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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0661420 | RHN78606.1 | 96.078 | 102 | 4 | 0 | 1 | 102 | 13 | 114 | 6.84e-63 | 196 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0661420 | A0A396JK39 | 96.078 | 102 | 4 | 0 | 1 | 102 | 13 | 114 | 3.27e-63 | 196 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0015950 | Msa0661420 | 0.977491 | 6.910818e-144 | -8.615850e-47 |
| Msa0015960 | Msa0661420 | 0.996532 | 9.585554e-229 | -8.615850e-47 |
| Msa0016070 | Msa0661420 | 0.962104 | 1.756907e-120 | -8.615850e-47 |
| Msa0016080 | Msa0661420 | 0.967720 | 1.142911e-127 | -8.615850e-47 |
| Msa0028690 | Msa0661420 | 0.842466 | 2.541935e-58 | -8.615850e-47 |
| Msa0047660 | Msa0661420 | -0.822166 | 2.739698e-53 | -8.615850e-47 |
| Msa0060410 | Msa0661420 | 0.819211 | 1.308098e-52 | -8.615850e-47 |
| Msa0661410 | Msa0661420 | 0.988250 | 2.735299e-173 | -8.615850e-47 |
| Msa0661420 | Msa0691320 | -0.807930 | 3.973692e-50 | -8.615850e-47 |
| Msa0661420 | Msa0736920 | 0.802661 | 5.047402e-49 | -8.615850e-47 |
| Msa0661420 | Msa0773030 | 0.834423 | 3.023766e-56 | -8.615850e-47 |
| Msa0661420 | Msa0778570 | 0.811790 | 5.868897e-51 | -8.615850e-47 |
| Msa0661420 | Msa0800150 | 0.812071 | 5.098649e-51 | -8.615850e-47 |
| Msa0661420 | Msa0810330 | 0.854107 | 1.534318e-61 | -8.615850e-47 |
| Msa0661420 | Msa0850640 | 0.864622 | 1.065314e-64 | -8.615850e-47 |
| Msa0661420 | Msa0907880 | 0.860661 | 1.767421e-63 | -8.615850e-47 |
| Msa0661420 | Msa0925940 | 0.824350 | 8.465654e-54 | -8.615850e-47 |
| Msa0661420 | Msa0966580 | 0.809176 | 2.153094e-50 | -8.615850e-47 |
| Msa0661420 | Msa1019420 | 0.814661 | 1.375215e-51 | -8.615850e-47 |
| Msa0661420 | Msa1092310 | 0.819849 | 9.358395e-53 | -8.615850e-47 |
| Msa0661420 | Msa1202800 | 0.830656 | 2.597377e-55 | -8.615850e-47 |
| Msa0661420 | Msa1211940 | 0.824113 | 9.621968e-54 | -8.615850e-47 |
| Msa0661420 | Msa1212080 | 0.814424 | 1.551321e-51 | -8.615850e-47 |
| Msa0661420 | Msa1255210 | 0.829200 | 5.880584e-55 | -8.615850e-47 |
| Msa0661420 | Msa1268390 | 0.800488 | 1.407622e-48 | -8.615850e-47 |
| Msa0661420 | Msa1269200 | 0.809634 | 1.717778e-50 | -8.615850e-47 |
| Msa0661420 | Msa1295650 | 0.829981 | 3.798015e-55 | -8.615850e-47 |
| Msa0661420 | Msa1301280 | -0.803829 | 2.892107e-49 | -8.615850e-47 |
| Msa0661420 | Msa1343600 | 0.801636 | 8.201545e-49 | -8.615850e-47 |
| Msa0661420 | Msa1348540 | 0.824838 | 6.497779e-54 | -8.615850e-47 |
| Msa0661420 | Msa1413450 | 0.804441 | 2.156756e-49 | -8.615850e-47 |
| Msa0661420 | Msa1416130 | 0.806789 | 6.935643e-50 | -8.615850e-47 |
| Msa0661420 | Msa1430950 | 0.862102 | 6.424739e-64 | -8.615850e-47 |
| Msa0661420 | Msa1433040 | 0.808675 | 2.755905e-50 | -8.615850e-47 |
| Msa0168750 | Msa0661420 | 0.819537 | 1.102495e-52 | -8.615850e-47 |
| Msa0189990 | Msa0661420 | 0.823264 | 1.520792e-53 | -8.615850e-47 |
| Msa0210610 | Msa0661420 | 0.831053 | 2.076132e-55 | -8.615850e-47 |
| Msa0217060 | Msa0661420 | 0.812586 | 3.934645e-51 | -8.615850e-47 |
| Msa0219340 | Msa0661420 | 0.807645 | 4.567337e-50 | -8.615850e-47 |
