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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1342030 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1342030 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1342030 | 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 |
|---|---|---|---|---|
| Msa0141670 | Msa1342030 | 0.801293 | 9.639316e-49 | -8.615850e-47 |
| Msa1342030 | Msa1354890 | 0.839793 | 1.280918e-57 | -8.615850e-47 |
| Msa1342030 | Msa1355060 | 0.815671 | 8.204802e-52 | -8.615850e-47 |
| Msa1342030 | Msa1380580 | 0.801422 | 9.073966e-49 | -8.615850e-47 |
| Msa1086060 | Msa1342030 | 0.803016 | 4.262649e-49 | -8.615850e-47 |
| Msa1086170 | Msa1342030 | 0.833681 | 4.638194e-56 | -8.615850e-47 |
| Msa1086290 | Msa1342030 | 0.816439 | 5.526533e-52 | -8.615850e-47 |
| Msa1086370 | Msa1342030 | 0.802335 | 5.890804e-49 | -8.615850e-47 |
| Msa1086480 | Msa1342030 | 0.813686 | 2.257188e-51 | -8.615850e-47 |
| Msa1086870 | Msa1342030 | 0.817852 | 2.659285e-52 | -8.615850e-47 |
| Msa0268420 | Msa1342030 | 0.825194 | 5.355145e-54 | -8.615850e-47 |
| Msa0268540 | Msa1342030 | 0.802047 | 6.751184e-49 | -8.615850e-47 |
| Msa0268650 | Msa1342030 | 0.813875 | 2.050597e-51 | -8.615850e-47 |
| Msa0268730 | Msa1342030 | 0.800764 | 1.236453e-48 | -8.615850e-47 |
| Msa0268930 | Msa1342030 | 0.806011 | 1.011640e-49 | -8.615850e-47 |
| Msa0269060 | Msa1342030 | 0.802572 | 5.265252e-49 | -8.615850e-47 |
| Msa0344200 | Msa1342030 | 0.816382 | 5.690806e-52 | -8.615850e-47 |
| Msa0582530 | Msa1342030 | 0.829048 | 6.402193e-55 | -8.615850e-47 |
| Msa0582830 | Msa1342030 | 0.804191 | 2.431409e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1342030 | MtrunA17_Chr4g0015681 | 96.667 | 60 | 2 | 0 | 1 | 60 | 1 | 60 | 7.64e-35 | 113 |
| Msa1342030 | MtrunA17_CPg0492901 | 96.667 | 60 | 2 | 0 | 1 | 60 | 1 | 60 | 7.64e-35 | 113 |
| Msa1342030 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1342030 | ATCG00070.1 | 76.667 | 60 | 14 | 0 | 1 | 60 | 1 | 60 | 3.76e-26 | 92.0 |
| Msa1342030 | 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 | tig0005022:+9974 | None:intergenic |
| ACTGGCATAAAATCTACAAT+TGG | 0.453871 | tig0005022:-10077 | None:intergenic |
| AATGATCCAGGACGTAATCC+TGG | 0.474800 | tig0005022:+10636 | Msa1342030:CDS |
| GGATTCCTATCTAATGATCC+AGG | 0.536202 | tig0005022:+10624 | Msa1342030:CDS |
| TCACGTCCAGGATTACGTCC+TGG | 0.548081 | tig0005022:-10642 | None:intergenic |
| TACGTCCTGGATCATTAGAT+AGG | 0.581605 | tig0005022:-10629 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTCCAAATATTAAAATTTT+TGG | + | tig0005022:10264-10283 | Msa1342030:intron | 10.0% |
| !!! | TTACCAAAAATTTTAATATT+TGG | - | tig0005022:10270-10289 | None:intergenic | 10.0% |
| !!! | AAAATTTTTGGTAAAATTTT+TGG | + | tig0005022:10276-10295 | Msa1342030:intron | 10.0% |
| !! | TTTCAAAAAAAAAAAAACTT+AGG | - | tig0005022:10433-10452 | None:intergenic | 10.0% |
