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.gene052849.t1 | RHN78227.1 | 89 | 254 | 24 | 1 | 1 | 250 | 50 | 303 | 1.90E-121 | 445.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene052849.t1 | Q8RYD1 | 25.9 | 255 | 155 | 8 | 9 | 237 | 70 | 316 | 3.8e-09 | 63.5 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene052849.t1 | A0A396JU70 | 89.0 | 254 | 24 | 1 | 1 | 250 | 50 | 303 | 1.4e-121 | 445.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene052849.t1 | TF | B3 |
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.gene052849.t1 | MTR_4g119990 | 61.314 | 274 | 77 | 6 | 1 | 249 | 54 | 323 | 2.31e-105 | 310 |
| MS.gene052849.t1 | MTR_6g043890 | 58.167 | 251 | 76 | 5 | 1 | 229 | 54 | 297 | 1.85e-90 | 271 |
| MS.gene052849.t1 | MTR_1g035440 | 50.000 | 188 | 51 | 2 | 3 | 147 | 56 | 243 | 2.85e-40 | 139 |
| MS.gene052849.t1 | MTR_1g035460 | 29.044 | 272 | 139 | 8 | 15 | 246 | 38 | 295 | 6.97e-25 | 102 |
| MS.gene052849.t1 | MTR_1g108780 | 26.718 | 262 | 154 | 9 | 21 | 253 | 55 | 307 | 2.63e-21 | 92.4 |
| MS.gene052849.t1 | MTR_3g061350 | 28.689 | 244 | 151 | 9 | 5 | 237 | 53 | 284 | 1.49e-19 | 85.9 |
| MS.gene052849.t1 | MTR_3g098790 | 28.452 | 239 | 156 | 7 | 12 | 237 | 62 | 298 | 1.97e-19 | 86.3 |
| MS.gene052849.t1 | MTR_7g050720 | 28.682 | 258 | 150 | 10 | 12 | 237 | 59 | 314 | 3.49e-19 | 85.5 |
| MS.gene052849.t1 | MTR_7g050580 | 27.602 | 221 | 145 | 5 | 12 | 223 | 62 | 276 | 7.57e-19 | 84.3 |
| MS.gene052849.t1 | MTR_7g050710 | 27.049 | 244 | 134 | 8 | 12 | 223 | 62 | 293 | 2.33e-18 | 83.2 |
| MS.gene052849.t1 | MTR_3g061310 | 28.512 | 242 | 155 | 7 | 5 | 237 | 53 | 285 | 3.82e-18 | 82.0 |
| MS.gene052849.t1 | MTR_3g061370 | 28.689 | 244 | 151 | 9 | 5 | 237 | 50 | 281 | 1.00e-17 | 80.9 |
| MS.gene052849.t1 | MTR_7g050590 | 28.017 | 232 | 147 | 5 | 12 | 223 | 35 | 266 | 2.82e-17 | 79.7 |
| MS.gene052849.t1 | MTR_7g050560 | 29.032 | 217 | 143 | 6 | 14 | 223 | 64 | 276 | 3.10e-17 | 79.7 |
| MS.gene052849.t1 | MTR_5g044670 | 28.395 | 243 | 132 | 10 | 6 | 221 | 60 | 287 | 3.17e-17 | 80.1 |
| MS.gene052849.t1 | MTR_8g103940 | 25.200 | 250 | 156 | 8 | 21 | 246 | 97 | 339 | 8.41e-17 | 79.7 |
| MS.gene052849.t1 | MTR_3g061340 | 29.060 | 234 | 140 | 11 | 5 | 230 | 53 | 268 | 4.24e-16 | 76.3 |
| MS.gene052849.t1 | MTR_3g061330 | 27.835 | 194 | 124 | 6 | 5 | 192 | 53 | 236 | 2.64e-15 | 73.6 |
| MS.gene052849.t1 | MTR_1g035640 | 28.279 | 244 | 156 | 10 | 2 | 236 | 45 | 278 | 9.06e-15 | 73.6 |
| MS.gene052849.t1 | MTR_5g070440 | 27.311 | 238 | 126 | 10 | 9 | 237 | 68 | 267 | 1.46e-13 | 68.9 |
| MS.gene052849.t1 | MTR_1g035570 | 24.453 | 274 | 139 | 10 | 2 | 231 | 45 | 294 | 3.06e-13 | 68.9 |
