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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0507300 | XP_003600743.1 | 65.441 | 136 | 43 | 2 | 1 | 133 | 1 | 135 | 4.38e-52 | 171 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0507300 | sp|Q9ZQX0|ALB1_GLYSO | 46.212 | 132 | 48 | 6 | 9 | 132 | 1 | 117 | 5.56e-23 | 89.7 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0507300 | G7J9F9 | 65.441 | 136 | 43 | 2 | 1 | 133 | 1 | 135 | 2.09e-52 | 171 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0010150 | Msa0507300 | 0.807862 | 4.108845e-50 | -8.615850e-47 |
| Msa0150920 | Msa0507300 | 0.811762 | 5.953432e-51 | -8.615850e-47 |
| Msa0287630 | Msa0507300 | 0.806750 | 7.067934e-50 | -8.615850e-47 |
| Msa0326770 | Msa0507300 | 0.822950 | 1.800672e-53 | -8.615850e-47 |
| Msa0507300 | Msa0591490 | 0.814889 | 1.224432e-51 | -8.615850e-47 |
| Msa0507300 | Msa0896920 | 0.825524 | 4.471584e-54 | -8.615850e-47 |
| Msa0507300 | Msa0913550 | 0.802928 | 4.445702e-49 | -8.615850e-47 |
| Msa0507300 | Msa0996980 | 0.800544 | 1.371593e-48 | -8.615850e-47 |
| Msa0507300 | Msa1181090 | 0.807082 | 6.012671e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0507300 | MtrunA17_Chr3g0111081 | 65.441 | 136 | 43 | 2 | 1 | 133 | 1 | 135 | 4.03e-56 | 171 |
| Msa0507300 | MtrunA17_Chr3g0111071 | 64.706 | 136 | 44 | 2 | 1 | 133 | 1 | 135 | 1.14e-55 | 170 |
| Msa0507300 | MtrunA17_Chr3g0111131 | 61.240 | 129 | 46 | 2 | 1 | 125 | 1 | 129 | 2.19e-48 | 151 |
| Msa0507300 | MtrunA17_Chr3g0111351 | 56.934 | 137 | 45 | 3 | 1 | 128 | 9 | 140 | 1.33e-46 | 147 |
| Msa0507300 | MtrunA17_Chr3g0111241 | 60.150 | 133 | 41 | 5 | 1 | 128 | 1 | 126 | 8.94e-45 | 142 |
| Msa0507300 | MtrunA17_Chr3g0111281 | 52.941 | 136 | 56 | 4 | 1 | 128 | 1 | 136 | 6.18e-38 | 125 |
| Msa0507300 | MtrunA17_Chr3g0111111 | 52.941 | 136 | 56 | 4 | 1 | 128 | 1 | 136 | 7.28e-38 | 125 |
| Msa0507300 | MtrunA17_Chr3g0104571 | 55.147 | 136 | 57 | 3 | 1 | 132 | 1 | 136 | 9.17e-38 | 125 |
| Msa0507300 | MtrunA17_Chr6g0456951 | 49.286 | 140 | 60 | 6 | 1 | 132 | 1 | 137 | 5.31e-35 | 118 |
| Msa0507300 | MtrunA17_Chr3g0111221 | 57.273 | 110 | 44 | 2 | 22 | 128 | 1 | 110 | 1.04e-34 | 116 |
| Msa0507300 | MtrunA17_Chr6g0464071 | 50.000 | 134 | 63 | 2 | 1 | 131 | 1 | 133 | 2.43e-34 | 116 |
| Msa0507300 | MtrunA17_Chr7g0236791 | 45.985 | 137 | 68 | 3 | 1 | 131 | 1 | 137 | 3.79e-34 | 115 |
| Msa0507300 | MtrunA17_Chr7g0236801 | 46.429 | 140 | 64 | 5 | 1 | 131 | 1 | 138 | 1.64e-33 | 114 |
