Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0380017304.01.T02 | XP_003603192.1 | 93.625 | 251 | 13 | 1 | 1 | 251 | 127 | 374 | 5.21E-148 | 428 |
| MsG0380017304.01.T01 | XP_003603192.1 | 91.005 | 378 | 29 | 3 | 1 | 377 | 1 | 374 | 0 | 595 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0380017304.01.T01 | Q9LVK2 | 38.587 | 368 | 182 | 9 | 19 | 374 | 16 | 351 | 5.43E-43 | 156 |
| MsG0380017304.01.T02 | Q9LVK2 | 44.49 | 245 | 107 | 8 | 16 | 248 | 124 | 351 | 6.63E-41 | 146 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0380017304.01.T01 | G7J8D6 | 91.005 | 378 | 29 | 3 | 1 | 377 | 1 | 374 | 0.0 | 595 |
| MsG0380017304.01.T02 | G7J8D6 | 93.625 | 251 | 13 | 1 | 1 | 251 | 127 | 374 | 2.49e-148 | 428 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsG0280010916.01 | MsG0380017304.01 | 0.802064 | 6.698998e-49 | 3.250317e-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0380017304.01.T02 | MTR_3g104880 | 93.625 | 251 | 13 | 1 | 1 | 251 | 127 | 374 | 6.32e-152 | 428 |
| MsG0380017304.01.T02 | MTR_8g019660 | 45.263 | 285 | 100 | 12 | 10 | 248 | 125 | 399 | 7.45e-45 | 155 |
| MsG0380017304.01.T02 | MTR_1g015275 | 42.857 | 280 | 92 | 6 | 1 | 243 | 120 | 368 | 1.41e-42 | 149 |
| MsG0380017304.01.T02 | MTR_4g125620 | 43.379 | 219 | 98 | 8 | 35 | 248 | 141 | 338 | 6.25e-30 | 114 |
| MsG0380017304.01.T01 | MTR_3g104880 | 91.005 | 378 | 29 | 3 | 1 | 377 | 1 | 374 | 0.0 | 595 |
| MsG0380017304.01.T01 | MTR_8g019660 | 42.991 | 428 | 161 | 17 | 1 | 374 | 1 | 399 | 5.95e-55 | 186 |
| MsG0380017304.01.T01 | MTR_1g015275 | 42.206 | 417 | 144 | 12 | 1 | 369 | 1 | 368 | 3.29e-53 | 180 |
| MsG0380017304.01.T01 | MTR_4g125620 | 36.458 | 384 | 177 | 15 | 9 | 374 | 4 | 338 | 5.02e-32 | 124 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0380017304.01.T02 | AT3G13980 | 44.490 | 245 | 107 | 8 | 16 | 248 | 124 | 351 | 6.76e-42 | 146 |
| MsG0380017304.01.T02 | AT1G54200 | 42.857 | 266 | 118 | 9 | 7 | 248 | 109 | 364 | 2.15e-39 | 140 |
| MsG0380017304.01.T02 | AT3G42800 | 36.323 | 223 | 121 | 7 | 33 | 248 | 127 | 335 | 2.12e-23 | 97.4 |
| MsG0380017304.01.T02 | AT5G12050 | 39.338 | 272 | 113 | 10 | 11 | 240 | 95 | 356 | 1.42e-20 | 89.7 |
| MsG0380017304.01.T01 | AT3G13980 | 38.587 | 368 | 182 | 9 | 19 | 374 | 16 | 351 | 5.54e-44 | 156 |
| MsG0380017304.01.T01 | AT1G54200 | 41.689 | 379 | 157 | 14 | 20 | 374 | 26 | 364 | 1.35e-43 | 155 |
| MsG0380017304.01.T01 | AT3G42800 | 31.267 | 371 | 208 | 10 | 13 | 374 | 3 | 335 | 1.60e-26 | 108 |
