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCTGTTGTTGGCCTGTTGTT+AGG | 0.292589 | 3.3:+62166978 | None:intergenic |
| TTACTTCTCGAAATGATCTA+AGG | 0.311482 | 3.3:+62166787 | None:intergenic |
| GAGAACGTCTTATGAAGTTA+TGG | 0.394356 | 3.3:-62166712 | MS.gene008020:CDS |
| GTCTTATGAAGTTATGGGTC+AGG | 0.415385 | 3.3:-62166706 | MS.gene008020:CDS |
| GAAGTTATGGGTCAGGGAGT+TGG | 0.426260 | 3.3:-62166699 | MS.gene008020:CDS |
| CGTTATGTTTGTAACAAAGA+AGG | 0.427485 | 3.3:-62167026 | MS.gene008020:CDS |
| CGAGAAGTAAATGAAGTTCA+AGG | 0.430014 | 3.3:-62166774 | MS.gene008020:CDS |
| TCCATGATTCTTTATTGCTA+GGG | 0.444266 | 3.3:+62167189 | None:intergenic |
| TTCCATGATTCTTTATTGCT+AGG | 0.445442 | 3.3:+62167188 | None:intergenic |
| GAAAGGGTTGGTTGTAAAGC+TGG | 0.447509 | 3.3:-62166909 | MS.gene008020:CDS |
| ATGTGTATAAGATATATAGA+TGG | 0.452819 | 3.3:-62166857 | MS.gene008020:CDS |
| ACATCAACTTCATCTGATAG+TGG | 0.459514 | 3.3:-62167314 | MS.gene008020:CDS |
| GCTCTTATAAATTCTAAAGC+TGG | 0.462891 | 3.3:-62166744 | MS.gene008020:CDS |
| ACCTGTGGACTGTCTGTTGT+TGG | 0.465317 | 3.3:+62166966 | None:intergenic |
| AGAACGTCTTATGAAGTTAT+GGG | 0.466325 | 3.3:-62166711 | MS.gene008020:CDS |
| TTTAAGTCTGAAAACCGAAA+AGG | 0.483010 | 3.3:+62166660 | None:intergenic |
| CCCCTAGCAATAAAGAATCA+TGG | 0.497001 | 3.3:-62167190 | MS.gene008020:CDS |
| TTACAACCAACCCTTTCCTC+AGG | 0.505082 | 3.3:+62166915 | None:intergenic |
| AGCTGGAATATATTTGAAGC+TGG | 0.507410 | 3.3:-62166892 | MS.gene008020:CDS |
| ACAAAACAAGAAATCTGATA+AGG | 0.511435 | 3.3:-62167060 | MS.gene008020:CDS |
| CTAAGGTAACACGAATGCTC+TGG | 0.517941 | 3.3:+62166804 | None:intergenic |
| GTCAGCATGAATCATTGCTA+GGG | 0.522802 | 3.3:+62167229 | None:intergenic |
| GGTAATTATGCATATAACAC+TGG | 0.523547 | 3.3:-62167122 | MS.gene008020:CDS |
| TAACAAAGAAGGTTTCAAGA+AGG | 0.525236 | 3.3:-62167015 | MS.gene008020:CDS |
| TAAGATATATAGATGGGATG+TGG | 0.528498 | 3.3:-62166850 | MS.gene008020:CDS |
| GAATGCTCTGGTTTATGTAA+TGG | 0.534744 | 3.3:+62166816 | None:intergenic |
| CCATGATTCTTTATTGCTAG+GGG | 0.537011 | 3.3:+62167190 | None:intergenic |
| TGTCAGCATGAATCATTGCT+AGG | 0.540740 | 3.3:+62167228 | None:intergenic |
| AACAAAGAAGGTTTCAAGAA+GGG | 0.545537 | 3.3:-62167014 | MS.gene008020:CDS |
| GTTATGGGTCAGGGAGTTGG+AGG | 0.547221 | 3.3:-62166696 | MS.gene008020:CDS |
| TGTGTATAAGATATATAGAT+GGG | 0.601002 | 3.3:-62166856 | MS.gene008020:CDS |
| TCACTGATTCATGCTGAGAG+TGG | 0.606950 | 3.3:-62167269 | MS.gene008020:CDS |
| TCTTATGAAGTTATGGGTCA+GGG | 0.609153 | 3.3:-62166705 | MS.gene008020:CDS |
| GCCAACAACAGACAGTCCAC+AGG | 0.619933 | 3.3:-62166967 | MS.gene008020:CDS |
