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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1200390 | XP_003628696.1 | 91.111 | 135 | 8 | 1 | 1 | 131 | 1 | 135 | 2.51e-81 | 245 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1200390 | sp|F4JZT3|ARR24_ARATH | 53.448 | 116 | 52 | 1 | 10 | 123 | 16 | 131 | 1.38e-30 | 109 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Gene ID | Type | Classification |
|---|---|---|
| Msa1200390 | TR | Others |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1200390 | MtrunA17_Chr8g0364781 | 91.111 | 135 | 8 | 1 | 1 | 131 | 1 | 135 | 2.31e-85 | 245 |
| Msa1200390 | MtrunA17_Chr7g0262351 | 52.344 | 128 | 56 | 2 | 5 | 129 | 15 | 140 | 6.18e-35 | 117 |
| Msa1200390 | MtrunA17_Chr7g0262671 | 60.256 | 78 | 30 | 1 | 1 | 78 | 1 | 77 | 7.67e-26 | 93.6 |
| Msa1200390 | MtrunA17_Chr6g0472261 | 52.055 | 73 | 35 | 0 | 6 | 78 | 4 | 76 | 2.15e-18 | 73.9 |
| Msa1200390 | MtrunA17_Chr8g0392301 | 29.688 | 128 | 61 | 2 | 15 | 118 | 864 | 986 | 1.26e-13 | 66.2 |
| Msa1200390 | MtrunA17_Chr7g0262681 | 56.250 | 64 | 22 | 2 | 66 | 125 | 1 | 62 | 1.89e-13 | 60.8 |
| Msa1200390 | MtrunA17_Chr8g0377481 | 27.273 | 121 | 66 | 2 | 15 | 118 | 844 | 959 | 4.20e-11 | 59.3 |
| Msa1200390 | MtrunA17_Chr6g0451941 | 35.526 | 76 | 49 | 0 | 12 | 87 | 33 | 108 | 4.30e-11 | 57.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1200390 | AT5G26594.1 | 53.448 | 116 | 52 | 1 | 10 | 123 | 16 | 131 | 1.40e-31 | 109 |
| Msa1200390 | AT3G04280.1 | 43.478 | 115 | 61 | 2 | 12 | 122 | 22 | 136 | 6.31e-24 | 90.1 |
| Msa1200390 | AT3G04280.2 | 43.478 | 115 | 61 | 2 | 12 | 122 | 22 | 136 | 6.31e-24 | 90.1 |
| Msa1200390 | AT3G04280.3 | 43.478 | 115 | 61 | 2 | 12 | 122 | 22 | 136 | 6.31e-24 | 90.1 |
| Msa1200390 | AT2G01830.5 | 28.926 | 121 | 64 | 2 | 15 | 118 | 937 | 1052 | 9.67e-12 | 61.2 |
| Msa1200390 | AT2G01830.2 | 28.926 | 121 | 64 | 2 | 15 | 118 | 948 | 1063 | 1.01e-11 | 61.2 |
| Msa1200390 | AT2G01830.1 | 28.926 | 121 | 64 | 2 | 15 | 118 | 925 | 1040 | 1.02e-11 | 61.2 |
| Msa1200390 | AT2G01830.4 | 28.926 | 121 | 64 | 2 | 15 | 118 | 925 | 1040 | 1.02e-11 | 61.2 |
| Msa1200390 | AT2G01830.6 | 28.926 | 121 | 64 | 2 | 15 | 118 | 925 | 1040 | 1.02e-11 | 61.2 |
| Msa1200390 | AT2G01830.3 | 28.926 | 121 | 64 | 2 | 15 | 118 | 925 | 1040 | 1.02e-11 | 61.2 |
| Msa1200390 | AT5G35750.1 | 30.000 | 130 | 67 | 2 | 15 | 120 | 1038 | 1167 | 5.55e-11 | 59.3 |
Find 26 sgRNAs with CRISPR-Local
Find 40 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGAAATAGTGGTAAAATTTA+TGG | 0.202240 | 8_1:-52993993 | Msa1200390:CDS |
| CGTCATTTGATGAATTCTTC+GGG | 0.320026 | 8_1:+52994409 | None:intergenic |
| ACGTCATTTGATGAATTCTT+CGG | 0.351042 | 8_1:+52994408 | None:intergenic |
| CCTCACACAGTCACACTCTA+TGG | 0.364334 | 8_1:-52994023 | Msa1200390:intron |
| AACAAAGCAATTACGCTTGA+TGG | 0.385212 | 8_1:-52994073 | Msa1200390:CDS |
| TATCCTTATCCATCAGGATT+AGG | 0.413585 | 8_1:+52994303 | None:intergenic |
| GACAACAAGTGCTGTTAACT+TGG | 0.431046 | 8_1:+52994448 | None:intergenic |