| Msa0383480 | Msa0661420 | 0.823004 | 1.748725e-53 | -8.615850e-47 |
| Msa0415640 | Msa0661420 | 0.802011 | 6.867690e-49 | -8.615850e-47 |
| Msa0433650 | Msa0661420 | 0.836065 | 1.163713e-56 | -8.615850e-47 |
| Msa0477420 | Msa0661420 | 0.800945 | 1.136024e-48 | -8.615850e-47 |
| Msa0286360 | Msa0661420 | 0.811632 | 6.351753e-51 | -8.615850e-47 |
| Msa0289960 | Msa0661420 | 0.813166 | 2.936424e-51 | -8.615850e-47 |
| Msa0297910 | Msa0661420 | 0.812988 | 3.213741e-51 | -8.615850e-47 |
| Msa0307740 | Msa0661420 | 0.859586 | 3.734298e-63 | -8.615850e-47 |
| Msa0521490 | Msa0661420 | 0.836506 | 8.994486e-57 | -8.615850e-47 |
| Msa0521550 | Msa0661420 | 0.836936 | 6.987143e-57 | -8.615850e-47 |
| Msa0588040 | Msa0661420 | 0.801134 | 1.038936e-48 | -8.615850e-47 |
| Msa0590810 | Msa0661420 | 0.811609 | 6.427151e-51 | -8.615850e-47 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0661420 | MtrunA17_Chr1g0167771 | 96.078 | 102 | 4 | 0 | 1 | 102 | 13 | 114 | 6.29e-67 | 196 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 26 sgRNAs with CRISPR-Local
Find 30 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATCTCACTGTGTCTTCTATT+AGG | 0.227341 | 4_3:+72889031 | Msa0661420:CDS |
| AAGACACAGTGAGATGTATT+TGG | 0.235014 | 4_3:-72889023 | None:intergenic |
| TTTGGTGGCCAGTGTTTCTT+AGG | 0.235134 | 4_3:-72889139 | None:intergenic |
| GGGATTGTTTGGTCCACTTT+TGG | 0.317502 | 4_3:-72889202 | None:intergenic |
| GTAGGAGGCCAGTGTTTCTT+TGG | 0.327069 | 4_3:-72889157 | None:intergenic |
| TGGAAGAAGCATCCTCCTTC+AGG | 0.366754 | 4_3:+72889295 | Msa0661420:CDS |
| TCTCACTGTGTCTTCTATTA+GGG | 0.371015 | 4_3:+72889032 | Msa0661420:CDS |
| AGACACAGTGAGATGTATTT+GGG | 0.409412 | 4_3:-72889022 | None:intergenic |
| GAAGGAGGATGCTTCTTCCA+TGG | 0.436291 | 4_3:-72889292 | None:intergenic |
| GGAGGCCAGTGTTTCTTTGG+TGG | 0.468858 | 4_3:-72889154 | None:intergenic |
| CTTGTGACTATCCTCAACTA+TGG | 0.473523 | 4_3:-72889254 | None:intergenic |
| ACAAAATGATCTTCCAAAAG+TGG | 0.476864 | 4_3:+72889189 | Msa0661420:CDS |
| AAGGAGGATGCTTCTTCCAT+GGG | 0.483462 | 4_3:-72889291 | None:intergenic |
| GCTTCTTCCATGGGTGCTTG+TGG | 0.496634 | 4_3:-72889282 | None:intergenic |
| GACTATCCTCAACTATGGTA+TGG | 0.539163 | 4_3:-72889249 | None:intergenic |
| AGCATCACCACAAGCACCCA+TGG | 0.549276 | 4_3:+72889275 | Msa0661420:CDS |
| CCTCTGTGAGTGTTAATGCT+TGG | 0.552898 | 4_3:+72889104 | Msa0661420:CDS |
| ATTAATCAATTTCCTGAAGG+AGG | 0.566620 | 4_3:-72889307 | None:intergenic |
| ATGATTAATCAATTTCCTGA+AGG | 0.570240 | 4_3:-72889310 | None:intergenic |
| ACTGGCCACCAAAGAAACAC+TGG | 0.593745 | 4_3:+72889149 | Msa0661420:CDS |
| TTCTCTAGCAGATCTTTCAG+AGG | 0.609208 | 4_3:+72889075 | Msa0661420:CDS |
| ATAAGCAACCTAAGAAACAC+TGG | 0.614646 | 4_3:+72889131 | Msa0661420:CDS |
| AGAAGACCATACCATAGTTG+AGG | 0.630682 | 4_3:+72889243 | Msa0661420:CDS |
| TGAAAGATCTGCTAGAGAAG+TGG | 0.631719 | 4_3:-72889071 | None:intergenic |
| AAGATCTGCTAGAGAAGTGG+TGG | 0.634386 | 4_3:-72889068 | None:intergenic |
| CCAAGCATTAACACTCACAG+AGG | 0.666199 | 4_3:-72889104 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AAGATCATTTTGTGTAGTTG+TGG | - | chr4_3:72889182-72889201 | None:intergenic | 30.0% |