| MsG0380017304.01.T01 | AT5G12050 | 37.121 | 396 | 167 | 13 | 13 | 366 | 1 | 356 | 7.74e-26 | 107 |
Find 45 sgRNAs with CRISPR-Local
Find 59 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTCCTTTGTTCAAATATTTA+TGG | 0.084755 | 3:-94708904 | None:intergenic |
| TCAACAACTCTGTTGCATTT+AGG | 0.227936 | 3:-94708254 | None:intergenic |
| AGTTCTTCAGATTCAAGTTC+TGG | 0.300670 | 3:+94708401 | MsG0380017304.01.T01:CDS |
| AACCAAATCTTCGCGGTGTT+TGG | 0.303443 | 3:+94708282 | MsG0380017304.01.T01:CDS |
| CGTCGAAGGAACGGTAAATT+TGG | 0.333951 | 3:-94708160 | None:intergenic |
| TTCCAAACACCGCGAAGATT+TGG | 0.338231 | 3:-94708284 | None:intergenic |
| TTTGCAATGTTTCTTCTCTC+TGG | 0.359621 | 3:-94708530 | None:intergenic |
| GGTCGTGTTTCGCTCCTTCA+AGG | 0.370264 | 3:+94708480 | MsG0380017304.01.T01:CDS |
| TCTGCATTTGCGTCTTCATA+AGG | 0.432099 | 3:-94708704 | None:intergenic |
| AACTCTGTTGCATTTAGGAT+TGG | 0.449630 | 3:-94708249 | None:intergenic |
| TTCACCGGCTTAGGCCTTGA+AGG | 0.452349 | 3:-94708494 | None:intergenic |
| CGCTCCTTCAAGGCCTAAGC+CGG | 0.458740 | 3:+94708490 | MsG0380017304.01.T01:CDS |
| CAAGTTGTTGAAGCTTGTCC+TGG | 0.475706 | 3:-94708740 | None:intergenic |
| TGTGGACAAGAGTAAGAAAG+TGG | 0.482068 | 3:+94708949 | MsG0380017304.01.T01:CDS |
| GCAATGTTTCTTCTCTCTGG+AGG | 0.484378 | 3:-94708527 | None:intergenic |
| TGCGTCTTCATAAGGTGAAA+CGG | 0.492888 | 3:-94708696 | None:intergenic |
| GTACATTGATTCTGTTTCAG+AGG | 0.518030 | 3:-94708438 | None:intergenic |
| GTCGAGCAGTGTGGAAGAGA+AGG | 0.521472 | 3:-94708138 | None:intergenic |
| TGTCTCCTTCGTCGAAGGAA+CGG | 0.527673 | 3:-94708169 | None:intergenic |
| TCATCAACAATCACACTCAC+CGG | 0.532966 | 3:-94708863 | None:intergenic |
| AAAGAAGAATGAAGAAGTTG+TGG | 0.536305 | 3:+94708931 | MsG0380017304.01.T01:CDS |
| GCTTGATCACTTAGATGTGA+TGG | 0.536375 | 3:+94709108 | MsG0380017304.01.T01:CDS |
| TTCGACGAAGGAGACAGAAA+AGG | 0.551680 | 3:+94708176 | MsG0380017304.01.T01:CDS |
| TAGATGTGATGGGAAATGAT+AGG | 0.553074 | 3:+94709119 | MsG0380017304.01.T01:CDS |
| CATTGATTCTGTTTCAGAGG+AGG | 0.554650 | 3:-94708435 | None:intergenic |
| ATTTACCGTTCCTTCGACGA+AGG | 0.555220 | 3:+94708164 | MsG0380017304.01.T01:CDS |
| GGCCATAAATATTTGAACAA+AGG | 0.555699 | 3:+94708902 | MsG0380017304.01.T01:CDS |
| AGCAGTGTGGAAGAGAAGGA+AGG | 0.592408 | 3:-94708134 | None:intergenic |
| GCAGTGTGGAAGAGAAGGAA+GGG | 0.601432 | 3:-94708133 | None:intergenic |
| CTTGATCACTTAGATGTGAT+GGG | 0.605778 | 3:+94709109 | MsG0380017304.01.T01:CDS |
| CATCAACAATCACACTCACC+GGG | 0.608669 | 3:-94708862 | None:intergenic |
