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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0918200 | RHN51908.1 | 69.811 | 53 | 2 | 1 | 1 | 39 | 123 | 175 | 2.64e-11 | 66.6 |
| 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 |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0918200 | Msa0957380 | 0.812779 | 3.571336e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0918200 | MtrunA17_Chr6g0474371 | 69.811 | 53 | 2 | 1 | 1 | 39 | 123 | 175 | 2.43e-15 | 66.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 19 sgRNAs with CRISPR-Local
Find 100 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTCTATTTGAAATACATAAA+TGG | 0.239661 | 6_2:-45398876 | None:intergenic |
| TGACAACAACAAAATATTAA+TGG | 0.251022 | 6_2:+45398836 | Msa0918200:three_prime_UTR |
| CAATTGCAGGATATACATTA+AGG | 0.326716 | 6_2:+45397499 | Msa0918200:CDS |
| AACAATTCATATTCAATTGC+AGG | 0.336416 | 6_2:+45397486 | Msa0918200:CDS |
| GTTTGGTGTATGTTCTATAT+AGG | 0.399309 | 6_2:+45398903 | Msa0918200:three_prime_UTR |
| GAGATAAATGAGGTGTTGAA+TGG | 0.461475 | 6_2:+45399005 | Msa0918200:three_prime_UTR |
| TAACAAAACATTGGATCCCA+AGG | 0.538783 | 6_2:+45397264 | Msa0918200:CDS |
| TTTGTCAACAACGAGGTTTG+AGG | 0.557701 | 6_2:-45397464 | None:intergenic |
| GGAGGAGGTTAACAAAACAT+TGG | 0.566471 | 6_2:+45397255 | Msa0918200:CDS |
| TTGTCAGGTGCATCACTTGG+AGG | 0.569728 | 6_2:+45397237 | Msa0918200:intron |
| AACAACAAAATATTAATGGA+TGG | 0.573678 | 6_2:+45398840 | Msa0918200:three_prime_UTR |
| TCAGGTGCATCACTTGGAGG+AGG | 0.575411 | 6_2:+45397240 | Msa0918200:intron |
| GATATAATAAGTAGATGATG+AGG | 0.578923 | 6_2:+45398970 | Msa0918200:three_prime_UTR |
| ACGTTGTCAGGTGCATCACT+TGG | 0.581480 | 6_2:+45397234 | Msa0918200:intron |
| GTTGCTGACGAGCTTGTGTG+AGG | 0.585890 | 6_2:-45396714 | None:intergenic |
| GAGATATTTAGAGATAAATG+AGG | 0.599717 | 6_2:+45398995 | Msa0918200:three_prime_UTR |
| TTGCTGACGAGCTTGTGTGA+GGG | 0.602754 | 6_2:-45396713 | None:intergenic |
| TGTTGAATGGATGTTGAAAG+AGG | 0.634101 | 6_2:+45399018 | Msa0918200:three_prime_UTR |
| GAAAGAATTGCAAAGACTCG+AGG | 0.646936 | 6_2:+45396675 | Msa0918200:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTGAAAAAGCAAATAAAT+AGG | + | chr6_2:45396969-45396988 | Msa0918200:intron | 15.0% |
| !!! | AGTATGCAATTATTTTTAAA+AGG | + | chr6_2:45397142-45397161 | Msa0918200:intron | 15.0% |
| !!! | ACTCAATTGAATTTTTTTTT+TGG | + | chr6_2:45397370-45397389 | Msa0918200:intron | 15.0% |
| !!! | CTCAATTGAATTTTTTTTTT+GGG | + | chr6_2:45397371-45397390 | Msa0918200:intron | 15.0% |
