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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0214440 | RHN68248.1 | 78.182 | 55 | 12 | 0 | 1 | 55 | 1 | 55 | 1.85e-18 | 83.2 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0214440 | sp|Q9FKK2|AGL62_ARATH | 74.419 | 43 | 11 | 0 | 13 | 55 | 16 | 58 | 3.36e-16 | 74.7 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0214440 | A0A396IUD9 | 78.182 | 55 | 12 | 0 | 1 | 55 | 1 | 55 | 8.83e-19 | 83.2 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0214440 | TF | MADS-M-type |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0214440 | MtrunA17_Chr3g0111831 | 78.182 | 55 | 12 | 0 | 1 | 55 | 1 | 55 | 1.70e-22 | 83.2 |
| Msa0214440 | MtrunA17_Chr5g0419601 | 84.444 | 45 | 7 | 0 | 11 | 55 | 16 | 60 | 1.65e-21 | 84.7 |
| Msa0214440 | MtrunA17_Chr1g0149391 | 63.077 | 65 | 21 | 1 | 11 | 75 | 16 | 77 | 3.13e-20 | 81.3 |
| Msa0214440 | MtrunA17_Chr2g0317451 | 80.000 | 45 | 9 | 0 | 11 | 55 | 16 | 60 | 3.37e-20 | 81.3 |
| Msa0214440 | MtrunA17_Chr2g0317481 | 80.000 | 45 | 9 | 0 | 11 | 55 | 16 | 60 | 3.63e-20 | 81.3 |
| Msa0214440 | MtrunA17_Chr1g0187351 | 60.317 | 63 | 22 | 1 | 13 | 75 | 1 | 60 | 4.10e-20 | 77.0 |
| Msa0214440 | MtrunA17_Chr1g0206701 | 60.000 | 65 | 23 | 1 | 11 | 75 | 16 | 77 | 4.83e-20 | 80.9 |
| Msa0214440 | MtrunA17_Chr1g0206691 | 61.905 | 63 | 21 | 1 | 13 | 75 | 1 | 60 | 5.99e-20 | 80.5 |
| Msa0214440 | MtrunA17_Chr8g0355091 | 60.000 | 65 | 23 | 1 | 11 | 75 | 16 | 77 | 8.55e-20 | 80.1 |
| Msa0214440 | MtrunA17_Chr3g0111841 | 77.778 | 45 | 10 | 0 | 11 | 55 | 3 | 47 | 8.80e-20 | 76.3 |
| Msa0214440 | MtrunA17_Chr3g0099411 | 77.778 | 45 | 10 | 0 | 11 | 55 | 16 | 60 | 1.02e-19 | 79.7 |
| Msa0214440 | MtrunA17_Chr1g0206721 | 77.778 | 45 | 10 | 0 | 11 | 55 | 16 | 60 | 1.56e-19 | 79.7 |
| Msa0214440 | MtrunA17_Chr3g0099421 | 80.000 | 45 | 9 | 0 | 11 | 55 | 41 | 85 | 2.33e-19 | 79.7 |
| Msa0214440 | MtrunA17_Chr1g0187361 | 75.556 | 45 | 11 | 0 | 11 | 55 | 16 | 60 | 3.00e-19 | 79.0 |
| Msa0214440 | MtrunA17_Chr5g0422941 | 77.778 | 45 | 10 | 0 | 11 | 55 | 16 | 60 | 3.04e-19 | 79.0 |
| Msa0214440 | MtrunA17_Chr5g0422421 | 77.778 | 45 | 10 | 0 | 11 | 55 | 16 | 60 | 4.73e-19 | 78.2 |
| Msa0214440 | MtrunA17_Chr1g0188671 | 58.462 | 65 | 24 | 1 | 11 | 75 | 54 | 115 | 5.02e-19 | 79.0 |
| Msa0214440 | MtrunA17_Chr1g0206991 | 73.333 | 45 | 12 | 0 | 11 | 55 | 16 | 60 | 1.45e-18 | 75.9 |
| Msa0214440 | MtrunA17_Chr2g0292791 | 73.333 | 45 | 12 | 0 | 11 | 55 | 16 | 60 | 8.82e-18 | 75.1 |
| Msa0214440 | MtrunA17_Chr1g0208581 | 71.111 | 45 | 13 | 0 | 11 | 55 | 16 | 60 | 8.47e-17 | 72.4 |
| Msa0214440 | MtrunA17_Chr1g0208561 | 55.385 | 65 | 26 | 1 | 11 | 75 | 16 | 77 | 1.45e-16 | 71.6 |
| Msa0214440 | MtrunA17_Chr3g0089141 | 55.385 | 65 | 26 | 1 | 11 | 75 | 16 | 77 | 1.80e-16 | 71.2 |
