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 |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0054390 | sp|Q9FXI5|IQD32_ARATH | 44.693 | 179 | 67 | 8 | 1 | 175 | 638 | 788 | 2.24e-27 | 112 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0054390 | G7I6H0 | 94.595 | 185 | 10 | 0 | 1 | 185 | 599 | 783 | 2.03e-111 | 345 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0054390 | Msa0102110 | 0.868171 | 7.958196e-66 | -8.615850e-47 |
| Msa0054390 | Msa0146820 | 0.842919 | 1.926482e-58 | -8.615850e-47 |
| Msa0054390 | Msa0175270 | 0.804675 | 1.927371e-49 | -8.615850e-47 |
| Msa0054390 | Msa0248680 | 0.826622 | 2.452717e-54 | -8.615850e-47 |
| Msa0054390 | Msa0346740 | 0.804986 | 1.659556e-49 | -8.615850e-47 |
| Msa0054390 | Msa0379790 | -0.805020 | 1.633182e-49 | -8.615850e-47 |
| Msa0054390 | Msa0430370 | 0.812187 | 4.809047e-51 | -8.615850e-47 |
| Msa0054390 | Msa0522700 | 0.811818 | 5.787316e-51 | -8.615850e-47 |
| Msa0054390 | Msa0549370 | 0.809257 | 2.069625e-50 | -8.615850e-47 |
| Msa0054390 | Msa1040150 | 0.842057 | 3.263010e-58 | -8.615850e-47 |
| Msa0054390 | Msa1123970 | 0.805449 | 1.327703e-49 | -8.615850e-47 |
| Msa0054390 | Msa1128130 | 0.808032 | 3.779254e-50 | -8.615850e-47 |
| Msa0054390 | Msa1169650 | 0.808968 | 2.386458e-50 | -8.615850e-47 |
| Msa0054390 | Msa1221780 | -0.838481 | 2.803262e-57 | -8.615850e-47 |
| Msa0054390 | Msa1333900 | -0.836006 | 1.204796e-56 | -8.615850e-47 |
| Msa0054390 | Msa1349690 | 0.800253 | 1.572045e-48 | -8.615850e-47 |
| Msa0054390 | Msa1351900 | 0.805787 | 1.127879e-49 | -8.615850e-47 |
| Msa0054390 | Msa1358290 | 0.817148 | 3.831703e-52 | -8.615850e-47 |
| Msa0054390 | Msa1417440 | -0.804799 | 1.815939e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0054390 | MtrunA17_Chr1g0156121 | 94.595 | 185 | 10 | 0 | 1 | 185 | 599 | 783 | 3.91e-115 | 345 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0054390 | AT1G19870.2 | 44.693 | 179 | 67 | 8 | 1 | 175 | 455 | 605 | 1.56e-28 | 112 |
| Msa0054390 | AT1G19870.1 | 44.693 | 179 | 67 | 8 | 1 | 175 | 638 | 788 | 2.27e-28 | 112 |
Find 52 sgRNAs with CRISPR-Local
Find 52 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GAAGGTGTTCCTTGAGATTC+AGG | 0.211542 | 1_2:-9161915 | None:intergenic |
| CCCTTTGTGCCCTGCAGAGC+TGG | 0.292599 | 1_2:-9162410 | None:intergenic |
| ATTGCTACTACTATTATCTT+TGG | 0.306041 | 1_2:-9162210 | None:intergenic |
| GCTAATTCAAATCAAGATTC+AGG | 0.330999 | 1_2:+9162032 | Msa0054390:CDS |
| GGTTCTTGATCAGTGGGTTC+AGG | 0.340125 | 1_2:-9162185 | None:intergenic |
| GCGAATGCAAATCATGATTC+AGG | 0.353964 | 1_2:+9162086 | Msa0054390:CDS |
| GTCATTATCTCCAGCTCTGC+AGG | 0.369580 | 1_2:+9162400 | Msa0054390:CDS |
| CTAAAGATTACTTGCTACTT+TGG | 0.376328 | 1_2:+9162470 | Msa0054390:CDS |
