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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1107280 | KAG5009876.1 | 59.441 | 143 | 26 | 3 | 1 | 111 | 1 | 143 | 4.69e-47 | 159 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1107280 | G7L5L7 | 69.643 | 112 | 4 | 1 | 1 | 82 | 1 | 112 | 7.25e-44 | 149 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1061780 | Msa1107280 | 0.812547 | 4.013093e-51 | -8.615850e-47 |
| Msa0267710 | Msa1107280 | 0.823123 | 1.640507e-53 | -8.615850e-47 |
| Msa1107280 | Msa1107320 | 0.832436 | 9.463727e-56 | -8.615850e-47 |
| Msa1107280 | Msa1150860 | 0.810686 | 1.018907e-50 | -8.615850e-47 |
| Msa1107280 | Msa1150870 | 0.859567 | 3.781726e-63 | -8.615850e-47 |
| Msa1107280 | Msa1150880 | 0.828953 | 6.750746e-55 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1107280 | MtrunA17_Chr7g0240471 | 69.643 | 112 | 4 | 1 | 1 | 82 | 1 | 112 | 1.40e-47 | 149 |
| Msa1107280 | MtrunA17_Chr7g0240451 | 60.714 | 112 | 14 | 1 | 1 | 82 | 1 | 112 | 1.23e-41 | 134 |
| Msa1107280 | MtrunA17_Chr7g0240441 | 67.742 | 62 | 6 | 1 | 36 | 83 | 29 | 90 | 3.19e-22 | 84.0 |
| Msa1107280 | MtrunA17_Chr8g0368861 | 37.895 | 95 | 27 | 2 | 20 | 83 | 23 | 116 | 3.75e-12 | 58.9 |
| Msa1107280 | MtrunA17_Chr8g0368831 | 61.538 | 39 | 15 | 0 | 45 | 83 | 86 | 124 | 9.58e-12 | 58.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1107280 | AT3G53980.2 | 52.222 | 90 | 12 | 2 | 23 | 82 | 21 | 109 | 3.84e-23 | 87.4 |
| Msa1107280 | AT3G53980.1 | 52.222 | 90 | 12 | 2 | 23 | 82 | 21 | 109 | 3.84e-23 | 87.4 |
| Msa1107280 | AT5G05960.1 | 41.071 | 112 | 31 | 3 | 5 | 82 | 1 | 111 | 2.81e-18 | 75.1 |
| Msa1107280 | AT2G37870.1 | 37.143 | 105 | 32 | 3 | 11 | 83 | 9 | 111 | 1.53e-13 | 62.8 |
Find 34 sgRNAs with CRISPR-Local
Find 100 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTGATGAAAACAAACATAAA+TGG | 0.241413 | 7_3:+48804669 | Msa1107280:CDS |
| GATGCTGTTAGCTACTATTA+TGG | 0.249165 | 7_3:+48804702 | Msa1107280:CDS |
| AGCTTAAAAGCTTCATTATC+TGG | 0.286546 | 7_3:-48804067 | None:intergenic |
| TAGCAAAGTTGCAGCGTTTA+GGG | 0.296288 | 7_3:-48804252 | None:intergenic |
| TAACTTTGTTGTTGTTTATA+GGG | 0.305158 | 7_3:+48804752 | Msa1107280:CDS |
| GTAACTTTGTTGTTGTTTAT+AGG | 0.314048 | 7_3:+48804751 | Msa1107280:CDS |
| TCAAACGTTGCTAAAATATC+TGG | 0.318473 | 7_3:+48804202 | Msa1107280:CDS |
| TTAGCAAAGTTGCAGCGTTT+AGG | 0.351023 | 7_3:-48804253 | None:intergenic |
