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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0827490 | XP_003607196.1 | 99.296 | 142 | 1 | 0 | 22 | 163 | 555 | 696 | 4.70e-86 | 286 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0827490 | sp|Q6WWW4|UPL3_ARATH | 68.310 | 142 | 40 | 2 | 22 | 163 | 564 | 700 | 4.83e-49 | 172 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0827490 | G7JNF2 | 99.296 | 142 | 1 | 0 | 22 | 163 | 555 | 696 | 2.24e-86 | 286 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0033160 | Msa0827490 | 0.800093 | 1.694337e-48 | -8.615850e-47 |
| Msa0827490 | Msa1026100 | 0.805925 | 1.054743e-49 | -8.615850e-47 |
| Msa0827490 | Msa1040110 | 0.804704 | 1.901468e-49 | -8.615850e-47 |
| Msa0827490 | Msa1064860 | 0.826967 | 2.028375e-54 | -8.615850e-47 |
| Msa0827490 | Msa1109980 | 0.808972 | 2.381578e-50 | -8.615850e-47 |
| Msa0827490 | Msa1123310 | 0.805192 | 1.502899e-49 | -8.615850e-47 |
| Msa0827490 | Msa1153620 | 0.822076 | 2.875037e-53 | -8.615850e-47 |
| Msa0827490 | Msa1279490 | 0.804738 | 1.870636e-49 | -8.615850e-47 |
| Msa0827490 | Msa1404220 | 0.818652 | 1.752867e-52 | -8.615850e-47 |
| Msa0126270 | Msa0827490 | 0.822109 | 2.823713e-53 | -8.615850e-47 |
| Msa0297090 | Msa0827490 | 0.845217 | 4.662127e-59 | -8.615850e-47 |
| Msa0328420 | Msa0827490 | 0.856448 | 3.194702e-62 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0827490 | MtrunA17_Chr4g0037101 | 99.296 | 142 | 1 | 0 | 22 | 163 | 555 | 696 | 4.32e-90 | 286 |
| Msa0827490 | MtrunA17_Chr1g0181721 | 42.574 | 101 | 58 | 0 | 22 | 122 | 440 | 540 | 1.46e-20 | 87.4 |
| Msa0827490 | MtrunA17_Chr7g0263621 | 46.809 | 94 | 49 | 1 | 21 | 113 | 62 | 155 | 2.82e-18 | 77.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0827490 | AT4G38600.3 | 68.310 | 142 | 40 | 2 | 22 | 163 | 564 | 700 | 4.91e-50 | 172 |
| Msa0827490 | AT4G38600.1 | 68.310 | 142 | 40 | 2 | 22 | 163 | 564 | 700 | 4.91e-50 | 172 |
| Msa0827490 | AT4G38600.2 | 68.310 | 142 | 40 | 2 | 22 | 163 | 491 | 627 | 5.55e-50 | 172 |
| Msa0827490 | AT5G02880.2 | 48.352 | 91 | 47 | 0 | 24 | 114 | 449 | 539 | 2.73e-19 | 84.3 |
| Msa0827490 | AT5G02880.1 | 48.352 | 91 | 47 | 0 | 24 | 114 | 449 | 539 | 3.04e-19 | 84.3 |
Find 40 sgRNAs with CRISPR-Local
Find 47 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCAAATTGCTGAAATTCTTA+TGG | 0.221090 | 5_3:-68796139 | Msa0827490:CDS |
| CACAAATGTCTTTCAGTCAT+TGG | 0.307699 | 5_3:-68796377 | Msa0827490:CDS |
| GTGCGTTTGAAACAGATATA+TGG | 0.331160 | 5_3:-68796425 | Msa0827490:CDS |