| Msa0507300 | MtrunA17_Chr3g0111261 | 46.897 | 145 | 47 | 5 | 1 | 128 | 1 | 132 | 5.80e-32 | 110 |
| Msa0507300 | MtrunA17_Chr3g0111191 | 52.586 | 116 | 47 | 4 | 1 | 108 | 1 | 116 | 1.17e-29 | 103 |
| Msa0507300 | MtrunA17_Chr3g0111311 | 61.290 | 93 | 33 | 3 | 22 | 112 | 1 | 92 | 2.86e-29 | 102 |
| Msa0507300 | MtrunA17_Chr3g0090571 | 42.384 | 151 | 61 | 7 | 1 | 128 | 1 | 148 | 1.18e-28 | 102 |
| Msa0507300 | MtrunA17_Chr6g0468601 | 40.602 | 133 | 74 | 2 | 1 | 128 | 1 | 133 | 1.05e-27 | 99.4 |
| Msa0507300 | MtrunA17_Chr4g0012121 | 45.669 | 127 | 55 | 6 | 19 | 133 | 20 | 144 | 6.72e-26 | 95.1 |
| Msa0507300 | MtrunA17_Chr8g0344791 | 45.690 | 116 | 54 | 5 | 22 | 131 | 2 | 114 | 9.18e-26 | 94.0 |
| Msa0507300 | MtrunA17_Chr7g0232011 | 43.056 | 144 | 63 | 7 | 1 | 129 | 1 | 140 | 2.69e-25 | 93.6 |
| Msa0507300 | MtrunA17_Chr6g0456991 | 51.485 | 101 | 41 | 4 | 19 | 113 | 1 | 99 | 5.71e-25 | 91.7 |
| Msa0507300 | MtrunA17_Chr8g0344771 | 42.609 | 115 | 59 | 4 | 22 | 131 | 2 | 114 | 1.15e-24 | 91.3 |
| Msa0507300 | MtrunA17_Chr6g0468621 | 40.602 | 133 | 71 | 5 | 1 | 128 | 1 | 130 | 1.50e-23 | 89.0 |
| Msa0507300 | MtrunA17_Chr8g0344801 | 48.421 | 95 | 42 | 4 | 38 | 128 | 4 | 95 | 3.46e-23 | 87.0 |
| Msa0507300 | MtrunA17_Chr7g0231991 | 44.615 | 130 | 47 | 7 | 22 | 129 | 1 | 127 | 3.88e-22 | 85.1 |
| Msa0507300 | MtrunA17_Chr3g0111201 | 76.000 | 50 | 12 | 0 | 79 | 128 | 3 | 52 | 1.47e-21 | 81.3 |
| Msa0507300 | MtrunA17_Chr1g0153591 | 38.095 | 126 | 56 | 5 | 1 | 119 | 1 | 111 | 1.15e-20 | 80.9 |
| Msa0507300 | MtrunA17_Chr7g0225821 | 40.000 | 125 | 64 | 6 | 1 | 117 | 1 | 122 | 8.46e-19 | 76.3 |
| Msa0507300 | MtrunA17_Chr3g0111711 | 44.545 | 110 | 40 | 4 | 1 | 96 | 1 | 103 | 1.33e-18 | 75.5 |
| Msa0507300 | MtrunA17_Chr8g0359071 | 36.449 | 107 | 62 | 2 | 11 | 113 | 12 | 116 | 7.17e-17 | 71.6 |
| Msa0507300 | MtrunA17_Chr8g0357331 | 37.500 | 88 | 44 | 1 | 53 | 129 | 9 | 96 | 7.55e-16 | 68.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 25 sgRNAs with CRISPR-Local
Find 29 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAAAAGCCTGAAAGATTAAA+AGG | 0.261963 | 3_4:+54642202 | None:intergenic |
| ATTAATTCAGATATCAAATA+TGG | 0.280437 | 3_4:-54642073 | Msa0507300:CDS |
| GAAGTCTTTCTTGAATTTAG+AGG | 0.303070 | 3_4:+54641997 | None:intergenic |
| TTGTGCATTCAGTATGAGTT+TGG | 0.362802 | 3_4:+54642128 | None:intergenic |