| ACAAAATGATCTTCCAAAAG+TGG | + | chr4_3:72889189-72889208 | Msa0661420:CDS | 30.0% | |
| AGACACAGTGAGATGTATTT+GGG | - | chr4_3:72889025-72889044 | None:intergenic | 35.0% | |
| AAGACACAGTGAGATGTATT+TGG | - | chr4_3:72889026-72889045 | None:intergenic | 35.0% | |
| ATCTCACTGTGTCTTCTATT+AGG | + | chr4_3:72889031-72889050 | Msa0661420:CDS | 35.0% | |
| TCTCACTGTGTCTTCTATTA+GGG | + | chr4_3:72889032-72889051 | Msa0661420:CDS | 35.0% | |
| ATAAGCAACCTAAGAAACAC+TGG | + | chr4_3:72889131-72889150 | Msa0661420:CDS | 35.0% | |
| ! | TCATTTTGTGTAGTTGTGGT+AGG | - | chr4_3:72889178-72889197 | None:intergenic | 35.0% |
| !!! | GTTTGTTTTGTGGGATTGTT+TGG | - | chr4_3:72889216-72889235 | None:intergenic | 35.0% |
| !!! | CTTGTGCTTGTTTGTTTTGT+GGG | - | chr4_3:72889225-72889244 | None:intergenic | 35.0% |
| !!! | TCTTGTGCTTGTTTGTTTTG+TGG | - | chr4_3:72889226-72889245 | None:intergenic | 35.0% |
| TGAAAGATCTGCTAGAGAAG+TGG | - | chr4_3:72889074-72889093 | None:intergenic | 40.0% | |
| TTCTCTAGCAGATCTTTCAG+AGG | + | chr4_3:72889075-72889094 | Msa0661420:CDS | 40.0% | |
| ! | TTTTGTGTAGTTGTGGTAGG+AGG | - | chr4_3:72889175-72889194 | None:intergenic | 40.0% |
| AGAAGACCATACCATAGTTG+AGG | + | chr4_3:72889243-72889262 | Msa0661420:CDS | 40.0% | |
| GACTATCCTCAACTATGGTA+TGG | - | chr4_3:72889252-72889271 | None:intergenic | 40.0% | |
| CTTGTGACTATCCTCAACTA+TGG | - | chr4_3:72889257-72889276 | None:intergenic | 40.0% | |
| AAGATCTGCTAGAGAAGTGG+TGG | - | chr4_3:72889071-72889090 | None:intergenic | 45.0% | |
| CCAAGCATTAACACTCACAG+AGG | - | chr4_3:72889107-72889126 | None:intergenic | 45.0% | |
| CCTCTGTGAGTGTTAATGCT+TGG | + | chr4_3:72889104-72889123 | Msa0661420:CDS | 45.0% | |
| ! | TTTGGTGGCCAGTGTTTCTT+AGG | - | chr4_3:72889142-72889161 | None:intergenic | 45.0% |
| ! | GGGATTGTTTGGTCCACTTT+TGG | - | chr4_3:72889205-72889224 | None:intergenic | 45.0% |
| AAGGAGGATGCTTCTTCCAT+GGG | - | chr4_3:72889294-72889313 | None:intergenic | 45.0% | |
| ACTGGCCACCAAAGAAACAC+TGG | + | chr4_3:72889149-72889168 | Msa0661420:CDS | 50.0% | |
| GTAGGAGGCCAGTGTTTCTT+TGG | - | chr4_3:72889160-72889179 | None:intergenic | 50.0% | |
| GAAGGAGGATGCTTCTTCCA+TGG | - | chr4_3:72889295-72889314 | None:intergenic | 50.0% | |
| !! | TGGAAGAAGCATCCTCCTTC+AGG | + | chr4_3:72889295-72889314 | Msa0661420:CDS | 50.0% |
| GGAGGCCAGTGTTTCTTTGG+TGG | - | chr4_3:72889157-72889176 | None:intergenic | 55.0% | |
| AGCATCACCACAAGCACCCA+TGG | + | chr4_3:72889275-72889294 | Msa0661420:CDS | 55.0% | |
| GCTTCTTCCATGGGTGCTTG+TGG | - | chr4_3:72889285-72889304 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_3 | gene | 72889016 | 72889324 | 72889016 | ID=Msa0661420;Name=Msa0661420 |
| chr4_3 | mRNA | 72889016 | 72889324 | 72889016 | ID=Msa0661420-mRNA-1;Parent=Msa0661420;Name=Msa0661420-mRNA-1;_AED=0.25;_eAED=0.25;_QI=0|-1|0|1|-1|1|1|0|102 |
| chr4_3 | exon | 72889016 | 72889324 | 72889016 | ID=Msa0661420-mRNA-1:exon:21874;Parent=Msa0661420-mRNA-1 |
| chr4_3 | CDS | 72889016 | 72889324 | 72889016 | ID=Msa0661420-mRNA-1:cds;Parent=Msa0661420-mRNA-1 |
| Gene Sequence |
| Protein sequence |