| GAGACATTGGTTGAATTTCC+AGG | 0.351797 | 5_3:+68796042 | None:intergenic |
| CATCCCGCCCTAGGCGTAAT+CGG | 0.354975 | 5_3:-68795969 | Msa0827490:CDS |
| CAAATCATCCCCGTCAGGAT+TGG | 0.420098 | 5_3:+68795930 | None:intergenic |
| ATTTCAGCAATTTGCAAGGC+AGG | 0.426811 | 5_3:+68796147 | None:intergenic |
| GGCTATTCGATAACTGATAA+TGG | 0.440512 | 5_3:-68796452 | Msa0827490:CDS |
| TGCTTTCTTGCTTCCTCATG+TGG | 0.443503 | 5_3:-68796473 | Msa0827490:CDS |
| TAGTTTCTTAGCTGGAGTCT+TGG | 0.448722 | 5_3:-68796196 | Msa0827490:CDS |
| AGGCGTAATCGGCGACGCTC+TGG | 0.449861 | 5_3:-68795958 | Msa0827490:CDS |
| GAAAGACATTTGTGACGAAC+AGG | 0.456197 | 5_3:+68796386 | None:intergenic |
| CTAGGGCGGGATGATGCTCC+AGG | 0.465940 | 5_3:+68795979 | None:intergenic |
| AAGGATACCGATTCTATGCC+TGG | 0.467329 | 5_3:-68795997 | Msa0827490:CDS |
| TTGTCACGCTTAACAAAGAC+TGG | 0.475047 | 5_3:+68796321 | None:intergenic |
| TGATCATATAGTTTCTTAGC+TGG | 0.488236 | 5_3:-68796204 | Msa0827490:intron |
| AATTTCCAGGCAAAATAAGT+TGG | 0.496103 | 5_3:+68796055 | None:intergenic |
| CTGGCAACTCCAATCCTGAC+GGG | 0.499656 | 5_3:-68795939 | Msa0827490:CDS |
| GAGCGTCGCCGATTACGCCT+AGG | 0.521086 | 5_3:+68795961 | None:intergenic |
| TCTAAGATGTTTATCAGAGA+AGG | 0.522251 | 5_3:-68796096 | Msa0827490:CDS |
| AGCGTCGCCGATTACGCCTA+GGG | 0.526107 | 5_3:+68795962 | None:intergenic |
| CTGGAGCATCATCCCGCCCT+AGG | 0.530398 | 5_3:-68795978 | Msa0827490:CDS |
| TCGCCGATTACGCCTAGGGC+GGG | 0.539941 | 5_3:+68795966 | None:intergenic |
| ACAAGCATCTTCAGCAGAGA+AGG | 0.547081 | 5_3:-68796016 | Msa0827490:CDS |
| TGATGCTCCAGGCATAGAAT+CGG | 0.550113 | 5_3:+68795990 | None:intergenic |
| AAGAATTTCAGCAATTTGCA+AGG | 0.555530 | 5_3:+68796143 | None:intergenic |
| TAAGCGTGACAAATATATCA+AGG | 0.559007 | 5_3:-68796310 | Msa0827490:intron |
| AAATAAGTTGGTCCACTGCA+TGG | 0.560838 | 5_3:+68796067 | None:intergenic |
| AACATCTTAGAGAATGTCTC+GGG | 0.561094 | 5_3:+68796108 | None:intergenic |
| AAACATCTTAGAGAATGTCT+CGG | 0.582121 | 5_3:+68796107 | None:intergenic |
| TCTGGCAACTCCAATCCTGA+CGG | 0.588872 | 5_3:-68795940 | Msa0827490:CDS |
| AAAGACTGGATCATCTCCGA+TGG | 0.592065 | 5_3:+68796335 | None:intergenic |
| AGAAGGTGTCGTCCATGCAG+TGG | 0.601616 | 5_3:-68796079 | Msa0827490:CDS |
| GTCGCCGATTACGCCTAGGG+CGG | 0.603638 | 5_3:+68795965 | None:intergenic |
| AAGACTGGATCATCTCCGAT+GGG | 0.618931 | 5_3:+68796336 | None:intergenic |
| GTTGATGTATTTCAGCCCAT+CGG | 0.621304 | 5_3:-68796351 | Msa0827490:CDS |
| AGATGCTTGTGTAGAGACAT+TGG | 0.637168 | 5_3:+68796029 | None:intergenic |
| TGGCAACTCCAATCCTGACG+GGG | 0.642150 | 5_3:-68795938 | Msa0827490:CDS |
