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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0613840 | XP_024636751.1 | 95.588 | 68 | 3 | 0 | 1 | 68 | 1 | 68 | 6.76e-39 | 144 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0613840 | G7JV31 | 95.588 | 68 | 3 | 0 | 1 | 68 | 1 | 68 | 4.68e-39 | 144 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0613840 | Msa0751850 | 0.800379 | 1.481980e-48 | -8.615850e-47 |
| Msa0613840 | Msa0805430 | 0.801819 | 7.519759e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0613840 | MtrunA17_Chr4g0049651 | 95.588 | 68 | 3 | 0 | 1 | 68 | 1 | 68 | 9.02e-43 | 144 |
| Msa0613840 | MtrunA17_Chr4g0049671 | 70.588 | 68 | 11 | 1 | 1 | 68 | 1 | 59 | 2.95e-25 | 96.7 |
| Msa0613840 | MtrunA17_Chr4g0049701 | 80.769 | 52 | 10 | 0 | 17 | 68 | 14 | 65 | 9.96e-23 | 88.2 |
| Msa0613840 | MtrunA17_Chr4g0049691 | 48.649 | 111 | 13 | 3 | 1 | 67 | 1 | 111 | 6.68e-20 | 76.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0613840 | AT1G74520.1 | 43.939 | 66 | 37 | 0 | 2 | 67 | 4 | 69 | 3.72e-11 | 55.5 |
| Msa0613840 | AT1G74520.2 | 43.939 | 66 | 37 | 0 | 2 | 67 | 4 | 69 | 3.72e-11 | 55.5 |
| Msa0613840 | AT5G62490.1 | 49.123 | 57 | 29 | 0 | 11 | 67 | 13 | 69 | 6.40e-11 | 54.7 |
Find 32 sgRNAs with CRISPR-Local
Find 106 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTATTCATGTCTTAGGATT+TGG | 0.222733 | 4_2:-62731600 | Msa0613840:five_prime_UTR |
| TTATTCATGTCTTAGGATTT+GGG | 0.258547 | 4_2:-62731599 | Msa0613840:five_prime_UTR |
| TACGGATTTATTCATGTCTT+AGG | 0.270637 | 4_2:-62731606 | Msa0613840:five_prime_UTR |
| AGCTTGAATTTGGTAGTAAA+TGG | 0.273370 | 4_2:-62731298 | Msa0613840:exon |
| TTCCATTCAGAGCTTGAATT+TGG | 0.278982 | 4_2:-62731308 | Msa0613840:five_prime_UTR |
| CATACCATGCAAAATGATAA+AGG | 0.301623 | 4_2:+62731241 | None:intergenic |
| AGTTCAGTTGGTATAGGTAT+AGG | 0.331891 | 4_2:+62731397 | None:intergenic |
| TTCTAGGCCTCTTGTTGCTC+TGG | 0.337704 | 4_2:-62731119 | Msa0613840:intron |
| CCAAGGATTTGATCTCATAT+TGG | 0.353877 | 4_2:-62730922 | Msa0613840:CDS |
| GGTAGTAAATGGCTTCTTCA+TGG | 0.362420 | 4_2:-62731287 | Msa0613840:exon |
| ATATTCAAAGAGGTAAATTA+AGG | 0.374191 | 4_2:+62730889 | None:intergenic |
| TAAAGTAGTTCAGTTGGTAT+AGG | 0.420232 | 4_2:+62731391 | None:intergenic |
| CCAATATGAGATCAAATCCT+TGG | 0.466673 | 4_2:+62730922 | None:intergenic |
| GTCAGTTTCAATTGCTTGTA+CGG | 0.466858 | 4_2:+62730958 | None:intergenic |
| TACCAAATTCAAGCTCTGAA+TGG | 0.472867 | 4_2:+62731306 | None:intergenic |