| Msa0214440 | MtrunA17_Chr2g0300441 | 52.308 | 65 | 28 | 1 | 11 | 75 | 16 | 77 | 1.47e-15 | 68.9 |
| Msa0214440 | MtrunA17_Chr3g0111931 | 82.500 | 40 | 7 | 0 | 16 | 55 | 2 | 41 | 3.10e-15 | 65.5 |
| Msa0214440 | MtrunA17_Chr3g0089151 | 49.231 | 65 | 30 | 1 | 11 | 75 | 16 | 77 | 3.63e-15 | 65.9 |
| Msa0214440 | MtrunA17_Chr2g0300421 | 64.444 | 45 | 16 | 0 | 11 | 55 | 16 | 60 | 1.23e-14 | 65.5 |
| Msa0214440 | MtrunA17_Chr3g0085241 | 65.116 | 43 | 15 | 0 | 13 | 55 | 50 | 92 | 1.53e-14 | 66.6 |
| Msa0214440 | MtrunA17_Chr3g0119901 | 65.116 | 43 | 15 | 0 | 13 | 55 | 18 | 60 | 1.75e-14 | 65.9 |
| Msa0214440 | MtrunA17_Chr2g0325971 | 52.308 | 65 | 28 | 1 | 11 | 75 | 16 | 77 | 4.26e-14 | 65.1 |
| Msa0214440 | MtrunA17_Chr4g0018951 | 66.667 | 39 | 13 | 0 | 17 | 55 | 25 | 63 | 4.48e-14 | 63.9 |
| Msa0214440 | MtrunA17_Chr8g0379021 | 47.692 | 65 | 31 | 1 | 11 | 75 | 19 | 80 | 9.34e-14 | 63.2 |
| Msa0214440 | MtrunA17_Chr4g0071601 | 64.103 | 39 | 14 | 0 | 17 | 55 | 25 | 63 | 1.06e-12 | 60.8 |
| Msa0214440 | MtrunA17_Chr2g0333981 | 43.939 | 66 | 34 | 1 | 11 | 76 | 19 | 81 | 1.20e-12 | 60.5 |
| Msa0214440 | MtrunA17_Chr7g0238991 | 67.568 | 37 | 12 | 0 | 19 | 55 | 36 | 72 | 4.26e-12 | 60.1 |
| Msa0214440 | MtrunA17_Chr8g0357771 | 63.889 | 36 | 13 | 0 | 20 | 55 | 18 | 53 | 6.65e-12 | 58.5 |
| Msa0214440 | MtrunA17_Chr6g0474371 | 65.116 | 43 | 15 | 0 | 9 | 51 | 7 | 49 | 4.19e-11 | 56.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0214440 | AT5G60440.1 | 74.419 | 43 | 11 | 0 | 13 | 55 | 16 | 58 | 3.42e-17 | 74.7 |
| Msa0214440 | AT1G01530.1 | 67.442 | 43 | 14 | 0 | 13 | 55 | 16 | 58 | 8.32e-15 | 67.8 |
| Msa0214440 | AT4G36590.1 | 66.667 | 45 | 15 | 0 | 11 | 55 | 14 | 58 | 1.61e-14 | 67.0 |
| Msa0214440 | AT1G65360.1 | 60.465 | 43 | 17 | 0 | 13 | 55 | 16 | 58 | 9.26e-13 | 62.0 |
| Msa0214440 | AT2G24840.1 | 60.465 | 43 | 17 | 0 | 13 | 55 | 72 | 114 | 1.13e-12 | 62.0 |
Find 15 sgRNAs with CRISPR-Local
Find 52 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCTTCGAGAAAGTCACTTGC+AGG | 0.392864 | 2_1:+58967325 | Msa0214440:CDS |
| AGCAAGCTTTGCACCCTCTG+TGG | 0.545328 | 2_1:+58966790 | Msa0214440:CDS |
| GCTTCGAGAAAGTCACCTGC+AGG | 0.562541 | 2_1:-58966741 | None:intergenic |
| TATATTCTCACCTGGTGAGA+AGG | 0.565372 | 2_1:+58966831 | Msa0214440:CDS |
| GAGCAATAAAAGCAACCTGC+AGG | 0.567675 | 2_1:+58966726 | Msa0214440:CDS |
| CTTTCTCGAAGCACCGCAGT+GGG | 0.568894 | 2_1:+58966752 | Msa0214440:CDS |
| ACTTTCTCGAAGCGTCGTAG+TGG | 0.570157 | 2_1:-58967315 | None:intergenic |
| ACTTTCTCGAAGCACCGCAG+TGG | 0.585665 | 2_1:+58966751 | Msa0214440:CDS |
| GCTCTAATTATATTCTCACC+TGG | 0.609848 | 2_1:+58966823 | Msa0214440:CDS |
| TGTGCTTCAGCCATGTCGAG+CGG | 0.623248 | 2_1:-58967405 | None:intergenic |
| AATGAAAATACCTTCTCACC+AGG | 0.623617 | 2_1:-58966841 | None:intergenic |
| AGCAACATATGCACCACAGA+GGG | 0.625524 | 2_1:-58966803 | None:intergenic |
