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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0687910 | AES92029.1 | 75.253 | 198 | 8 | 1 | 1 | 157 | 28 | 225 | 1.93e-100 | 298 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0687910 | G7JQ00 | 75.253 | 198 | 8 | 1 | 1 | 157 | 28 | 225 | 9.23e-101 | 298 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0687910 | TF | B3 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0687910 | MtrunA17_Chr5g0393501 | 30.151 | 199 | 95 | 3 | 2 | 156 | 43 | 241 | 4.61e-26 | 99.0 |
| Msa0687910 | MtrunA17_Chr4g0044671 | 25.137 | 183 | 96 | 1 | 1 | 142 | 25 | 207 | 8.24e-12 | 60.8 |
| Msa0687910 | MtrunA17_Chr4g0034781 | 24.590 | 183 | 97 | 1 | 1 | 142 | 19 | 201 | 7.14e-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 35 sgRNAs with CRISPR-Local
Find 48 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGGAATTTGCCGAAAGTATC+AGG | 0.335653 | 4_4:+52923890 | None:intergenic |
| AATCGTGATGTTTCACTCTA+AGG | 0.341127 | 4_4:+52923870 | None:intergenic |
| CGATTATTCTACGAGTTTAG+TGG | 0.386306 | 4_4:-52924190 | Msa0687910:CDS |
| TAGGAACTACCTGATACTTT+CGG | 0.400617 | 4_4:-52923899 | Msa0687910:CDS |
| TCCGAACATCACATTTGGTA+TGG | 0.417548 | 4_4:+52923784 | None:intergenic |
| ATCTACTTCCACCAAGGTAC+TGG | 0.428620 | 4_4:+52924149 | None:intergenic |
| GAGCAATGGCACTTGCTAGA+TGG | 0.450654 | 4_4:-52924289 | Msa0687910:CDS |
| CCGAACATCACATTTGGTAT+GGG | 0.451435 | 4_4:+52923785 | None:intergenic |
| TTGTGCTGCCAATGGTATTG+AGG | 0.463000 | 4_4:-52923744 | Msa0687910:CDS |
| AAATATTTAGCAACGAAGAA+TGG | 0.465634 | 4_4:+52924325 | None:intergenic |
| CCAAATGTGATGTTCGGAAA+AGG | 0.475440 | 4_4:-52923779 | Msa0687910:CDS |
| CCCATACCAAATGTGATGTT+CGG | 0.477035 | 4_4:-52923785 | Msa0687910:CDS |
| GGCCGTTGTTGACAGATGGT+TGG | 0.487397 | 4_4:-52924222 | Msa0687910:CDS |
| GTCATGCGTTTATCAACGCT+TGG | 0.494559 | 4_4:+52923661 | None:intergenic |
| TGTGCTGCCAATGGTATTGA+GGG | 0.501205 | 4_4:-52923743 | Msa0687910:CDS |
| ATTATTGCTTTCCAGTACCT+TGG | 0.503165 | 4_4:-52924160 | Msa0687910:CDS |
| TAAATATTTCTATGAGCTGC+CGG | 0.503453 | 4_4:-52924311 | Msa0687910:CDS |
| TCTAGCAAGTGCCATTGCTC+CGG | 0.526455 | 4_4:+52924292 | None:intergenic |
| ACAGGAATGATATTGTCATA+AGG | 0.528831 | 4_4:+52923830 | None:intergenic |
| AGTCGGCCGTTGTTGACAGA+TGG | 0.531450 | 4_4:-52924226 | Msa0687910:CDS |
| ATTGCTTTCCAGTACCTTGG+TGG | 0.549152 | 4_4:-52924157 | Msa0687910:CDS |
| CGAACATCACATTTGGTATG+GGG | 0.552019 | 4_4:+52923786 | None:intergenic |
| TCTGTATATTTGAGTCTCAC+AGG | 0.555272 | 4_4:+52923812 | None:intergenic |
| TCTATGAGCTGCCGGAGCAA+TGG | 0.563067 | 4_4:-52924303 | Msa0687910:CDS |
| TTTCAAGTGCAAGTGCGTCA+TGG | 0.567746 | 4_4:-52923705 | Msa0687910:CDS |
| CTGTCTAACTTCTAGGATGT+CGG | 0.570416 | 4_4:-52924358 | None:intergenic |