| GTATGAGTTTGGCATAAGTT+AGG | 0.381268 | 3_4:+54642139 | None:intergenic |
| TTTCTTGAATTTAGAGGTAG+TGG | 0.429314 | 3_4:+54642003 | None:intergenic |
| ATTAATTAAGCGGTGGTGCC+AGG | 0.435606 | 3_4:+54641965 | None:intergenic |
| TTCTCGATGAAGAAAATAGA+AGG | 0.457341 | 3_4:-54642292 | Msa0507300:CDS |
| CGTGATAAAGCAATAACAAC+CGG | 0.492096 | 3_4:+54642228 | None:intergenic |
| TCATACTGAATGCACAAAGA+AGG | 0.500873 | 3_4:-54642122 | Msa0507300:CDS |
| AAAGACTTCTTGAAGATGCC+TGG | 0.513639 | 3_4:-54641983 | Msa0507300:CDS |
| GAATGCACAAAGAAGGGTAG+TGG | 0.518895 | 3_4:-54642115 | Msa0507300:CDS |
| ATGAAGAAAATAGAAGGATG+TGG | 0.519542 | 3_4:-54642286 | Msa0507300:CDS |
| GTCTTGTACTTCATAGATAG+AGG | 0.521378 | 3_4:+54642039 | None:intergenic |
| TGAAGAAAATAGAAGGATGT+GGG | 0.531375 | 3_4:-54642285 | Msa0507300:CDS |
| CGGTTGTTATTGCTTTATCA+CGG | 0.553042 | 3_4:-54642227 | Msa0507300:CDS |
| CATACTGAATGCACAAAGAA+GGG | 0.556264 | 3_4:-54642121 | Msa0507300:CDS |
| GCAAGCAAGAAGACAACGAA+AGG | 0.557234 | 3_4:+54642528 | None:intergenic |
| ACATATCAATATTAATTAAG+CGG | 0.565489 | 3_4:+54641955 | None:intergenic |
| TATGTTGTTTGTGAAGAAGC+CGG | 0.596830 | 3_4:-54642247 | Msa0507300:CDS |
| AGTACAAGACGCATTCAAGA+TGG | 0.601938 | 3_4:-54642026 | Msa0507300:CDS |
| AAGAAAATAGAAGGATGTGG+GGG | 0.618221 | 3_4:-54642283 | Msa0507300:CDS |
| GAAGAAAATAGAAGGATGTG+GGG | 0.647311 | 3_4:-54642284 | Msa0507300:CDS |
| TATCAATATTAATTAAGCGG+TGG | 0.649392 | 3_4:+54641958 | None:intergenic |
| AGAAAATAGAAGGATGTGGG+GGG | 0.673779 | 3_4:-54642282 | Msa0507300:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATTTGACAAAATTATGAATA+GGG | + | chr3_4:54642164-54642183 | None:intergenic | 15.0% |
| !! | AATTTGACAAAATTATGAAT+AGG | + | chr3_4:54642165-54642184 | None:intergenic | 15.0% |
| !! | ATTAATTCAGATATCAAATA+TGG | - | chr3_4:54642446-54642465 | Msa0507300:intron | 15.0% |
| !! | TGATTAAAAAGAATACATAC+AGG | + | chr3_4:54642022-54642041 | None:intergenic | 20.0% |
| !! | AGCTAATTAAACGAGTTTTA+TGG | + | chr3_4:54642189-54642208 | None:intergenic | 25.0% |
| ! | ACTTTATTCTGTGAAAAAGA+TGG | - | chr3_4:54642346-54642365 | Msa0507300:intron | 25.0% |
| AATGCATCATATGACAAAGA+TGG | + | chr3_4:54642065-54642084 | None:intergenic | 30.0% | |
| TTCTCGATGAAGAAAATAGA+AGG | - | chr3_4:54642227-54642246 | Msa0507300:CDS | 30.0% | |
| ATGAAGAAAATAGAAGGATG+TGG | - | chr3_4:54642233-54642252 | Msa0507300:CDS | 30.0% | |
| TGAAGAAAATAGAAGGATGT+GGG | - | chr3_4:54642234-54642253 | Msa0507300:CDS | 30.0% | |