| TTGTGTAGCTTGCATGAAAC+GGG | 0.383519 | 1_2:-9162243 | None:intergenic |
| TGCACATCTGGACTTGATCT+TGG | 0.387615 | 1_2:-9162299 | None:intergenic |
| GGAAAGAGACGCAATTCATT+TGG | 0.388346 | 1_2:+9162152 | Msa0054390:CDS |
| AACACCTTCAAGTCAGGTTT+CGG | 0.391099 | 1_2:+9161929 | Msa0054390:CDS |
| AGAGGAATTTGCATTTATCT+TGG | 0.400449 | 1_2:-9162276 | None:intergenic |
| ATGTCAGTGTCATGCACATC+TGG | 0.402507 | 1_2:-9162311 | None:intergenic |
| ACCTGGTGCAACTGGTAAGC+AGG | 0.406901 | 1_2:+9162358 | Msa0054390:CDS |
| TCTAAAACTAAGAAAATGTT+AGG | 0.411532 | 1_2:-9162512 | None:intergenic |
| TTGGTAGGTTCTTGATCAGT+GGG | 0.414639 | 1_2:-9162191 | None:intergenic |
| TTTCCATTCAGCTGATCCTT+AGG | 0.417372 | 1_2:-9162134 | None:intergenic |
| CATTCCTTACCTGGTGCAAC+TGG | 0.427428 | 1_2:+9162350 | Msa0054390:CDS |
| TTCACCGAAACCTGACTTGA+AGG | 0.429554 | 1_2:-9161933 | None:intergenic |
| TCAAGGAACACCTTCAAGTC+AGG | 0.430241 | 1_2:+9161923 | Msa0054390:CDS |
| ACAAAGGGCAATGGTTCATC+TGG | 0.448716 | 1_2:+9162425 | Msa0054390:CDS |
| ATTTGCATTTATCTTGGCCT+TGG | 0.451725 | 1_2:-9162270 | None:intergenic |
| CCAGCTCTGCAGGGCACAAA+GGG | 0.458401 | 1_2:+9162410 | Msa0054390:CDS |
| GAGAATAAAATCAACAAGAC+TGG | 0.464101 | 1_2:+9161963 | Msa0054390:CDS |
| GAATCTTGATTTGAATTAGC+AGG | 0.467650 | 1_2:-9162029 | None:intergenic |
| ATTTGCATTCGCAGGAGACT+TGG | 0.490435 | 1_2:-9162075 | None:intergenic |
| ATTGTGTAGCTTGCATGAAA+CGG | 0.493254 | 1_2:-9162244 | None:intergenic |
| CTTACCAGTTGCACCAGGTA+AGG | 0.496866 | 1_2:-9162354 | None:intergenic |
| TTTGGTAGGTTCTTGATCAG+TGG | 0.497450 | 1_2:-9162192 | None:intergenic |
| TTGCCTAAGGATCAGCTGAA+TGG | 0.499267 | 1_2:+9162131 | Msa0054390:CDS |
| CTACTACTATTATCTTTGGT+AGG | 0.501445 | 1_2:-9162206 | None:intergenic |
| GTAGCAAGTAATCTTTAGAA+AGG | 0.511841 | 1_2:-9162465 | None:intergenic |
| AACTAAGAAAATGTTAGGTA+TGG | 0.515549 | 1_2:-9162507 | None:intergenic |
| GAATCATGATTTGCATTCGC+AGG | 0.523017 | 1_2:-9162083 | None:intergenic |
| AGACGCAGGGTACTGTCTGC+TGG | 0.543441 | 1_2:+9161996 | Msa0054390:CDS |
| ATGACAATTCCTGAATCTCA+AGG | 0.562140 | 1_2:+9161906 | Msa0054390:CDS |
| CCCTGCTTACCAGTTGCACC+AGG | 0.570056 | 1_2:-9162359 | None:intergenic |
| CTGCAGGGCACAAAGGGCAA+TGG | 0.570514 | 1_2:+9162416 | Msa0054390:CDS |
| TCCAGCTCTGCAGGGCACAA+AGG | 0.574271 | 1_2:+9162409 | Msa0054390:CDS |
| AAGAAGAGACATTCCTTACC+TGG | 0.579855 | 1_2:+9162341 | Msa0054390:CDS |
| TAGTAGAGAACAATTGCCTA+AGG | 0.581315 | 1_2:+9162118 | Msa0054390:CDS |
| CCTGGTGCAACTGGTAAGCA+GGG | 0.589383 | 1_2:+9162359 | Msa0054390:CDS |
| AATCATGATTCAGGCTCAAG+AGG | 0.598045 | 1_2:+9162095 | Msa0054390:CDS |
| GATAATGACTGTTCGACACG+CGG | 0.605175 | 1_2:-9162386 | None:intergenic |