| AAAGGAAAAGGAAAAGGAAG+AGG | 0.473191 | 4_2:+62731330 | None:intergenic |
| AATGGAAAAGGAAAAGGAAA+AGG | 0.477941 | 4_2:+62731324 | None:intergenic |
| ATTCAAGCTCTGAATGGAAA+AGG | 0.480181 | 4_2:+62731312 | None:intergenic |
| GCTCTGAATGGAAAAGGAAA+AGG | 0.511929 | 4_2:+62731318 | None:intergenic |
| GACACGGAGCAAAATATCAT+TGG | 0.524996 | 4_2:+62731452 | None:intergenic |
| GAACGCGCAAAAGTAGATAG+AGG | 0.538114 | 4_2:-62731643 | None:intergenic |
| AAATAATAAAGTAGTTCAGT+TGG | 0.539015 | 4_2:+62731385 | None:intergenic |
| AAAGAATTTACCGTAGAAGA+AGG | 0.542698 | 4_2:+62730855 | None:intergenic |
| TATTCATGTCTTAGGATTTG+GGG | 0.566928 | 4_2:-62731598 | Msa0613840:five_prime_UTR |
| GTATAGGTATAGGTTGCAAG+TGG | 0.580422 | 4_2:+62731407 | None:intergenic |
| AGGTATAGGTTGCAAGTGGG+AGG | 0.612105 | 4_2:+62731411 | None:intergenic |
| TCATAAAAGCATATTCAAAG+AGG | 0.621411 | 4_2:+62730879 | None:intergenic |
| GAAAAGTCAGTGTCTTCGTG+AGG | 0.642020 | 4_2:+62731357 | None:intergenic |
| TATAGGTATAGGTTGCAAGT+GGG | 0.644428 | 4_2:+62731408 | None:intergenic |
| TGACTCATATGCAGAAACCA+AGG | 0.655333 | 4_2:-62730939 | Msa0613840:CDS |
| GGATACACCAGAGCAACAAG+AGG | 0.670998 | 4_2:+62731112 | None:intergenic |
| GAAAATAAGATATACCGACA+CGG | 0.773589 | 4_2:+62731436 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | GTATTTTTTTTTTTTTTTTG+AGG | - | chr4_2:62730988-62731007 | Msa0613840:intron | 10.0% |
| !!! | GTATTTTTTTTTTTTTTTTG+AGG | - | chr4_2:62730988-62731007 | Msa0613840:intron | 10.0% |
| !! | AAAAAATACATACTTAAAGT+AGG | + | chr4_2:62730977-62730996 | None:intergenic | 15.0% |
| !!! | TTTTTGTTTTTTTGTGATTA+TGG | - | chr4_2:62731500-62731519 | Msa0613840:intron | 15.0% |
| !! | AAAAAATACATACTTAAAGT+AGG | + | chr4_2:62730977-62730996 | None:intergenic | 15.0% |
| !!! | TTTTTGTTTTTTTGTGATTA+TGG | - | chr4_2:62731500-62731519 | Msa0613840:intron | 15.0% |
| !! | AAATAATAAAGTAGTTCAGT+TGG | + | chr4_2:62731118-62731137 | None:intergenic | 20.0% |
| !! | GAAAAAGATGAAGAAAATAA+AGG | + | chr4_2:62731307-62731326 | None:intergenic | 20.0% |
| !! | TGTCAAAACAATAATGTAAA+AGG | + | chr4_2:62731461-62731480 | None:intergenic | 20.0% |
| !!! | TTTTTTGTGATTATGGTTTT+TGG | - | chr4_2:62731507-62731526 | Msa0613840:intron | 20.0% |
| !! | ATATTCAAAGAGGTAAATTA+AGG | + | chr4_2:62731614-62731633 | None:intergenic | 20.0% |
| !! | AAATAATAAAGTAGTTCAGT+TGG | + | chr4_2:62731118-62731137 | None:intergenic | 20.0% |
