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.gene53121.t1 | XP_024639118.1 | 90.8 | 282 | 26 | 0 | 1 | 282 | 1 | 282 | 1.00E-147 | 532.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene53121.t1 | Q9FMS6 | 56.9 | 274 | 112 | 3 | 10 | 280 | 7 | 277 | 4.0e-84 | 312.8 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene53121.t1 | A0A396HQ65 | 90.8 | 282 | 26 | 0 | 1 | 282 | 1 | 282 | 7.4e-148 | 532.7 |
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.gene53121 | MS.gene007154 | PPI |
| MS.gene053225 | MS.gene53121 | PPI |
| MS.gene034250 | MS.gene53121 | PPI |
| MS.gene53121 | MS.gene41101 | PPI |
| MS.gene53121 | MS.gene065708 | PPI |
| MS.gene72978 | MS.gene53121 | PPI |
| MS.gene034815 | MS.gene53121 | PPI |
| MS.gene025629 | MS.gene53121 | PPI |
| MS.gene53121 | MS.gene065709 | PPI |
| MS.gene53121 | MS.gene72977 | PPI |
| MS.gene53121 | MS.gene065707 | PPI |
| MS.gene53121 | MS.gene025628 | PPI |
| MS.gene53121 | MS.gene41100 | PPI |
| MS.gene53121 | MS.gene000609 | PPI |
| MS.gene53121 | MS.gene034816 | PPI |
| MS.gene53121 | MS.gene21541 | PPI |
| MS.gene53121 | MS.gene41097 | 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.gene53121.t1 | AT5G22250 | 56.934 | 274 | 112 | 3 | 10 | 280 | 7 | 277 | 2.19e-107 | 313 |
| MS.gene53121.t1 | AT3G44260 | 56.134 | 269 | 109 | 5 | 15 | 280 | 17 | 279 | 3.90e-100 | 295 |
| MS.gene53121.t1 | AT5G10960 | 46.182 | 275 | 139 | 6 | 7 | 280 | 1 | 267 | 6.14e-80 | 243 |
| MS.gene53121.t1 | AT2G32070 | 48.315 | 267 | 129 | 6 | 15 | 280 | 10 | 268 | 1.41e-79 | 242 |
| MS.gene53121.t1 | AT1G80780 | 45.865 | 266 | 136 | 5 | 15 | 280 | 10 | 267 | 1.86e-74 | 229 |
| MS.gene53121.t1 | AT1G80780 | 45.865 | 266 | 136 | 5 | 15 | 280 | 10 | 267 | 1.86e-74 | 229 |
| MS.gene53121.t1 | AT1G80780 | 45.865 | 266 | 136 | 5 | 15 | 280 | 10 | 267 | 2.74e-74 | 229 |
| MS.gene53121.t1 | AT1G15920 | 45.324 | 278 | 142 | 6 | 9 | 282 | 8 | 279 | 1.96e-71 | 221 |
| MS.gene53121.t1 | AT1G15920 | 45.324 | 278 | 142 | 6 | 9 | 282 | 8 | 279 | 1.96e-71 | 221 |
| MS.gene53121.t1 | AT1G61470 | 39.024 | 246 | 125 | 8 | 19 | 259 | 4 | 229 | 5.35e-42 | 145 |
| MS.gene53121.t1 | AT1G06450 | 34.532 | 278 | 153 | 11 | 10 | 281 | 3 | 257 | 4.88e-38 | 137 |
| MS.gene53121.t1 | AT1G27820 | 36.614 | 254 | 134 | 9 | 13 | 259 | 2 | 235 | 1.70e-35 | 129 |
| MS.gene53121.t1 | AT1G27890 | 37.652 | 247 | 129 | 9 | 19 | 259 | 3 | 230 | 4.27e-34 | 125 |
| MS.gene53121.t1 | AT3G44240 | 35.622 | 233 | 129 | 8 | 31 | 260 | 3 | 217 | 1.00e-33 | 123 |
