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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0853660 | AES98648.1 | 80.969 | 289 | 21 | 7 | 25 | 282 | 27 | 312 | 6.87e-141 | 409 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0853660 | G7JZH9 | 80.969 | 289 | 21 | 7 | 25 | 282 | 27 | 312 | 3.28e-141 | 409 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000190 | Msa0853660 | 0.815737 | 7.931215e-52 | -8.615850e-47 |
| Msa0662240 | Msa0853660 | 0.825989 | 3.468769e-54 | -8.615850e-47 |
| Msa0682050 | Msa0853660 | 0.826463 | 2.675771e-54 | -8.615850e-47 |
| Msa0785250 | Msa0853660 | 0.813031 | 3.144490e-51 | -8.615850e-47 |
| Msa0392420 | Msa0853660 | 0.828581 | 8.302847e-55 | -8.615850e-47 |
| Msa0392460 | Msa0853660 | 0.826743 | 2.294710e-54 | -8.615850e-47 |
| Msa0392490 | Msa0853660 | 0.811567 | 6.564127e-51 | -8.615850e-47 |
| Msa0407900 | Msa0853660 | 0.800726 | 1.258873e-48 | -8.615850e-47 |
| Msa0407920 | Msa0853660 | 0.806671 | 7.345235e-50 | -8.615850e-47 |
| Msa0243100 | Msa0853660 | 0.802639 | 5.100674e-49 | -8.615850e-47 |
| Msa0487570 | Msa0853660 | 0.821591 | 3.721817e-53 | -8.615850e-47 |
| Msa0487630 | Msa0853660 | 0.819669 | 1.028721e-52 | -8.615850e-47 |
| Msa0535040 | Msa0853660 | 0.813357 | 2.666157e-51 | -8.615850e-47 |
| Msa0591790 | Msa0853660 | 0.807971 | 3.893888e-50 | -8.615850e-47 |
| Msa0853660 | Msa0896540 | 0.800259 | 1.567275e-48 | -8.615850e-47 |
| Msa0853660 | Msa0964840 | 0.817853 | 2.658066e-52 | -8.615850e-47 |
| Msa0853660 | Msa0973250 | 0.804874 | 1.752229e-49 | -8.615850e-47 |
| Msa0853660 | Msa1357240 | 0.801832 | 7.474840e-49 | -8.615850e-47 |
| Msa0853660 | Msa1374550 | 0.810634 | 1.045726e-50 | -8.615850e-47 |
| Msa0853660 | Msa1438250 | 0.825532 | 4.452465e-54 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0853660 | MtrunA17_Chr5g0430231 | 74.062 | 320 | 18 | 7 | 25 | 282 | 27 | 343 | 9.24e-142 | 402 |
| Msa0853660 | MtrunA17_Chr3g0105161 | 35.385 | 325 | 115 | 13 | 47 | 279 | 87 | 408 | 2.42e-31 | 120 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 20 sgRNAs with CRISPR-Local
Find 49 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACAATGAGTGTGTAGATATT+TGG | 0.183054 | 5_4:+45566069 | Msa0853660:CDS |
| TGGTGTAGTTGCAAGGTTAA+TGG | 0.255423 | 5_4:+45565027 | Msa0853660:intron |
| AAGAGTTTGTTTAAGGAAGA+TGG | 0.306798 | 5_4:+45565304 | Msa0853660:CDS |
| GGTGTAGTTGCAAGGTTAAT+GGG | 0.347018 | 5_4:+45565028 | Msa0853660:intron |
| TGAAGAAGAGAGAAAAGTTA+AGG | 0.378603 | 5_4:+45565998 | Msa0853660:CDS |
| AGTTGCAAGGTTAATGGGAT+TGG | 0.401363 | 5_4:+45565033 | Msa0853660:intron |
| CAAGCTAGTTGATGATGAAT+TGG | 0.402114 | 5_4:+45566103 | Msa0853660:CDS |
| GTTAATGGGATTGGATTCAA+TGG | 0.432909 | 5_4:+45565042 | Msa0853660:CDS |
| ATTGAGAACAATTTGAATGA+AGG | 0.441642 | 5_4:+45566023 | Msa0853660:CDS |
| CAAAGGAAGAAGAAAAGAAA+AGG | 0.467490 | 5_4:+45565213 | Msa0853660:CDS |
| TTGTTTAAGGAAGATGGAAA+TGG | 0.480402 | 5_4:+45565310 | Msa0853660:CDS |
| TTTGTGATGTTGATATGAGT+TGG | 0.497412 | 5_4:+45565904 | Msa0853660:CDS |
| GTGAATTGCATGAAGTAAAG+AGG | 0.512937 | 5_4:+45566135 | Msa0853660:CDS |
