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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0983710 | RDY14692.1 | 90.722 | 97 | 9 | 0 | 1 | 97 | 4 | 100 | 7.75e-56 | 178 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0983710 | sp|Q49L15|PSBK_EUCGG | 91.667 | 60 | 5 | 0 | 1 | 60 | 1 | 60 | 1.80e-32 | 110 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0983710 | A0A371II05 | 90.722 | 97 | 9 | 0 | 1 | 97 | 4 | 100 | 3.70e-56 | 178 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0095140 | Msa0983710 | 0.808468 | 3.051963e-50 | -8.615850e-47 |
| Msa0095270 | Msa0983710 | 0.810107 | 1.358867e-50 | -8.615850e-47 |
| Msa0110710 | Msa0983710 | 0.802118 | 6.529621e-49 | -8.615850e-47 |
| Msa0619330 | Msa0983710 | 0.800384 | 1.477983e-48 | -8.615850e-47 |
| Msa0640880 | Msa0983710 | 0.801283 | 9.688920e-49 | -8.615850e-47 |
| Msa0681890 | Msa0983710 | 0.803111 | 4.074098e-49 | -8.615850e-47 |
| Msa0686610 | Msa0983710 | 0.805917 | 1.059180e-49 | -8.615850e-47 |
| Msa0739570 | Msa0983710 | 0.816656 | 4.942166e-52 | -8.615850e-47 |
| Msa0772210 | Msa0983710 | 0.815401 | 9.420630e-52 | -8.615850e-47 |
| Msa0782330 | Msa0983710 | 0.811283 | 7.563423e-51 | -8.615850e-47 |
| Msa0141670 | Msa0983710 | 0.812164 | 4.866302e-51 | -8.615850e-47 |
| Msa0222070 | Msa0983710 | 0.834711 | 2.558796e-56 | -8.615850e-47 |
| Msa0222120 | Msa0983710 | 0.836412 | 9.503208e-57 | -8.615850e-47 |
| Msa0227290 | Msa0983710 | 0.818801 | 1.621880e-52 | -8.615850e-47 |
| Msa0983710 | Msa0992570 | 0.823621 | 1.254904e-53 | -8.615850e-47 |
| Msa0983710 | Msa0992590 | 0.825041 | 5.817436e-54 | -8.615850e-47 |
| Msa0983710 | Msa1002040 | 0.826515 | 2.600151e-54 | -8.615850e-47 |
| Msa0983710 | Msa1030280 | 0.805551 | 1.263932e-49 | -8.615850e-47 |
| Msa0983710 | Msa1070900 | 0.812843 | 3.457618e-51 | -8.615850e-47 |
| Msa0983710 | Msa1086060 | 0.853793 | 1.888719e-61 | -8.615850e-47 |
| Msa0983710 | Msa1086160 | 0.815408 | 9.386751e-52 | -8.615850e-47 |
| Msa0983710 | Msa1086170 | 0.875211 | 3.683909e-68 | -8.615850e-47 |
| Msa0983710 | Msa1086290 | 0.822966 | 1.785285e-53 | -8.615850e-47 |
| Msa0983710 | Msa1086370 | 0.837195 | 5.998934e-57 | -8.615850e-47 |
| Msa0983710 | Msa1086440 | 0.800437 | 1.442170e-48 | -8.615850e-47 |
| Msa0983710 | Msa1086480 | 0.809816 | 1.569353e-50 | -8.615850e-47 |
| Msa0983710 | Msa1086870 | 0.842956 | 1.883150e-58 | -8.615850e-47 |
| Msa0983710 | Msa1143140 | 0.820789 | 5.697028e-53 | -8.615850e-47 |