| CAACAACCTCAACTCTTTCA+AGG | 0.388840 | 7_3:-48804649 | None:intergenic |
| CGAATTTCGCTAAAGATATG+AGG | 0.402052 | 7_3:+48804944 | Msa1107280:three_prime_UTR |
| TGATGAAAACAAACATAAAT+GGG | 0.460009 | 7_3:+48804670 | Msa1107280:CDS |
| CGTCCACACTTATAGCCAAC+GGG | 0.467529 | 7_3:-48804280 | None:intergenic |
| GGATAGTAACAGCAATTTGA+GGG | 0.472152 | 7_3:-48804231 | None:intergenic |
| CTTTGTTGTTGTTTATAGGG+TGG | 0.488686 | 7_3:+48804755 | Msa1107280:CDS |
| GGGATAGTAACAGCAATTTG+AGG | 0.508534 | 7_3:-48804232 | None:intergenic |
| GTGGAAAGTGCTGGTGAATG+TGG | 0.509602 | 7_3:+48804031 | Msa1107280:CDS |
| TTACCACAACTTAGTTGTGT+TGG | 0.516240 | 7_3:+48804725 | Msa1107280:CDS |
| AAAGTGCTGGTGAATGTGGA+AGG | 0.526970 | 7_3:+48804035 | Msa1107280:CDS |
| ATGAAGATGATGTGCCTAGT+TGG | 0.533861 | 7_3:+48803977 | Msa1107280:CDS |
| AATAAAACATGCTCTTTCAG+TGG | 0.535975 | 7_3:+48804814 | Msa1107280:three_prime_UTR |
| TCTTGTGCTGCACTTGCACA+AGG | 0.541464 | 7_3:-48804094 | None:intergenic |
| ATCTTTATCAACTGTACTAA+CGG | 0.543883 | 7_3:-48804891 | None:intergenic |
| TGTTGCAGGGATTCATAGTG+TGG | 0.563016 | 7_3:+48804012 | Msa1107280:CDS |
| AACTTTGCTAATCGCCCCGT+TGG | 0.563102 | 7_3:+48804265 | Msa1107280:CDS |
| ACTCTTCCTTGAAAGAGTTG+AGG | 0.566469 | 7_3:+48804643 | Msa1107280:CDS |
| AGTGCTGGTGAATGTGGAAG+GGG | 0.579137 | 7_3:+48804037 | Msa1107280:CDS |
| AAGTGCTGGTGAATGTGGAA+GGG | 0.587013 | 7_3:+48804036 | Msa1107280:CDS |
| CAAGAACTACAAAACCAACT+AGG | 0.604153 | 7_3:-48803991 | None:intergenic |
| ACGTCCACACTTATAGCCAA+CGG | 0.614978 | 7_3:-48804281 | None:intergenic |
| CGCCCCGTTGGCTATAAGTG+TGG | 0.614983 | 7_3:+48804277 | Msa1107280:CDS |
| AATCCAACACAACTAAGTTG+TGG | 0.630863 | 7_3:-48804728 | None:intergenic |
| GTGTACACAAGTGAGCTGCT+AGG | 0.635422 | 7_3:-48804784 | None:intergenic |
| ATTCATAGTGTGGAAAGTGC+TGG | 0.646573 | 7_3:+48804022 | Msa1107280:CDS |
| GTCCACACTTATAGCCAACG+GGG | 0.805274 | 7_3:-48804279 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATGAGTTTATAGATAGTTAA+AGG | + | chr7_3:48804459-48804478 | Msa1107280:intron | 20.0% |
| !!! | CTATTTGTCAATTTTTTTGA+TGG | + | chr7_3:48804574-48804593 | Msa1107280:intron | 20.0% |
| !! | TTGATGAAAACAAACATAAA+TGG | + | chr7_3:48804669-48804688 | Msa1107280:CDS | 20.0% |
| !! | TGATGAAAACAAACATAAAT+GGG | + | chr7_3:48804670-48804689 | Msa1107280:CDS | 20.0% |
| !!! | TAACTTTGTTGTTGTTTATA+GGG | + | chr7_3:48804752-48804771 | Msa1107280:CDS | 20.0% |