| CAAAAGCCTGAAAGATTAAA+AGG | + | chr3_4:54642320-54642339 | None:intergenic | 30.0% | |
| TTTCTTGAATTTAGAGGTAG+TGG | + | chr3_4:54642519-54642538 | None:intergenic | 30.0% | |
| GAAGTCTTTCTTGAATTTAG+AGG | + | chr3_4:54642525-54642544 | None:intergenic | 30.0% | |
| GAAGAAAATAGAAGGATGTG+GGG | - | chr3_4:54642235-54642254 | Msa0507300:CDS | 35.0% | |
| AAGAAAATAGAAGGATGTGG+GGG | - | chr3_4:54642236-54642255 | Msa0507300:CDS | 35.0% | |
| ! | TATGTTGTTTGTGAAGAAGC+CGG | - | chr3_4:54642272-54642291 | Msa0507300:CDS | 35.0% |
| CGTGATAAAGCAATAACAAC+CGG | + | chr3_4:54642294-54642313 | None:intergenic | 35.0% | |
| ! | CGGTTGTTATTGCTTTATCA+CGG | - | chr3_4:54642292-54642311 | Msa0507300:CDS | 35.0% |
| ! | ACGGATCCTTTTAATCTTTC+AGG | - | chr3_4:54642311-54642330 | Msa0507300:intron | 35.0% |
| GTATGAGTTTGGCATAAGTT+AGG | + | chr3_4:54642383-54642402 | None:intergenic | 35.0% | |
| TTGTGCATTCAGTATGAGTT+TGG | + | chr3_4:54642394-54642413 | None:intergenic | 35.0% | |
| TCATACTGAATGCACAAAGA+AGG | - | chr3_4:54642397-54642416 | Msa0507300:intron | 35.0% | |
| CATACTGAATGCACAAAGAA+GGG | - | chr3_4:54642398-54642417 | Msa0507300:intron | 35.0% | |
| GTCTTGTACTTCATAGATAG+AGG | + | chr3_4:54642483-54642502 | None:intergenic | 35.0% | |
| AGAAAATAGAAGGATGTGGG+GGG | - | chr3_4:54642237-54642256 | Msa0507300:CDS | 40.0% | |
| AGTACAAGACGCATTCAAGA+TGG | - | chr3_4:54642493-54642512 | Msa0507300:intron | 40.0% | |
| AAAGACTTCTTGAAGATGCC+TGG | - | chr3_4:54642536-54642555 | Msa0507300:CDS | 40.0% | |
| GCAAGCAAGAAGACAACGAA+AGG | + | chr3_4:54641994-54642013 | None:intergenic | 45.0% | |
| GAATGCACAAAGAAGGGTAG+TGG | - | chr3_4:54642404-54642423 | Msa0507300:intron | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 54641970 | 54642571 | 54641970 | ID=Msa0507300;Name=Msa0507300 |
| chr3_4 | mRNA | 54641970 | 54642571 | 54641970 | ID=Msa0507300-mRNA-1;Parent=Msa0507300;Name=Msa0507300-mRNA-1;_AED=0.50;_eAED=0.50;_QI=0|0|0|0.5|1|1|2|0|133 |
| chr3_4 | exon | 54642520 | 54642571 | 54642520 | ID=Msa0507300-mRNA-1:exon:12085;Parent=Msa0507300-mRNA-1 |
| chr3_4 | exon | 54641970 | 54642319 | 54641970 | ID=Msa0507300-mRNA-1:exon:12084;Parent=Msa0507300-mRNA-1 |
| chr3_4 | CDS | 54642520 | 54642571 | 54642520 | ID=Msa0507300-mRNA-1:cds;Parent=Msa0507300-mRNA-1 |
| chr3_4 | CDS | 54641970 | 54642319 | 54641970 | ID=Msa0507300-mRNA-1:cds;Parent=Msa0507300-mRNA-1 |
| Gene Sequence |
| Protein sequence |