| TCGAGCGGAAAGAAAACTCG+AGG | 0.680063 | 2_1:-58967390 | None:intergenic |
| CTTTCGTGAAGAGCCCACTG+CGG | 0.739088 | 2_1:-58966765 | None:intergenic |
| GAGCAACATATGCACCACAG+AGG | 0.750197 | 2_1:-58966804 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTCTTGAATAATTCAAAAGT+TGG | + | chr2_1:58967042-58967061 | Msa0214440:intron | 20.0% |
| ! | ATCATATTCATCATACCAAT+GGG | + | chr2_1:58967065-58967084 | Msa0214440:intron | 25.0% |
| ! | TTTATGACTGTTTCAACATT+TGG | + | chr2_1:58967194-58967213 | Msa0214440:intron | 25.0% |
| !!! | TCTTTTTCATCACAATCTTT+TGG | + | chr2_1:58967364-58967383 | Msa0214440:CDS | 25.0% |
| CTTCTTGAATAATTCAAGTG+TGG | - | chr2_1:58967021-58967040 | None:intergenic | 30.0% | |
| GATCATATTCATCATACCAA+TGG | + | chr2_1:58967064-58967083 | Msa0214440:intron | 30.0% | |
| GCTCTAATTATATTCTCACC+TGG | + | chr2_1:58966823-58966842 | Msa0214440:CDS | 35.0% | |
| AATGAAAATACCTTCTCACC+AGG | - | chr2_1:58966844-58966863 | None:intergenic | 35.0% | |
| !!! | GGTGAGAAGGTATTTTCATT+TGG | + | chr2_1:58966844-58966863 | Msa0214440:intron | 35.0% |
| TTTATGACCGTTTCAACACT+TGG | - | chr2_1:58966874-58966893 | None:intergenic | 35.0% | |
| !! | TGCATCACACCATTGTTTTA+GGG | - | chr2_1:58966919-58966938 | None:intergenic | 35.0% |
| ! | TTGCATCACACCATTGTTTT+AGG | - | chr2_1:58966920-58966939 | None:intergenic | 35.0% |
| ! | TTTTTGTAGACTCTTCCCAT+TGG | - | chr2_1:58967083-58967102 | None:intergenic | 35.0% |
| ATGCAATTCATTGAGGCATA+CGG | - | chr2_1:58966934-58966953 | None:intergenic | 35.0% | |
| ! | TTGCATCATGCCATTGTTTT+AGG | + | chr2_1:58967150-58967169 | Msa0214440:intron | 35.0% |
| !! | TGCATCATGCCATTGTTTTA+GGG | + | chr2_1:58967151-58967170 | Msa0214440:intron | 35.0% |
| GTCATAAATCATTCTCTCTC+AGG | - | chr2_1:58967182-58967201 | None:intergenic | 35.0% | |
| GGTGAGAAGGTAATTTCATT+TGG | - | chr2_1:58967224-58967243 | None:intergenic | 35.0% | |
| AATGAAATTACCTTCTCACC+AGG | + | chr2_1:58967224-58967243 | Msa0214440:intron | 35.0% | |
| GCTCTAATTATATTCTCACC+TGG | - | chr2_1:58966823-58966842 | None:intergenic | 35.0% | |
| AGCAACATATGCACCATAAA+AGG | + | chr2_1:58967262-58967281 | Msa0214440:intron | 35.0% | |
| GCAACATATGCACCATAAAA+GGG | + | chr2_1:58967263-58967282 | Msa0214440:intron | 35.0% | |
| TATATTCTCACCTGGTGAGA+AGG | + | chr2_1:58966831-58966850 | Msa0214440:CDS | 40.0% | |
| !! | TGGTCAACCAAGTGTTGAAA+CGG | + | chr2_1:58966864-58966883 | Msa0214440:intron | 40.0% |
| CAGTTTCCACCCTAAAACAA+TGG | + | chr2_1:58966907-58966926 | Msa0214440:intron | 40.0% | |
| !!! | ATCACACCATTGTTTTAGGG+TGG | - | chr2_1:58966916-58966935 | None:intergenic | 40.0% |
| TGGTGTGATGCAATTCATTG+AGG | + | chr2_1:58966927-58966946 | Msa0214440:intron | 40.0% | |
| AAAAATGAGCTTGCGCACTT+TGG | - | chr2_1:58966965-58966984 | None:intergenic | 40.0% | |
| ! | AAAGTGCGCAAGCTCATTTT+TGG | + | chr2_1:58966964-58966983 | Msa0214440:intron | 40.0% |