| !! | ATGAGTTTATAGATAGTTAA+AGG | + | chr7_3:48804459-48804478 | Msa1107280:intron | 20.0% |
| !!! | CTATTTGTCAATTTTTTTGA+TGG | + | chr7_3:48804574-48804593 | Msa1107280:intron | 20.0% |
| !! | TTGATGAAAACAAACATAAA+TGG | + | chr7_3:48804669-48804688 | Msa1107280:CDS | 20.0% |
| !! | TGATGAAAACAAACATAAAT+GGG | + | chr7_3:48804670-48804689 | Msa1107280:CDS | 20.0% |
| !!! | TAACTTTGTTGTTGTTTATA+GGG | + | chr7_3:48804752-48804771 | Msa1107280:CDS | 20.0% |
| ! | ATCTATTGCAGATAGATAAA+TGG | + | chr7_3:48804431-48804450 | Msa1107280:intron | 25.0% |
| ! | TCTATTGCAGATAGATAAAT+GGG | + | chr7_3:48804432-48804451 | Msa1107280:intron | 25.0% |
| ! | ACAACCAAAAAAATGTGAAA+CGG | + | chr7_3:48804515-48804534 | Msa1107280:intron | 25.0% |
| !!! | TATACCGTTTCACATTTTTT+TGG | - | chr7_3:48804522-48804541 | None:intergenic | 25.0% |
| !!! | GTAACTTTGTTGTTGTTTAT+AGG | + | chr7_3:48804751-48804770 | Msa1107280:CDS | 25.0% |
| ! | ATCTTTATCAACTGTACTAA+CGG | - | chr7_3:48804894-48804913 | None:intergenic | 25.0% |
| ! | ATCTATTGCAGATAGATAAA+TGG | + | chr7_3:48804431-48804450 | Msa1107280:intron | 25.0% |
| ! | TCTATTGCAGATAGATAAAT+GGG | + | chr7_3:48804432-48804451 | Msa1107280:intron | 25.0% |
| ! | ACAACCAAAAAAATGTGAAA+CGG | + | chr7_3:48804515-48804534 | Msa1107280:intron | 25.0% |
| !!! | TATACCGTTTCACATTTTTT+TGG | - | chr7_3:48804522-48804541 | None:intergenic | 25.0% |
| !!! | GTAACTTTGTTGTTGTTTAT+AGG | + | chr7_3:48804751-48804770 | Msa1107280:CDS | 25.0% |
| ! | ATCTTTATCAACTGTACTAA+CGG | - | chr7_3:48804894-48804913 | None:intergenic | 25.0% |
| AGCTTAAAAGCTTCATTATC+TGG | - | chr7_3:48804070-48804089 | None:intergenic | 30.0% | |
| TCAAACGTTGCTAAAATATC+TGG | + | chr7_3:48804202-48804221 | Msa1107280:CDS | 30.0% | |
| GACAACTTAAAAGAAACTGA+GGG | - | chr7_3:48804322-48804341 | None:intergenic | 30.0% | |
| !! | AGAGCATGTTTTATTCATGT+GGG | - | chr7_3:48804809-48804828 | None:intergenic | 30.0% |
| !! | AAGAGCATGTTTTATTCATG+TGG | - | chr7_3:48804810-48804829 | None:intergenic | 30.0% |
| AATAAAACATGCTCTTTCAG+TGG | + | chr7_3:48804814-48804833 | Msa1107280:three_prime_UTR | 30.0% | |
| !!! | AGAGCATCAACTATTTTAGT+AGG | - | chr7_3:48804853-48804872 | None:intergenic | 30.0% |
| AGCTTAAAAGCTTCATTATC+TGG | - | chr7_3:48804070-48804089 | None:intergenic | 30.0% | |
| TCAAACGTTGCTAAAATATC+TGG | + | chr7_3:48804202-48804221 | Msa1107280:CDS | 30.0% | |