| GTCTCCGCCCTCAATACCAT+TGG | 0.581950 | 4_4:+52923736 | None:intergenic |
| GGCACTTGCTAGATGGTGAT+GGG | 0.587848 | 4_4:-52924282 | Msa0687910:CDS |
| CACGATTACGTCATGTTGTG+CGG | 0.590860 | 4_4:-52923854 | Msa0687910:CDS |
| TGGCACTTGCTAGATGGTGA+TGG | 0.594754 | 4_4:-52924283 | Msa0687910:CDS |
| ATGTGATGTTCGGAAAAGGT+TGG | 0.606400 | 4_4:-52923775 | Msa0687910:CDS |
| TGTTCAACAAATCAGTTAGT+CGG | 0.609582 | 4_4:-52924243 | Msa0687910:CDS |
| CTCCAACCATCTGTCAACAA+CGG | 0.679074 | 4_4:+52924220 | None:intergenic |
| TTTGAAATCTACTTCCACCA+AGG | 0.681040 | 4_4:+52924143 | None:intergenic |
| GCTGCCAATGGTATTGAGGG+CGG | 0.739556 | 4_4:-52923740 | Msa0687910:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATTTATATATGCTATAATAA+AGG | - | chr4_4:52924057-52924076 | Msa0687910:intron | 10.0% |
| !!! | CAATTTTTTTTTCTTTTTTT+AGG | - | chr4_4:52924098-52924117 | Msa0687910:intron | 10.0% |
| ! | AAATATTTAGCAACGAAGAA+TGG | + | chr4_4:52923694-52923713 | None:intergenic | 25.0% |
| ! | TAAATATTTCTATGAGCTGC+CGG | - | chr4_4:52923705-52923724 | Msa0687910:CDS | 30.0% |
| TGTTCAACAAATCAGTTAGT+CGG | - | chr4_4:52923773-52923792 | Msa0687910:CDS | 30.0% | |
| ACAGGAATGATATTGTCATA+AGG | + | chr4_4:52924189-52924208 | None:intergenic | 30.0% | |
| CGATTATTCTACGAGTTTAG+TGG | - | chr4_4:52923826-52923845 | Msa0687910:CDS | 35.0% | |
| ATTATTGCTTTCCAGTACCT+TGG | - | chr4_4:52923856-52923875 | Msa0687910:CDS | 35.0% | |
| ! | TTTGAAATCTACTTCCACCA+AGG | + | chr4_4:52923876-52923895 | None:intergenic | 35.0% |
| TATCCAGATAGGAACTTCAA+AGG | + | chr4_4:52923980-52923999 | None:intergenic | 35.0% | |
| TTGAAGTTCCTATCTGGATA+TGG | - | chr4_4:52923980-52923999 | Msa0687910:intron | 35.0% | |
| TAGGAACTACCTGATACTTT+CGG | - | chr4_4:52924117-52924136 | Msa0687910:intron | 35.0% | |
| AATCGTGATGTTTCACTCTA+AGG | + | chr4_4:52924149-52924168 | None:intergenic | 35.0% | |
| TCTGTATATTTGAGTCTCAC+AGG | + | chr4_4:52924207-52924226 | None:intergenic | 35.0% | |
| TGATAGGGTGGATAATCAAC+TGG | + | chr4_4:52923925-52923944 | None:intergenic | 40.0% | |
| !! | GTACCTTTGAAGTTCCTATC+TGG | - | chr4_4:52923974-52923993 | Msa0687910:intron | 40.0% |
| TGGATCGACGAAATCATTGA+AGG | - | chr4_4:52924000-52924019 | Msa0687910:intron | 40.0% | |
| !! | AGGAATTTGCCGAAAGTATC+AGG | + | chr4_4:52924129-52924148 | None:intergenic | 40.0% |
| CGAACATCACATTTGGTATG+GGG | + | chr4_4:52924233-52924252 | None:intergenic | 40.0% | |
| CCGAACATCACATTTGGTAT+GGG | + | chr4_4:52924234-52924253 | None:intergenic | 40.0% | |
| CCCATACCAAATGTGATGTT+CGG | - | chr4_4:52924231-52924250 | Msa0687910:CDS | 40.0% | |
| TCCGAACATCACATTTGGTA+TGG | + | chr4_4:52924235-52924254 | None:intergenic | 40.0% | |
| ! | CCTTTTCCGAACATCACATT+TGG | + | chr4_4:52924240-52924259 | None:intergenic | 40.0% |
| CCAAATGTGATGTTCGGAAA+AGG | - | chr4_4:52924237-52924256 | Msa0687910:CDS | 40.0% | |
