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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0072890 | KEH41549.1 | 43.478 | 230 | 36 | 3 | 1 | 136 | 1 | 230 | 9.27e-47 | 162 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0072890 | A0A072VHP5 | 43.478 | 230 | 36 | 3 | 1 | 136 | 1 | 230 | 4.43e-47 | 162 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0072890 | TF | C2H2 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0072890 | MtrunA17_Chr1g0172861 | 43.478 | 230 | 36 | 3 | 1 | 136 | 1 | 230 | 8.53e-51 | 162 |
| Msa0072890 | MtrunA17_Chr1g0172961 | 81.690 | 71 | 12 | 1 | 1 | 70 | 1 | 71 | 8.01e-37 | 126 |
| Msa0072890 | MtrunA17_Chr4g0037041 | 79.104 | 67 | 11 | 1 | 1 | 67 | 1 | 64 | 3.13e-32 | 112 |
| Msa0072890 | MtrunA17_Chr1g0169561 | 40.541 | 74 | 35 | 2 | 20 | 84 | 28 | 101 | 9.74e-11 | 58.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 22 sgRNAs with CRISPR-Local
Find 38 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGAAGAACATGGATTATAAA+AGG | 0.308077 | 1_2:-46013873 | None:intergenic |
| GTGGCCACCGAGTGCGTTGC+CGG | 0.328183 | 1_2:-46013975 | None:intergenic |
| TTGTTCTTCTTCTCTTACCT+TGG | 0.376736 | 1_2:-46014378 | None:intergenic |
| AAGAGGGTTAATGAAGATAT+TGG | 0.404329 | 1_2:+46014332 | Msa0072890:CDS |
| AGGTATAGCAAGAGGAATAC+TGG | 0.428025 | 1_2:+46014236 | Msa0072890:intron |
| ACAATCATGGTGACAGTAAG+AGG | 0.437287 | 1_2:+46014315 | Msa0072890:CDS |
| TCTTCTCTTACCTTGGTCTC+CGG | 0.487753 | 1_2:-46014371 | None:intergenic |
| TGCGGCAAAAGGTTCAAATC+CGG | 0.506015 | 1_2:+46013956 | Msa0072890:CDS |
| ATTTCTCATGATAACAATCA+TGG | 0.511164 | 1_2:+46014302 | Msa0072890:CDS |
| TTCAAATCCGGCAACGCACT+CGG | 0.531348 | 1_2:+46013968 | Msa0072890:CDS |
| ACCAATAAAGGTATAGCAAG+AGG | 0.558024 | 1_2:+46014228 | Msa0072890:intron |
| TGGATTATAAAAGGAACAAG+AGG | 0.565569 | 1_2:-46013864 | None:intergenic |
| AGTGTGAATTGTGCGGCAAA+AGG | 0.566610 | 1_2:+46013945 | Msa0072890:CDS |
| TGGTGACATTGATGAATCAC+CGG | 0.570126 | 1_2:+46014352 | Msa0072890:CDS |
| TAGTTGTCATGTTTGCAACA+AGG | 0.593032 | 1_2:+46014077 | Msa0072890:CDS |
| GATGATAATGAGAAATCTCA+AGG | 0.595352 | 1_2:+46013908 | Msa0072890:CDS |
| TGATGAATCACCGGAGACCA+AGG | 0.614879 | 1_2:+46014361 | Msa0072890:CDS |
| CAATCATGGTGACAGTAAGA+GGG | 0.638825 | 1_2:+46014316 | Msa0072890:CDS |
| AATGAATGATAAGAAGAACA+TGG | 0.646235 | 1_2:-46013884 | None:intergenic |
| GGATTATAAAAGGAACAAGA+GGG | 0.677970 | 1_2:-46013863 | None:intergenic |
| AAATCCGGCAACGCACTCGG+TGG | 0.687440 | 1_2:+46013971 | Msa0072890:CDS |
| ATGTATGAGTGTGAATTGTG+CGG | 0.720837 | 1_2:+46013938 | Msa0072890:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AGAAGAACATGGATTATAAA+AGG | - | chr1_2:46013876-46013895 | None:intergenic | 25.0% |
| ! | AATGAATGATAAGAAGAACA+TGG | - | chr1_2:46013887-46013906 | None:intergenic | 25.0% |
| ! | ATTTCTCATGATAACAATCA+TGG | + | chr1_2:46014302-46014321 | Msa0072890:CDS | 25.0% |
| GGATTATAAAAGGAACAAGA+GGG | - | chr1_2:46013866-46013885 | None:intergenic | 30.0% | |
| TGGATTATAAAAGGAACAAG+AGG | - | chr1_2:46013867-46013886 | None:intergenic | 30.0% | |
| ! | GATGATAATGAGAAATCTCA+AGG | + | chr1_2:46013908-46013927 | Msa0072890:CDS | 30.0% |
| !!! | TGTCTTTGTTTCTTGTTTTG+AGG | - | chr1_2:46014022-46014041 | None:intergenic | 30.0% |
| ! | TCAATAGATGATGATGAAGT+TGG | - | chr1_2:46014174-46014193 | None:intergenic | 30.0% |