| Msa0983710 | Msa1143150 | 0.832879 | 7.347300e-56 | -8.615850e-47 |
| Msa0983710 | Msa1157160 | 0.808167 | 3.537071e-50 | -8.615850e-47 |
| Msa0983710 | Msa1166180 | 0.800189 | 1.619896e-48 | -8.615850e-47 |
| Msa0983710 | Msa1354890 | 0.850052 | 2.178333e-60 | -8.615850e-47 |
| Msa0983710 | Msa1355060 | 0.831723 | 1.420252e-55 | -8.615850e-47 |
| Msa0983710 | Msa1380580 | 0.817727 | 2.838465e-52 | -8.615850e-47 |
| Msa0983710 | Msa1394050 | 0.835212 | 1.913332e-56 | -8.615850e-47 |
| Msa0983710 | Msa1394140 | 0.849655 | 2.812611e-60 | -8.615850e-47 |
| Msa0983710 | Msa1394240 | 0.855721 | 5.214951e-62 | -8.615850e-47 |
| Msa0983710 | Msa1406230 | 0.815879 | 7.374661e-52 | -8.615850e-47 |
| Msa0983710 | Msa1422750 | 0.813222 | 2.855216e-51 | -8.615850e-47 |
| Msa0263620 | Msa0983710 | 0.835449 | 1.667566e-56 | -8.615850e-47 |
| Msa0268180 | Msa0983710 | 0.826373 | 2.811453e-54 | -8.615850e-47 |
| Msa0268380 | Msa0983710 | 0.867710 | 1.119718e-65 | -8.615850e-47 |
| Msa0268420 | Msa0983710 | 0.854531 | 1.156725e-61 | -8.615850e-47 |
| Msa0268540 | Msa0983710 | 0.878062 | 3.804240e-69 | -8.615850e-47 |
| Msa0268650 | Msa0983710 | 0.833672 | 4.663029e-56 | -8.615850e-47 |
| Msa0268730 | Msa0983710 | 0.855683 | 5.351043e-62 | -8.615850e-47 |
| Msa0268850 | Msa0983710 | 0.836430 | 9.399007e-57 | -8.615850e-47 |
| Msa0268930 | Msa0983710 | 0.878145 | 3.558630e-69 | -8.615850e-47 |
| Msa0269060 | Msa0983710 | 0.831429 | 1.678002e-55 | -8.615850e-47 |
| Msa0301460 | Msa0983710 | 0.802617 | 5.151877e-49 | -8.615850e-47 |
| Msa0306130 | Msa0983710 | 0.822824 | 1.926035e-53 | -8.615850e-47 |
| Msa0344200 | Msa0983710 | 0.815797 | 7.690413e-52 | -8.615850e-47 |
| Msa0344290 | Msa0983710 | 0.815500 | 8.956840e-52 | -8.615850e-47 |
| Msa0547050 | Msa0983710 | 0.803097 | 4.101563e-49 | -8.615850e-47 |
| Msa0560180 | Msa0983710 | 0.803126 | 4.044925e-49 | -8.615850e-47 |
| Msa0582530 | Msa0983710 | 0.846462 | 2.139000e-59 | -8.615850e-47 |
| Msa0582620 | Msa0983710 | 0.843026 | 1.804886e-58 | -8.615850e-47 |
| Msa0582710 | Msa0983710 | 0.832971 | 6.970354e-56 | -8.615850e-47 |
| Msa0582740 | Msa0983710 | 0.870699 | 1.197937e-66 | -8.615850e-47 |
| Msa0582830 | Msa0983710 | 0.816238 | 6.129614e-52 | -8.615850e-47 |
| Msa0582900 | Msa0983710 | 0.843186 | 1.635365e-58 | -8.615850e-47 |
| Msa0601780 | Msa0983710 | 0.801176 | 1.018943e-48 | -8.615850e-47 |
| Msa0860270 | Msa0983710 | 0.822603 | 2.168325e-53 | -8.615850e-47 |
| Msa0900320 | Msa0983710 | 0.816397 | 5.647090e-52 | -8.615850e-47 |