| GAAATAGTGGTAAAATTTAT+GGG | 0.431369 | 8_1:-52993992 | Msa1200390:CDS |
| TGACCTAATCCTGATGGATA+AGG | 0.440174 | 8_1:-52994306 | Msa1200390:CDS |
| CAGGCATATCCTTATCCATC+AGG | 0.463932 | 8_1:+52994297 | None:intergenic |
| TCTAGAGAAACCATTGGATA+AGG | 0.467024 | 8_1:-52993951 | Msa1200390:CDS |
| GTGGTAAAATTTATGGGAGC+AGG | 0.478217 | 8_1:-52993986 | Msa1200390:CDS |
| CAAATGACGTTGAGTAACTT+AGG | 0.479404 | 8_1:-52994395 | Msa1200390:CDS |
| ACCTCAGTTCCATTCATCTC+AGG | 0.498117 | 8_1:+52994278 | None:intergenic |
| AAGGATATGCCTGAGATGAA+TGG | 0.499813 | 8_1:-52994287 | Msa1200390:CDS |
| ACAAAGCAATTACGCTTGAT+GGG | 0.504422 | 8_1:-52994072 | Msa1200390:CDS |
| AAAATTTGACCTAATCCTGA+TGG | 0.515076 | 8_1:-52994312 | Msa1200390:CDS |
| TATGGAAGAGGAGGAAATAG+TGG | 0.524093 | 8_1:-52994005 | Msa1200390:CDS |
| GCACTTGTTGTCGATGATGA+TGG | 0.544588 | 8_1:-52994437 | Msa1200390:CDS |
| CGAATATCTAGAGAAACCAT+TGG | 0.558913 | 8_1:-52993957 | Msa1200390:CDS |
| ACAGTCACACTCTATGGAAG+AGG | 0.580170 | 8_1:-52994017 | Msa1200390:intron |
| ACAGTGGAAATTCGTCAGCA+TGG | 0.623061 | 8_1:-52994338 | Msa1200390:CDS |
| GTCACACTCTATGGAAGAGG+AGG | 0.628881 | 8_1:-52994014 | Msa1200390:CDS |
| GTCATTTGATGAATTCTTCG+GGG | 0.645477 | 8_1:+52994410 | None:intergenic |
| CAAAGCAATTACGCTTGATG+GGG | 0.650456 | 8_1:-52994071 | Msa1200390:CDS |
| GCCTGAGATGAATGGAACTG+AGG | 0.719916 | 8_1:-52994279 | Msa1200390:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATATATAAATGTAAAAATTG+GGG | + | chr8_1:52994144-52994163 | None:intergenic | 10.0% |
| !!! | TTTTTCTTTTATTTTTTCAA+CGG | + | chr8_1:52994476-52994495 | None:intergenic | 10.0% |
| !!! | TTTTTATGTGTTTCTTATAT+AGG | - | chr8_1:52994280-52994299 | Msa1200390:CDS | 15.0% |
| !! | GAAATAGTGGTAAAATTTAT+GGG | - | chr8_1:52994385-52994404 | Msa1200390:CDS | 20.0% |
| ! | GGAAATAGTGGTAAAATTTA+TGG | - | chr8_1:52994384-52994403 | Msa1200390:CDS | 25.0% |
| ACGTCATTTGATGAATTCTT+CGG | + | chr8_1:52993972-52993991 | None:intergenic | 30.0% | |
| AACAACACTTGTGTGAAAAA+CGG | - | chr8_1:52994009-52994028 | Msa1200390:CDS | 30.0% | |
| AAAATTTGACCTAATCCTGA+TGG | - | chr8_1:52994065-52994084 | Msa1200390:CDS | 30.0% | |
| GAGTTCATTCTTGCTTATTT+AGG | - | chr8_1:52994178-52994197 | Msa1200390:intron | 30.0% | |
| ! | TTGGATGCAAAGTTTTCAGA+TGG | + | chr8_1:52993913-52993932 | None:intergenic | 35.0% |
| GTCATTTGATGAATTCTTCG+GGG | + | chr8_1:52993970-52993989 | None:intergenic | 35.0% | |
| CGTCATTTGATGAATTCTTC+GGG | + | chr8_1:52993971-52993990 | None:intergenic | 35.0% | |
| CAAATGACGTTGAGTAACTT+AGG | - | chr8_1:52993982-52994001 | Msa1200390:CDS | 35.0% | |
| GAAAAACGGAAAAGAAACAG+TGG | - | chr8_1:52994023-52994042 | Msa1200390:intron | 35.0% | |
| TATCCTTATCCATCAGGATT+AGG | + | chr8_1:52994077-52994096 | None:intergenic | 35.0% | |
| AACAAAGCAATTACGCTTGA+TGG | - | chr8_1:52994304-52994323 | Msa1200390:CDS | 35.0% | |
| ACAAAGCAATTACGCTTGAT+GGG | - | chr8_1:52994305-52994324 | Msa1200390:CDS | 35.0% | |