| !!! | AAAATTTGATGTTTTTGTTT+CGG | + | chr6_2:45397867-45397886 | Msa0918200:intron | 15.0% |
| !! | TATTATTATTACTTATGCTT+TGG | + | chr6_2:45398680-45398699 | Msa0918200:intron | 15.0% |
| !!! | TTCTATTTGAAATACATAAA+TGG | - | chr6_2:45398879-45398898 | None:intergenic | 15.0% |
| !! | ATTTCAAATAGAAAAATGTT+TGG | + | chr6_2:45398886-45398905 | Msa0918200:three_prime_UTR | 15.0% |
| !!! | TAATATTTTTCTTTCTATCA+AGG | - | chr6_2:45398937-45398956 | None:intergenic | 15.0% |
| !! | GATGTATAATATGTATATGA+TGG | - | chr6_2:45396764-45396783 | None:intergenic | 20.0% |
| !! | TAGAATTGATAAAGTAGAAA+TGG | + | chr6_2:45397664-45397683 | Msa0918200:intron | 20.0% |
| !! | GATTCCTAGAAAAAAAAAAT+GGG | - | chr6_2:45398617-45398636 | None:intergenic | 20.0% |
| !!! | CTTATATATTTTGTTGCAAT+TGG | + | chr6_2:45398757-45398776 | Msa0918200:CDS | 20.0% |
| !! | TGACAACAACAAAATATTAA+TGG | + | chr6_2:45398836-45398855 | Msa0918200:three_prime_UTR | 20.0% |
| !! | AACAACAAAATATTAATGGA+TGG | + | chr6_2:45398840-45398859 | Msa0918200:three_prime_UTR | 20.0% |
| !!! | ATTTTGAAAGGAAAAACCTT+GGG | - | chr6_2:45397283-45397302 | None:intergenic | 25.0% |
| !!! | AATTTTGAAAGGAAAAACCT+TGG | - | chr6_2:45397284-45397303 | None:intergenic | 25.0% |
| !! | CTAGTAACATGAATTTTGAA+AGG | - | chr6_2:45397295-45397314 | None:intergenic | 25.0% |
| !! | TTCAAAAGTGCAAGTATATA+AGG | - | chr6_2:45397418-45397437 | None:intergenic | 25.0% |
| !!! | ACTTTTGAAATTTACTTTGC+AGG | + | chr6_2:45397429-45397448 | Msa0918200:intron | 25.0% |
| ! | AACAATTCATATTCAATTGC+AGG | + | chr6_2:45397486-45397505 | Msa0918200:CDS | 25.0% |
| ! | TTGAAAGACACATGATATAT+CGG | + | chr6_2:45397713-45397732 | Msa0918200:intron | 25.0% |
| ! | CAATAAATTTAATGTCAGCT+AGG | - | chr6_2:45397836-45397855 | None:intergenic | 25.0% |
| ! | TTATGTTTATGCAAAAATCG+TGG | + | chr6_2:45397940-45397959 | Msa0918200:intron | 25.0% |
| ! | AAAAAAATGAGCGAACTTAT+AGG | + | chr6_2:45398118-45398137 | Msa0918200:intron | 25.0% |
| ! | TTAACTGTTTAATAGTGAAG+TGG | + | chr6_2:45398325-45398344 | Msa0918200:intron | 25.0% |
| ! | TTGGTTACTATATTAGATCT+AGG | + | chr6_2:45398462-45398481 | Msa0918200:intron | 25.0% |
| ! | CGATTCCTAGAAAAAAAAAA+TGG | - | chr6_2:45398618-45398637 | None:intergenic | 25.0% |
| !!! | TTTTTTTTTCTAGGAATCGA+AGG | + | chr6_2:45398619-45398638 | Msa0918200:intron | 25.0% |
| !!! | TTTTTTTTCTAGGAATCGAA+GGG | + | chr6_2:45398620-45398639 | Msa0918200:intron | 25.0% |
| ! | GATATAATAAGTAGATGATG+AGG | + | chr6_2:45398970-45398989 | Msa0918200:three_prime_UTR | 25.0% |