Find 53 sgRNAs with CRISPR-Local
Find 61 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTCATGGTGCTTATGATTT+TGG | 0.098194 | 5.4:-32258032 | MS.gene53121:CDS |
| AAATACGCTGGAGTAGTATT+TGG | 0.224745 | 5.4:-32257735 | MS.gene53121:CDS |
| AAGAAATCTGCCTGCTAGTT+TGG | 0.277773 | 5.4:-32257985 | MS.gene53121:CDS |
| TGAATATGGTGAATATTCTT+TGG | 0.278766 | 5.4:-32258432 | MS.gene53121:CDS |
| CGTGATGTTCTTCCTGAATA+TGG | 0.278966 | 5.4:-32258446 | MS.gene53121:CDS |
| CAAACTTCTCTGACAATGAT+TGG | 0.307379 | 5.4:+32258503 | None:intergenic |
| CTTGGACTCACTTTAATAGA+TGG | 0.314324 | 5.4:-32258284 | MS.gene53121:CDS |
| CAATCATTGTCAGAGAAGTT+TGG | 0.315172 | 5.4:-32258502 | MS.gene53121:CDS |
| AGCTGGCGATGGTCGACTTT+TGG | 0.363133 | 5.4:+32258371 | None:intergenic |
| AATCATTGTCAGAGAAGTTT+GGG | 0.392755 | 5.4:-32258501 | MS.gene53121:CDS |
| CGATTATCGGTGTCAAAATC+AGG | 0.397384 | 5.4:+32258248 | None:intergenic |
| AGTTTAAGATCATCAACATT+TGG | 0.398324 | 5.4:+32258314 | None:intergenic |
| ACACCGATAATCGCTACATT+TGG | 0.399135 | 5.4:-32258238 | MS.gene53121:CDS |
| TTGCCAAATGTAGCGATTAT+CGG | 0.410093 | 5.4:+32258235 | None:intergenic |
| AAAGAATATTCACCATATTC+AGG | 0.416250 | 5.4:+32258434 | None:intergenic |
| TCGATAGACACTGAATTTCC+TGG | 0.427087 | 5.4:-32258407 | MS.gene53121:CDS |
| CATTGTATGGTGGTCTTGAT+CGG | 0.438293 | 5.4:-32257884 | MS.gene53121:CDS |
| CTCAATGTGGATCGGGCTGT+TGG | 0.449645 | 5.4:-32257849 | MS.gene53121:CDS |
| AACTAGCAGGCAGATTTCTT+CGG | 0.455124 | 5.4:+32257988 | None:intergenic |
| TGTCAACAAGCTGTCGGATC+CGG | 0.457649 | 5.4:+32257812 | None:intergenic |
| TATTCAAGAAATCAATGACT+TGG | 0.469568 | 5.4:-32258061 | MS.gene53121:CDS |
| CGCTACTGCAATGCATTGTA+TGG | 0.477422 | 5.4:-32257897 | MS.gene53121:CDS |
| ATGGCAGACGTTTCATAAGT+TGG | 0.479969 | 5.4:-32257790 | MS.gene53121:CDS |
| GCTGAACTAATGTTGACGTC+TGG | 0.481099 | 5.4:-32258089 | MS.gene53121:CDS |
| ATTGTATGGTGGTCTTGATC+GGG | 0.514058 | 5.4:-32257883 | MS.gene53121:CDS |
| AAGTACACTCAATGTGGATC+GGG | 0.516852 | 5.4:-32257856 | MS.gene53121:CDS |
| ATGTGGATCGGGCTGTTGGA+AGG | 0.522206 | 5.4:-32257845 | MS.gene53121:CDS |
| CAATAGAATCCTTGTTGTGA+GGG | 0.537270 | 5.4:+32258180 | None:intergenic |
| GTTGGAAGGTCTCATCAATC+CGG | 0.537925 | 5.4:-32257831 | MS.gene53121:CDS |
| TTCAATCGTTGTGTCTCTCA+AGG | 0.540052 | 5.4:-32258131 | MS.gene53121:CDS |
| ATTCAAGAAATCAATGACTT+GGG | 0.542864 | 5.4:-32258060 | MS.gene53121:CDS |
| GATCTTAAACTCATCCAACT+TGG | 0.545194 | 5.4:-32258302 | MS.gene53121:CDS |
