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.gene53122.t1 | XP_024639118.1 | 91.5 | 282 | 24 | 0 | 1 | 282 | 1 | 282 | 3.20E-149 | 537.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene53122.t1 | Q9FMS6 | 56.2 | 274 | 114 | 3 | 10 | 280 | 7 | 277 | 7.5e-83 | 308.5 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene53122.t1 | A0A396HQ65 | 91.5 | 282 | 24 | 0 | 1 | 282 | 1 | 282 | 2.3e-149 | 537.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI:
| Gene1 | Gene2 | Type |
|---|---|---|
| MS.gene007154 | MS.gene53122 | PPI |
| MS.gene025629 | MS.gene53122 | PPI |
| MS.gene41100 | MS.gene53122 | PPI |
| MS.gene065707 | MS.gene53122 | PPI |
| MS.gene41101 | MS.gene53122 | PPI |
| MS.gene000609 | MS.gene53122 | PPI |
| MS.gene065708 | MS.gene53122 | PPI |
| MS.gene053225 | MS.gene53122 | PPI |
| MS.gene41097 | MS.gene53122 | PPI |
| MS.gene21541 | MS.gene53122 | PPI |
| MS.gene034250 | MS.gene53122 | PPI |
| MS.gene034816 | MS.gene53122 | PPI |
| MS.gene72977 | MS.gene53122 | PPI |
| MS.gene025628 | MS.gene53122 | PPI |
| MS.gene065709 | MS.gene53122 | PPI |
| MS.gene72978 | MS.gene53122 | PPI |
| MS.gene034815 | MS.gene53122 | PPI |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene53122.t1 | AT5G22250 | 56.204 | 274 | 114 | 3 | 10 | 280 | 7 | 277 | 1.23e-105 | 308 |
| MS.gene53122.t1 | AT3G44260 | 55.390 | 269 | 111 | 5 | 15 | 280 | 17 | 279 | 2.72e-98 | 290 |
| MS.gene53122.t1 | AT5G10960 | 46.182 | 275 | 139 | 6 | 7 | 280 | 1 | 267 | 1.50e-79 | 242 |
| MS.gene53122.t1 | AT2G32070 | 48.315 | 267 | 129 | 6 | 15 | 280 | 10 | 268 | 4.13e-79 | 241 |
| MS.gene53122.t1 | AT1G80780 | 45.865 | 266 | 136 | 5 | 15 | 280 | 10 | 267 | 6.29e-74 | 228 |
| MS.gene53122.t1 | AT1G80780 | 45.865 | 266 | 136 | 5 | 15 | 280 | 10 | 267 | 6.29e-74 | 228 |
| MS.gene53122.t1 | AT1G80780 | 45.865 | 266 | 136 | 5 | 15 | 280 | 10 | 267 | 7.85e-74 | 228 |
| MS.gene53122.t1 | AT1G15920 | 45.324 | 278 | 142 | 6 | 9 | 282 | 8 | 279 | 4.48e-71 | 221 |
| MS.gene53122.t1 | AT1G15920 | 45.324 | 278 | 142 | 6 | 9 | 282 | 8 | 279 | 4.48e-71 | 221 |
| MS.gene53122.t1 | AT1G61470 | 38.618 | 246 | 126 | 8 | 19 | 259 | 4 | 229 | 5.46e-41 | 143 |
| MS.gene53122.t1 | AT1G06450 | 34.672 | 274 | 152 | 11 | 10 | 278 | 3 | 254 | 6.98e-38 | 137 |
| MS.gene53122.t1 | AT1G27820 | 36.220 | 254 | 135 | 9 | 13 | 259 | 2 | 235 | 9.74e-35 | 127 |
| MS.gene53122.t1 | AT3G44240 | 35.622 | 233 | 129 | 8 | 31 | 260 | 3 | 217 | 1.50e-33 | 122 |