| ! | GAGATATTTAGAGATAAATG+AGG | + | chr6_2:45398995-45399014 | Msa0918200:three_prime_UTR | 25.0% |
| ATGATGGTACTTATGTTTAG+TGG | - | chr6_2:45396748-45396767 | None:intergenic | 30.0% | |
| CAATTGCAGGATATACATTA+AGG | + | chr6_2:45397499-45397518 | Msa0918200:CDS | 30.0% | |
| ! | ATGTATGCTCTGTCTATTTT+TGG | + | chr6_2:45397537-45397556 | Msa0918200:intron | 30.0% |
| TAATGTCACTACTAATGAGA+AGG | - | chr6_2:45397593-45397612 | None:intergenic | 30.0% | |
| ! | TTGTGGCGTGATTTTAAATT+AGG | + | chr6_2:45397978-45397997 | Msa0918200:intron | 30.0% |
| AATTAGGTTCAGTATTGTGA+TGG | + | chr6_2:45397994-45398013 | Msa0918200:intron | 30.0% | |
| ATTAGGTTCAGTATTGTGAT+GGG | + | chr6_2:45397995-45398014 | Msa0918200:intron | 30.0% | |
| AAATCGTAATGTGTATTGTC+TGG | + | chr6_2:45398028-45398047 | Msa0918200:intron | 30.0% | |
| TCTAGATGTAAGTCATTGTT+GGG | + | chr6_2:45398362-45398381 | Msa0918200:intron | 30.0% | |
| ! | CTCTCTTTTTCTTTTTCTTG+TGG | + | chr6_2:45398425-45398444 | Msa0918200:intron | 30.0% |
| ! | GTTACTACTTCTTTTTACTC+TGG | + | chr6_2:45398534-45398553 | Msa0918200:intron | 30.0% |
| !! | GTCATTTGAAGTAGTTTTCA+TGG | - | chr6_2:45398791-45398810 | None:intergenic | 30.0% |
| !!! | TATTTTGTTGTTGTCATTGC+AGG | - | chr6_2:45398832-45398851 | None:intergenic | 30.0% |
| !! | GTTTGGTGTATGTTCTATAT+AGG | + | chr6_2:45398903-45398922 | Msa0918200:three_prime_UTR | 30.0% |
| AAGGAAAATTAATGACCAGC+AGG | - | chr6_2:45397206-45397225 | None:intergenic | 35.0% | |
| ! | TGCTGGTCATTAATTTTCCT+TGG | + | chr6_2:45397205-45397224 | Msa0918200:intron | 35.0% |
| TAACAAAACATTGGATCCCA+AGG | + | chr6_2:45397264-45397283 | Msa0918200:CDS | 35.0% | |
| !! | GAATTGTTTTGTCAACAACG+AGG | - | chr6_2:45397474-45397493 | None:intergenic | 35.0% |
| AGTCTAATCAATGATTGAGC+CGG | - | chr6_2:45397798-45397817 | None:intergenic | 35.0% | |
| !! | TTTTTGTTTCGGCAAAATCG+TGG | + | chr6_2:45397878-45397897 | Msa0918200:intron | 35.0% |
| TACGATAATCTGACACGATT+TGG | + | chr6_2:45397901-45397920 | Msa0918200:intron | 35.0% | |
| TTAGGTTCAGTATTGTGATG+GGG | + | chr6_2:45397996-45398015 | Msa0918200:intron | 35.0% | |
| ATCATTGTGTCTCTTGATCA+TGG | + | chr6_2:45398210-45398229 | Msa0918200:intron | 35.0% | |
| CTTGATCATGGAAAGAGATT+CGG | + | chr6_2:45398222-45398241 | Msa0918200:intron | 35.0% | |
| TTGATCATGGAAAGAGATTC+GGG | + | chr6_2:45398223-45398242 | Msa0918200:intron | 35.0% | |
| TCGGGAAAAGGTTATACATT+AGG | + | chr6_2:45398241-45398260 | Msa0918200:intron | 35.0% | |
| CAACAATGACTTACATCTAG+AGG | - | chr6_2:45398363-45398382 | None:intergenic | 35.0% | |