| CAAGTACACTCAATGTGGAT+CGG | 0.550934 | 5.4:-32257857 | MS.gene53121:CDS |
| CTATTAAAGTGAGTCCAAGT+TGG | 0.558411 | 5.4:+32258288 | None:intergenic |
| TTTGGTGTATGGATAACTCC+AGG | 0.559457 | 5.4:+32258389 | None:intergenic |
| TTCGGATCAATATCTTCACC+AGG | 0.564436 | 5.4:+32258006 | None:intergenic |
| GAAGAACATCACGAATGAGA+TGG | 0.565749 | 5.4:+32258456 | None:intergenic |
| AGTAATCAGAGGGTTGAAGC+TGG | 0.568313 | 5.4:+32258354 | None:intergenic |
| TCAACATTAGTTCAGCAAAA+CGG | 0.571611 | 5.4:+32258096 | None:intergenic |
| GATCCGACAGCTTGTTGACA+TGG | 0.577163 | 5.4:-32257809 | MS.gene53121:CDS |
| ATTGATTTACTTCGTCGACA+AGG | 0.582823 | 5.4:-32258161 | MS.gene53121:CDS |
| CATACAATGCATTGCAGTAG+CGG | 0.583860 | 5.4:+32257898 | None:intergenic |
| TTGATTTACTTCGTCGACAA+GGG | 0.585861 | 5.4:-32258160 | MS.gene53121:CDS |
| GACGTATCTGTAGTAATCAG+AGG | 0.593946 | 5.4:+32258343 | None:intergenic |
| TACTGCAATGCATTGTATGG+TGG | 0.597106 | 5.4:-32257894 | MS.gene53121:CDS |
| CAGAGGGTTGAAGCTGGCGA+TGG | 0.597618 | 5.4:+32258360 | None:intergenic |
| ACGTATCTGTAGTAATCAGA+GGG | 0.599199 | 5.4:+32258344 | None:intergenic |
| TCAATAGAATCCTTGTTGTG+AGG | 0.602182 | 5.4:+32258179 | None:intergenic |
| CTCACTTTAATAGATGGTTG+CGG | 0.607202 | 5.4:-32258278 | MS.gene53121:CDS |
| CTGCCATGTCAACAAGCTGT+CGG | 0.613501 | 5.4:+32257806 | None:intergenic |
| GGTTGCAAGTACACTCAATG+TGG | 0.665808 | 5.4:-32257862 | MS.gene53121:CDS |
| TGAGCGTGACCCTCACAACA+AGG | 0.672608 | 5.4:-32258189 | MS.gene53121:CDS |
| TATCGGTGTCAAAATCAGGA+AGG | 0.683593 | 5.4:+32258252 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AACATTTTGGAAATGTTATT+CGG | - | chr5.4:32258307-32258326 | MS.gene53121:CDS | 20.0% |
| ! | AAAGAATATTCACCATATTC+AGG | + | chr5.4:32257827-32257846 | None:intergenic | 25.0% |
| ! | AATGAATTTGAAAAATACGC+TGG | - | chr5.4:32258511-32258530 | MS.gene53121:CDS | 25.0% |
| ! | ATTCAAGAAATCAATGACTT+GGG | - | chr5.4:32258198-32258217 | MS.gene53121:CDS | 25.0% |
| ! | TATTCAAGAAATCAATGACT+TGG | - | chr5.4:32258197-32258216 | MS.gene53121:CDS | 25.0% |
| ! | TGAATATGGTGAATATTCTT+TGG | - | chr5.4:32257826-32257845 | MS.gene53121:CDS | 25.0% |
| !! | AGTTTAAGATCATCAACATT+TGG | + | chr5.4:32257947-32257966 | None:intergenic | 25.0% |
| AATCATTGTCAGAGAAGTTT+GGG | - | chr5.4:32257757-32257776 | MS.gene53121:CDS | 30.0% | |
| TCAACATTAGTTCAGCAAAA+CGG | + | chr5.4:32258165-32258184 | None:intergenic | 30.0% | |
| ! | GGAAGAGTTTTTGAACATTT+TGG | - | chr5.4:32258294-32258313 | MS.gene53121:CDS | 30.0% |
