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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1305280 | XP_013457561.1 | 100.000 | 57 | 0 | 0 | 1 | 57 | 1 | 57 | 3.07e-30 | 116 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1305280 | sp|Q944A9|NPS11_ARATH | 76.786 | 56 | 13 | 0 | 1 | 56 | 1 | 56 | 9.04e-24 | 92.4 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1305280 | A0A072UPG8 | 100.000 | 57 | 0 | 0 | 1 | 57 | 1 | 57 | 1.47e-30 | 116 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0007970 | Msa1305280 | 0.809100 | 2.236172e-50 | -8.615850e-47 |
| Msa0012940 | Msa1305280 | 0.811506 | 6.765936e-51 | -8.615850e-47 |
| Msa0039250 | Msa1305280 | 0.803194 | 3.917053e-49 | -8.615850e-47 |
| Msa0052870 | Msa1305280 | 0.817704 | 2.872736e-52 | -8.615850e-47 |
| Msa0098470 | Msa1305280 | 0.807588 | 4.697154e-50 | -8.615850e-47 |
| Msa0692880 | Msa1305280 | 0.814106 | 1.824278e-51 | -8.615850e-47 |
| Msa0719400 | Msa1305280 | 0.805331 | 1.405551e-49 | -8.615850e-47 |
| Msa0799000 | Msa1305280 | 0.807748 | 4.342846e-50 | -8.615850e-47 |
| Msa0130110 | Msa1305280 | 0.811288 | 7.547617e-51 | -8.615850e-47 |
| Msa0133720 | Msa1305280 | 0.810556 | 1.086960e-50 | -8.615850e-47 |
| Msa0181230 | Msa1305280 | 0.807106 | 5.944344e-50 | -8.615850e-47 |
| Msa1252850 | Msa1305280 | -0.801890 | 7.272031e-49 | -8.615850e-47 |
| Msa1256850 | Msa1305280 | 0.829600 | 4.700582e-55 | -8.615850e-47 |
| Msa1297970 | Msa1305280 | 0.843062 | 1.765008e-58 | -8.615850e-47 |
| Msa1305280 | Msa1365760 | 0.828009 | 1.140752e-54 | -8.615850e-47 |
| Msa1305280 | Msa1373820 | 0.819082 | 1.399541e-52 | -8.615850e-47 |
| Msa1305280 | Msa1432920 | 0.830957 | 2.190843e-55 | -8.615850e-47 |
| Msa1305280 | Msa1459460 | 0.806031 | 1.002290e-49 | -8.615850e-47 |
| Msa0479200 | Msa1305280 | 0.813809 | 2.120989e-51 | -8.615850e-47 |
| Msa1076560 | Msa1305280 | 0.819133 | 1.362607e-52 | -8.615850e-47 |
| Msa0307570 | Msa1305280 | 0.818864 | 1.568769e-52 | -8.615850e-47 |
| Msa1206200 | Msa1305280 | 0.861076 | 1.322472e-63 | -8.615850e-47 |
| Msa1206230 | Msa1305280 | 0.854385 | 1.274862e-61 | -8.615850e-47 |
| Msa0556010 | Msa1305280 | 0.800486 | 1.409395e-48 | -8.615850e-47 |
| Msa0573380 | Msa1305280 | 0.809424 | 1.904906e-50 | -8.615850e-47 |
| Msa0581690 | Msa1305280 | 0.811496 | 6.800152e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1305280 | MtrunA17_Chr4g0055321 | 100.000 | 57 | 0 | 0 | 1 | 57 | 1 | 57 | 2.82e-34 | 116 |
| Msa1305280 | MtrunA17_Chr2g0302561 | 62.745 | 51 | 19 | 0 | 7 | 57 | 7 | 57 | 2.02e-17 | 72.4 |
| Msa1305280 | MtrunA17_Chr4g0069271 | 62.000 | 50 | 19 | 0 | 7 | 56 | 7 | 56 | 1.75e-15 | 67.4 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1305280 | AT2G35190.1 | 76.786 | 56 | 13 | 0 | 1 | 56 | 1 | 56 | 9.19e-25 | 92.4 |
| Msa1305280 | AT3G17440.2 | 62.745 | 51 | 19 | 0 | 6 | 56 | 6 | 56 | 5.32e-18 | 73.6 |
| Msa1305280 | AT3G17440.1 | 62.745 | 51 | 19 | 0 | 6 | 56 | 6 | 56 | 1.13e-17 | 73.6 |
| Msa1305280 | AT1G48240.1 | 62.745 | 51 | 19 | 0 | 6 | 56 | 6 | 56 | 3.22e-17 | 72.4 |
Find 26 sgRNAs with CRISPR-Local
