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 |
|---|
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0752880 | G7KC08 | 97.727 | 88 | 2 | 0 | 1 | 88 | 1 | 88 | 3.51e-56 | 177 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0752880 | Msa1336950 | 0.800910 | 1.154392e-48 | -8.615850e-47 |
| Msa0752880 | Msa1349610 | 0.829533 | 4.881791e-55 | -8.615850e-47 |
| Msa0379410 | Msa0752880 | 0.808729 | 2.684701e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0752880 | MtrunA17_Chr5g0397271 | 97.727 | 88 | 2 | 0 | 1 | 88 | 1 | 88 | 6.76e-60 | 177 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 29 sgRNAs with CRISPR-Local
Find 34 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCACCACTTCCTCCTGTTAT+AGG | 0.246729 | 5_2:-6587766 | Msa0752880:CDS |
| TTGCATTACTATAGGTATAT+TGG | 0.263249 | 5_2:-6587878 | Msa0752880:intron |
| TCCTCCTGTTATAGGATCAT+TGG | 0.342440 | 5_2:-6587758 | Msa0752880:CDS |
| CCCTCTCGTTGTTGGATACA+TGG | 0.370228 | 5_2:-6587732 | Msa0752880:CDS |
| GGCCGGCTATAGGCGACTAT+TGG | 0.377649 | 5_2:+6587790 | Msa0752870:three_prime_UTR |
| ATTGGTTGCCCTCTCGTTGT+TGG | 0.399335 | 5_2:-6587740 | Msa0752880:CDS |
| AAGTGGTGGAGGCCGGCTAT+AGG | 0.418164 | 5_2:+6587780 | Msa0752870:three_prime_UTR |
| AAAGATGAATCTGGCGAGAT+GGG | 0.432844 | 5_2:-6587838 | Msa0752880:CDS |
| GCAACCAATGATCCTATAAC+AGG | 0.441435 | 5_2:+6587754 | Msa0752870:three_prime_UTR |
| GCCGGCTATAGGCGACTATT+GGG | 0.460498 | 5_2:+6587791 | Msa0752870:three_prime_UTR |
| GATCCATTCACTTGGTAGAC+CGG | 0.491216 | 5_2:+6588088 | Msa0752870:three_prime_UTR |
| AAGCCGGTCTACCAAGTGAA+TGG | 0.508284 | 5_2:-6588091 | Msa0752880:CDS |
| AAAAGATGAATCTGGCGAGA+TGG | 0.530203 | 5_2:-6587839 | Msa0752880:CDS |
| GATCCTATAACAGGAGGAAG+TGG | 0.536218 | 5_2:+6587763 | Msa0752870:three_prime_UTR |
| CAGGAGGAAGTGGTGGAGGC+CGG | 0.536906 | 5_2:+6587773 | Msa0752870:three_prime_UTR |
| ACCCAATAGTCGCCTATAGC+CGG | 0.547078 | 5_2:-6587792 | Msa0752880:CDS |
| CTACCAAGTGAATGGATCAC+AGG | 0.559874 | 5_2:-6588083 | Msa0752880:CDS |
| TGCTGTCCTCATCAGTGCTG+CGG | 0.577568 | 5_2:+6587704 | Msa0752870:three_prime_UTR |
| ATAACAGGAGGAAGTGGTGG+AGG | 0.586799 | 5_2:+6587769 | Msa0752870:three_prime_UTR |
| CCTATAACAGGAGGAAGTGG+TGG | 0.596015 | 5_2:+6587766 | Msa0752870:three_prime_UTR |
| GTGGAACCGCAGCACTGATG+AGG | 0.597213 | 5_2:-6587710 | Msa0752880:CDS |
| TACCCTGTGATCCATTCACT+TGG | 0.621091 | 5_2:+6588080 | Msa0752870:three_prime_UTR |
| AAGATGAATCTGGCGAGATG+GGG | 0.637726 | 5_2:-6587837 | Msa0752880:CDS |
| ACCAATGATCCTATAACAGG+AGG | 0.648824 | 5_2:+6587757 | Msa0752870:three_prime_UTR |
| ACCATGTATCCAACAACGAG+AGG | 0.650347 | 5_2:+6587731 | Msa0752870:three_prime_UTR |
| CCATGTATCCAACAACGAGA+GGG | 0.655825 | 5_2:+6587732 | Msa0752870:three_prime_UTR |
| CTATAGATAAAGTTCATGCG+TGG | 0.662656 | 5_2:-6588154 | None:intergenic |
| TACCAAGTGAATGGATCACA+GGG | 0.666568 | 5_2:-6588082 | Msa0752880:intron |
| TCTCGTTGTTGGATACATGG+TGG | 0.695822 | 5_2:-6587729 | Msa0752880:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATGATATTTTGCATTACTAT+AGG | - | chr5_2:6587952-6587971 | Msa0752880:intron | 20.0% |
| ! | TTGCATTACTATAGGTATAT+TGG | - | chr5_2:6587960-6587979 | Msa0752880:intron | 25.0% |
| !!! | TCATCTTTTTCTTGTTTCTT+AGG | + | chr5_2:6587988-6588007 | Msa0752870:intron | 25.0% |
| ! | AAACAAGAAAAAGATGAATC+TGG | - | chr5_2:6587991-6588010 | Msa0752880:intron | 25.0% |