| ATGTGATGTTCGGAAAAGGT+TGG | - | chr4_4:52924241-52924260 | Msa0687910:CDS | 40.0% | |
| CTCCAACCATCTGTCAACAA+CGG | + | chr4_4:52923799-52923818 | None:intergenic | 45.0% | |
| ATTGCTTTCCAGTACCTTGG+TGG | - | chr4_4:52923859-52923878 | Msa0687910:CDS | 45.0% | |
| ATCTACTTCCACCAAGGTAC+TGG | + | chr4_4:52923870-52923889 | None:intergenic | 45.0% | |
| ACCCTATCATTCCATGAGTG+CGG | - | chr4_4:52923936-52923955 | Msa0687910:intron | 45.0% | |
| TCGTCGATCCATATCCAGAT+AGG | + | chr4_4:52923991-52924010 | None:intergenic | 45.0% | |
| CACGATTACGTCATGTTGTG+CGG | - | chr4_4:52924162-52924181 | Msa0687910:CDS | 45.0% | |
| ! | ACGAGTTTTTGTGCTGCCAA+TGG | - | chr4_4:52924264-52924283 | Msa0687910:CDS | 45.0% |
| TTGTGCTGCCAATGGTATTG+AGG | - | chr4_4:52924272-52924291 | Msa0687910:CDS | 45.0% | |
| ! | TGTGCTGCCAATGGTATTGA+GGG | - | chr4_4:52924273-52924292 | Msa0687910:CDS | 45.0% |
| ! | TTTCAAGTGCAAGTGCGTCA+TGG | - | chr4_4:52924311-52924330 | Msa0687910:CDS | 45.0% |
| ! | TCTAGCAAGTGCCATTGCTC+CGG | + | chr4_4:52923727-52923746 | None:intergenic | 50.0% |
| ! | GAGCAATGGCACTTGCTAGA+TGG | - | chr4_4:52923727-52923746 | Msa0687910:CDS | 50.0% |
| ! | TGGCACTTGCTAGATGGTGA+TGG | - | chr4_4:52923733-52923752 | Msa0687910:CDS | 50.0% |
| ! | GGCACTTGCTAGATGGTGAT+GGG | - | chr4_4:52923734-52923753 | Msa0687910:CDS | 50.0% |
| GCACTCATGGAATGATAGGG+TGG | + | chr4_4:52923937-52923956 | None:intergenic | 50.0% | |
| GCCGCACTCATGGAATGATA+GGG | + | chr4_4:52923940-52923959 | None:intergenic | 50.0% | |
| TGCCGCACTCATGGAATGAT+AGG | + | chr4_4:52923941-52923960 | None:intergenic | 50.0% | |
| TCTATGAGCTGCCGGAGCAA+TGG | - | chr4_4:52923713-52923732 | Msa0687910:CDS | 55.0% | |
| AGTCGGCCGTTGTTGACAGA+TGG | - | chr4_4:52923790-52923809 | Msa0687910:CDS | 55.0% | |
| GGCCGTTGTTGACAGATGGT+TGG | - | chr4_4:52923794-52923813 | Msa0687910:CDS | 55.0% | |
| ! | GCTGCCAATGGTATTGAGGG+CGG | - | chr4_4:52924276-52924295 | Msa0687910:CDS | 55.0% |
| GTCTCCGCCCTCAATACCAT+TGG | + | chr4_4:52924283-52924302 | None:intergenic | 55.0% | |
| ACACGATGCTGCCGCACTCA+TGG | + | chr4_4:52923950-52923969 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 52923673 | 52924365 | 52923673 | ID=Msa0687910;Name=Msa0687910 |
| chr4_4 | mRNA | 52923673 | 52924365 | 52923673 | ID=Msa0687910-mRNA-1;Parent=Msa0687910;Name=Msa0687910-mRNA-1;_AED=0.44;_eAED=0.44;_QI=0|0|0|1|0|0.5|2|0|157 |
| chr4_4 | exon | 52924138 | 52924365 | 52924138 | ID=Msa0687910-mRNA-1:exon:14006;Parent=Msa0687910-mRNA-1 |
| chr4_4 | exon | 52923673 | 52923918 | 52923673 | ID=Msa0687910-mRNA-1:exon:14005;Parent=Msa0687910-mRNA-1 |
| chr4_4 | CDS | 52924138 | 52924365 | 52924138 | ID=Msa0687910-mRNA-1:cds;Parent=Msa0687910-mRNA-1 |
| chr4_4 | CDS | 52923673 | 52923918 | 52923673 | ID=Msa0687910-mRNA-1:cds;Parent=Msa0687910-mRNA-1 |
| Gene Sequence |
| Protein sequence |