| CTCTAGATGTAAGTCATTGT+TGG | + | chr6_2:45398361-45398380 | Msa0918200:intron | 35.0% | |
| !! | GCTTGAGGCTACTTTAAAAT+TGG | + | chr6_2:45398512-45398531 | Msa0918200:intron | 35.0% |
| CCTAGAAAAAAAAAATGGGC+TGG | - | chr6_2:45398613-45398632 | None:intergenic | 35.0% | |
| !!! | CCAGCCCATTTTTTTTTTCT+AGG | + | chr6_2:45398610-45398629 | Msa0918200:intron | 35.0% |
| !! | GAGATAAATGAGGTGTTGAA+TGG | + | chr6_2:45399005-45399024 | Msa0918200:three_prime_UTR | 35.0% |
| TGTTGAATGGATGTTGAAAG+AGG | + | chr6_2:45399018-45399037 | Msa0918200:three_prime_UTR | 35.0% | |
| GAAAGAATTGCAAAGACTCG+AGG | + | chr6_2:45396675-45396694 | Msa0918200:CDS | 40.0% | |
| TTTGCAGATGAAGAAGCTCA+TGG | + | chr6_2:45397094-45397113 | Msa0918200:intron | 40.0% | |
| GTCGAGAAACATGTGACATA+AGG | - | chr6_2:45397184-45397203 | None:intergenic | 40.0% | |
| GGAGGAGGTTAACAAAACAT+TGG | + | chr6_2:45397255-45397274 | Msa0918200:CDS | 40.0% | |
| TTTGTCAACAACGAGGTTTG+AGG | - | chr6_2:45397467-45397486 | None:intergenic | 40.0% | |
| ACACATGATATATCGGCAAG+TGG | + | chr6_2:45397720-45397739 | Msa0918200:intron | 40.0% | |
| ! | GATTTGGCTCAACAGTTTGA+AGG | + | chr6_2:45397917-45397936 | Msa0918200:intron | 40.0% |
| TCCAAGCTCTCTCAACAAAT+GGG | - | chr6_2:45398085-45398104 | None:intergenic | 40.0% | |
| AGTGTCTTGGTGAGATTCTA+GGG | + | chr6_2:45398152-45398171 | Msa0918200:intron | 40.0% | |
| ATGGAAAGAGATTCGGGAAA+AGG | + | chr6_2:45398229-45398248 | Msa0918200:intron | 40.0% | |
| ! | TGTGGTTTGTGCTTTACACT+TGG | + | chr6_2:45398443-45398462 | Msa0918200:intron | 40.0% |
| AAGAACTCGAGTTCCAAACC+TGG | + | chr6_2:45397772-45397791 | Msa0918200:intron | 45.0% | |
| TTAATGTCAGCTAGGTCGAG+AGG | - | chr6_2:45397828-45397847 | None:intergenic | 45.0% | |
| ! | ACCCATTTGTTGAGAGAGCT+TGG | + | chr6_2:45398081-45398100 | Msa0918200:intron | 45.0% |
| CTCCAAGCTCTCTCAACAAA+TGG | - | chr6_2:45398086-45398105 | None:intergenic | 45.0% | |
| GGCTAAGAGTTTGAGTGTCT+TGG | + | chr6_2:45398139-45398158 | Msa0918200:intron | 45.0% | |
| GAGTGTCTTGGTGAGATTCT+AGG | + | chr6_2:45398151-45398170 | Msa0918200:intron | 45.0% | |
| !! | TCTTGGTGAGATTCTAGGGT+TGG | + | chr6_2:45398156-45398175 | Msa0918200:intron | 45.0% |
| AGTCATTGTTGGGTCGAACT+AGG | + | chr6_2:45398372-45398391 | Msa0918200:intron | 45.0% | |
| CGAACTAGGTGAACAACGTT+TGG | + | chr6_2:45398386-45398405 | Msa0918200:intron | 45.0% | |
| !! | TGAAAAATAATAAAATTTAA+TGG | - | chr6_2:45396834-45396853 | None:intergenic | 5.0% |
| TTGCTGACGAGCTTGTGTGA+GGG | - | chr6_2:45396716-45396735 | None:intergenic | 50.0% | |