| Msa0924860 | Msa0983710 | 0.819752 | 9.845839e-53 | -8.615850e-47 |
| Msa0931090 | Msa0983710 | 0.851996 | 6.164798e-61 | -8.615850e-47 |
| Msa0931150 | Msa0983710 | 0.821104 | 4.821747e-53 | -8.615850e-47 |
| Msa0931200 | Msa0983710 | 0.812718 | 3.682331e-51 | -8.615850e-47 |
| Msa0965960 | Msa0983710 | 0.812596 | 3.915347e-51 | -8.615850e-47 |
| Msa0978000 | Msa0983710 | 0.801646 | 8.163014e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0983710 | MtrunA17_Chr4g0015681 | 96.667 | 60 | 2 | 0 | 1 | 60 | 1 | 60 | 7.64e-35 | 113 |
| Msa0983710 | MtrunA17_CPg0492901 | 96.667 | 60 | 2 | 0 | 1 | 60 | 1 | 60 | 7.64e-35 | 113 |
| Msa0983710 | MtrunA17_Chr4g0016771 | 96.667 | 60 | 2 | 0 | 1 | 60 | 1 | 60 | 7.64e-35 | 113 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0983710 | ATCG00070.1 | 76.667 | 60 | 14 | 0 | 1 | 60 | 1 | 60 | 3.76e-26 | 92.0 |
| Msa0983710 | ATCG00080.1 | 97.222 | 36 | 1 | 0 | 62 | 97 | 1 | 36 | 2.92e-19 | 73.9 |
Find 6 sgRNAs with CRISPR-Local
Find 30 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TATGCTTAATATCTTTAGCT+TGG | 0.440922 | 6_4:+26799278 | None:intergenic |
| ACTGGCATAAAATCTACAAT+TGG | 0.453871 | 6_4:-26799381 | None:intergenic |
| AATGATCCAGGACGTAATCC+TGG | 0.474800 | 6_4:+26799928 | Msa0983710:CDS |
| GGATTCCTATCTAATGATCC+AGG | 0.536202 | 6_4:+26799916 | Msa0983710:CDS |
| TCACGTCCAGGATTACGTCC+TGG | 0.548081 | 6_4:-26799934 | None:intergenic |
| TACGTCCTGGATCATTAGAT+AGG | 0.581605 | 6_4:-26799921 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTCCAAATATTAAAATTTT+TGG | + | chr6_4:26799568-26799587 | Msa0983710:intron | 10.0% |
| !!! | TATCCAAAAATTTTAATATT+TGG | - | chr6_4:26799574-26799593 | None:intergenic | 10.0% |
| !! | ATTTCAAAAAAAAAAAACTT+AGG | - | chr6_4:26799725-26799744 | None:intergenic | 10.0% |
| !!! | AATTTTAATATTTGGAATCA+AGG | - | chr6_4:26799566-26799585 | None:intergenic | 15.0% |
| !!! | CGTTTTTTTTTTAATTATCT+TGG | + | chr6_4:26799820-26799839 | Msa0983710:intron | 15.0% |
| !! | GAAAAAACTACTTGAATAAA+GGG | - | chr6_4:26799325-26799344 | None:intergenic | 20.0% |
| !! | AGAAAAAACTACTTGAATAA+AGG | - | chr6_4:26799326-26799345 | None:intergenic | 20.0% |
| !!! | TTATTCAAGTAGTTTTTTCT+TGG | + | chr6_4:26799326-26799345 | Msa0983710:CDS | 20.0% |
| !! | TGAAAATTCTATTATTCGAT+TGG | + | chr6_4:26799612-26799631 | Msa0983710:intron | 20.0% |
| !!! | TGTGGATATGAAAAAAATTT+TGG | + | chr6_4:26799663-26799682 | Msa0983710:intron | 20.0% |