| !!! | AATTTTAATATTTGGAATCA+AGG | - | tig0005022:10262-10281 | None:intergenic | 15.0% |
| !! | GAAAAAACTACTTGAATAAA+GGG | - | tig0005022:10021-10040 | None:intergenic | 20.0% |
| !! | AGAAAAAACTACTTGAATAA+AGG | - | tig0005022:10022-10041 | None:intergenic | 20.0% |
| !!! | TTATTCAAGTAGTTTTTTCT+TGG | + | tig0005022:10022-10041 | Msa1342030:CDS | 20.0% |
| !! | TGAAAATTCTATTATTCGAT+TGG | + | tig0005022:10320-10339 | Msa1342030:intron | 20.0% |
| !!! | TGTGGATATGAAAAAAATTT+TGG | + | tig0005022:10371-10390 | Msa1342030:intron | 20.0% |
| !!! | GCGTTTTTTTTTAATTATCT+TGG | + | tig0005022:10528-10547 | Msa1342030:intron | 20.0% |
| !!! | TTTTTCTCTTAGCTTTTGTT+TGG | + | tig0005022:10114-10133 | Msa1342030:CDS | 25.0% |
| !!! | TTTGTTTCTCTTTTCATCTT+CGG | + | tig0005022:10603-10622 | Msa1342030:CDS | 25.0% |
| ! | AATTGGATTCAAAAAAGCGT+AGG | - | tig0005022:10063-10082 | None:intergenic | 30.0% |
| ACTGGCATAAAATCTACAAT+TGG | - | tig0005022:10080-10099 | None:intergenic | 30.0% | |
| !! | AAAAAGAGTAAGGGTATTAC+TGG | - | tig0005022:10098-10117 | None:intergenic | 30.0% |
| GCTAAGAGAAAAAAGAGTAA+GGG | - | tig0005022:10107-10126 | None:intergenic | 30.0% | |
| AGCTAAGAGAAAAAAGAGTA+AGG | - | tig0005022:10108-10127 | None:intergenic | 30.0% | |
| !! | AATCAAGATCTAGGTATTGG+TGG | - | tig0005022:10352-10371 | None:intergenic | 35.0% |
| CACAATCAAGATCTAGGTAT+TGG | - | tig0005022:10355-10374 | None:intergenic | 35.0% | |
| CAATACCTAGATCTTGATTG+TGG | + | tig0005022:10353-10372 | Msa1342030:intron | 35.0% | |
| CATATCCACAATCAAGATCT+AGG | - | tig0005022:10361-10380 | None:intergenic | 35.0% | |
| GAGAATCTATTCTCTTTCTC+TGG | + | tig0005022:10506-10525 | Msa1342030:intron | 35.0% | |
| ! | TTCAAAAAAGCGTAGGCTTC+AGG | - | tig0005022:10056-10075 | None:intergenic | 40.0% |
| GGATTCCTATCTAATGATCC+AGG | + | tig0005022:10624-10643 | Msa1342030:CDS | 40.0% | |
| TACGTCCTGGATCATTAGAT+AGG | - | tig0005022:10632-10651 | None:intergenic | 40.0% | |
| !! | CAAGATCTAGGTATTGGTGG+TGG | - | tig0005022:10349-10368 | None:intergenic | 45.0% |
| AATGATCCAGGACGTAATCC+TGG | + | tig0005022:10636-10655 | Msa1342030:CDS | 45.0% | |
| !!! | AATAAATTCTTAATTTTTTT+CGG | - | tig0005022:10185-10204 | None:intergenic | 5.0% |
| TCACGTCCAGGATTACGTCC+TGG | - | tig0005022:10645-10664 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0005022 | gene | 9975 | 10671 | 9975 | ID=Msa1342030;Name=Msa1342030 |
| tig0005022 | mRNA | 9975 | 10671 | 9975 | ID=Msa1342030-mRNA-1;Parent=Msa1342030;Name=Msa1342030-mRNA-1;_AED=0.24;_eAED=0.24;_QI=0|0|0|1|0|0|2|0|97 |
| tig0005022 | exon | 9975 | 10149 | 9975 | ID=Msa1342030-mRNA-1:exon:3439;Parent=Msa1342030-mRNA-1 |
| tig0005022 | exon | 10553 | 10671 | 10553 | ID=Msa1342030-mRNA-1:exon:3440;Parent=Msa1342030-mRNA-1 |
| tig0005022 | CDS | 9975 | 10149 | 9975 | ID=Msa1342030-mRNA-1:cds;Parent=Msa1342030-mRNA-1 |
| tig0005022 | CDS | 10553 | 10671 | 10553 | ID=Msa1342030-mRNA-1:cds;Parent=Msa1342030-mRNA-1 |
| Gene Sequence |
| Protein sequence |