| ! | TTTCATGGTGCTTATGATTT+TGG | - | chr5.4:32258226-32258245 | MS.gene53121:CDS | 30.0% |
| !! | TTTTGGAAATGTTATTCGGA+AGG | - | chr5.4:32258311-32258330 | MS.gene53121:CDS | 30.0% |
| AAAAACTCTTCCAAACTAGC+AGG | + | chr5.4:32258286-32258305 | None:intergenic | 35.0% | |
| AAATACGCTGGAGTAGTATT+TGG | - | chr5.4:32258523-32258542 | MS.gene53121:CDS | 35.0% | |
| ACGTATCTGTAGTAATCAGA+GGG | + | chr5.4:32257917-32257936 | None:intergenic | 35.0% | |
| CAAACTTCTCTGACAATGAT+TGG | + | chr5.4:32257758-32257777 | None:intergenic | 35.0% | |
| CAATCATTGTCAGAGAAGTT+TGG | - | chr5.4:32257756-32257775 | MS.gene53121:CDS | 35.0% | |
| CTATTAAAGTGAGTCCAAGT+TGG | + | chr5.4:32257973-32257992 | None:intergenic | 35.0% | |
| CTCACTTTAATAGATGGTTG+CGG | - | chr5.4:32257980-32257999 | MS.gene53121:CDS | 35.0% | |
| CTTGGACTCACTTTAATAGA+TGG | - | chr5.4:32257974-32257993 | MS.gene53121:CDS | 35.0% | |
| GATCTTAAACTCATCCAACT+TGG | - | chr5.4:32257956-32257975 | MS.gene53121:CDS | 35.0% | |
| TTGATTTACTTCGTCGACAA+GGG | - | chr5.4:32258098-32258117 | MS.gene53121:CDS | 35.0% | |
| TTGCCAAATGTAGCGATTAT+CGG | + | chr5.4:32258026-32258045 | None:intergenic | 35.0% | |
| ! | ATTGATTTACTTCGTCGACA+AGG | - | chr5.4:32258097-32258116 | MS.gene53121:CDS | 35.0% |
| ! | CAATAGAATCCTTGTTGTGA+GGG | + | chr5.4:32258081-32258100 | None:intergenic | 35.0% |
| ! | TCAATAGAATCCTTGTTGTG+AGG | + | chr5.4:32258082-32258101 | None:intergenic | 35.0% |
| ! | TGCTTATGATTTTGGATACC+TGG | - | chr5.4:32258234-32258253 | MS.gene53121:CDS | 35.0% |
| AACTAGCAGGCAGATTTCTT+CGG | + | chr5.4:32258273-32258292 | None:intergenic | 40.0% | |
| AAGAAATCTGCCTGCTAGTT+TGG | - | chr5.4:32258273-32258292 | MS.gene53121:CDS | 40.0% | |
| AAGTACACTCAATGTGGATC+GGG | - | chr5.4:32258402-32258421 | MS.gene53121:CDS | 40.0% | |
| ACACCGATAATCGCTACATT+TGG | - | chr5.4:32258020-32258039 | MS.gene53121:CDS | 40.0% | |
| ATGGCAGACGTTTCATAAGT+TGG | - | chr5.4:32258468-32258487 | MS.gene53121:CDS | 40.0% | |
| CAAGTACACTCAATGTGGAT+CGG | - | chr5.4:32258401-32258420 | MS.gene53121:CDS | 40.0% | |
| CATACAATGCATTGCAGTAG+CGG | + | chr5.4:32258363-32258382 | None:intergenic | 40.0% | |
| CGTGATGTTCTTCCTGAATA+TGG | - | chr5.4:32257812-32257831 | MS.gene53121:CDS | 40.0% | |
| GAAGAACATCACGAATGAGA+TGG | + | chr5.4:32257805-32257824 | None:intergenic | 40.0% | |
| GACGTATCTGTAGTAATCAG+AGG | + | chr5.4:32257918-32257937 | None:intergenic | 40.0% | |
| TACTGCAATGCATTGTATGG+TGG | - | chr5.4:32258364-32258383 | MS.gene53121:CDS | 40.0% | |