| CGAATATCTAGAGAAACCAT+TGG | - | chr8_1:52994420-52994439 | Msa1200390:CDS | 35.0% | |
| TCTAGAGAAACCATTGGATA+AGG | - | chr8_1:52994426-52994445 | Msa1200390:CDS | 35.0% | |
| ! | TTGAGTTTTGCCTTATCCAA+TGG | + | chr8_1:52994439-52994458 | None:intergenic | 35.0% |
| !! | TTTTTCAACGGCATGAAGAA+TGG | + | chr8_1:52994464-52994483 | None:intergenic | 35.0% |
| ! | GACAACAAGTGCTGTTAACT+TGG | + | chr8_1:52993932-52993951 | None:intergenic | 40.0% |
| ! | TGACCTAATCCTGATGGATA+AGG | - | chr8_1:52994071-52994090 | Msa1200390:CDS | 40.0% |
| AAGGATATGCCTGAGATGAA+TGG | - | chr8_1:52994090-52994109 | Msa1200390:intron | 40.0% | |
| CATTCTTGCTTATTTAGGCG+TGG | - | chr8_1:52994183-52994202 | Msa1200390:intron | 40.0% | |
| CAAAGCAATTACGCTTGATG+GGG | - | chr8_1:52994306-52994325 | Msa1200390:CDS | 40.0% | |
| GGGATATCTAGCACTATTGT+TGG | - | chr8_1:52994326-52994345 | Msa1200390:CDS | 40.0% | |
| TATGGAAGAGGAGGAAATAG+TGG | - | chr8_1:52994372-52994391 | Msa1200390:CDS | 40.0% | |
| GTGGTAAAATTTATGGGAGC+AGG | - | chr8_1:52994391-52994410 | Msa1200390:CDS | 40.0% | |
| !! | GCACTTGTTGTCGATGATGA+TGG | - | chr8_1:52993940-52993959 | Msa1200390:CDS | 45.0% |
| ACAGTGGAAATTCGTCAGCA+TGG | - | chr8_1:52994039-52994058 | Msa1200390:intron | 45.0% | |
| CAGGCATATCCTTATCCATC+AGG | + | chr8_1:52994083-52994102 | None:intergenic | 45.0% | |
| ACCTCAGTTCCATTCATCTC+AGG | + | chr8_1:52994102-52994121 | None:intergenic | 45.0% | |
| ACAGTCACACTCTATGGAAG+AGG | - | chr8_1:52994360-52994379 | Msa1200390:CDS | 45.0% | |
| !! | TATATATAAATGTAAAAATT+GGG | + | chr8_1:52994145-52994164 | None:intergenic | 5.0% |
| !! | TTATATATAAATGTAAAAAT+TGG | + | chr8_1:52994146-52994165 | None:intergenic | 5.0% |
| GCCTGAGATGAATGGAACTG+AGG | - | chr8_1:52994098-52994117 | Msa1200390:intron | 50.0% | |
| CCATAGAGTGTGACTGTGTG+AGG | + | chr8_1:52994357-52994376 | None:intergenic | 50.0% | |
| CCTCACACAGTCACACTCTA+TGG | - | chr8_1:52994354-52994373 | Msa1200390:CDS | 50.0% | |
| GTCACACTCTATGGAAGAGG+AGG | - | chr8_1:52994363-52994382 | Msa1200390:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_1 | gene | 52993901 | 52994498 | 52993901 | ID=Msa1200390;Name=Msa1200390 |
| chr8_1 | mRNA | 52993901 | 52994498 | 52993901 | ID=Msa1200390-mRNA-1;Parent=Msa1200390;Name=Msa1200390-mRNA-1;_AED=0.05;_eAED=0.05;_QI=0|0|0|1|0|0.66|3|0|131 |
| chr8_1 | exon | 52994280 | 52994498 | 52994280 | ID=Msa1200390-mRNA-1:exon:16986;Parent=Msa1200390-mRNA-1 |
| chr8_1 | exon | 52994056 | 52994097 | 52994056 | ID=Msa1200390-mRNA-1:exon:16985;Parent=Msa1200390-mRNA-1 |
| chr8_1 | exon | 52993901 | 52994035 | 52993901 | ID=Msa1200390-mRNA-1:exon:16984;Parent=Msa1200390-mRNA-1 |
| chr8_1 | CDS | 52994280 | 52994498 | 52994280 | ID=Msa1200390-mRNA-1:cds;Parent=Msa1200390-mRNA-1 |
| chr8_1 | CDS | 52994056 | 52994097 | 52994056 | ID=Msa1200390-mRNA-1:cds;Parent=Msa1200390-mRNA-1 |
| chr8_1 | CDS | 52993901 | 52994035 | 52993901 | ID=Msa1200390-mRNA-1:cds;Parent=Msa1200390-mRNA-1 |
| Gene Sequence |
| Protein sequence |