| TTCACAAACTCAATAACCTG+TGG | 0.626760 | 3.3:+62166951 | None:intergenic |
| TCAGCATGAATCATTGCTAG+GGG | 0.681156 | 3.3:+62167230 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATGTGTATAAGATATATAGA+TGG | - | chr3.3:62167029-62167048 | MS.gene008020:CDS | 20.0% |
| !! | TGTGTATAAGATATATAGAT+GGG | - | chr3.3:62167030-62167049 | MS.gene008020:CDS | 20.0% |
| !!! | AAAGAGATTGAAGATTTTTA+TGG | - | chr3.3:62166743-62166762 | MS.gene008020:CDS | 20.0% |
| ! | ACAAAACAAGAAATCTGATA+AGG | - | chr3.3:62166826-62166845 | MS.gene008020:CDS | 25.0% |
| !! | ATAACACTGGATTTTCTATT+AGG | - | chr3.3:62166777-62166796 | MS.gene008020:CDS | 25.0% |
| !! | GTAATTCAAGAATTCCTTTT+CGG | - | chr3.3:62167301-62167320 | MS.gene008020:CDS | 25.0% |
| !! | TTTTACTTAATCCTAACAAC+AGG | - | chr3.3:62166897-62166916 | MS.gene008020:CDS | 25.0% |
| AACAAAGAAGGTTTCAAGAA+GGG | - | chr3.3:62166872-62166891 | MS.gene008020:CDS | 30.0% | |
| AGAACGTCTTATGAAGTTAT+GGG | - | chr3.3:62167175-62167194 | MS.gene008020:CDS | 30.0% | |
| CGTTATGTTTGTAACAAAGA+AGG | - | chr3.3:62166860-62166879 | MS.gene008020:CDS | 30.0% | |
| GGTAATTATGCATATAACAC+TGG | - | chr3.3:62166764-62166783 | MS.gene008020:CDS | 30.0% | |
| TAACAAAGAAGGTTTCAAGA+AGG | - | chr3.3:62166871-62166890 | MS.gene008020:CDS | 30.0% | |
| TAAGATATATAGATGGGATG+TGG | - | chr3.3:62167036-62167055 | MS.gene008020:CDS | 30.0% | |
| TCCATGATTCTTTATTGCTA+GGG | + | chr3.3:62166700-62166719 | None:intergenic | 30.0% | |
| TTACTTCTCGAAATGATCTA+AGG | + | chr3.3:62167102-62167121 | None:intergenic | 30.0% | |
| TTCCATGATTCTTTATTGCT+AGG | + | chr3.3:62166701-62166720 | None:intergenic | 30.0% | |
| TTTAAGTCTGAAAACCGAAA+AGG | + | chr3.3:62167229-62167248 | None:intergenic | 30.0% | |
| !! | GCTCTTATAAATTCTAAAGC+TGG | - | chr3.3:62167142-62167161 | MS.gene008020:CDS | 30.0% |
| AATTCGTCAAAAAGAGATGG+TGG | - | chr3.3:62167264-62167283 | MS.gene008020:CDS | 35.0% | |
| ACATCAACTTCATCTGATAG+TGG | - | chr3.3:62166572-62166591 | MS.gene008020:CDS | 35.0% | |
| CCATGATTCTTTATTGCTAG+GGG | + | chr3.3:62166699-62166718 | None:intergenic | 35.0% | |
| CGAGAAGTAAATGAAGTTCA+AGG | - | chr3.3:62167112-62167131 | MS.gene008020:CDS | 35.0% | |
| GAAAGAAAAACCTGAGGAAA+GGG | - | chr3.3:62166961-62166980 | MS.gene008020:CDS | 35.0% | |
| GAAAGTGAAAGAAAAACCTG+AGG | - | chr3.3:62166955-62166974 | MS.gene008020:CDS | 35.0% | |
| GACAATTCGTCAAAAAGAGA+TGG | - | chr3.3:62167261-62167280 | MS.gene008020:CDS | 35.0% | |
| GAGAACGTCTTATGAAGTTA+TGG | - | chr3.3:62167174-62167193 | MS.gene008020:CDS | 35.0% | |