| MS.gene052849.t1 | MTR_1g021360 | 26.160 | 237 | 141 | 10 | 11 | 223 | 230 | 456 | 3.66e-13 | 68.9 |
| MS.gene052849.t1 | MTR_6g061070 | 25.795 | 283 | 166 | 10 | 5 | 251 | 61 | 335 | 1.92e-12 | 66.6 |
| MS.gene052849.t1 | MTR_3g005420 | 25.439 | 228 | 134 | 7 | 14 | 237 | 340 | 535 | 9.75e-11 | 62.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene052849.t1 | AT4G33280 | 25.882 | 255 | 155 | 8 | 9 | 237 | 70 | 316 | 3.85e-12 | 65.5 |
Find 25 sgRNAs with CRISPR-Local
Find 51 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTTATCTTTGTCAACAAAA+AGG | 0.196489 | 1.4:-20372649 | None:intergenic |
| GAAGAGAATAATTTGAAATT+TGG | 0.198679 | 1.4:+20372734 | MS.gene052849:CDS |
| CTCTATCAATGTATGACTTT+TGG | 0.220204 | 1.4:-20372257 | None:intergenic |
| AAGTAGTTGTGATGATATTA+AGG | 0.299219 | 1.4:+20372161 | MS.gene052849:CDS |
| TTCTTACAAACTTCCATAGA+TGG | 0.339692 | 1.4:-20371983 | None:intergenic |
| ATATAATTACCTTCAAAATA+AGG | 0.343429 | 1.4:-20372845 | None:intergenic |
| ATTTCAAATTATTCTCTTCA+CGG | 0.368199 | 1.4:-20372730 | None:intergenic |
| GAGAAAATAACAACTTGAAA+TGG | 0.395512 | 1.4:-20372800 | None:intergenic |
| TTTCTCTTTGGAAAAGGACT+TGG | 0.399841 | 1.4:+20372817 | MS.gene052849:CDS |
| TGTGTCTTAACAAATTCATT+TGG | 0.404885 | 1.4:-20372593 | None:intergenic |
| CTTCCCTAGTTTCTCTTGAC+GGG | 0.422598 | 1.4:-20371880 | None:intergenic |
| CTTCATCATCACGGCGTAGA+AGG | 0.423115 | 1.4:+20371945 | MS.gene052849:CDS |
| TGAATTTGTTAAGACACATA+TGG | 0.433535 | 1.4:+20372598 | MS.gene052849:CDS |
| TCTTCCCTAGTTTCTCTTGA+CGG | 0.433773 | 1.4:-20371881 | None:intergenic |
| CTTCTACGCCGTGATGATGA+AGG | 0.500716 | 1.4:-20371944 | None:intergenic |
| AATCTGCACTAACTTGTGGT+TGG | 0.523890 | 1.4:+20372699 | MS.gene052849:CDS |
| AATACCCGTCAAGAGAAACT+AGG | 0.533719 | 1.4:+20371876 | MS.gene052849:CDS |
| ATACCCGTCAAGAGAAACTA+GGG | 0.582374 | 1.4:+20371877 | MS.gene052849:CDS |
| TAAGACACATATGGACATGA+TGG | 0.584937 | 1.4:+20372607 | MS.gene052849:CDS |
| AAACAATCTGCACTAACTTG+TGG | 0.589005 | 1.4:+20372695 | MS.gene052849:CDS |
| TTCTACGCCGTGATGATGAA+GGG | 0.599752 | 1.4:-20371943 | None:intergenic |
| GTGATTGTATTCGGTAGATG+CGG | 0.604317 | 1.4:+20371842 | MS.gene052849:CDS |
| ATACATTGATAGAGATCACT+TGG | 0.608769 | 1.4:+20372266 | MS.gene052849:CDS |
| TTGAGAACCCTTCATCATCA+CGG | 0.623310 | 1.4:+20371936 | MS.gene052849:CDS |
| ACACATATGGACATGATGGA+AGG | 0.627742 | 1.4:+20372611 | MS.gene052849:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATATAATTACCTTCAAAATA+AGG | - | chr1.4:20372848-20372867 | None:intergenic | 15.0% |
| !!! | TTTTTGCTACTAATTTTTTT+TGG | + | chr1.4:20372115-20372134 | MS.gene052849:intron | 15.0% |