| ! | TTATTGGTCTGATACGATAT+TGG | - | chr1_2:46014216-46014235 | None:intergenic | 30.0% |
| ATATCGTATCAGACCAATAA+AGG | + | chr1_2:46014216-46014235 | Msa0072890:intron | 30.0% | |
| AAGAGGGTTAATGAAGATAT+TGG | + | chr1_2:46014332-46014351 | Msa0072890:CDS | 30.0% | |
| ATGTATGAGTGTGAATTGTG+CGG | + | chr1_2:46013938-46013957 | Msa0072890:CDS | 35.0% | |
| TAGTTGTCATGTTTGCAACA+AGG | + | chr1_2:46014077-46014096 | Msa0072890:CDS | 35.0% | |
| !!! | CAAGGTTTTTTCATCCAAAC+AGG | + | chr1_2:46014095-46014114 | Msa0072890:intron | 35.0% |
| ATGAGATGTCACAAAAGAGA+TGG | + | chr1_2:46014132-46014151 | Msa0072890:intron | 35.0% | |
| TGAGATGTCACAAAAGAGAT+GGG | + | chr1_2:46014133-46014152 | Msa0072890:intron | 35.0% | |
| ! | ATAGATGATGATGAAGTTGG+CGG | - | chr1_2:46014171-46014190 | None:intergenic | 35.0% |
| ! | ACCAATAAAGGTATAGCAAG+AGG | + | chr1_2:46014228-46014247 | Msa0072890:intron | 35.0% |
| ! | TCCTCTTGCTATACCTTTAT+TGG | - | chr1_2:46014232-46014251 | None:intergenic | 35.0% |
| TTGTTCTTCTTCTCTTACCT+TGG | - | chr1_2:46014381-46014400 | None:intergenic | 35.0% | |
| !!! | TCTTGTTTTGAGGTTGTGAG+CGG | - | chr1_2:46014012-46014031 | None:intergenic | 40.0% |
| ATGTCACAAAAGAGATGGGA+AGG | + | chr1_2:46014137-46014156 | Msa0072890:intron | 40.0% | |
| TGTCACAAAAGAGATGGGAA+GGG | + | chr1_2:46014138-46014157 | Msa0072890:intron | 40.0% | |
| ! | TAGATGATGATGAAGTTGGC+GGG | - | chr1_2:46014170-46014189 | None:intergenic | 40.0% |
| AGGTATAGCAAGAGGAATAC+TGG | + | chr1_2:46014236-46014255 | Msa0072890:intron | 40.0% | |
| ACAATCATGGTGACAGTAAG+AGG | + | chr1_2:46014315-46014334 | Msa0072890:CDS | 40.0% | |
| CAATCATGGTGACAGTAAGA+GGG | + | chr1_2:46014316-46014335 | Msa0072890:CDS | 40.0% | |
| TGGTGACATTGATGAATCAC+CGG | + | chr1_2:46014352-46014371 | Msa0072890:CDS | 40.0% | |
| AGTGTGAATTGTGCGGCAAA+AGG | + | chr1_2:46013945-46013964 | Msa0072890:CDS | 45.0% | |
| TGCGGCAAAAGGTTCAAATC+CGG | + | chr1_2:46013956-46013975 | Msa0072890:CDS | 45.0% | |
| ! | TCATCCAAACAGGCTTTGTG+TGG | + | chr1_2:46014105-46014124 | Msa0072890:intron | 45.0% |
| TCTTCTCTTACCTTGGTCTC+CGG | - | chr1_2:46014374-46014393 | None:intergenic | 45.0% | |
| TTCAAATCCGGCAACGCACT+CGG | + | chr1_2:46013968-46013987 | Msa0072890:CDS | 50.0% | |
| ! | GTGAGCGGTGAGATGTTTTG+TGG | - | chr1_2:46013997-46014016 | None:intergenic | 50.0% |
| GTGTCCACACAAAGCCTGTT+TGG | - | chr1_2:46014112-46014131 | None:intergenic | 50.0% | |
| TGATGAATCACCGGAGACCA+AGG | + | chr1_2:46014361-46014380 | Msa0072890:CDS | 50.0% | |
| AAATCCGGCAACGCACTCGG+TGG | + | chr1_2:46013971-46013990 | Msa0072890:CDS | 60.0% | |
| GTGGCCACCGAGTGCGTTGC+CGG | - | chr1_2:46013978-46013997 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 46013845 | 46014403 | 46013845 | ID=Msa0072890;Name=Msa0072890 |
| chr1_2 | mRNA | 46013845 | 46014403 | 46013845 | ID=Msa0072890-mRNA-1;Parent=Msa0072890;Name=Msa0072890-mRNA-1;_AED=0.19;_eAED=0.59;_QI=0|0|0|1|1|1|2|0|139 |
| chr1_2 | exon | 46013845 | 46014098 | 46013845 | ID=Msa0072890-mRNA-1:exon:13968;Parent=Msa0072890-mRNA-1 |
| chr1_2 | exon | 46014238 | 46014403 | 46014238 | ID=Msa0072890-mRNA-1:exon:13969;Parent=Msa0072890-mRNA-1 |
| chr1_2 | CDS | 46013845 | 46014098 | 46013845 | ID=Msa0072890-mRNA-1:cds;Parent=Msa0072890-mRNA-1 |
| chr1_2 | CDS | 46014238 | 46014403 | 46014238 | ID=Msa0072890-mRNA-1:cds;Parent=Msa0072890-mRNA-1 |
| Gene Sequence |
| Protein sequence |