| GGACAAGAGTAAGAAAGTGG+AGG | 0.631476 | 3:+94708952 | MsG0380017304.01.T01:CDS |
| GCAGAGAGGAAAAGTAAACC+AGG | 0.652520 | 3:+94708722 | MsG0380017304.01.T01:CDS |
| ACAAAGCGAAATCACGAGGT+GGG | 0.654998 | 3:+94708459 | MsG0380017304.01.T01:CDS |
| GTGAAACAACCAATCTCACC+AGG | 0.655457 | 3:+94708617 | MsG0380017304.01.T01:CDS |
| GCACAATGGTGATAAAAGAA+CGG | 0.655549 | 3:+94708829 | MsG0380017304.01.T01:CDS |
| GCCTAAGCCGGTGAAAACAA+CGG | 0.661501 | 3:+94708502 | MsG0380017304.01.T01:CDS |
| TACAAAGCGAAATCACGAGG+TGG | 0.665492 | 3:+94708458 | MsG0380017304.01.T01:CDS |
| ACATGAGTAGTTTCAAACAC+AGG | 0.668061 | 3:-94709157 | None:intergenic |
| GATGAAGATAATCGAGCTTG+TGG | 0.670125 | 3:+94708881 | MsG0380017304.01.T01:CDS |
| TCAAGAGATAAATTGCACAA+TGG | 0.676065 | 3:+94708815 | MsG0380017304.01.T01:CDS |
| GTAAATTTGGTCGAGCAGTG+TGG | 0.681545 | 3:-94708147 | None:intergenic |
| ATGTACAAAGCGAAATCACG+AGG | 0.685436 | 3:+94708455 | MsG0380017304.01.T01:CDS |
| AAACAACCAATCTCACCAGG+TGG | 0.693898 | 3:+94708620 | MsG0380017304.01.T01:CDS |
| ATGAAGACGCAAATGCAGAG+AGG | 0.713253 | 3:+94708708 | MsG0380017304.01.T01:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATCTTAATCATAAGATTTTG+AGG | + | Chr3:94709005-94709024 | MsG0380017304.01.T01:CDS | 20.0% |
| !!! | TCTTAATCATAAGATTTTGA+GGG | + | Chr3:94709006-94709025 | MsG0380017304.01.T01:CDS | 20.0% |
| ! | CTCCTTTGTTCAAATATTTA+TGG | - | Chr3:94708907-94708926 | None:intergenic | 25.0% |
| !! | TTTTTCTATGAGGAAAAATG+AGG | + | Chr3:94709030-94709049 | MsG0380017304.01.T01:CDS | 25.0% |
| AAAGAAGAATGAAGAAGTTG+TGG | + | Chr3:94708931-94708950 | MsG0380017304.01.T01:CDS | 30.0% | |
| AGCTGAAAAACATAACATCT+TGG | - | Chr3:94708373-94708392 | None:intergenic | 30.0% | |
| GGCCATAAATATTTGAACAA+AGG | + | Chr3:94708902-94708921 | MsG0380017304.01.T01:CDS | 30.0% | |
| TCAAGAGATAAATTGCACAA+TGG | + | Chr3:94708815-94708834 | MsG0380017304.01.T01:CDS | 30.0% | |
| !! | TTTTGAGGGATTTTTCTATG+AGG | + | Chr3:94709020-94709039 | MsG0380017304.01.T01:CDS | 30.0% |
| !!! | TTGGTTGTTTCACTTTTTTG+AGG | - | Chr3:94708610-94708629 | None:intergenic | 30.0% |
| ACATGAGTAGTTTCAAACAC+AGG | - | Chr3:94709160-94709179 | None:intergenic | 35.0% | |
| CTTGATCACTTAGATGTGAT+GGG | + | Chr3:94709109-94709128 | MsG0380017304.01.T01:CDS | 35.0% | |
| GAAGAAAAACCAAATCTTCG+CGG | + | Chr3:94708275-94708294 | MsG0380017304.01.T01:CDS | 35.0% | |
| GCACAATGGTGATAAAAGAA+CGG | + | Chr3:94708829-94708848 | MsG0380017304.01.T01:CDS | 35.0% | |