| !! | GAAAAAGATGAAGAAAATAA+AGG | + | chr4_2:62731307-62731326 | None:intergenic | 20.0% |
| !! | TGTCAAAACAATAATGTAAA+AGG | + | chr4_2:62731461-62731480 | None:intergenic | 20.0% |
| !!! | TTTTTTGTGATTATGGTTTT+TGG | - | chr4_2:62731507-62731526 | Msa0613840:intron | 20.0% |
| !! | ATATTCAAAGAGGTAAATTA+AGG | + | chr4_2:62731614-62731633 | None:intergenic | 20.0% |
| ! | GAGGAAAAAAAGTTATAGTA+CGG | - | chr4_2:62730876-62730895 | Msa0613840:CDS | 25.0% |
| ! | TTTATTCATGTCTTAGGATT+TGG | - | chr4_2:62730900-62730919 | Msa0613840:CDS | 25.0% |
| ! | TTATTCATGTCTTAGGATTT+GGG | - | chr4_2:62730901-62730920 | Msa0613840:CDS | 25.0% |
| !! | ATTGAGAAGCATAAAAAACA+AGG | - | chr4_2:62730931-62730950 | Msa0613840:CDS | 25.0% |
| ! | AAGATGAAGAAAATAAAGGA+GGG | + | chr4_2:62731303-62731322 | None:intergenic | 25.0% |
| ! | AAAGATGAAGAAAATAAAGG+AGG | + | chr4_2:62731304-62731323 | None:intergenic | 25.0% |
| !! | ATATTTCCTTCTCTTTTTCT+AGG | - | chr4_2:62731365-62731384 | Msa0613840:five_prime_UTR | 25.0% |
| !! | TCATAAAAGCATATTCAAAG+AGG | + | chr4_2:62731624-62731643 | None:intergenic | 25.0% |
| ! | GAGGAAAAAAAGTTATAGTA+CGG | - | chr4_2:62730876-62730895 | Msa0613840:CDS | 25.0% |
| ! | TTTATTCATGTCTTAGGATT+TGG | - | chr4_2:62730900-62730919 | Msa0613840:CDS | 25.0% |
| ! | TTATTCATGTCTTAGGATTT+GGG | - | chr4_2:62730901-62730920 | Msa0613840:CDS | 25.0% |
| !! | ATTGAGAAGCATAAAAAACA+AGG | - | chr4_2:62730931-62730950 | Msa0613840:CDS | 25.0% |
| ! | AAGATGAAGAAAATAAAGGA+GGG | + | chr4_2:62731303-62731322 | None:intergenic | 25.0% |
| ! | AAAGATGAAGAAAATAAAGG+AGG | + | chr4_2:62731304-62731323 | None:intergenic | 25.0% |
| !! | ATATTTCCTTCTCTTTTTCT+AGG | - | chr4_2:62731365-62731384 | Msa0613840:five_prime_UTR | 25.0% |
| !! | TCATAAAAGCATATTCAAAG+AGG | + | chr4_2:62731624-62731643 | None:intergenic | 25.0% |
| TACGGATTTATTCATGTCTT+AGG | - | chr4_2:62730894-62730913 | Msa0613840:CDS | 30.0% | |
| TATTCATGTCTTAGGATTTG+GGG | - | chr4_2:62730902-62730921 | Msa0613840:CDS | 30.0% | |
| GAAAATAAGATATACCGACA+CGG | + | chr4_2:62731067-62731086 | None:intergenic | 30.0% | |
| ! | TAAAGTAGTTCAGTTGGTAT+AGG | + | chr4_2:62731112-62731131 | None:intergenic | 30.0% |
| AATGGAAAAGGAAAAGGAAA+AGG | + | chr4_2:62731179-62731198 | None:intergenic | 30.0% | |
| ! | AGCTTGAATTTGGTAGTAAA+TGG | - | chr4_2:62731202-62731221 | Msa0613840:intron | 30.0% |
| ! | AATGCCTTTATCATTTTGCA+TGG | - | chr4_2:62731255-62731274 | Msa0613840:CDS | 30.0% |
