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.gene88174.t1 | XP_003606099.1 | 94.9 | 176 | 9 | 0 | 1 | 176 | 1 | 176 | 5.20E-89 | 337 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene88174.t1 | Q3EAL1 | 44.6 | 101 | 53 | 2 | 77 | 176 | 43 | 141 | 5.0e-16 | 85.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene88174.t1 | G7JHA0 | 94.9 | 176 | 9 | 0 | 1 | 176 | 1 | 176 | 3.7e-89 | 337.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene88174.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.gene88174.t1 | MTR_4g052040 | 94.886 | 176 | 9 | 0 | 1 | 176 | 1 | 176 | 1.09e-114 | 323 |
| MS.gene88174.t1 | MTR_4g052060 | 69.613 | 181 | 43 | 5 | 1 | 176 | 1 | 174 | 4.21e-79 | 233 |
| MS.gene88174.t1 | MTR_5g079710 | 46.988 | 166 | 76 | 5 | 4 | 168 | 6 | 160 | 1.79e-41 | 140 |
| MS.gene88174.t1 | MTR_7g105790 | 35.294 | 187 | 103 | 4 | 1 | 176 | 1 | 180 | 2.51e-26 | 99.8 |
| MS.gene88174.t1 | MTR_0907s0020 | 62.319 | 69 | 26 | 0 | 101 | 169 | 104 | 172 | 3.76e-25 | 96.3 |
| MS.gene88174.t1 | MTR_5g075210 | 53.030 | 66 | 31 | 0 | 97 | 162 | 278 | 343 | 4.68e-15 | 72.0 |
| MS.gene88174.t1 | MTR_8g103520 | 44.156 | 77 | 43 | 0 | 92 | 168 | 217 | 293 | 5.64e-15 | 71.2 |
| MS.gene88174.t1 | MTR_7g072875 | 45.070 | 71 | 39 | 0 | 90 | 160 | 210 | 280 | 5.49e-14 | 68.6 |
| MS.gene88174.t1 | MTR_4g028930 | 49.180 | 61 | 31 | 0 | 100 | 160 | 315 | 375 | 6.92e-14 | 68.9 |
| MS.gene88174.t1 | MTR_7g072630 | 45.070 | 71 | 39 | 0 | 90 | 160 | 272 | 342 | 7.60e-14 | 68.6 |
| MS.gene88174.t1 | MTR_2g018030 | 40.000 | 65 | 39 | 0 | 96 | 160 | 274 | 338 | 1.52e-11 | 62.0 |
| MS.gene88174.t1 | MTR_3g111780 | 46.835 | 79 | 42 | 0 | 86 | 164 | 185 | 263 | 2.79e-11 | 60.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene88174.t1 | AT3G52525 | 63.333 | 60 | 22 | 0 | 100 | 159 | 67 | 126 | 4.69e-22 | 87.4 |
| MS.gene88174.t1 | AT2G36026 | 57.377 | 61 | 26 | 0 | 104 | 164 | 91 | 151 | 1.16e-18 | 79.3 |
| MS.gene88174.t1 | AT5G19650 | 50.000 | 66 | 33 | 0 | 99 | 164 | 154 | 219 | 1.97e-15 | 71.6 |
| MS.gene88174.t1 | AT5G22240 | 44.595 | 74 | 39 | 1 | 100 | 171 | 97 | 170 | 1.39e-14 | 68.9 |
| MS.gene88174.t1 | AT1G06920 | 39.759 | 83 | 50 | 0 | 82 | 164 | 226 | 308 | 4.55e-14 | 68.9 |
| MS.gene88174.t1 | AT2G18500 | 46.875 | 64 | 34 | 0 | 97 | 160 | 224 | 287 | 9.38e-14 | 68.2 |
| MS.gene88174.t1 | AT5G58360 | 44.118 | 68 | 38 | 0 | 93 | 160 | 218 | 285 | 1.02e-13 | 67.8 |
| MS.gene88174.t1 | AT2G30400 | 46.875 | 64 | 34 | 0 | 97 | 160 | 250 | 313 | 4.23e-13 | 66.2 |
| MS.gene88174.t1 | AT5G01840 | 51.724 | 58 | 28 | 0 | 103 | 160 | 202 | 259 | 9.07e-13 | 65.1 |
| MS.gene88174.t1 | AT4G18830 | 46.552 | 58 | 31 | 0 | 102 | 159 | 285 | 342 | 3.13e-11 | 61.2 |
Find 33 sgRNAs with CRISPR-Local
Find 39 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTTCATTAGTGGGCTTTGTT+TGG | 0.342399 | 4.4:+50487511 | None:intergenic |
| CTCAATTCTAGTTGTTATCA+TGG | 0.388006 | 4.4:-50487359 | MS.gene88174:CDS |
| GCAGTGCTACCAACCTTGTC+CGG | 0.389497 | 4.4:+50487293 | None:intergenic |
| CATATGTCATGAAGCTTTCC+CGG | 0.390173 | 4.4:-50487312 | MS.gene88174:CDS |