| AGTTATCGAATAGCCACATG+AGG | 0.669493 | 5_3:+68796460 | None:intergenic |
| TATTCGATAACTGATAATGG+TGG | 0.677314 | 5_3:-68796449 | Msa0827490:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AGTAAAACATTGATAATATG+AGG | + | chr5_3:68796151-68796170 | None:intergenic | 20.0% |
| !!! | TCATATTATCAATGTTTTAC+TGG | - | chr5_3:68796150-68796169 | Msa0827490:CDS | 20.0% |
| !! | TATTCGATAACTGATAATGG+TGG | - | chr5_3:68795954-68795973 | Msa0827490:CDS | 30.0% |
| TAAGCGTGACAAATATATCA+AGG | - | chr5_3:68796093-68796112 | Msa0827490:CDS | 30.0% | |
| TGATCATATAGTTTCTTAGC+TGG | - | chr5_3:68796199-68796218 | Msa0827490:intron | 30.0% | |
| AAGAATTTCAGCAATTTGCA+AGG | + | chr5_3:68796263-68796282 | None:intergenic | 30.0% | |
| GCAAATTGCTGAAATTCTTA+TGG | - | chr5_3:68796264-68796283 | Msa0827490:intron | 30.0% | |
| AAACATCTTAGAGAATGTCT+CGG | + | chr5_3:68796299-68796318 | None:intergenic | 30.0% | |
| ! | TCTAAGATGTTTATCAGAGA+AGG | - | chr5_3:68796307-68796326 | Msa0827490:intron | 30.0% |
| AATTTCCAGGCAAAATAAGT+TGG | + | chr5_3:68796351-68796370 | None:intergenic | 30.0% | |
| GGCTATTCGATAACTGATAA+TGG | - | chr5_3:68795951-68795970 | Msa0827490:CDS | 35.0% | |
| ! | GTGCGTTTGAAACAGATATA+TGG | - | chr5_3:68795978-68795997 | Msa0827490:CDS | 35.0% |
| CACAAATGTCTTTCAGTCAT+TGG | - | chr5_3:68796026-68796045 | Msa0827490:CDS | 35.0% | |
| TATCTTGAAATCTGACTCCT+GGG | - | chr5_3:68796116-68796135 | Msa0827490:CDS | 35.0% | |
| AACATCTTAGAGAATGTCTC+GGG | + | chr5_3:68796298-68796317 | None:intergenic | 35.0% | |
| AGTTATCGAATAGCCACATG+AGG | + | chr5_3:68795946-68795965 | None:intergenic | 40.0% | |
| GAAAGACATTTGTGACGAAC+AGG | + | chr5_3:68796020-68796039 | None:intergenic | 40.0% | |
| GTTGATGTATTTCAGCCCAT+CGG | - | chr5_3:68796052-68796071 | Msa0827490:CDS | 40.0% | |
| TTGTCACGCTTAACAAAGAC+TGG | + | chr5_3:68796085-68796104 | None:intergenic | 40.0% | |
| GTATCTTGAAATCTGACTCC+TGG | - | chr5_3:68796115-68796134 | Msa0827490:CDS | 40.0% | |
| ATATGAGGCAATATCAACCC+AGG | + | chr5_3:68796136-68796155 | None:intergenic | 40.0% | |
| TAGTTTCTTAGCTGGAGTCT+TGG | - | chr5_3:68796207-68796226 | Msa0827490:intron | 40.0% | |
| ATTTCAGCAATTTGCAAGGC+AGG | + | chr5_3:68796259-68796278 | None:intergenic | 40.0% | |
| !! | AAATAAGTTGGTCCACTGCA+TGG | + | chr5_3:68796339-68796358 | None:intergenic | 40.0% |
| ! | GAGACATTGGTTGAATTTCC+AGG | + | chr5_3:68796364-68796383 | None:intergenic | 40.0% |
| AGATGCTTGTGTAGAGACAT+TGG | + | chr5_3:68796377-68796396 | None:intergenic | 40.0% | |
| TGCTTTCTTGCTTCCTCATG+TGG | - | chr5_3:68795930-68795949 | Msa0827490:CDS | 45.0% | |