| CTGGATCAAGCAGTAGACGC+AGG | 0.606218 | 1_2:+9161982 | Msa0054390:CDS |
| ATCTGGACTTGATCTTGGAG+AGG | 0.618466 | 1_2:-9162294 | None:intergenic |
| TCATTATCTCCAGCTCTGCA+GGG | 0.630457 | 1_2:+9162401 | Msa0054390:CDS |
| GCAAGCTACACAATCTGCCA+AGG | 0.638530 | 1_2:+9162253 | Msa0054390:CDS |
| TGGATCAAGCAGTAGACGCA+GGG | 0.654626 | 1_2:+9161983 | Msa0054390:CDS |
| TCAGGCTCAAGAGTGTCTGT+CGG | 0.675797 | 1_2:+9162050 | Msa0054390:CDS |
| TGTGTAGCTTGCATGAAACG+GGG | 0.721075 | 1_2:-9162242 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TCTAAAACTAAGAAAATGTT+AGG | - | chr1_2:9162515-9162534 | None:intergenic | 20.0% |
| ! | ATTGCTACTACTATTATCTT+TGG | - | chr1_2:9162213-9162232 | None:intergenic | 25.0% |
| ! | AACTAAGAAAATGTTAGGTA+TGG | - | chr1_2:9162510-9162529 | None:intergenic | 25.0% |
| GAGAATAAAATCAACAAGAC+TGG | + | chr1_2:9161963-9161982 | Msa0054390:CDS | 30.0% | |
| ! | GAATCTTGATTTGAATTAGC+AGG | - | chr1_2:9162032-9162051 | None:intergenic | 30.0% |
| GCTAATTCAAATCAAGATTC+AGG | + | chr1_2:9162032-9162051 | Msa0054390:CDS | 30.0% | |
| CTACTACTATTATCTTTGGT+AGG | - | chr1_2:9162209-9162228 | None:intergenic | 30.0% | |
| AGAGGAATTTGCATTTATCT+TGG | - | chr1_2:9162279-9162298 | None:intergenic | 30.0% | |
| ! | GTAGCAAGTAATCTTTAGAA+AGG | - | chr1_2:9162468-9162487 | None:intergenic | 30.0% |
| ! | CTAAAGATTACTTGCTACTT+TGG | + | chr1_2:9162470-9162489 | Msa0054390:CDS | 30.0% |
| ATGACAATTCCTGAATCTCA+AGG | + | chr1_2:9161906-9161925 | Msa0054390:CDS | 35.0% | |
| TAGTAGAGAACAATTGCCTA+AGG | + | chr1_2:9162118-9162137 | Msa0054390:CDS | 35.0% | |
| ! | ATTGTGTAGCTTGCATGAAA+CGG | - | chr1_2:9162247-9162266 | None:intergenic | 35.0% |
| ATTTGCATTTATCTTGGCCT+TGG | - | chr1_2:9162273-9162292 | None:intergenic | 35.0% | |
| AACACCTTCAAGTCAGGTTT+CGG | + | chr1_2:9161929-9161948 | Msa0054390:CDS | 40.0% | |
| ! | GAATCATGATTTGCATTCGC+AGG | - | chr1_2:9162086-9162105 | None:intergenic | 40.0% |
| GCGAATGCAAATCATGATTC+AGG | + | chr1_2:9162086-9162105 | Msa0054390:CDS | 40.0% | |
| AATCATGATTCAGGCTCAAG+AGG | + | chr1_2:9162095-9162114 | Msa0054390:CDS | 40.0% | |
| TTTCCATTCAGCTGATCCTT+AGG | - | chr1_2:9162137-9162156 | None:intergenic | 40.0% | |
| GGAAAGAGACGCAATTCATT+TGG | + | chr1_2:9162152-9162171 | Msa0054390:CDS | 40.0% | |
| TTGGTAGGTTCTTGATCAGT+GGG | - | chr1_2:9162194-9162213 | None:intergenic | 40.0% | |
| TTTGGTAGGTTCTTGATCAG+TGG | - | chr1_2:9162195-9162214 | None:intergenic | 40.0% | |
| ! | TTGTGTAGCTTGCATGAAAC+GGG | - | chr1_2:9162246-9162265 | None:intergenic | 40.0% |
| AAGAAGAGACATTCCTTACC+TGG | + | chr1_2:9162341-9162360 | Msa0054390:CDS | 40.0% | |
| !! | GAAGGTGTTCCTTGAGATTC+AGG | - | chr1_2:9161918-9161937 | None:intergenic | 45.0% |
| TCAAGGAACACCTTCAAGTC+AGG | + | chr1_2:9161923-9161942 | Msa0054390:CDS | 45.0% | |