| MS.gene53122.t1 | AT1G27890 | 37.247 | 247 | 130 | 9 | 19 | 259 | 3 | 230 | 1.82e-33 | 124 |
Find 53 sgRNAs with CRISPR-Local
Find 61 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTCATGGCGCTTATGATTT+TGG | 0.117389 | 5.4:-32262114 | MS.gene53122:CDS |
| AAATACGCTGGAGTAGTATT+TGG | 0.224745 | 5.4:-32261817 | MS.gene53122:CDS |
| AAGAAATCTGCCTGCTAGTT+TGG | 0.277773 | 5.4:-32262067 | MS.gene53122:CDS |
| TGAATATGGTGAATATTCTT+TGG | 0.278766 | 5.4:-32262514 | MS.gene53122:CDS |
| CGTGATGTTCTTCCTGAATA+TGG | 0.278966 | 5.4:-32262528 | MS.gene53122:CDS |
| CATTGTATGGTGGTCTTGAT+AGG | 0.290366 | 5.4:-32261966 | MS.gene53122:CDS |
| CAAACTTCTCTGACAATGAT+TGG | 0.307379 | 5.4:+32262585 | None:intergenic |
| CTTGGACTCACTTTAATAGA+TGG | 0.314324 | 5.4:-32262366 | MS.gene53122:CDS |
| CAATCATTGTCAGAGAAGTT+TGG | 0.315172 | 5.4:-32262584 | MS.gene53122:CDS |
| AGTTTAAGATCATCAACTTT+TGG | 0.330889 | 5.4:+32262396 | None:intergenic |
| AGCTGGCGATGGTCGACTTT+TGG | 0.363133 | 5.4:+32262453 | None:intergenic |
| AATCATTGTCAGAGAAGTTT+GGG | 0.392755 | 5.4:-32262583 | MS.gene53122:CDS |
| CGATTATCGGTGTCAAAATC+AGG | 0.397384 | 5.4:+32262330 | None:intergenic |
| ACACCGATAATCGCTACATT+TGG | 0.399135 | 5.4:-32262320 | MS.gene53122:CDS |
| CTCAATGTGGATCGGGTTGT+TGG | 0.408633 | 5.4:-32261931 | MS.gene53122:CDS |
| TTGCCAAATGTAGCGATTAT+CGG | 0.410093 | 5.4:+32262317 | None:intergenic |
| AAAGAATATTCACCATATTC+AGG | 0.416250 | 5.4:+32262516 | None:intergenic |
| TCGATAGACACTGAATTTCC+TGG | 0.427087 | 5.4:-32262489 | MS.gene53122:CDS |
| AACTAGCAGGCAGATTTCTT+CGG | 0.455124 | 5.4:+32262070 | None:intergenic |
| TGTCAACAAGCTGTCGGATC+CGG | 0.457649 | 5.4:+32261894 | None:intergenic |
| CGCTACTGCAATGCATTGTA+TGG | 0.477422 | 5.4:-32261979 | MS.gene53122:CDS |
| ATGGCAGACGTTTCATAAGT+TGG | 0.479969 | 5.4:-32261872 | MS.gene53122:CDS |
| GCTGAACTAATGTTGACGTC+TGG | 0.481099 | 5.4:-32262171 | MS.gene53122:CDS |
| TTGTCGACGAAGCAAATCAA+TGG | 0.516920 | 5.4:+32262245 | None:intergenic |
| AAGTACACTCAATGTGGATC+GGG | 0.524067 | 5.4:-32261938 | MS.gene53122:CDS |
| ATTGTATGGTGGTCTTGATA+GGG | 0.539487 | 5.4:-32261965 | MS.gene53122:CDS |
| TTCAATCGTTGTGTCTCTCA+AGG | 0.540052 | 5.4:-32262213 | MS.gene53122:CDS |
| GTTGGAAGGTCTCATCAATC+CGG | 0.540408 | 5.4:-32261913 | MS.gene53122:CDS |
| ATGTGGATCGGGTTGTTGGA+AGG | 0.540595 | 5.4:-32261927 | MS.gene53122:CDS |
| TATACAAGAAATCAATGACT+TGG | 0.540716 | 5.4:-32262143 | MS.gene53122:CDS |
| GATCTTAAACTCATCCAACT+TGG | 0.545194 | 5.4:-32262384 | MS.gene53122:CDS |
| CAAGTACACTCAATGTGGAT+CGG | 0.548190 | 5.4:-32261939 | MS.gene53122:CDS |