Find 38 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGATTGATTACCGTTGAAAA+TGG | 0.262568 | 8_3:+68662074 | Msa1305280:exon |
| TCAGAAGCTGGAGAAAATTA+AGG | 0.285108 | 8_3:+68662278 | Msa1305280:CDS |
| AATAAATGCAGCACTCTGTT+TGG | 0.387247 | 8_3:+68661926 | Msa1305280:five_prime_UTR |
| AAGGGATCAAAAGCGCGTTT+AGG | 0.389328 | 8_3:-68661901 | None:intergenic |
| AGATCTGAATGAGGAAGGTT+TGG | 0.393793 | 8_3:-68662020 | None:intergenic |
| AAGAATAAACAAAACATTGT+TGG | 0.436069 | 8_3:-68661819 | None:intergenic |
| AGAATAAACAAAACATTGTT+GGG | 0.455034 | 8_3:-68661818 | None:intergenic |
| AGAAAATGCGAGAGTGTAAA+GGG | 0.476625 | 8_3:+68662340 | Msa1305280:CDS |
| CGATAGAGCGCGGAAATTGT+CGG | 0.478777 | 8_3:-68662148 | None:intergenic |
| GAGAAAATGCGAGAGTGTAA+AGG | 0.497667 | 8_3:+68662339 | Msa1305280:CDS |
| GATTATTGGATTCTGTAATG+TGG | 0.515607 | 8_3:-68661968 | None:intergenic |
| CAGAAATGGATTTCAGAAGC+TGG | 0.516653 | 8_3:+68662266 | Msa1305280:intron |
| AGTGCAAAATCTGACGGTTG+AGG | 0.520924 | 8_3:+68662050 | Msa1305280:five_prime_UTR |
| GAGTAGAAAGAGCAGGCAAT+TGG | 0.528613 | 8_3:+68662305 | Msa1305280:CDS |
| GTTGAAAATGGATCAGTTGT+CGG | 0.540328 | 8_3:+68662086 | Msa1305280:exon |
| GAGGATCTGGCGGAGATCGA+CGG | 0.558067 | 8_3:+68662117 | Msa1305280:CDS |
| TAAACAAAACATTGTTGGGT+CGG | 0.582811 | 8_3:-68661814 | None:intergenic |
| CGGCGAGATCTGAATGAGGA+AGG | 0.595127 | 8_3:-68662025 | None:intergenic |
| GGCGATCAGCGAGGATCTGG+CGG | 0.606362 | 8_3:+68662107 | Msa1305280:CDS |
| GCCGTTAGTGCAAAATCTGA+CGG | 0.619243 | 8_3:+68662044 | Msa1305280:five_prime_UTR |
| AGGATGCGAGTAGAAAGAGC+AGG | 0.636628 | 8_3:+68662298 | Msa1305280:CDS |
| ATTAATAATCACGATTCACG+AGG | 0.647397 | 8_3:+68661769 | Msa1305280:five_prime_UTR |
| TAGATTCTTACGATAGAGCG+CGG | 0.658099 | 8_3:-68662158 | None:intergenic |
| CTAACGGCGAGATCTGAATG+AGG | 0.662619 | 8_3:-68662029 | None:intergenic |
| TTAATAATCACGATTCACGA+GGG | 0.705362 | 8_3:+68661770 | Msa1305280:five_prime_UTR |
| TCAGTTGTCGGCGATCAGCG+AGG | 0.738571 | 8_3:+68662098 | Msa1305280:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATAATTTGATGATTTTTGAA+AGG | - | chr8_3:68661881-68661900 | None:intergenic | 15.0% |
| !!! | GATTTTATAATGTAGATTAT+TGG | - | chr8_3:68661985-68662004 | None:intergenic | 15.0% |
| !! | AGAATAAACAAAACATTGTT+GGG | - | chr8_3:68661821-68661840 | None:intergenic | 20.0% |
| !! | AAGAATAAACAAAACATTGT+TGG | - | chr8_3:68661822-68661841 | None:intergenic | 20.0% |
| !!! | TTGATTTTTTTGTTCAGAAA+TGG | + | chr8_3:68662252-68662271 | Msa1305280:intron | 20.0% |
| ATTAATAATCACGATTCACG+AGG | + | chr8_3:68661769-68661788 | Msa1305280:five_prime_UTR | 30.0% | |
| TTAATAATCACGATTCACGA+GGG | + | chr8_3:68661770-68661789 | Msa1305280:five_prime_UTR | 30.0% | |
| TAAACAAAACATTGTTGGGT+CGG | - | chr8_3:68661817-68661836 | None:intergenic | 30.0% | |
| !!! | GAGTGCTGCATTTATTTTAA+GGG | - | chr8_3:68661922-68661941 | None:intergenic | 30.0% |
| !!! | AGAGTGCTGCATTTATTTTA+AGG | - | chr8_3:68661923-68661942 | None:intergenic | 30.0% |
| GATTATTGGATTCTGTAATG+TGG | - | chr8_3:68661971-68661990 | None:intergenic | 30.0% | |
| TGATTGATTACCGTTGAAAA+TGG | + | chr8_3:68662074-68662093 | Msa1305280:exon | 30.0% | |