| TCTTATGAAGTTATGGGTCA+GGG | - | chr3.3:62167181-62167200 | MS.gene008020:CDS | 35.0% | |
| TGAAAGAAAAACCTGAGGAA+AGG | - | chr3.3:62166960-62166979 | MS.gene008020:CDS | 35.0% | |
| TTCACAAACTCAATAACCTG+TGG | + | chr3.3:62166938-62166957 | None:intergenic | 35.0% | |
| ! | AGCTGGAATATATTTGAAGC+TGG | - | chr3.3:62166994-62167013 | MS.gene008020:CDS | 35.0% |
| ! | GAATGCTCTGGTTTATGTAA+TGG | + | chr3.3:62167073-62167092 | None:intergenic | 35.0% |
| CCCCTAGCAATAAAGAATCA+TGG | - | chr3.3:62166696-62166715 | MS.gene008020:CDS | 40.0% | |
| GTCAGCATGAATCATTGCTA+GGG | + | chr3.3:62166660-62166679 | None:intergenic | 40.0% | |
| GTCTTATGAAGTTATGGGTC+AGG | - | chr3.3:62167180-62167199 | MS.gene008020:CDS | 40.0% | |
| TCAGCATGAATCATTGCTAG+GGG | + | chr3.3:62166659-62166678 | None:intergenic | 40.0% | |
| TGTCAGCATGAATCATTGCT+AGG | + | chr3.3:62166661-62166680 | None:intergenic | 40.0% | |
| ! | GCACAGAGAATCTTCCTTTT+CGG | - | chr3.3:62167212-62167231 | MS.gene008020:CDS | 40.0% |
| ! | TCCTTTTCGGTTTTTCTCGA+CGG | - | chr3.3:62167314-62167333 | MS.gene008020:CDS | 40.0% |
| ACCGTCGAGAAAAACCGAAA+AGG | + | chr3.3:62167318-62167337 | None:intergenic | 45.0% | |
| CTAAGGTAACACGAATGCTC+TGG | + | chr3.3:62167085-62167104 | None:intergenic | 45.0% | |
| GAAAAACCTGAGGAAAGGGT+TGG | - | chr3.3:62166965-62166984 | MS.gene008020:CDS | 45.0% | |
| TTACAACCAACCCTTTCCTC+AGG | + | chr3.3:62166974-62166993 | None:intergenic | 45.0% | |
| ! | CGTCAAAAAGAGATGGTGGT+TGG | - | chr3.3:62167268-62167287 | MS.gene008020:CDS | 45.0% |
| ! | TCTGTTGTTGGCCTGTTGTT+AGG | + | chr3.3:62166911-62166930 | None:intergenic | 45.0% |
| !! | GAAAGGGTTGGTTGTAAAGC+TGG | - | chr3.3:62166977-62166996 | MS.gene008020:CDS | 45.0% |
| !! | TCACTGATTCATGCTGAGAG+TGG | - | chr3.3:62166617-62166636 | MS.gene008020:CDS | 45.0% |
| GAAGTTATGGGTCAGGGAGT+TGG | - | chr3.3:62167187-62167206 | MS.gene008020:CDS | 50.0% | |
| ! | ACCTGTGGACTGTCTGTTGT+TGG | + | chr3.3:62166923-62166942 | None:intergenic | 50.0% |
| GCCAACAACAGACAGTCCAC+AGG | - | chr3.3:62166919-62166938 | MS.gene008020:CDS | 55.0% | |
| GTTATGGGTCAGGGAGTTGG+AGG | - | chr3.3:62167190-62167209 | MS.gene008020:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.3 | gene | 62166563 | 62167345 | 62166563 | ID=MS.gene008020 |
| chr3.3 | mRNA | 62166563 | 62167345 | 62166563 | ID=MS.gene008020.t1;Parent=MS.gene008020 |
| chr3.3 | exon | 62166563 | 62167345 | 62166563 | ID=MS.gene008020.t1.exon1;Parent=MS.gene008020.t1 |
| chr3.3 | CDS | 62166563 | 62167345 | 62166563 | ID=cds.MS.gene008020.t1;Parent=MS.gene008020.t1 |
| Gene Sequence |
| Protein sequence |