| CAATGGAATCCTTGTTGTGA+GGG | 0.555858 | 5.4:+32262262 | None:intergenic |
| CTATTAAAGTGAGTCCAAGT+TGG | 0.558411 | 5.4:+32262370 | None:intergenic |
| TTTGGTGTATGGATAACTCC+AGG | 0.559457 | 5.4:+32262471 | None:intergenic |
| ATTGATTTGCTTCGTCGACA+AGG | 0.559543 | 5.4:-32262243 | MS.gene53122:CDS |
| GAAGAACATCACGAATGAGA+TGG | 0.565749 | 5.4:+32262538 | None:intergenic |
| AGTAATCAGAGGGTTGAAGC+TGG | 0.568313 | 5.4:+32262436 | None:intergenic |
| TCAACATTAGTTCAGCAAAA+CGG | 0.571611 | 5.4:+32262178 | None:intergenic |
| GATCCGACAGCTTGTTGACA+TGG | 0.577163 | 5.4:-32261891 | MS.gene53122:CDS |
| ATACAAGAAATCAATGACTT+GGG | 0.580458 | 5.4:-32262142 | MS.gene53122:CDS |
| CATACAATGCATTGCAGTAG+CGG | 0.583860 | 5.4:+32261980 | None:intergenic |
| TTGATTTGCTTCGTCGACAA+GGG | 0.585778 | 5.4:-32262242 | MS.gene53122:CDS |
| GACGTATCTGTAGTAATCAG+AGG | 0.593946 | 5.4:+32262425 | None:intergenic |
| TACTGCAATGCATTGTATGG+TGG | 0.597106 | 5.4:-32261976 | MS.gene53122:CDS |
| CAGAGGGTTGAAGCTGGCGA+TGG | 0.597618 | 5.4:+32262442 | None:intergenic |
| ACGTATCTGTAGTAATCAGA+GGG | 0.599199 | 5.4:+32262426 | None:intergenic |
| CTCACTTTAATAGATGGTTG+CGG | 0.607202 | 5.4:-32262360 | MS.gene53122:CDS |
| CTGCCATGTCAACAAGCTGT+CGG | 0.613501 | 5.4:+32261888 | None:intergenic |
| TCAATGGAATCCTTGTTGTG+AGG | 0.615657 | 5.4:+32262261 | None:intergenic |
| GGTTGCAAGTACACTCAATG+TGG | 0.669459 | 5.4:-32261944 | MS.gene53122:CDS |
| TGAGCGTGACCCTCACAACA+AGG | 0.672608 | 5.4:-32262271 | MS.gene53122:CDS |
| TATCGGTGTCAAAATCAGGA+AGG | 0.683593 | 5.4:+32262334 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AACATTTTGGAAATGTTATT+CGG | - | chr5.4:32262389-32262408 | MS.gene53122:CDS | 20.0% |
| ! | AAAGAATATTCACCATATTC+AGG | + | chr5.4:32261909-32261928 | None:intergenic | 25.0% |
| ! | ATACAAGAAATCAATGACTT+GGG | - | chr5.4:32262280-32262299 | MS.gene53122:CDS | 25.0% |
| ! | TATACAAGAAATCAATGACT+TGG | - | chr5.4:32262279-32262298 | MS.gene53122:CDS | 25.0% |
| ! | TGAATATGGTGAATATTCTT+TGG | - | chr5.4:32261908-32261927 | MS.gene53122:CDS | 25.0% |
| !!! | AGTTTAAGATCATCAACTTT+TGG | + | chr5.4:32262029-32262048 | None:intergenic | 25.0% |
| AATCATTGTCAGAGAAGTTT+GGG | - | chr5.4:32261839-32261858 | MS.gene53122:CDS | 30.0% | |
| AGAGAATTTGAAAAATACGC+TGG | - | chr5.4:32262593-32262612 | MS.gene53122:CDS | 30.0% | |
| TCAACATTAGTTCAGCAAAA+CGG | + | chr5.4:32262247-32262266 | None:intergenic | 30.0% | |
| ! | GGAAGAGTTTTTGAACATTT+TGG | - | chr5.4:32262376-32262395 | MS.gene53122:CDS | 30.0% |