| AATAAATGCAGCACTCTGTT+TGG | + | chr8_3:68661926-68661945 | Msa1305280:five_prime_UTR | 35.0% | |
| ! | GACAACTGATCCATTTTCAA+CGG | - | chr8_3:68662087-68662106 | None:intergenic | 35.0% |
| GTTGAAAATGGATCAGTTGT+CGG | + | chr8_3:68662086-68662105 | Msa1305280:exon | 35.0% | |
| TGAAGCGGAAATCAAAACAA+TGG | - | chr8_3:68662194-68662213 | None:intergenic | 35.0% | |
| CATGAGACAGAAATTTGAAG+CGG | - | chr8_3:68662209-68662228 | None:intergenic | 35.0% | |
| TCAGAAGCTGGAGAAAATTA+AGG | + | chr8_3:68662278-68662297 | Msa1305280:CDS | 35.0% | |
| ! | TTTACACTCTCGCATTTTCT+CGG | - | chr8_3:68662340-68662359 | None:intergenic | 35.0% |
| ! | AGAAAATGCGAGAGTGTAAA+GGG | + | chr8_3:68662340-68662359 | Msa1305280:CDS | 35.0% |
| AGATCTGAATGAGGAAGGTT+TGG | - | chr8_3:68662023-68662042 | None:intergenic | 40.0% | |
| ! | ACCGTCAGATTTTGCACTAA+CGG | - | chr8_3:68662048-68662067 | None:intergenic | 40.0% |
| TAGATTCTTACGATAGAGCG+CGG | - | chr8_3:68662161-68662180 | None:intergenic | 40.0% | |
| AGCGGAAATCAAAACAATGG+AGG | - | chr8_3:68662191-68662210 | None:intergenic | 40.0% | |
| ! | CAGAAATGGATTTCAGAAGC+TGG | + | chr8_3:68662266-68662285 | Msa1305280:intron | 40.0% |
| ! | GAGAAAATGCGAGAGTGTAA+AGG | + | chr8_3:68662339-68662358 | Msa1305280:CDS | 40.0% |
| ! | AAGGGATCAAAAGCGCGTTT+AGG | - | chr8_3:68661904-68661923 | None:intergenic | 45.0% |
| GCCGTTAGTGCAAAATCTGA+CGG | + | chr8_3:68662044-68662063 | Msa1305280:five_prime_UTR | 45.0% | |
| AGTGCAAAATCTGACGGTTG+AGG | + | chr8_3:68662050-68662069 | Msa1305280:five_prime_UTR | 45.0% | |
| GAGTAGAAAGAGCAGGCAAT+TGG | + | chr8_3:68662305-68662324 | Msa1305280:CDS | 45.0% | |
| CTAACGGCGAGATCTGAATG+AGG | - | chr8_3:68662032-68662051 | None:intergenic | 50.0% | |
| CGATAGAGCGCGGAAATTGT+CGG | - | chr8_3:68662151-68662170 | None:intergenic | 50.0% | |
| AGGATGCGAGTAGAAAGAGC+AGG | + | chr8_3:68662298-68662317 | Msa1305280:CDS | 50.0% | |
| CGGCGAGATCTGAATGAGGA+AGG | - | chr8_3:68662028-68662047 | None:intergenic | 55.0% | |
| TCAGTTGTCGGCGATCAGCG+AGG | + | chr8_3:68662098-68662117 | Msa1305280:CDS | 60.0% | |
| GAGGATCTGGCGGAGATCGA+CGG | + | chr8_3:68662117-68662136 | Msa1305280:CDS | 60.0% | |
| GTCGGCGATCAGCGAGGATC+TGG | + | chr8_3:68662104-68662123 | Msa1305280:CDS | 65.0% | |
| GGCGATCAGCGAGGATCTGG+CGG | + | chr8_3:68662107-68662126 | Msa1305280:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_3 | gene | 68661763 | 68662365 | 68661763 | ID=Msa1305280;Name=Msa1305280 |
| chr8_3 | mRNA | 68661763 | 68662365 | 68661763 | ID=Msa1305280-mRNA-1;Parent=Msa1305280;Name=Msa1305280-mRNA-1;_AED=0.00;_eAED=0.00;_QI=330|1|0.5|1|1|1|2|0|57 |
| chr8_3 | exon | 68661763 | 68662169 | 68661763 | ID=Msa1305280-mRNA-1:exon:21261;Parent=Msa1305280-mRNA-1 |
| chr8_3 | exon | 68662269 | 68662365 | 68662269 | ID=Msa1305280-mRNA-1:exon:21262;Parent=Msa1305280-mRNA-1 |
| chr8_3 | five_prime_UTR | 68661763 | 68662092 | 68661763 | ID=Msa1305280-mRNA-1:five_prime_utr;Parent=Msa1305280-mRNA-1 |
| chr8_3 | CDS | 68662093 | 68662169 | 68662093 | ID=Msa1305280-mRNA-1:cds;Parent=Msa1305280-mRNA-1 |
| chr8_3 | CDS | 68662269 | 68662365 | 68662269 | ID=Msa1305280-mRNA-1:cds;Parent=Msa1305280-mRNA-1 |
| Gene Sequence |
| Protein sequence |