| ! | TTCACCGAAACCTGACTTGA+AGG | - | chr1_2:9161936-9161955 | None:intergenic | 45.0% |
| ATTTGCATTCGCAGGAGACT+TGG | - | chr1_2:9162078-9162097 | None:intergenic | 45.0% | |
| TTGCCTAAGGATCAGCTGAA+TGG | + | chr1_2:9162131-9162150 | Msa0054390:CDS | 45.0% | |
| ! | TGTGTAGCTTGCATGAAACG+GGG | - | chr1_2:9162245-9162264 | None:intergenic | 45.0% |
| ATCTGGACTTGATCTTGGAG+AGG | - | chr1_2:9162297-9162316 | None:intergenic | 45.0% | |
| TGCACATCTGGACTTGATCT+TGG | - | chr1_2:9162302-9162321 | None:intergenic | 45.0% | |
| ATGTCAGTGTCATGCACATC+TGG | - | chr1_2:9162314-9162333 | None:intergenic | 45.0% | |
| GATAATGACTGTTCGACACG+CGG | - | chr1_2:9162389-9162408 | None:intergenic | 45.0% | |
| TCATTATCTCCAGCTCTGCA+GGG | + | chr1_2:9162401-9162420 | Msa0054390:CDS | 45.0% | |
| ACAAAGGGCAATGGTTCATC+TGG | + | chr1_2:9162425-9162444 | Msa0054390:CDS | 45.0% | |
| TGGATCAAGCAGTAGACGCA+GGG | + | chr1_2:9161983-9162002 | Msa0054390:CDS | 50.0% | |
| !! | TCAGGCTCAAGAGTGTCTGT+CGG | + | chr1_2:9162050-9162069 | Msa0054390:CDS | 50.0% |
| ! | GGTTCTTGATCAGTGGGTTC+AGG | - | chr1_2:9162188-9162207 | None:intergenic | 50.0% |
| GCAAGCTACACAATCTGCCA+AGG | + | chr1_2:9162253-9162272 | Msa0054390:CDS | 50.0% | |
| CATTCCTTACCTGGTGCAAC+TGG | + | chr1_2:9162350-9162369 | Msa0054390:CDS | 50.0% | |
| CTTACCAGTTGCACCAGGTA+AGG | - | chr1_2:9162357-9162376 | None:intergenic | 50.0% | |
| GTCATTATCTCCAGCTCTGC+AGG | + | chr1_2:9162400-9162419 | Msa0054390:CDS | 50.0% | |
| CTGGATCAAGCAGTAGACGC+AGG | + | chr1_2:9161982-9162001 | Msa0054390:CDS | 55.0% | |
| ACCTGGTGCAACTGGTAAGC+AGG | + | chr1_2:9162358-9162377 | Msa0054390:CDS | 55.0% | |
| CCTGGTGCAACTGGTAAGCA+GGG | + | chr1_2:9162359-9162378 | Msa0054390:CDS | 55.0% | |
| !! | AGACGCAGGGTACTGTCTGC+TGG | + | chr1_2:9161996-9162015 | Msa0054390:CDS | 60.0% |
| CCCTGCTTACCAGTTGCACC+AGG | - | chr1_2:9162362-9162381 | None:intergenic | 60.0% | |
| TCCAGCTCTGCAGGGCACAA+AGG | + | chr1_2:9162409-9162428 | Msa0054390:CDS | 60.0% | |
| CCAGCTCTGCAGGGCACAAA+GGG | + | chr1_2:9162410-9162429 | Msa0054390:CDS | 60.0% | |
| CTGCAGGGCACAAAGGGCAA+TGG | + | chr1_2:9162416-9162435 | Msa0054390:CDS | 60.0% | |
| CCCTTTGTGCCCTGCAGAGC+TGG | - | chr1_2:9162413-9162432 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 9161906 | 9162538 | 9161906 | ID=Msa0054390;Name=Msa0054390 |
| chr1_2 | mRNA | 9161906 | 9162538 | 9161906 | ID=Msa0054390-mRNA-1;Parent=Msa0054390;Name=Msa0054390-mRNA-1;_AED=0.32;_eAED=0.71;_QI=0|-1|0|1|-1|1|1|0|210 |
| chr1_2 | exon | 9161906 | 9162538 | 9161906 | ID=Msa0054390-mRNA-1:exon:3307;Parent=Msa0054390-mRNA-1 |
| chr1_2 | CDS | 9161906 | 9162538 | 9161906 | ID=Msa0054390-mRNA-1:cds;Parent=Msa0054390-mRNA-1 |
| Gene Sequence |
| Protein sequence |