| CATACCATGCAAAATGATAA+AGG | + | chr4_2:62731262-62731281 | None:intergenic | 30.0% | |
| TACGGATTTATTCATGTCTT+AGG | - | chr4_2:62730894-62730913 | Msa0613840:CDS | 30.0% | |
| TATTCATGTCTTAGGATTTG+GGG | - | chr4_2:62730902-62730921 | Msa0613840:CDS | 30.0% | |
| GAAAATAAGATATACCGACA+CGG | + | chr4_2:62731067-62731086 | None:intergenic | 30.0% | |
| ! | TAAAGTAGTTCAGTTGGTAT+AGG | + | chr4_2:62731112-62731131 | None:intergenic | 30.0% |
| AATGGAAAAGGAAAAGGAAA+AGG | + | chr4_2:62731179-62731198 | None:intergenic | 30.0% | |
| ! | AGCTTGAATTTGGTAGTAAA+TGG | - | chr4_2:62731202-62731221 | Msa0613840:intron | 30.0% |
| ! | AATGCCTTTATCATTTTGCA+TGG | - | chr4_2:62731255-62731274 | Msa0613840:CDS | 30.0% |
| CATACCATGCAAAATGATAA+AGG | + | chr4_2:62731262-62731281 | None:intergenic | 30.0% | |
| ! | AATGATATTTTGCTCCGTGT+CGG | - | chr4_2:62731050-62731069 | Msa0613840:intron | 35.0% |
| TATAGGTATAGGTTGCAAGT+GGG | + | chr4_2:62731095-62731114 | None:intergenic | 35.0% | |
| ! | AGTTCAGTTGGTATAGGTAT+AGG | + | chr4_2:62731106-62731125 | None:intergenic | 35.0% |
| AAAGGAAAAGGAAAAGGAAG+AGG | + | chr4_2:62731173-62731192 | None:intergenic | 35.0% | |
| !! | ATTCAAGCTCTGAATGGAAA+AGG | + | chr4_2:62731191-62731210 | None:intergenic | 35.0% |
| TTCCATTCAGAGCTTGAATT+TGG | - | chr4_2:62731192-62731211 | Msa0613840:intron | 35.0% | |
| !! | TACCAAATTCAAGCTCTGAA+TGG | + | chr4_2:62731197-62731216 | None:intergenic | 35.0% |
| TCCTATGTAAGTTCTTGATC+TGG | - | chr4_2:62731408-62731427 | Msa0613840:five_prime_UTR | 35.0% | |
| !! | TGTGATTATGGTTTTTGGAC+AGG | - | chr4_2:62731512-62731531 | Msa0613840:intron | 35.0% |
| GTCAGTTTCAATTGCTTGTA+CGG | + | chr4_2:62731545-62731564 | None:intergenic | 35.0% | |
| CCAATATGAGATCAAATCCT+TGG | + | chr4_2:62731581-62731600 | None:intergenic | 35.0% | |
| CCAAGGATTTGATCTCATAT+TGG | - | chr4_2:62731578-62731597 | Msa0613840:five_prime_UTR | 35.0% | |
| ! | CTTTTATGAGCCTTCTTCTA+CGG | - | chr4_2:62731635-62731654 | Msa0613840:five_prime_UTR | 35.0% |
| ! | AATGATATTTTGCTCCGTGT+CGG | - | chr4_2:62731050-62731069 | Msa0613840:intron | 35.0% |
| TATAGGTATAGGTTGCAAGT+GGG | + | chr4_2:62731095-62731114 | None:intergenic | 35.0% | |
| ! | AGTTCAGTTGGTATAGGTAT+AGG | + | chr4_2:62731106-62731125 | None:intergenic | 35.0% |
| AAAGGAAAAGGAAAAGGAAG+AGG | + | chr4_2:62731173-62731192 | None:intergenic | 35.0% | |
| !! | ATTCAAGCTCTGAATGGAAA+AGG | + | chr4_2:62731191-62731210 | None:intergenic | 35.0% |