| TCGATAGACACTGAATTTCC+TGG | - | chr5.4:32257851-32257870 | MS.gene53121:CDS | 40.0% | |
| TTCAATCGTTGTGTCTCTCA+AGG | - | chr5.4:32258127-32258146 | MS.gene53121:CDS | 40.0% | |
| TTCGGATCAATATCTTCACC+AGG | + | chr5.4:32258255-32258274 | None:intergenic | 40.0% | |
| ! | ATTGTATGGTGGTCTTGATC+GGG | - | chr5.4:32258375-32258394 | MS.gene53121:CDS | 40.0% |
| ! | CATTGTATGGTGGTCTTGAT+CGG | - | chr5.4:32258374-32258393 | MS.gene53121:CDS | 40.0% |
| ! | TTTGGTGTATGGATAACTCC+AGG | + | chr5.4:32257872-32257891 | None:intergenic | 40.0% |
| !! | ATGACTTGGGTGACTTTTCA+TGG | - | chr5.4:32258211-32258230 | MS.gene53121:CDS | 40.0% |
| !! | CGATTATCGGTGTCAAAATC+AGG | + | chr5.4:32258013-32258032 | None:intergenic | 40.0% |
| !! | TATCGGTGTCAAAATCAGGA+AGG | + | chr5.4:32258009-32258028 | None:intergenic | 40.0% |
| AGTAATCAGAGGGTTGAAGC+TGG | + | chr5.4:32257907-32257926 | None:intergenic | 45.0% | |
| CGCTACTGCAATGCATTGTA+TGG | - | chr5.4:32258361-32258380 | MS.gene53121:CDS | 45.0% | |
| GCTGAACTAATGTTGACGTC+TGG | - | chr5.4:32258169-32258188 | MS.gene53121:CDS | 45.0% | |
| GGTTGCAAGTACACTCAATG+TGG | - | chr5.4:32258396-32258415 | MS.gene53121:CDS | 45.0% | |
| GTTGGAAGGTCTCATCAATC+CGG | - | chr5.4:32258427-32258446 | MS.gene53121:CDS | 45.0% | |
| !! | GATGGTCGACTTTTGGTGTA+TGG | + | chr5.4:32257883-32257902 | None:intergenic | 45.0% |
| CTGCCATGTCAACAAGCTGT+CGG | + | chr5.4:32258455-32258474 | None:intergenic | 50.0% | |
| TGTCAACAAGCTGTCGGATC+CGG | + | chr5.4:32258449-32258468 | None:intergenic | 50.0% | |
| !! | GATCCGACAGCTTGTTGACA+TGG | - | chr5.4:32258449-32258468 | MS.gene53121:CDS | 50.0% |
| ATGTGGATCGGGCTGTTGGA+AGG | - | chr5.4:32258413-32258432 | MS.gene53121:CDS | 55.0% | |
| CTCAATGTGGATCGGGCTGT+TGG | - | chr5.4:32258409-32258428 | MS.gene53121:CDS | 55.0% | |
| TGAGCGTGACCCTCACAACA+AGG | - | chr5.4:32258069-32258088 | MS.gene53121:CDS | 55.0% | |
| !! | AGCTGGCGATGGTCGACTTT+TGG | + | chr5.4:32257890-32257909 | None:intergenic | 55.0% |
| CAGAGGGTTGAAGCTGGCGA+TGG | + | chr5.4:32257901-32257920 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.4 | gene | 32257716 | 32258564 | 32257716 | ID=MS.gene53121 |
| chr5.4 | mRNA | 32257716 | 32258564 | 32257716 | ID=MS.gene53121.t1;Parent=MS.gene53121 |
| chr5.4 | exon | 32257716 | 32258564 | 32257716 | ID=MS.gene53121.t1.exon1;Parent=MS.gene53121.t1 |
| chr5.4 | CDS | 32257716 | 32258564 | 32257716 | ID=cds.MS.gene53121.t1;Parent=MS.gene53121.t1 |
| Gene Sequence |
| Protein sequence |