| TTTCTCCACCACGACGTTCT+CGG | 0.395337 | 4.4:-50487564 | MS.gene88174:CDS |
| TTCATTAGTGGGCTTTGTTT+GGG | 0.402789 | 4.4:+50487512 | None:intergenic |
| GATCACAAACCCAAGTAGTA+AGG | 0.415466 | 4.4:-50487651 | MS.gene88174:CDS |
| GGTTCTTCAACTACAACTTC+AGG | 0.425708 | 4.4:-50487629 | MS.gene88174:CDS |
| ACAACTTCAGGTGAAGGATA+TGG | 0.425803 | 4.4:-50487617 | MS.gene88174:CDS |
| GTTGAAGAACCCTTACTACT+TGG | 0.435315 | 4.4:+50487641 | None:intergenic |
| ACCGCCACCGTGTTCATTAG+TGG | 0.446501 | 4.4:+50487500 | None:intergenic |
| CTATCGTCGATGCTACAAAC+GGG | 0.480286 | 4.4:+50487593 | None:intergenic |
| CGAGCCAAAGCCAACTCAAA+AGG | 0.488426 | 4.4:-50487696 | MS.gene88174:CDS |
| TTCACATCAAATGGAAGTTG+TGG | 0.499142 | 4.4:-50487749 | MS.gene88174:CDS |
| ATGATCTTCAAGATCTTCTC+CGG | 0.511298 | 4.4:-50487394 | MS.gene88174:CDS |
| ACTATCGTCGATGCTACAAA+CGG | 0.524855 | 4.4:+50487592 | None:intergenic |
| CCGCCACCGTGTTCATTAGT+GGG | 0.525048 | 4.4:+50487501 | None:intergenic |
| TTGAAGAACCCTTACTACTT+GGG | 0.531511 | 4.4:+50487642 | None:intergenic |
| TCATGAAGCTTTCCCGGACA+AGG | 0.542749 | 4.4:-50487306 | MS.gene88174:CDS |
| CAGTGCTACCAACCTTGTCC+GGG | 0.561453 | 4.4:+50487294 | None:intergenic |
| GAACACGGTGGCGGTAGAGA+AGG | 0.563314 | 4.4:-50487492 | MS.gene88174:CDS |
| GAATGTTTGAAATCATGATA+CGG | 0.577874 | 4.4:+50487458 | None:intergenic |
| TCAACTACAACTTCAGGTGA+AGG | 0.579124 | 4.4:-50487623 | MS.gene88174:CDS |
| GAAGCTTTCCCGGACAAGGT+TGG | 0.580453 | 4.4:-50487302 | MS.gene88174:CDS |
| ATCACAAACCCAAGTAGTAA+GGG | 0.581401 | 4.4:-50487650 | MS.gene88174:CDS |
| AATTGAGATGAAGAAAACAC+CGG | 0.628303 | 4.4:+50487375 | None:intergenic |
| CCCACTAATGAACACGGTGG+CGG | 0.643057 | 4.4:-50487501 | MS.gene88174:CDS |
| AACATCCGAGAACGTCGTGG+TGG | 0.663722 | 4.4:+50487559 | None:intergenic |
| GGCGGTAGAGAAGGACTCTG+AGG | 0.686815 | 4.4:-50487483 | MS.gene88174:CDS |
| GCTAACATCCGAGAACGTCG+TGG | 0.690883 | 4.4:+50487556 | None:intergenic |
| ACAAAGCCCACTAATGAACA+CGG | 0.697529 | 4.4:-50487507 | MS.gene88174:CDS |
| TATCGTCGATGCTACAAACG+GGG | 0.740115 | 4.4:+50487594 | None:intergenic |
| AAGCCCACTAATGAACACGG+TGG | 0.804493 | 4.4:-50487504 | MS.gene88174:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CTTTTGATTAATAGAAAATT+TGG | + | chr4.4:50487389-50487408 | None:intergenic | 15.0% |
| !! | ATGTGAAAAATGTTCTTATA+AGG | + | chr4.4:50487297-50487316 | None:intergenic | 20.0% |
| !! | AGAACATTTTTCACATCAAA+TGG | - | chr4.4:50487301-50487320 | MS.gene88174:CDS | 25.0% |
| !! | GAATGTTTGAAATCATGATA+CGG | + | chr4.4:50487604-50487623 | None:intergenic | 25.0% |
| !! | TCTTATAAGGTTTTTCTTGT+TGG | + | chr4.4:50487284-50487303 | None:intergenic | 25.0% |
| AATTGAGATGAAGAAAACAC+CGG | + | chr4.4:50487687-50487706 | None:intergenic | 30.0% | |
| ! | CTCAATTCTAGTTGTTATCA+TGG | - | chr4.4:50487700-50487719 | MS.gene88174:CDS | 30.0% |
| ATCACAAACCCAAGTAGTAA+GGG | - | chr4.4:50487409-50487428 | MS.gene88174:CDS | 35.0% | |
| ATGATCTTCAAGATCTTCTC+CGG | - | chr4.4:50487665-50487684 | MS.gene88174:CDS | 35.0% | |