| !! | TTTTGGAAATGTTATTCGGA+AGG | - | chr5.4:32262393-32262412 | MS.gene53122:CDS | 30.0% |
| AAAAACTCTTCCAAACTAGC+AGG | + | chr5.4:32262368-32262387 | None:intergenic | 35.0% | |
| AAATACGCTGGAGTAGTATT+TGG | - | chr5.4:32262605-32262624 | MS.gene53122:CDS | 35.0% | |
| ACGTATCTGTAGTAATCAGA+GGG | + | chr5.4:32261999-32262018 | None:intergenic | 35.0% | |
| CAAACTTCTCTGACAATGAT+TGG | + | chr5.4:32261840-32261859 | None:intergenic | 35.0% | |
| CAATCATTGTCAGAGAAGTT+TGG | - | chr5.4:32261838-32261857 | MS.gene53122:CDS | 35.0% | |
| CTATTAAAGTGAGTCCAAGT+TGG | + | chr5.4:32262055-32262074 | None:intergenic | 35.0% | |
| CTCACTTTAATAGATGGTTG+CGG | - | chr5.4:32262062-32262081 | MS.gene53122:CDS | 35.0% | |
| CTTGGACTCACTTTAATAGA+TGG | - | chr5.4:32262056-32262075 | MS.gene53122:CDS | 35.0% | |
| GATCTTAAACTCATCCAACT+TGG | - | chr5.4:32262038-32262057 | MS.gene53122:CDS | 35.0% | |
| TTGCCAAATGTAGCGATTAT+CGG | + | chr5.4:32262108-32262127 | None:intergenic | 35.0% | |
| ! | ATTGTATGGTGGTCTTGATA+GGG | - | chr5.4:32262457-32262476 | MS.gene53122:CDS | 35.0% |
| ! | CGCTTATGATTTTGGATACT+TGG | - | chr5.4:32262316-32262335 | MS.gene53122:CDS | 35.0% |
| ! | TTTCATGGCGCTTATGATTT+TGG | - | chr5.4:32262308-32262327 | MS.gene53122:CDS | 35.0% |
| AACTAGCAGGCAGATTTCTT+CGG | + | chr5.4:32262355-32262374 | None:intergenic | 40.0% | |
| AAGAAATCTGCCTGCTAGTT+TGG | - | chr5.4:32262355-32262374 | MS.gene53122:CDS | 40.0% | |
| AAGTACACTCAATGTGGATC+GGG | - | chr5.4:32262484-32262503 | MS.gene53122:CDS | 40.0% | |
| ACACCGATAATCGCTACATT+TGG | - | chr5.4:32262102-32262121 | MS.gene53122:CDS | 40.0% | |
| ATGGCAGACGTTTCATAAGT+TGG | - | chr5.4:32262550-32262569 | MS.gene53122:CDS | 40.0% | |
| CAAGTACACTCAATGTGGAT+CGG | - | chr5.4:32262483-32262502 | MS.gene53122:CDS | 40.0% | |
| CATACAATGCATTGCAGTAG+CGG | + | chr5.4:32262445-32262464 | None:intergenic | 40.0% | |
| CGTGATGTTCTTCCTGAATA+TGG | - | chr5.4:32261894-32261913 | MS.gene53122:CDS | 40.0% | |
| GAAGAACATCACGAATGAGA+TGG | + | chr5.4:32261887-32261906 | None:intergenic | 40.0% | |
| GACGTATCTGTAGTAATCAG+AGG | + | chr5.4:32262000-32262019 | None:intergenic | 40.0% | |
| TACTGCAATGCATTGTATGG+TGG | - | chr5.4:32262446-32262465 | MS.gene53122:CDS | 40.0% | |
| TCGATAGACACTGAATTTCC+TGG | - | chr5.4:32261933-32261952 | MS.gene53122:CDS | 40.0% | |
| TTCAATCGTTGTGTCTCTCA+AGG | - | chr5.4:32262209-32262228 | MS.gene53122:CDS | 40.0% | |
| TTGTCGACGAAGCAAATCAA+TGG | + | chr5.4:32262180-32262199 | None:intergenic | 40.0% | |