| !! | AACTATATGTGTGTATTTAT+AGG | + | chr1.4:20372565-20372584 | MS.gene052849:intron | 20.0% |
| !! | ATTTATCTTTGTCAACAAAA+AGG | - | chr1.4:20372652-20372671 | None:intergenic | 20.0% |
| !! | ATTTCAAATTATTCTCTTCA+CGG | - | chr1.4:20372733-20372752 | None:intergenic | 20.0% |
| !! | CCAAATTATTATACCATAAT+TGG | + | chr1.4:20372391-20372410 | MS.gene052849:intron | 20.0% |
| !! | CCAATTATGGTATAATAATT+TGG | - | chr1.4:20372394-20372413 | None:intergenic | 20.0% |
| !! | TTTATCTTTGTCAACAAAAA+GGG | - | chr1.4:20372651-20372670 | None:intergenic | 20.0% |
| !!! | AATGAAGTTATATTTTGCAA+TGG | + | chr1.4:20371737-20371756 | MS.gene052849:CDS | 20.0% |
| !!! | CTTTAAAAATACCTACATAA+TGG | + | chr1.4:20372441-20372460 | MS.gene052849:intron | 20.0% |
| !!! | GAAGAGAATAATTTGAAATT+TGG | + | chr1.4:20372734-20372753 | MS.gene052849:CDS | 20.0% |
| !!! | GTTTTTAATGTGATTGTATT+CGG | + | chr1.4:20371833-20371852 | MS.gene052849:CDS | 20.0% |
| !!! | TTTGAATGAATCACAATTTT+TGG | + | chr1.4:20371787-20371806 | MS.gene052849:CDS | 20.0% |
| !!! | TTTTTGTTGACAAAGATAAA+TGG | + | chr1.4:20372651-20372670 | MS.gene052849:CDS | 20.0% |
| ! | AAGTAGTTGTGATGATATTA+AGG | + | chr1.4:20372161-20372180 | MS.gene052849:CDS | 25.0% |
| ! | AATATAGCAAAGTCCAATTA+TGG | - | chr1.4:20372407-20372426 | None:intergenic | 25.0% |
| ! | GAGAAAATAACAACTTGAAA+TGG | - | chr1.4:20372803-20372822 | None:intergenic | 25.0% |
| ! | TGTGTCTTAACAAATTCATT+TGG | - | chr1.4:20372596-20372615 | None:intergenic | 25.0% |
| !! | AAGTTATATTTTGCAATGGT+TGG | + | chr1.4:20371741-20371760 | MS.gene052849:CDS | 25.0% |
| !!! | GATGGAAAAGAAAGTTTTTT+GGG | + | chr1.4:20371700-20371719 | MS.gene052849:CDS | 25.0% |
| !!! | TCAAGTTGTTATTTTCTCTT+TGG | + | chr1.4:20372805-20372824 | MS.gene052849:CDS | 25.0% |
| !!! | TGAATTCTTACTTTTTTAGC+AGG | + | chr1.4:20372138-20372157 | MS.gene052849:intron | 25.0% |
| !!! | TGAATTTGTTAAGACACATA+TGG | + | chr1.4:20372598-20372617 | MS.gene052849:CDS | 25.0% |
| !!! | TGATGGAAAAGAAAGTTTTT+TGG | + | chr1.4:20371699-20371718 | MS.gene052849:CDS | 25.0% |
| !!! | TGTTATTTTCTCTTTGGAAA+AGG | + | chr1.4:20372811-20372830 | MS.gene052849:CDS | 25.0% |
| ATACATTGATAGAGATCACT+TGG | + | chr1.4:20372266-20372285 | MS.gene052849:CDS | 30.0% | |
| GAAAAAATTCGACTCTGATA+AGG | + | chr1.4:20372215-20372234 | MS.gene052849:CDS | 30.0% | |
| TTCTTACAAACTTCCATAGA+TGG | - | chr1.4:20371986-20372005 | None:intergenic | 30.0% | |
| ! | AAAATTTTCAGCACCATCTA+TGG | + | chr1.4:20371970-20371989 | MS.gene052849:CDS | 30.0% |
| ! | CTCTATCAATGTATGACTTT+TGG | - | chr1.4:20372260-20372279 | None:intergenic | 30.0% |
| !! | TGTGTTTTTGTGCTAAACAA+AGG | + | chr1.4:20372764-20372783 | MS.gene052849:CDS | 30.0% |