| GACAACTTAAAAGAAACTGA+GGG | - | chr7_3:48804322-48804341 | None:intergenic | 30.0% | |
| !! | AGAGCATGTTTTATTCATGT+GGG | - | chr7_3:48804809-48804828 | None:intergenic | 30.0% |
| !! | AAGAGCATGTTTTATTCATG+TGG | - | chr7_3:48804810-48804829 | None:intergenic | 30.0% |
| AATAAAACATGCTCTTTCAG+TGG | + | chr7_3:48804814-48804833 | Msa1107280:three_prime_UTR | 30.0% | |
| !!! | AGAGCATCAACTATTTTAGT+AGG | - | chr7_3:48804853-48804872 | None:intergenic | 30.0% |
| CAAGAACTACAAAACCAACT+AGG | - | chr7_3:48803994-48804013 | None:intergenic | 35.0% | |
| ! | GTTTTGTAGTTCTTGTTGCA+GGG | + | chr7_3:48803999-48804018 | Msa1107280:CDS | 35.0% |
| AAAACTGCACAAAGACAACT+TGG | - | chr7_3:48804178-48804197 | None:intergenic | 35.0% | |
| GGATAGTAACAGCAATTTGA+GGG | - | chr7_3:48804234-48804253 | None:intergenic | 35.0% | |
| CGACAACTTAAAAGAAACTG+AGG | - | chr7_3:48804323-48804342 | None:intergenic | 35.0% | |
| GATGCTGTTAGCTACTATTA+TGG | + | chr7_3:48804702-48804721 | Msa1107280:CDS | 35.0% | |
| TTACCACAACTTAGTTGTGT+TGG | + | chr7_3:48804725-48804744 | Msa1107280:CDS | 35.0% | |
| AATCCAACACAACTAAGTTG+TGG | - | chr7_3:48804731-48804750 | None:intergenic | 35.0% | |
| !! | CTTTGTTGTTGTTTATAGGG+TGG | + | chr7_3:48804755-48804774 | Msa1107280:CDS | 35.0% |
| CGAATTTCGCTAAAGATATG+AGG | + | chr7_3:48804944-48804963 | Msa1107280:three_prime_UTR | 35.0% | |
| CAAGAACTACAAAACCAACT+AGG | - | chr7_3:48803994-48804013 | None:intergenic | 35.0% | |
| ! | GTTTTGTAGTTCTTGTTGCA+GGG | + | chr7_3:48803999-48804018 | Msa1107280:CDS | 35.0% |
| AAAACTGCACAAAGACAACT+TGG | - | chr7_3:48804178-48804197 | None:intergenic | 35.0% | |
| GGATAGTAACAGCAATTTGA+GGG | - | chr7_3:48804234-48804253 | None:intergenic | 35.0% | |
| CGACAACTTAAAAGAAACTG+AGG | - | chr7_3:48804323-48804342 | None:intergenic | 35.0% | |
| GATGCTGTTAGCTACTATTA+TGG | + | chr7_3:48804702-48804721 | Msa1107280:CDS | 35.0% | |
| TTACCACAACTTAGTTGTGT+TGG | + | chr7_3:48804725-48804744 | Msa1107280:CDS | 35.0% | |
| AATCCAACACAACTAAGTTG+TGG | - | chr7_3:48804731-48804750 | None:intergenic | 35.0% | |
| !! | CTTTGTTGTTGTTTATAGGG+TGG | + | chr7_3:48804755-48804774 | Msa1107280:CDS | 35.0% |
| CGAATTTCGCTAAAGATATG+AGG | + | chr7_3:48804944-48804963 | Msa1107280:three_prime_UTR | 35.0% | |
| ATGAAGATGATGTGCCTAGT+TGG | + | chr7_3:48803977-48803996 | Msa1107280:CDS | 40.0% | |
| !! | GGTTTTGTAGTTCTTGTTGC+AGG | + | chr7_3:48803998-48804017 | Msa1107280:CDS | 40.0% |