| TCAACAACTCTGTTGCATTT+AGG | - | Chr3:94708257-94708276 | None:intergenic | 35.0% | |
| TTTGCAATGTTTCTTCTCTC+TGG | - | Chr3:94708533-94708552 | None:intergenic | 35.0% | |
| ! | AACTCTGTTGCATTTAGGAT+TGG | - | Chr3:94708252-94708271 | None:intergenic | 35.0% |
| ! | AGTTCTTCAGATTCAAGTTC+TGG | + | Chr3:94708401-94708420 | MsG0380017304.01.T01:CDS | 35.0% |
| ! | TAGATGTGATGGGAAATGAT+AGG | + | Chr3:94709119-94709138 | MsG0380017304.01.T01:CDS | 35.0% |
| !! | GTACATTGATTCTGTTTCAG+AGG | - | Chr3:94708441-94708460 | None:intergenic | 35.0% |
| ATGTACAAAGCGAAATCACG+AGG | + | Chr3:94708455-94708474 | MsG0380017304.01.T01:CDS | 40.0% | |
| GATGAAGATAATCGAGCTTG+TGG | + | Chr3:94708881-94708900 | MsG0380017304.01.T01:CDS | 40.0% | |
| GCTTGATCACTTAGATGTGA+TGG | + | Chr3:94709108-94709127 | MsG0380017304.01.T01:CDS | 40.0% | |
| TCATCAACAATCACACTCAC+CGG | - | Chr3:94708866-94708885 | None:intergenic | 40.0% | |
| TCTGCATTTGCGTCTTCATA+AGG | - | Chr3:94708707-94708726 | None:intergenic | 40.0% | |
| TGCGTCTTCATAAGGTGAAA+CGG | - | Chr3:94708699-94708718 | None:intergenic | 40.0% | |
| TGTGGACAAGAGTAAGAAAG+TGG | + | Chr3:94708949-94708968 | MsG0380017304.01.T01:CDS | 40.0% | |
| ! | AAACTTGTGAGTTTTCCACC+TGG | - | Chr3:94708638-94708657 | None:intergenic | 40.0% |
| !! | CATTGATTCTGTTTCAGAGG+AGG | - | Chr3:94708438-94708457 | None:intergenic | 40.0% |
| AAACAACCAATCTCACCAGG+TGG | + | Chr3:94708620-94708639 | MsG0380017304.01.T01:CDS | 45.0% | |
| AACCAAATCTTCGCGGTGTT+TGG | + | Chr3:94708282-94708301 | MsG0380017304.01.T01:CDS | 45.0% | |
| ACAAAGCGAAATCACGAGGT+GGG | + | Chr3:94708459-94708478 | MsG0380017304.01.T01:CDS | 45.0% | |
| ATGAAGACGCAAATGCAGAG+AGG | + | Chr3:94708708-94708727 | MsG0380017304.01.T01:CDS | 45.0% | |
| ATTTACCGTTCCTTCGACGA+AGG | + | Chr3:94708164-94708183 | MsG0380017304.01.T01:CDS | 45.0% | |
| CAAGTTGTTGAAGCTTGTCC+TGG | - | Chr3:94708743-94708762 | None:intergenic | 45.0% | |
| CATCAACAATCACACTCACC+GGG | - | Chr3:94708865-94708884 | None:intergenic | 45.0% | |
| CGTCGAAGGAACGGTAAATT+TGG | - | Chr3:94708163-94708182 | None:intergenic | 45.0% | |
| GCAATGTTTCTTCTCTCTGG+AGG | - | Chr3:94708530-94708549 | None:intergenic | 45.0% | |
| GCAGAGAGGAAAAGTAAACC+AGG | + | Chr3:94708722-94708741 | MsG0380017304.01.T01:CDS | 45.0% | |
| GGACAAGAGTAAGAAAGTGG+AGG | + | Chr3:94708952-94708971 | MsG0380017304.01.T01:CDS | 45.0% | |
| GTAAATTTGGTCGAGCAGTG+TGG | - | Chr3:94708150-94708169 | None:intergenic | 45.0% | |
| GTGAAACAACCAATCTCACC+AGG | + | Chr3:94708617-94708636 | MsG0380017304.01.T01:CDS | 45.0% | |