| !!! | CGAATTTTTTCTTCACTTTC+TGG | - | chr1.4:20372206-20372225 | None:intergenic | 30.0% |
| !!! | TTGGAAACTCCTTATTTTGA+AGG | + | chr1.4:20372836-20372855 | MS.gene052849:CDS | 30.0% |
| AAACAATCTGCACTAACTTG+TGG | + | chr1.4:20372695-20372714 | MS.gene052849:CDS | 35.0% | |
| CCAATCACAATCCATTATGT+AGG | - | chr1.4:20372455-20372474 | None:intergenic | 35.0% | |
| TAAGACACATATGGACATGA+TGG | + | chr1.4:20372607-20372626 | MS.gene052849:CDS | 35.0% | |
| ! | TTTCTCTTTGGAAAAGGACT+TGG | + | chr1.4:20372817-20372836 | MS.gene052849:CDS | 35.0% |
| !! | CCTACATAATGGATTGTGAT+TGG | + | chr1.4:20372452-20372471 | MS.gene052849:intron | 35.0% |
| AATACCCGTCAAGAGAAACT+AGG | + | chr1.4:20371876-20371895 | MS.gene052849:CDS | 40.0% | |
| ATACCCGTCAAGAGAAACTA+GGG | + | chr1.4:20371877-20371896 | MS.gene052849:CDS | 40.0% | |
| GTGATTGTATTCGGTAGATG+CGG | + | chr1.4:20371842-20371861 | MS.gene052849:CDS | 40.0% | |
| TCTTCCCTAGTTTCTCTTGA+CGG | - | chr1.4:20371884-20371903 | None:intergenic | 40.0% | |
| TTGAGAACCCTTCATCATCA+CGG | + | chr1.4:20371936-20371955 | MS.gene052849:CDS | 40.0% | |
| ! | AATCTGCACTAACTTGTGGT+TGG | + | chr1.4:20372699-20372718 | MS.gene052849:CDS | 40.0% |
| ! | ACACATATGGACATGATGGA+AGG | + | chr1.4:20372611-20372630 | MS.gene052849:CDS | 40.0% |
| AAGCGTGAGCATGTGAACAA+TGG | + | chr1.4:20372040-20372059 | MS.gene052849:intron | 45.0% | |
| CTTCCCTAGTTTCTCTTGAC+GGG | - | chr1.4:20371883-20371902 | None:intergenic | 45.0% | |
| GTGAGCATGTGAACAATGGT+TGG | + | chr1.4:20372044-20372063 | MS.gene052849:intron | 45.0% | |
| ! | TTCTACGCCGTGATGATGAA+GGG | - | chr1.4:20371946-20371965 | None:intergenic | 45.0% |
| CTTCATCATCACGGCGTAGA+AGG | + | chr1.4:20371945-20371964 | MS.gene052849:CDS | 50.0% | |
| ! | CTTCTACGCCGTGATGATGA+AGG | - | chr1.4:20371947-20371966 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 20371698 | 20372871 | 20371698 | ID=MS.gene052849 |
| chr1.4 | mRNA | 20371698 | 20372871 | 20371698 | ID=MS.gene052849.t1;Parent=MS.gene052849 |
| chr1.4 | exon | 20371698 | 20372043 | 20371698 | ID=MS.gene052849.t1.exon1;Parent=MS.gene052849.t1 |
| chr1.4 | CDS | 20371698 | 20372043 | 20371698 | ID=cds.MS.gene052849.t1;Parent=MS.gene052849.t1 |
| chr1.4 | exon | 20372157 | 20372287 | 20372157 | ID=MS.gene052849.t1.exon2;Parent=MS.gene052849.t1 |
| chr1.4 | CDS | 20372157 | 20372287 | 20372157 | ID=cds.MS.gene052849.t1;Parent=MS.gene052849.t1 |
| chr1.4 | exon | 20372587 | 20372871 | 20372587 | ID=MS.gene052849.t1.exon3;Parent=MS.gene052849.t1 |
| chr1.4 | CDS | 20372587 | 20372871 | 20372587 | ID=cds.MS.gene052849.t1;Parent=MS.gene052849.t1 |
| Gene Sequence |
| Protein sequence |