| AAGACTGGATCATCTCCGAT+GGG | + | chr5_3:68796070-68796089 | None:intergenic | 45.0% | |
| AAAGACTGGATCATCTCCGA+TGG | + | chr5_3:68796071-68796090 | None:intergenic | 45.0% | |
| !!! | GTGGACCAACTTATTTTGCC+TGG | - | chr5_3:68796343-68796362 | Msa0827490:CDS | 45.0% |
| ACAAGCATCTTCAGCAGAGA+AGG | - | chr5_3:68796387-68796406 | Msa0827490:CDS | 45.0% | |
| !! | AAGGATACCGATTCTATGCC+TGG | - | chr5_3:68796406-68796425 | Msa0827490:CDS | 45.0% |
| TGATGCTCCAGGCATAGAAT+CGG | + | chr5_3:68796416-68796435 | None:intergenic | 45.0% | |
| ! | CTTTTCAAATCATCCCCGTC+AGG | + | chr5_3:68796481-68796500 | None:intergenic | 45.0% |
| TCTGGCAACTCCAATCCTGA+CGG | - | chr5_3:68796463-68796482 | Msa0827490:CDS | 50.0% | |
| CAAATCATCCCCGTCAGGAT+TGG | + | chr5_3:68796476-68796495 | None:intergenic | 50.0% | |
| !! | AGAAGGTGTCGTCCATGCAG+TGG | - | chr5_3:68796324-68796343 | Msa0827490:CDS | 55.0% |
| CTGGCAACTCCAATCCTGAC+GGG | - | chr5_3:68796464-68796483 | Msa0827490:CDS | 55.0% | |
| TGGCAACTCCAATCCTGACG+GGG | - | chr5_3:68796465-68796484 | Msa0827490:CDS | 55.0% | |
| CATCCCGCCCTAGGCGTAAT+CGG | - | chr5_3:68796434-68796453 | Msa0827490:CDS | 60.0% | |
| ! | AGCGTCGCCGATTACGCCTA+GGG | + | chr5_3:68796444-68796463 | None:intergenic | 60.0% |
| CTAGGGCGGGATGATGCTCC+AGG | + | chr5_3:68796427-68796446 | None:intergenic | 65.0% | |
| ! | CTGGAGCATCATCCCGCCCT+AGG | - | chr5_3:68796425-68796444 | Msa0827490:CDS | 65.0% |
| ! | TCGCCGATTACGCCTAGGGC+GGG | + | chr5_3:68796440-68796459 | None:intergenic | 65.0% |
| ! | GTCGCCGATTACGCCTAGGG+CGG | + | chr5_3:68796441-68796460 | None:intergenic | 65.0% |
| ! | GAGCGTCGCCGATTACGCCT+AGG | + | chr5_3:68796445-68796464 | None:intergenic | 65.0% |
| AGGCGTAATCGGCGACGCTC+TGG | - | chr5_3:68796445-68796464 | Msa0827490:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_3 | gene | 68795921 | 68796504 | 68795921 | ID=Msa0827490;Name=Msa0827490 |
| chr5_3 | mRNA | 68795921 | 68796504 | 68795921 | ID=Msa0827490-mRNA-1;Parent=Msa0827490;Name=Msa0827490-mRNA-1;_AED=0.48;_eAED=0.48;_QI=0|1|0|1|1|0.5|2|0|163 |
| chr5_3 | exon | 68796311 | 68796504 | 68796311 | ID=Msa0827490-mRNA-1:exon:21653;Parent=Msa0827490-mRNA-1 |
| chr5_3 | exon | 68795921 | 68796215 | 68795921 | ID=Msa0827490-mRNA-1:exon:21652;Parent=Msa0827490-mRNA-1 |
| chr5_3 | CDS | 68796311 | 68796504 | 68796311 | ID=Msa0827490-mRNA-1:cds;Parent=Msa0827490-mRNA-1 |
| chr5_3 | CDS | 68795921 | 68796215 | 68795921 | ID=Msa0827490-mRNA-1:cds;Parent=Msa0827490-mRNA-1 |
| Gene Sequence |
| Protein sequence |