| ! | ATTCATAGTGTGGAAAGTGC+TGG | + | chr7_3:48804022-48804041 | Msa1107280:CDS | 40.0% |
| TGGATTCTGACCAAGTTTCT+TGG | - | chr7_3:48804158-48804177 | None:intergenic | 40.0% | |
| GGGATAGTAACAGCAATTTG+AGG | - | chr7_3:48804235-48804254 | None:intergenic | 40.0% | |
| TAGCAAAGTTGCAGCGTTTA+GGG | - | chr7_3:48804255-48804274 | None:intergenic | 40.0% | |
| TTAGCAAAGTTGCAGCGTTT+AGG | - | chr7_3:48804256-48804275 | None:intergenic | 40.0% | |
| ACTCTTCCTTGAAAGAGTTG+AGG | + | chr7_3:48804643-48804662 | Msa1107280:CDS | 40.0% | |
| CAACAACCTCAACTCTTTCA+AGG | - | chr7_3:48804652-48804671 | None:intergenic | 40.0% | |
| ATGAAGATGATGTGCCTAGT+TGG | + | chr7_3:48803977-48803996 | Msa1107280:CDS | 40.0% | |
| !! | GGTTTTGTAGTTCTTGTTGC+AGG | + | chr7_3:48803998-48804017 | Msa1107280:CDS | 40.0% |
| ! | ATTCATAGTGTGGAAAGTGC+TGG | + | chr7_3:48804022-48804041 | Msa1107280:CDS | 40.0% |
| TGGATTCTGACCAAGTTTCT+TGG | - | chr7_3:48804158-48804177 | None:intergenic | 40.0% | |
| GGGATAGTAACAGCAATTTG+AGG | - | chr7_3:48804235-48804254 | None:intergenic | 40.0% | |
| TAGCAAAGTTGCAGCGTTTA+GGG | - | chr7_3:48804255-48804274 | None:intergenic | 40.0% | |
| TTAGCAAAGTTGCAGCGTTT+AGG | - | chr7_3:48804256-48804275 | None:intergenic | 40.0% | |
| ACTCTTCCTTGAAAGAGTTG+AGG | + | chr7_3:48804643-48804662 | Msa1107280:CDS | 40.0% | |
| CAACAACCTCAACTCTTTCA+AGG | - | chr7_3:48804652-48804671 | None:intergenic | 40.0% | |
| TGTTGCAGGGATTCATAGTG+TGG | + | chr7_3:48804012-48804031 | Msa1107280:CDS | 45.0% | |
| !! | AAAGTGCTGGTGAATGTGGA+AGG | + | chr7_3:48804035-48804054 | Msa1107280:CDS | 45.0% |
| !! | AAGTGCTGGTGAATGTGGAA+GGG | + | chr7_3:48804036-48804055 | Msa1107280:CDS | 45.0% |
| TGTGCTCAGACCAAGAAACT+TGG | + | chr7_3:48804145-48804164 | Msa1107280:intron | 45.0% | |
| ACGTCCACACTTATAGCCAA+CGG | - | chr7_3:48804284-48804303 | None:intergenic | 45.0% | |
| TGTTGCAGGGATTCATAGTG+TGG | + | chr7_3:48804012-48804031 | Msa1107280:CDS | 45.0% | |
| !! | AAAGTGCTGGTGAATGTGGA+AGG | + | chr7_3:48804035-48804054 | Msa1107280:CDS | 45.0% |
| !! | AAGTGCTGGTGAATGTGGAA+GGG | + | chr7_3:48804036-48804055 | Msa1107280:CDS | 45.0% |
| TGTGCTCAGACCAAGAAACT+TGG | + | chr7_3:48804145-48804164 | Msa1107280:intron | 45.0% | |
| ACGTCCACACTTATAGCCAA+CGG | - | chr7_3:48804284-48804303 | None:intergenic | 45.0% | |
| !! | GTGGAAAGTGCTGGTGAATG+TGG | + | chr7_3:48804031-48804050 | Msa1107280:CDS | 50.0% |