| TTCACATCAAATGGAAGTTG+TGG | - | chr4.4:50487310-50487329 | MS.gene88174:CDS | 35.0% | |
| TTGAAGAACCCTTACTACTT+GGG | + | chr4.4:50487420-50487439 | None:intergenic | 35.0% | |
| !! | GAAAATTTGGCCTTTTGAGT+TGG | + | chr4.4:50487376-50487395 | None:intergenic | 35.0% |
| !! | TTCATTAGTGGGCTTTGTTT+GGG | + | chr4.4:50487550-50487569 | None:intergenic | 35.0% |
| ACAAAGCCCACTAATGAACA+CGG | - | chr4.4:50487552-50487571 | MS.gene88174:CDS | 40.0% | |
| ACAACTTCAGGTGAAGGATA+TGG | - | chr4.4:50487442-50487461 | MS.gene88174:CDS | 40.0% | |
| ACTATCGTCGATGCTACAAA+CGG | + | chr4.4:50487470-50487489 | None:intergenic | 40.0% | |
| CATATGTCATGAAGCTTTCC+CGG | - | chr4.4:50487747-50487766 | MS.gene88174:CDS | 40.0% | |
| GATCACAAACCCAAGTAGTA+AGG | - | chr4.4:50487408-50487427 | MS.gene88174:CDS | 40.0% | |
| GGTTCTTCAACTACAACTTC+AGG | - | chr4.4:50487430-50487449 | MS.gene88174:CDS | 40.0% | |
| GTTGAAGAACCCTTACTACT+TGG | + | chr4.4:50487421-50487440 | None:intergenic | 40.0% | |
| TCAACTACAACTTCAGGTGA+AGG | - | chr4.4:50487436-50487455 | MS.gene88174:CDS | 40.0% | |
| !! | GTTCATTAGTGGGCTTTGTT+TGG | + | chr4.4:50487551-50487570 | None:intergenic | 40.0% |
| CTATCGTCGATGCTACAAAC+GGG | + | chr4.4:50487469-50487488 | None:intergenic | 45.0% | |
| TATCGTCGATGCTACAAACG+GGG | + | chr4.4:50487468-50487487 | None:intergenic | 45.0% | |
| !!! | TTGGCCTTTTGAGTTGGCTT+TGG | + | chr4.4:50487370-50487389 | None:intergenic | 45.0% |
| AAGCCCACTAATGAACACGG+TGG | - | chr4.4:50487555-50487574 | MS.gene88174:CDS | 50.0% | |
| CGAGCCAAAGCCAACTCAAA+AGG | - | chr4.4:50487363-50487382 | MS.gene88174:CDS | 50.0% | |
| TCATGAAGCTTTCCCGGACA+AGG | - | chr4.4:50487753-50487772 | MS.gene88174:CDS | 50.0% | |
| TTTCTCCACCACGACGTTCT+CGG | - | chr4.4:50487495-50487514 | MS.gene88174:CDS | 50.0% | |
| AACATCCGAGAACGTCGTGG+TGG | + | chr4.4:50487503-50487522 | None:intergenic | 55.0% | |
| ACCGCCACCGTGTTCATTAG+TGG | + | chr4.4:50487562-50487581 | None:intergenic | 55.0% | |
| CAGTGCTACCAACCTTGTCC+GGG | + | chr4.4:50487768-50487787 | None:intergenic | 55.0% | |
| CCCACTAATGAACACGGTGG+CGG | - | chr4.4:50487558-50487577 | MS.gene88174:CDS | 55.0% | |
| CCGCCACCGTGTTCATTAGT+GGG | + | chr4.4:50487561-50487580 | None:intergenic | 55.0% | |
| GAAGCTTTCCCGGACAAGGT+TGG | - | chr4.4:50487757-50487776 | MS.gene88174:CDS | 55.0% | |
| GCAGTGCTACCAACCTTGTC+CGG | + | chr4.4:50487769-50487788 | None:intergenic | 55.0% | |
| GCTAACATCCGAGAACGTCG+TGG | + | chr4.4:50487506-50487525 | None:intergenic | 55.0% | |
| GGCGGTAGAGAAGGACTCTG+AGG | - | chr4.4:50487576-50487595 | MS.gene88174:CDS | 60.0% | |
| ! | GAACACGGTGGCGGTAGAGA+AGG | - | chr4.4:50487567-50487586 | MS.gene88174:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 50487274 | 50487807 | 50487274 | ID=MS.gene88174 |
| chr4.4 | mRNA | 50487274 | 50487807 | 50487274 | ID=MS.gene88174.t1;Parent=MS.gene88174 |
| chr4.4 | exon | 50487274 | 50487807 | 50487274 | ID=MS.gene88174.t1.exon1;Parent=MS.gene88174.t1 |
| chr4.4 | CDS | 50487274 | 50487807 | 50487274 | ID=cds.MS.gene88174.t1;Parent=MS.gene88174.t1 |
| Gene Sequence |
| Protein sequence |