| GTCATATTCGACCCATCAAT+GGG | - | chr2_1:58966999-58967018 | None:intergenic | 40.0% | |
| ! | GAATTGAGCTTGCACACTTT+TGG | + | chr2_1:58967105-58967124 | Msa0214440:intron | 40.0% |
| TGGCATGATGCAATTCATTG+AGG | - | chr2_1:58967143-58967162 | None:intergenic | 40.0% | |
| !!! | ATCATGCCATTGTTTTAGGG+TGG | + | chr2_1:58967154-58967173 | Msa0214440:intron | 40.0% |
| TATATTCTCACCTGGTGAGA+AGG | - | chr2_1:58966831-58966850 | None:intergenic | 40.0% | |
| GAGCAATAAAAGCAACCTGC+AGG | + | chr2_1:58966726-58966745 | Msa0214440:CDS | 45.0% | |
| AGCAACATATGCACCACAGA+GGG | - | chr2_1:58966806-58966825 | None:intergenic | 45.0% | |
| GGTCATATTCGACCCATCAA+TGG | - | chr2_1:58967000-58967019 | None:intergenic | 45.0% | |
| CAGGTTCCACCCTAAAACAA+TGG | - | chr2_1:58967163-58967182 | None:intergenic | 45.0% | |
| ! | AGTTTTCTTTCCGCTCGACA+TGG | + | chr2_1:58967395-58967414 | Msa0214440:CDS | 45.0% |
| GAGCAACATATGCACCACAG+AGG | - | chr2_1:58966807-58966826 | None:intergenic | 50.0% | |
| !! | GTGCGCAAGCTCATTTTTGG+TGG | + | chr2_1:58966967-58966986 | Msa0214440:intron | 50.0% |
| TGGTGGAGTTGTCCCATTGA+TGG | + | chr2_1:58966984-58967003 | Msa0214440:intron | 50.0% | |
| GGTGGAGTTGTCCCATTGAT+GGG | + | chr2_1:58966985-58967004 | Msa0214440:intron | 50.0% | |
| ! | GCGAGCTTTGCACCCTTTTA+TGG | - | chr2_1:58967278-58967297 | None:intergenic | 50.0% |
| !! | ACTTTCTCGAAGCGTCGTAG+TGG | - | chr2_1:58967318-58967337 | None:intergenic | 50.0% |
| GCTTCGAGAAAGTCACTTGC+AGG | + | chr2_1:58967325-58967344 | Msa0214440:CDS | 50.0% | |
| TCGAGCGGAAAGAAAACTCG+AGG | - | chr2_1:58967393-58967412 | None:intergenic | 50.0% | |
| GCTTCGAGAAAGTCACCTGC+AGG | - | chr2_1:58966744-58966763 | None:intergenic | 55.0% | |
| !! | ACTTTCTCGAAGCACCGCAG+TGG | + | chr2_1:58966751-58966770 | Msa0214440:CDS | 55.0% |
| !! | CTTTCTCGAAGCACCGCAGT+GGG | + | chr2_1:58966752-58966771 | Msa0214440:CDS | 55.0% |
| CTTTCGTGAAGAGCCCACTG+CGG | - | chr2_1:58966768-58966787 | None:intergenic | 55.0% | |
| AGCAAGCTTTGCACCCTCTG+TGG | + | chr2_1:58966790-58966809 | Msa0214440:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_1 | gene | 58966688 | 58967421 | 58966688 | ID=Msa0214440;Name=Msa0214440 |
| chr2_1 | mRNA | 58966688 | 58967421 | 58966688 | ID=Msa0214440-mRNA-1;Parent=Msa0214440;Name=Msa0214440-mRNA-1;_AED=0.63;_eAED=0.63;_QI=0|0|0|0.5|1|1|2|0|100 |
| chr2_1 | exon | 58966688 | 58966852 | 58966688 | ID=Msa0214440-mRNA-1:exon:16218;Parent=Msa0214440-mRNA-1 |
| chr2_1 | exon | 58967284 | 58967421 | 58967284 | ID=Msa0214440-mRNA-1:exon:16219;Parent=Msa0214440-mRNA-1 |
| chr2_1 | CDS | 58966688 | 58966852 | 58966688 | ID=Msa0214440-mRNA-1:cds;Parent=Msa0214440-mRNA-1 |
| chr2_1 | CDS | 58967284 | 58967421 | 58967284 | ID=Msa0214440-mRNA-1:cds;Parent=Msa0214440-mRNA-1 |
| Gene Sequence |
| Protein sequence |