| TTCCATTCAGAGCTTGAATT+TGG | - | chr4_2:62731192-62731211 | Msa0613840:intron | 35.0% | |
| !! | TACCAAATTCAAGCTCTGAA+TGG | + | chr4_2:62731197-62731216 | None:intergenic | 35.0% |
| TCCTATGTAAGTTCTTGATC+TGG | - | chr4_2:62731408-62731427 | Msa0613840:five_prime_UTR | 35.0% | |
| !! | TGTGATTATGGTTTTTGGAC+AGG | - | chr4_2:62731512-62731531 | Msa0613840:intron | 35.0% |
| GTCAGTTTCAATTGCTTGTA+CGG | + | chr4_2:62731545-62731564 | None:intergenic | 35.0% | |
| CCAATATGAGATCAAATCCT+TGG | + | chr4_2:62731581-62731600 | None:intergenic | 35.0% | |
| CCAAGGATTTGATCTCATAT+TGG | - | chr4_2:62731578-62731597 | Msa0613840:five_prime_UTR | 35.0% | |
| ! | CTTTTATGAGCCTTCTTCTA+CGG | - | chr4_2:62731635-62731654 | Msa0613840:five_prime_UTR | 35.0% |
| AAGGAAAATGCACAACGAGA+GGG | - | chr4_2:62730950-62730969 | Msa0613840:CDS | 40.0% | |
| ATGTAATTGACATGCGAACG+AGG | - | chr4_2:62731023-62731042 | Msa0613840:intron | 40.0% | |
| TGTAATTGACATGCGAACGA+GGG | - | chr4_2:62731024-62731043 | Msa0613840:intron | 40.0% | |
| GACACGGAGCAAAATATCAT+TGG | + | chr4_2:62731051-62731070 | None:intergenic | 40.0% | |
| GTATAGGTATAGGTTGCAAG+TGG | + | chr4_2:62731096-62731115 | None:intergenic | 40.0% | |
| ! | GCTCTGAATGGAAAAGGAAA+AGG | + | chr4_2:62731185-62731204 | None:intergenic | 40.0% |
| GGTAGTAAATGGCTTCTTCA+TGG | - | chr4_2:62731213-62731232 | Msa0613840:intron | 40.0% | |
| AAGAGGCCTAGAAAAAGAGA+AGG | + | chr4_2:62731374-62731393 | None:intergenic | 40.0% | |
| GCCAGATCAAGAACTTACAT+AGG | + | chr4_2:62731412-62731431 | None:intergenic | 40.0% | |
| AAGTTCTTGATCTGGCTGTT+TGG | - | chr4_2:62731416-62731435 | Msa0613840:five_prime_UTR | 40.0% | |
| TGACTCATATGCAGAAACCA+AGG | - | chr4_2:62731561-62731580 | Msa0613840:intron | 40.0% | |
| AAGGAAAATGCACAACGAGA+GGG | - | chr4_2:62730950-62730969 | Msa0613840:CDS | 40.0% | |
| ATGTAATTGACATGCGAACG+AGG | - | chr4_2:62731023-62731042 | Msa0613840:intron | 40.0% | |
| TGTAATTGACATGCGAACGA+GGG | - | chr4_2:62731024-62731043 | Msa0613840:intron | 40.0% | |
| GACACGGAGCAAAATATCAT+TGG | + | chr4_2:62731051-62731070 | None:intergenic | 40.0% | |
| GTATAGGTATAGGTTGCAAG+TGG | + | chr4_2:62731096-62731115 | None:intergenic | 40.0% | |
| ! | GCTCTGAATGGAAAAGGAAA+AGG | + | chr4_2:62731185-62731204 | None:intergenic | 40.0% |
| GGTAGTAAATGGCTTCTTCA+TGG | - | chr4_2:62731213-62731232 | Msa0613840:intron | 40.0% | |
| AAGAGGCCTAGAAAAAGAGA+AGG | + | chr4_2:62731374-62731393 | None:intergenic | 40.0% | |