| TTGCAATGTGTAAGTGAACT+TGG | 0.522297 | 5_4:-45565091 | None:intergenic |
| CTAGTTGATGATGAATTGGT+TGG | 0.537429 | 5_4:+45566107 | Msa0853660:CDS |
| AGTAGAAAATTCAAGTCCAA+AGG | 0.548034 | 5_4:+45565196 | Msa0853660:CDS |
| TCAAGCAAATGAAAAGCTTG+TGG | 0.565993 | 5_4:-45565130 | None:intergenic |
| AACATGTTGTGTTGAAGAGA+AGG | 0.571785 | 5_4:+45565363 | Msa0853660:CDS |
| CTAAAGTTTGATGAAGATGA+TGG | 0.588538 | 5_4:-45564830 | None:intergenic |
| AGAGAAAAGGTGAATGATGA+TGG | 0.597704 | 5_4:+45565265 | Msa0853660:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CTTAAATTTTAATGCATGTT+TGG | + | chr5_4:45565481-45565500 | Msa0853660:intron | 20.0% |
| !!! | ATTATTTCTACATGCTTTTA+AGG | + | chr5_4:45565570-45565589 | Msa0853660:intron | 20.0% |
| !! | TTAAGGATAACTTATGAAAA+CGG | + | chr5_4:45565587-45565606 | Msa0853660:intron | 20.0% |
| !! | TTAAAATGAGACAAACAATT+AGG | - | chr5_4:45565752-45565771 | None:intergenic | 20.0% |
| !! | CAAATTTAATACATGGAAAA+AGG | - | chr5_4:45565844-45565863 | None:intergenic | 20.0% |
| !! | TAGTTAGCAAATTTAATACA+TGG | - | chr5_4:45565851-45565870 | None:intergenic | 20.0% |
| ! | TTCTCTAATCCTATGAAAAA+TGG | - | chr5_4:45564909-45564928 | None:intergenic | 25.0% |
| ! | ATAATTTCTTCTTCTTCTTC+TGG | + | chr5_4:45565007-45565026 | Msa0853660:intron | 25.0% |
| !!! | TTTTGAGAAGAGTTTGTTTA+AGG | + | chr5_4:45565297-45565316 | Msa0853660:CDS | 25.0% |
| ! | TTGAATTGTTTATCCAAACA+TGG | + | chr5_4:45565726-45565745 | Msa0853660:intron | 25.0% |
| ! | ATTGAGAACAATTTGAATGA+AGG | + | chr5_4:45566023-45566042 | Msa0853660:CDS | 25.0% |
| CTAAAGTTTGATGAAGATGA+TGG | - | chr5_4:45564833-45564852 | None:intergenic | 30.0% | |
| !! | GTTTCACAACCATTTTTCAT+AGG | + | chr5_4:45564897-45564916 | Msa0853660:CDS | 30.0% |
| ! | GCTTGAAAATGAGAACTTTT+TGG | + | chr5_4:45565147-45565166 | Msa0853660:CDS | 30.0% |
| AGTAGAAAATTCAAGTCCAA+AGG | + | chr5_4:45565196-45565215 | Msa0853660:CDS | 30.0% | |
| ! | CTTTTCTTTTCTTCTTCCTT+TGG | - | chr5_4:45565215-45565234 | None:intergenic | 30.0% |
| CAAAGGAAGAAGAAAAGAAA+AGG | + | chr5_4:45565213-45565232 | Msa0853660:CDS | 30.0% | |
| GAAGAAAAACAAGAGAGAAA+AGG | + | chr5_4:45565252-45565271 | Msa0853660:CDS | 30.0% | |
| ! | AAGAGTTTGTTTAAGGAAGA+TGG | + | chr5_4:45565304-45565323 | Msa0853660:CDS | 30.0% |
| TTGTTTAAGGAAGATGGAAA+TGG | + | chr5_4:45565310-45565329 | Msa0853660:CDS | 30.0% | |
| TCAAAATCAAAGACAGAAAC+AGG | - | chr5_4:45565421-45565440 | None:intergenic | 30.0% | |
| TTGACATGCTCATAATAAGT+TGG | + | chr5_4:45565541-45565560 | Msa0853660:intron | 30.0% | |
| !! | CATATATAAACTTGTTGCAG+AGG | + | chr5_4:45565875-45565894 | Msa0853660:intron | 30.0% |
| TTTGTGATGTTGATATGAGT+TGG | + | chr5_4:45565904-45565923 | Msa0853660:CDS | 30.0% | |
| TGAAGAAGAGAGAAAAGTTA+AGG | + | chr5_4:45565998-45566017 | Msa0853660:CDS | 30.0% | |
| AAGGATCAAAGAAAAAAGAG+AGG | + | chr5_4:45566042-45566061 | Msa0853660:CDS | 30.0% | |
| ACAATGAGTGTGTAGATATT+TGG | + | chr5_4:45566069-45566088 | Msa0853660:CDS | 30.0% | |
| GTTCTTGTAGTAGTAGTAGT+AGG | - | chr5_4:45564986-45565005 | None:intergenic | 35.0% | |