| TACAAAGCGAAATCACGAGG+TGG | + | Chr3:94708458-94708477 | MsG0380017304.01.T01:CDS | 45.0% | |
| TCACACTCACCGGGTAAAAA+CGG | - | Chr3:94708856-94708875 | None:intergenic | 45.0% | |
| TTCCAAACACCGCGAAGATT+TGG | - | Chr3:94708287-94708306 | None:intergenic | 45.0% | |
| TTCGACGAAGGAGACAGAAA+AGG | + | Chr3:94708176-94708195 | MsG0380017304.01.T01:CDS | 45.0% | |
| ! | AGTTTTCCACCTGGTGAGAT+TGG | - | Chr3:94708629-94708648 | None:intergenic | 45.0% |
| ! | TTTTCTGTCTCCTTCGTCGA+AGG | - | Chr3:94708177-94708196 | None:intergenic | 45.0% |
| !! | AAGAACGGTCCGTTTTTACC+CGG | + | Chr3:94708844-94708863 | MsG0380017304.01.T01:CDS | 45.0% |
| AGCAGTGTGGAAGAGAAGGA+AGG | - | Chr3:94708137-94708156 | None:intergenic | 50.0% | |
| GCAGTGTGGAAGAGAAGGAA+GGG | - | Chr3:94708136-94708155 | None:intergenic | 50.0% | |
| GCCTAAGCCGGTGAAAACAA+CGG | + | Chr3:94708502-94708521 | MsG0380017304.01.T01:CDS | 50.0% | |
| TGTCTCCTTCGTCGAAGGAA+CGG | - | Chr3:94708172-94708191 | None:intergenic | 50.0% | |
| !! | GGAGGAACCGTTGTTTTCAC+CGG | - | Chr3:94708512-94708531 | None:intergenic | 50.0% |
| !!! | ACCGTTGTTTTCACCGGCTT+AGG | - | Chr3:94708506-94708525 | None:intergenic | 50.0% |
| GGTCGTGTTTCGCTCCTTCA+AGG | + | Chr3:94708480-94708499 | MsG0380017304.01.T01:CDS | 55.0% | |
| GTCGAGCAGTGTGGAAGAGA+AGG | - | Chr3:94708141-94708160 | None:intergenic | 55.0% | |
| !! | TTCACCGGCTTAGGCCTTGA+AGG | - | Chr3:94708497-94708516 | None:intergenic | 55.0% |
| CGCTCCTTCAAGGCCTAAGC+CGG | + | Chr3:94708490-94708509 | MsG0380017304.01.T01:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr3 | gene | 94708077 | 94709210 | 94708077 | ID=MsG0380017304.01;Name=MsG0380017304.01 |
| Chr3 | mRNA | 94708077 | 94709210 | 94708077 | ID=MsG0380017304.01.T01;Parent=MsG0380017304.01;Name=MsG0380017304.01.T01;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|377 |
| Chr3 | exon | 94708077 | 94709210 | 94708077 | ID=MsG0380017304.01.T01:exon:35174;Parent=MsG0380017304.01.T01 |
| Chr3 | CDS | 94708077 | 94709210 | 94708077 | ID=MsG0380017304.01.T01:cds;Parent=MsG0380017304.01.T01 |
| Chr3 | mRNA | 94708455 | 94709210 | 94708455 | ID=MsG0380017304.01.T02;Parent=MsG0380017304.01;Name=MsG0380017304.01.T02;_AED=0.17;_eAED=0.17;_QI=0|-1|0|1|-1|0|1|0|251 |
| Chr3 | exon | 94708455 | 94709210 | 94708455 | ID=MsG0380017304.01.T02:exon:35175;Parent=MsG0380017304.01.T02 |
| Chr3 | CDS | 94708455 | 94709210 | 94708455 | ID=MsG0380017304.01.T02:cds;Parent=MsG0380017304.01.T02 |
| Gene Sequence |
| Protein sequence |