| GCCAGATCAAGAACTTACAT+AGG | + | chr4_2:62731412-62731431 | None:intergenic | 40.0% | |
| AAGTTCTTGATCTGGCTGTT+TGG | - | chr4_2:62731416-62731435 | Msa0613840:five_prime_UTR | 40.0% | |
| TGACTCATATGCAGAAACCA+AGG | - | chr4_2:62731561-62731580 | Msa0613840:intron | 40.0% | |
| CAAGGAAAATGCACAACGAG+AGG | - | chr4_2:62730949-62730968 | Msa0613840:CDS | 45.0% | |
| GAAAAGTCAGTGTCTTCGTG+AGG | + | chr4_2:62731146-62731165 | None:intergenic | 45.0% | |
| CAAGGAAAATGCACAACGAG+AGG | - | chr4_2:62730949-62730968 | Msa0613840:CDS | 45.0% | |
| GAAAAGTCAGTGTCTTCGTG+AGG | + | chr4_2:62731146-62731165 | None:intergenic | 45.0% | |
| AGGTATAGGTTGCAAGTGGG+AGG | + | chr4_2:62731092-62731111 | None:intergenic | 50.0% | |
| TTCTAGGCCTCTTGTTGCTC+TGG | - | chr4_2:62731381-62731400 | Msa0613840:five_prime_UTR | 50.0% | |
| GGATACACCAGAGCAACAAG+AGG | + | chr4_2:62731391-62731410 | None:intergenic | 50.0% | |
| AGGTATAGGTTGCAAGTGGG+AGG | + | chr4_2:62731092-62731111 | None:intergenic | 50.0% | |
| TTCTAGGCCTCTTGTTGCTC+TGG | - | chr4_2:62731381-62731400 | Msa0613840:five_prime_UTR | 50.0% | |
| GGATACACCAGAGCAACAAG+AGG | + | chr4_2:62731391-62731410 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_2 | gene | 62730862 | 62731660 | 62730862 | ID=Msa0613840;Name=Msa0613840 |
| chr4_2 | mRNA | 62730862 | 62731660 | 62730862 | ID=Msa0613840-mRNA-1;Parent=Msa0613840;Name=Msa0613840-mRNA-1;_AED=0.48;_eAED=0.48;_QI=271|1|0.75|1|0.66|0.5|4|0|69 |
| chr4_2 | exon | 62730862 | 62730988 | 62730862 | ID=Msa0613840-mRNA-1:exon:17341;Parent=Msa0613840-mRNA-1 |
| chr4_2 | exon | 62731109 | 62731135 | 62731109 | ID=Msa0613840-mRNA-1:exon:17340;Parent=Msa0613840-mRNA-1 |
| chr4_2 | exon | 62731246 | 62731481 | 62731246 | ID=Msa0613840-mRNA-1:exon:17339;Parent=Msa0613840-mRNA-1 |
| chr4_2 | exon | 62731570 | 62731660 | 62731570 | ID=Msa0613840-mRNA-1:exon:17338;Parent=Msa0613840-mRNA-1 |
| chr4_2 | five_prime_UTR | 62731570 | 62731660 | 62731570 | ID=Msa0613840-mRNA-1:five_prime_utr;Parent=Msa0613840-mRNA-1 |
| chr4_2 | five_prime_UTR | 62731302 | 62731481 | 62731302 | ID=Msa0613840-mRNA-1:five_prime_utr;Parent=Msa0613840-mRNA-1 |
| chr4_2 | CDS | 62731246 | 62731301 | 62731246 | ID=Msa0613840-mRNA-1:cds;Parent=Msa0613840-mRNA-1 |
| chr4_2 | CDS | 62731109 | 62731135 | 62731109 | ID=Msa0613840-mRNA-1:cds;Parent=Msa0613840-mRNA-1 |
| chr4_2 | CDS | 62730862 | 62730988 | 62730862 | ID=Msa0613840-mRNA-1:cds;Parent=Msa0613840-mRNA-1 |
| Gene Sequence |
| Protein sequence |