| !! | AGTGCTGGTGAATGTGGAAG+GGG | + | chr7_3:48804037-48804056 | Msa1107280:CDS | 50.0% |
| TCTTGTGCTGCACTTGCACA+AGG | - | chr7_3:48804097-48804116 | None:intergenic | 50.0% | |
| AACTTTGCTAATCGCCCCGT+TGG | + | chr7_3:48804265-48804284 | Msa1107280:CDS | 50.0% | |
| GTCCACACTTATAGCCAACG+GGG | - | chr7_3:48804282-48804301 | None:intergenic | 50.0% | |
| CGTCCACACTTATAGCCAAC+GGG | - | chr7_3:48804283-48804302 | None:intergenic | 50.0% | |
| GTGTACACAAGTGAGCTGCT+AGG | - | chr7_3:48804787-48804806 | None:intergenic | 50.0% | |
| !! | GTGGAAAGTGCTGGTGAATG+TGG | + | chr7_3:48804031-48804050 | Msa1107280:CDS | 50.0% |
| !! | AGTGCTGGTGAATGTGGAAG+GGG | + | chr7_3:48804037-48804056 | Msa1107280:CDS | 50.0% |
| TCTTGTGCTGCACTTGCACA+AGG | - | chr7_3:48804097-48804116 | None:intergenic | 50.0% | |
| AACTTTGCTAATCGCCCCGT+TGG | + | chr7_3:48804265-48804284 | Msa1107280:CDS | 50.0% | |
| GTCCACACTTATAGCCAACG+GGG | - | chr7_3:48804282-48804301 | None:intergenic | 50.0% | |
| CGTCCACACTTATAGCCAAC+GGG | - | chr7_3:48804283-48804302 | None:intergenic | 50.0% | |
| GTGTACACAAGTGAGCTGCT+AGG | - | chr7_3:48804787-48804806 | None:intergenic | 50.0% | |
| ! | CGCCCCGTTGGCTATAAGTG+TGG | + | chr7_3:48804277-48804296 | Msa1107280:CDS | 60.0% |
| ! | CGCCCCGTTGGCTATAAGTG+TGG | + | chr7_3:48804277-48804296 | Msa1107280:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_3 | gene | 48803965 | 48804973 | 48803965 | ID=Msa1107280;Name=Msa1107280 |
| chr7_3 | mRNA | 48803965 | 48804973 | 48803965 | ID=Msa1107280-mRNA-1;Parent=Msa1107280;Name=Msa1107280-mRNA-1;_AED=0.16;_eAED=0.16;_QI=0|0|0.33|1|1|1|3|185|133 |
| chr7_3 | exon | 48803965 | 48804103 | 48803965 | ID=Msa1107280-mRNA-1:exon:9929;Parent=Msa1107280-mRNA-1 |
| chr7_3 | exon | 48804194 | 48804305 | 48804194 | ID=Msa1107280-mRNA-1:exon:9930;Parent=Msa1107280-mRNA-1 |
| chr7_3 | exon | 48804638 | 48804973 | 48804638 | ID=Msa1107280-mRNA-1:exon:9931;Parent=Msa1107280-mRNA-1 |
| chr7_3 | CDS | 48803965 | 48804103 | 48803965 | ID=Msa1107280-mRNA-1:cds;Parent=Msa1107280-mRNA-1 |
| chr7_3 | CDS | 48804194 | 48804305 | 48804194 | ID=Msa1107280-mRNA-1:cds;Parent=Msa1107280-mRNA-1 |
| chr7_3 | CDS | 48804638 | 48804788 | 48804638 | ID=Msa1107280-mRNA-1:cds;Parent=Msa1107280-mRNA-1 |
| chr7_3 | three_prime_UTR | 48804789 | 48804973 | 48804789 | ID=Msa1107280-mRNA-1:three_prime_utr;Parent=Msa1107280-mRNA-1 |
| Gene Sequence |
| Protein sequence |