| GTTAATGGGATTGGATTCAA+TGG | + | chr5_4:45565042-45565061 | Msa0853660:CDS | 35.0% | |
| TTGCAATGTGTAAGTGAACT+TGG | - | chr5_4:45565094-45565113 | None:intergenic | 35.0% | |
| TCAAGCAAATGAAAAGCTTG+TGG | - | chr5_4:45565133-45565152 | None:intergenic | 35.0% | |
| !! | TTGGTGTTTAGCTTTGAAAG+TGG | + | chr5_4:45565166-45565185 | Msa0853660:intron | 35.0% |
| AGAGAAAAGGTGAATGATGA+TGG | + | chr5_4:45565265-45565284 | Msa0853660:CDS | 35.0% | |
| AACATGTTGTGTTGAAGAGA+AGG | + | chr5_4:45565363-45565382 | Msa0853660:CDS | 35.0% | |
| ! | GATTTTGAGCATGATGTTTC+TGG | + | chr5_4:45565433-45565452 | Msa0853660:intron | 35.0% |
| ACAAACAATTAGGCCATGTT+TGG | - | chr5_4:45565742-45565761 | None:intergenic | 35.0% | |
| !! | CAAGCTAGTTGATGATGAAT+TGG | + | chr5_4:45566103-45566122 | Msa0853660:CDS | 35.0% |
| !! | CTAGTTGATGATGAATTGGT+TGG | + | chr5_4:45566107-45566126 | Msa0853660:CDS | 35.0% |
| GTGAATTGCATGAAGTAAAG+AGG | + | chr5_4:45566135-45566154 | Msa0853660:CDS | 35.0% | |
| TGGTGTAGTTGCAAGGTTAA+TGG | + | chr5_4:45565027-45565046 | Msa0853660:intron | 40.0% | |
| GGTGTAGTTGCAAGGTTAAT+GGG | + | chr5_4:45565028-45565047 | Msa0853660:intron | 40.0% | |
| AGTTGCAAGGTTAATGGGAT+TGG | + | chr5_4:45565033-45565052 | Msa0853660:intron | 40.0% | |
| !! | GTGTTTAGCTTTGAAAGTGG+AGG | + | chr5_4:45565169-45565188 | Msa0853660:intron | 40.0% |
| !!! | AGCTTGTCATTTTCAAGCAC+TGG | - | chr5_4:45565945-45565964 | None:intergenic | 40.0% |
| AGCTCAAAAACTGTTGCTGC+AGG | + | chr5_4:45564872-45564891 | Msa0853660:CDS | 45.0% | |
| GCTCAAAAACTGTTGCTGCA+GGG | + | chr5_4:45564873-45564892 | Msa0853660:CDS | 45.0% | |
| CTTCTTCTGGTGTAGTTGCA+AGG | + | chr5_4:45565020-45565039 | Msa0853660:intron | 45.0% | |
| !! | GAGCATGATGTTTCTGGAAC+AGG | + | chr5_4:45565439-45565458 | Msa0853660:intron | 45.0% |
| !!! | ATTTTATCTTTTTTTTTTTT+TGG | + | chr5_4:45565641-45565660 | Msa0853660:intron | 5.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_4 | gene | 45564797 | 45566256 | 45564797 | ID=Msa0853660;Name=Msa0853660 |
| chr5_4 | mRNA | 45564797 | 45566256 | 45564797 | ID=Msa0853660-mRNA-1;Parent=Msa0853660;Name=Msa0853660-mRNA-1;_AED=0.17;_eAED=0.17;_QI=0|0|0|1|0.33|0.25|4|0|282 |
| chr5_4 | exon | 45564797 | 45564939 | 45564797 | ID=Msa0853660-mRNA-1:exon:14347;Parent=Msa0853660-mRNA-1 |
| chr5_4 | exon | 45565042 | 45565184 | 45565042 | ID=Msa0853660-mRNA-1:exon:14348;Parent=Msa0853660-mRNA-1 |
| chr5_4 | exon | 45565191 | 45565391 | 45565191 | ID=Msa0853660-mRNA-1:exon:14349;Parent=Msa0853660-mRNA-1 |
| chr5_4 | exon | 45565895 | 45566256 | 45565895 | ID=Msa0853660-mRNA-1:exon:14350;Parent=Msa0853660-mRNA-1 |
| chr5_4 | CDS | 45564797 | 45564939 | 45564797 | ID=Msa0853660-mRNA-1:cds;Parent=Msa0853660-mRNA-1 |
| chr5_4 | CDS | 45565042 | 45565184 | 45565042 | ID=Msa0853660-mRNA-1:cds;Parent=Msa0853660-mRNA-1 |
| chr5_4 | CDS | 45565191 | 45565391 | 45565191 | ID=Msa0853660-mRNA-1:cds;Parent=Msa0853660-mRNA-1 |
| chr5_4 | CDS | 45565895 | 45566256 | 45565895 | ID=Msa0853660-mRNA-1:cds;Parent=Msa0853660-mRNA-1 |
| Gene Sequence |
| Protein sequence |