| !! | TCTTATAAACTTAGTATCAA+AGG | + | chr6_4:26799754-26799773 | Msa0983710:intron | 20.0% |
| !!! | TTTTTCTCTTAGCTTTTGTT+TGG | + | chr6_4:26799418-26799437 | Msa0983710:CDS | 25.0% |
| !!! | TTTGTTTCTCTTTTCATCTT+CGG | + | chr6_4:26799895-26799914 | Msa0983710:CDS | 25.0% |
| ! | AATTGGATTCAAAAAAGCGT+AGG | - | chr6_4:26799367-26799386 | None:intergenic | 30.0% |
| ACTGGCATAAAATCTACAAT+TGG | - | chr6_4:26799384-26799403 | None:intergenic | 30.0% | |
| !! | AAAAAGAGTAAGGGTATTAC+TGG | - | chr6_4:26799402-26799421 | None:intergenic | 30.0% |
| GCTAAGAGAAAAAAGAGTAA+GGG | - | chr6_4:26799411-26799430 | None:intergenic | 30.0% | |
| AGCTAAGAGAAAAAAGAGTA+AGG | - | chr6_4:26799412-26799431 | None:intergenic | 30.0% | |
| !! | AATCAAGATCTAGGTATTGG+TGG | - | chr6_4:26799644-26799663 | None:intergenic | 35.0% |
| CACAATCAAGATCTAGGTAT+TGG | - | chr6_4:26799647-26799666 | None:intergenic | 35.0% | |
| CAATACCTAGATCTTGATTG+TGG | + | chr6_4:26799645-26799664 | Msa0983710:intron | 35.0% | |
| CATATCCACAATCAAGATCT+AGG | - | chr6_4:26799653-26799672 | None:intergenic | 35.0% | |
| GAGAATCTATTCTCTTTCTC+TGG | + | chr6_4:26799797-26799816 | Msa0983710:intron | 35.0% | |
| ! | TTCAAAAAAGCGTAGGCTTC+AGG | - | chr6_4:26799360-26799379 | None:intergenic | 40.0% |
| GGATTCCTATCTAATGATCC+AGG | + | chr6_4:26799916-26799935 | Msa0983710:CDS | 40.0% | |
| TACGTCCTGGATCATTAGAT+AGG | - | chr6_4:26799924-26799943 | None:intergenic | 40.0% | |
| !! | CAAGATCTAGGTATTGGTGG+TGG | - | chr6_4:26799641-26799660 | None:intergenic | 45.0% |
| AATGATCCAGGACGTAATCC+TGG | + | chr6_4:26799928-26799947 | Msa0983710:CDS | 45.0% | |
| !!! | AATAAATTCTTAATTTTTTT+CGG | - | chr6_4:26799489-26799508 | None:intergenic | 5.0% |
| TCACGTCCAGGATTACGTCC+TGG | - | chr6_4:26799937-26799956 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_4 | gene | 26799279 | 26799963 | 26799279 | ID=Msa0983710;Name=Msa0983710 |
| chr6_4 | mRNA | 26799279 | 26799963 | 26799279 | ID=Msa0983710-mRNA-1;Parent=Msa0983710;Name=Msa0983710-mRNA-1;_AED=0.46;_eAED=0.46;_QI=0|0|0|1|0|0|2|0|97 |
| chr6_4 | exon | 26799279 | 26799453 | 26799279 | ID=Msa0983710-mRNA-1:exon:7590;Parent=Msa0983710-mRNA-1 |
| chr6_4 | exon | 26799845 | 26799963 | 26799845 | ID=Msa0983710-mRNA-1:exon:7591;Parent=Msa0983710-mRNA-1 |
| chr6_4 | CDS | 26799279 | 26799453 | 26799279 | ID=Msa0983710-mRNA-1:cds;Parent=Msa0983710-mRNA-1 |
| chr6_4 | CDS | 26799845 | 26799963 | 26799845 | ID=Msa0983710-mRNA-1:cds;Parent=Msa0983710-mRNA-1 |
| Gene Sequence |
| Protein sequence |