| TCACATGTTTCTCGACCTGC+TGG | + | chr6_2:45397188-45397207 | Msa0918200:intron | 50.0% | |
| CCTGACAACGTATACAGCCA+AGG | - | chr6_2:45397225-45397244 | None:intergenic | 50.0% | |
| CCTTGGCTGTATACGTTGTC+AGG | + | chr6_2:45397222-45397241 | Msa0918200:intron | 50.0% | |
| ACGTTGTCAGGTGCATCACT+TGG | + | chr6_2:45397234-45397253 | Msa0918200:intron | 50.0% | |
| TTGTCAGGTGCATCACTTGG+AGG | + | chr6_2:45397237-45397256 | Msa0918200:intron | 50.0% | |
| AATCAATGATTGAGCCGGCC+AGG | - | chr6_2:45397793-45397812 | None:intergenic | 50.0% | |
| GGCGCGAGATGCATAAATTG+TGG | + | chr6_2:45397961-45397980 | Msa0918200:intron | 50.0% | |
| ! | GTTGTTGATGCTGCTGCTTG+AGG | + | chr6_2:45398497-45398516 | Msa0918200:intron | 50.0% |
| GTTGCTGACGAGCTTGTGTG+AGG | - | chr6_2:45396717-45396736 | None:intergenic | 55.0% | |
| TCAGGTGCATCACTTGGAGG+AGG | + | chr6_2:45397240-45397259 | Msa0918200:intron | 55.0% | |
| ACTCGAGTTCCAAACCTGGC+CGG | + | chr6_2:45397776-45397795 | Msa0918200:intron | 55.0% | |
| ATGATTGAGCCGGCCAGGTT+TGG | - | chr6_2:45397788-45397807 | None:intergenic | 55.0% | |
| GAAGCTCATGGCACGAGCTG+AGG | + | chr6_2:45397106-45397125 | Msa0918200:intron | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_2 | gene | 45396652 | 45399107 | 45396652 | ID=Msa0918200;Name=Msa0918200 |
| chr6_2 | mRNA | 45396652 | 45399107 | 45396652 | ID=Msa0918200-mRNA-1;Parent=Msa0918200;Name=Msa0918200-mRNA-1;_AED=0.04;_eAED=0.04;_QI=21|0.33|0.75|1|0|0.25|4|314|70 |
| chr6_2 | exon | 45396652 | 45396738 | 45396652 | ID=Msa0918200-mRNA-1:exon:7106;Parent=Msa0918200-mRNA-1 |
| chr6_2 | exon | 45397244 | 45397285 | 45397244 | ID=Msa0918200-mRNA-1:exon:7107;Parent=Msa0918200-mRNA-1 |
| chr6_2 | exon | 45397458 | 45397520 | 45397458 | ID=Msa0918200-mRNA-1:exon:7108;Parent=Msa0918200-mRNA-1 |
| chr6_2 | exon | 45398752 | 45399107 | 45398752 | ID=Msa0918200-mRNA-1:exon:7109;Parent=Msa0918200-mRNA-1 |
| chr6_2 | five_prime_UTR | 45396652 | 45396672 | 45396652 | ID=Msa0918200-mRNA-1:five_prime_utr;Parent=Msa0918200-mRNA-1 |
| chr6_2 | CDS | 45396673 | 45396738 | 45396673 | ID=Msa0918200-mRNA-1:cds;Parent=Msa0918200-mRNA-1 |
| chr6_2 | CDS | 45397244 | 45397285 | 45397244 | ID=Msa0918200-mRNA-1:cds;Parent=Msa0918200-mRNA-1 |
| chr6_2 | CDS | 45397458 | 45397520 | 45397458 | ID=Msa0918200-mRNA-1:cds;Parent=Msa0918200-mRNA-1 |
| chr6_2 | CDS | 45398752 | 45398793 | 45398752 | ID=Msa0918200-mRNA-1:cds;Parent=Msa0918200-mRNA-1 |
| chr6_2 | three_prime_UTR | 45398794 | 45399107 | 45398794 | ID=Msa0918200-mRNA-1:three_prime_utr;Parent=Msa0918200-mRNA-1 |
| Gene Sequence |
| Protein sequence |