| ! | CAATGGAATCCTTGTTGTGA+GGG | + | chr5.4:32262163-32262182 | None:intergenic | 40.0% |
| ! | CATTGTATGGTGGTCTTGAT+AGG | - | chr5.4:32262456-32262475 | MS.gene53122:CDS | 40.0% |
| ! | TCAATGGAATCCTTGTTGTG+AGG | + | chr5.4:32262164-32262183 | None:intergenic | 40.0% |
| ! | TTTGGTGTATGGATAACTCC+AGG | + | chr5.4:32261954-32261973 | None:intergenic | 40.0% |
| !! | ATGACTTGGGTGACTTTTCA+TGG | - | chr5.4:32262293-32262312 | MS.gene53122:CDS | 40.0% |
| !! | ATTGATTTGCTTCGTCGACA+AGG | - | chr5.4:32262179-32262198 | MS.gene53122:CDS | 40.0% |
| !! | CGATTATCGGTGTCAAAATC+AGG | + | chr5.4:32262095-32262114 | None:intergenic | 40.0% |
| !! | TATCGGTGTCAAAATCAGGA+AGG | + | chr5.4:32262091-32262110 | None:intergenic | 40.0% |
| !! | TTGATTTGCTTCGTCGACAA+GGG | - | chr5.4:32262180-32262199 | MS.gene53122:CDS | 40.0% |
| AGTAATCAGAGGGTTGAAGC+TGG | + | chr5.4:32261989-32262008 | None:intergenic | 45.0% | |
| CGCTACTGCAATGCATTGTA+TGG | - | chr5.4:32262443-32262462 | MS.gene53122:CDS | 45.0% | |
| GCTGAACTAATGTTGACGTC+TGG | - | chr5.4:32262251-32262270 | MS.gene53122:CDS | 45.0% | |
| GGTTGCAAGTACACTCAATG+TGG | - | chr5.4:32262478-32262497 | MS.gene53122:CDS | 45.0% | |
| GTTGGAAGGTCTCATCAATC+CGG | - | chr5.4:32262509-32262528 | MS.gene53122:CDS | 45.0% | |
| !! | GATGGTCGACTTTTGGTGTA+TGG | + | chr5.4:32261965-32261984 | None:intergenic | 45.0% |
| CTGCCATGTCAACAAGCTGT+CGG | + | chr5.4:32262537-32262556 | None:intergenic | 50.0% | |
| TGTCAACAAGCTGTCGGATC+CGG | + | chr5.4:32262531-32262550 | None:intergenic | 50.0% | |
| ! | ATGTGGATCGGGTTGTTGGA+AGG | - | chr5.4:32262495-32262514 | MS.gene53122:CDS | 50.0% |
| ! | CTCAATGTGGATCGGGTTGT+TGG | - | chr5.4:32262491-32262510 | MS.gene53122:CDS | 50.0% |
| !! | GATCCGACAGCTTGTTGACA+TGG | - | chr5.4:32262531-32262550 | MS.gene53122:CDS | 50.0% |
| TGAGCGTGACCCTCACAACA+AGG | - | chr5.4:32262151-32262170 | MS.gene53122:CDS | 55.0% | |
| !! | AGCTGGCGATGGTCGACTTT+TGG | + | chr5.4:32261972-32261991 | None:intergenic | 55.0% |
| CAGAGGGTTGAAGCTGGCGA+TGG | + | chr5.4:32261983-32262002 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.4 | gene | 32261798 | 32262646 | 32261798 | ID=MS.gene53122 |
| chr5.4 | mRNA | 32261798 | 32262646 | 32261798 | ID=MS.gene53122.t1;Parent=MS.gene53122 |
| chr5.4 | exon | 32261798 | 32262646 | 32261798 | ID=MS.gene53122.t1.exon1;Parent=MS.gene53122.t1 |
| chr5.4 | CDS | 32261798 | 32262646 | 32261798 | ID=cds.MS.gene53122.t1;Parent=MS.gene53122.t1 |
| Gene Sequence |
| Protein sequence |