| !! | TAGTTTGAGTGTTGAACAAT+GGG | - | chr5_2:6587869-6587888 | Msa0752880:intron | 30.0% |
| TGCGAAAAACAGATTTAAGC+CGG | - | chr5_2:6587731-6587750 | Msa0752880:CDS | 35.0% | |
| !! | CTAGTTTGAGTGTTGAACAA+TGG | - | chr5_2:6587868-6587887 | Msa0752880:intron | 35.0% |
| TACCAAGTGAATGGATCACA+GGG | - | chr5_2:6587756-6587775 | Msa0752880:CDS | 40.0% | |
| AAAAGATGAATCTGGCGAGA+TGG | - | chr5_2:6587999-6588018 | Msa0752880:intron | 40.0% | |
| AAAGATGAATCTGGCGAGAT+GGG | - | chr5_2:6588000-6588019 | Msa0752880:intron | 40.0% | |
| TCCTCCTGTTATAGGATCAT+TGG | - | chr5_2:6588080-6588099 | Msa0752880:intron | 40.0% | |
| ACCAATGATCCTATAACAGG+AGG | + | chr5_2:6588084-6588103 | Msa0752870:three_prime_UTR | 40.0% | |
| GCAACCAATGATCCTATAAC+AGG | + | chr5_2:6588087-6588106 | Msa0752870:three_prime_UTR | 40.0% | |
| GATCCATTCACTTGGTAGAC+CGG | + | chr5_2:6587753-6587772 | Msa0752870:three_prime_UTR | 45.0% | |
| CTACCAAGTGAATGGATCAC+AGG | - | chr5_2:6587755-6587774 | Msa0752880:CDS | 45.0% | |
| TACCCTGTGATCCATTCACT+TGG | + | chr5_2:6587761-6587780 | Msa0752870:three_prime_UTR | 45.0% | |
| AAGATGAATCTGGCGAGATG+GGG | - | chr5_2:6588001-6588020 | Msa0752880:intron | 45.0% | |
| GATCCTATAACAGGAGGAAG+TGG | + | chr5_2:6588078-6588097 | Msa0752870:intron | 45.0% | |
| CCATGTATCCAACAACGAGA+GGG | + | chr5_2:6588109-6588128 | Msa0752870:three_prime_UTR | 45.0% | |
| ACCATGTATCCAACAACGAG+AGG | + | chr5_2:6588110-6588129 | Msa0752870:three_prime_UTR | 45.0% | |
| TCTCGTTGTTGGATACATGG+TGG | - | chr5_2:6588109-6588128 | Msa0752880:CDS | 45.0% | |
| AAGCCGGTCTACCAAGTGAA+TGG | - | chr5_2:6587747-6587766 | Msa0752880:CDS | 50.0% | |
| ACCCAATAGTCGCCTATAGC+CGG | - | chr5_2:6588046-6588065 | Msa0752880:intron | 50.0% | |
| ATAACAGGAGGAAGTGGTGG+AGG | + | chr5_2:6588072-6588091 | Msa0752870:intron | 50.0% | |
| CCTATAACAGGAGGAAGTGG+TGG | + | chr5_2:6588075-6588094 | Msa0752870:intron | 50.0% | |
| CCACCACTTCCTCCTGTTAT+AGG | - | chr5_2:6588072-6588091 | Msa0752880:intron | 50.0% | |
| ATTGGTTGCCCTCTCGTTGT+TGG | - | chr5_2:6588098-6588117 | Msa0752880:CDS | 50.0% | |
| CCCTCTCGTTGTTGGATACA+TGG | - | chr5_2:6588106-6588125 | Msa0752880:CDS | 50.0% | |
| GCCGGCTATAGGCGACTATT+GGG | + | chr5_2:6588050-6588069 | Msa0752870:intron | 55.0% | |
| TGCTGTCCTCATCAGTGCTG+CGG | + | chr5_2:6588137-6588156 | Msa0752870:three_prime_UTR | 55.0% | |
| GGCCGGCTATAGGCGACTAT+TGG | + | chr5_2:6588051-6588070 | Msa0752870:intron | 60.0% | |
| ! | AAGTGGTGGAGGCCGGCTAT+AGG | + | chr5_2:6588061-6588080 | Msa0752870:intron | 60.0% |
| !! | GTGGAACCGCAGCACTGATG+AGG | - | chr5_2:6588128-6588147 | Msa0752880:CDS | 60.0% |
| ! | CAGGAGGAAGTGGTGGAGGC+CGG | + | chr5_2:6588068-6588087 | Msa0752870:intron | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_2 | gene | 6587699 | 6588161 | 6587699 | ID=Msa0752880;Name=Msa0752880 |
| chr5_2 | mRNA | 6587699 | 6588161 | 6587699 | ID=Msa0752880-mRNA-1;Parent=Msa0752880;Name=Msa0752880-mRNA-1;_AED=0.09;_eAED=0.09;_QI=0|0|0|1|1|1|2|0|88 |
| chr5_2 | exon | 6588083 | 6588161 | 6588083 | ID=Msa0752880-mRNA-1:exon:2786;Parent=Msa0752880-mRNA-1 |
| chr5_2 | exon | 6587699 | 6587886 | 6587699 | ID=Msa0752880-mRNA-1:exon:2785;Parent=Msa0752880-mRNA-1 |
| chr5_2 | CDS | 6588083 | 6588161 | 6588083 | ID=Msa0752880-mRNA-1:cds;Parent=Msa0752880-mRNA-1 |
| chr5_2 | CDS | 6587699 | 6587886 | 6587699 | ID=Msa0752880-mRNA-1:cds;Parent=Msa0752880-mRNA-1 |
| Gene Sequence |
| Protein sequence |
