Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene073078.t1 | XP_013464930.1 | 97 | 67 | 2 | 0 | 1 | 67 | 1 | 67 | 3.40E-24 | 120.9 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene073078.t1 | Q9SLF7 | 75.8 | 66 | 16 | 0 | 1 | 66 | 1 | 66 | 5.8e-20 | 98.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene073078.t1 | A0A072VLF0 | 97.0 | 67 | 2 | 0 | 1 | 67 | 1 | 67 | 2.5e-24 | 120.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050290 | MS.gene073078 | 0.860772 | 1.64E-63 | -1.69E-46 |
| MS.gene051850 | MS.gene073078 | 0.827405 | 1.59E-54 | -1.69E-46 |
| MS.gene051903 | MS.gene073078 | 0.802397 | 5.72E-49 | -1.69E-46 |
| MS.gene052057 | MS.gene073078 | 0.808148 | 3.57E-50 | -1.69E-46 |
| MS.gene053952 | MS.gene073078 | 0.816364 | 5.74E-52 | -1.69E-46 |
| MS.gene054937 | MS.gene073078 | 0.869629 | 2.68E-66 | -1.69E-46 |
| MS.gene056075 | MS.gene073078 | 0.81727 | 3.60E-52 | -1.69E-46 |
| MS.gene056917 | MS.gene073078 | 0.831711 | 1.43E-55 | -1.69E-46 |
| MS.gene057052 | MS.gene073078 | 0.861856 | 7.64E-64 | -1.69E-46 |
| MS.gene057092 | MS.gene073078 | 0.81439 | 1.58E-51 | -1.69E-46 |
| MS.gene057094 | MS.gene073078 | 0.835766 | 1.39E-56 | -1.69E-46 |
| MS.gene058354 | MS.gene073078 | 0.814978 | 1.17E-51 | -1.69E-46 |
| MS.gene058364 | MS.gene073078 | 0.821764 | 3.40E-53 | -1.69E-46 |
| MS.gene06001 | MS.gene073078 | 0.812553 | 4.00E-51 | -1.69E-46 |
| MS.gene060856 | MS.gene073078 | 0.825242 | 5.22E-54 | -1.69E-46 |
| MS.gene061145 | MS.gene073078 | 0.803634 | 3.17E-49 | -1.69E-46 |
PPI:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene073078.t1 | MTR_2g085085 | 96.190 | 105 | 4 | 0 | 1 | 105 | 1 | 105 | 4.70e-63 | 187 |
| MS.gene073078.t1 | MTR_0227s0020 | 87.879 | 66 | 8 | 0 | 1 | 66 | 1 | 66 | 1.84e-34 | 115 |
| MS.gene073078.t1 | MTR_1g060600 | 72.727 | 66 | 18 | 0 | 1 | 66 | 1 | 66 | 8.73e-28 | 98.2 |
| MS.gene073078.t1 | MTR_2g085105 | 96.552 | 29 | 1 | 0 | 1 | 29 | 1 | 29 | 6.36e-13 | 58.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene073078.t1 | AT2G27710 | 77.143 | 70 | 16 | 0 | 1 | 70 | 1 | 70 | 6.87e-32 | 108 |
| MS.gene073078.t1 | AT3G44590 | 70.000 | 70 | 21 | 0 | 1 | 70 | 1 | 70 | 9.30e-27 | 95.5 |
| MS.gene073078.t1 | AT3G44590 | 70.000 | 70 | 21 | 0 | 1 | 70 | 1 | 70 | 9.30e-27 | 95.5 |
| MS.gene073078.t1 | AT2G27710 | 75.385 | 65 | 16 | 0 | 1 | 65 | 1 | 65 | 2.11e-25 | 92.0 |
| MS.gene073078.t1 | AT2G27710 | 75.385 | 65 | 16 | 0 | 1 | 65 | 1 | 65 | 2.11e-25 | 92.0 |
| MS.gene073078.t1 | AT2G27710 | 75.385 | 65 | 16 | 0 | 1 | 65 | 1 | 65 | 2.11e-25 | 92.0 |
| MS.gene073078.t1 | AT2G27720 | 72.308 | 65 | 18 | 0 | 1 | 65 | 1 | 65 | 4.28e-24 | 89.0 |
| MS.gene073078.t1 | AT3G28500 | 55.660 | 106 | 46 | 1 | 1 | 105 | 1 | 106 | 2.27e-23 | 87.0 |
| MS.gene073078.t1 | AT2G27720 | 61.039 | 77 | 18 | 1 | 1 | 65 | 1 | 77 | 2.53e-20 | 79.7 |
| MS.gene073078.t1 | AT2G27720 | 57.500 | 80 | 19 | 1 | 1 | 65 | 1 | 80 | 3.93e-19 | 76.6 |
| MS.gene073078.t1 | AT5G40040 | 55.385 | 65 | 29 | 0 | 1 | 65 | 1 | 65 | 1.44e-18 | 74.7 |
Find 33 sgRNAs with CRISPR-Local
Find 75 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGCTTACTTGTTGGCCGTTT+TGG | 0.128749 | 2.3:+12787782 | MS.gene073078:CDS |
| GCTGATCTTAAACAAATTCT+TGG | 0.267351 | 2.3:+12787828 | MS.gene073078:CDS |
| GTTGCTGTGTCTGCTGCAAC+TGG | 0.362343 | 2.3:+12789043 | MS.gene073078:CDS |
| TCTTCCTTTGCTGCTTCAGC+AGG | 0.364467 | 2.3:-12789088 | None:intergenic |
| CTTAAACAAATTCTTGGATC+AGG | 0.372982 | 2.3:+12787834 | MS.gene073078:CDS |
| AGAGAAGAAGGTGGAAGAGA+AGG | 0.434796 | 2.3:+12789108 | MS.gene073078:CDS |
| GATTATCGCAGCTTACTTGT+TGG | 0.445399 | 2.3:+12787773 | MS.gene073078:CDS |
| GTGTCTGCTGCAACTGGAGG+AGG | 0.445905 | 2.3:+12789049 | MS.gene073078:CDS |
| TGCGCCTGCTGAAGCAGCAA+AGG | 0.454235 | 2.3:+12789084 | MS.gene073078:CDS |
| GATCAGCAGCTGAAGGGGAT+TGG | 0.469713 | 2.3:-12787812 | None:intergenic |
| CCTTGCCCTTGACTTCACTT+AGG | 0.488662 | 2.3:-12788955 | None:intergenic |
| TGCCAGTGGAAGAGAAAAGT+TGG | 0.491656 | 2.3:+12788994 | MS.gene073078:CDS |
| CACAGCAACAGCACCACCAC+CGG | 0.500128 | 2.3:-12789029 | None:intergenic |
| AGCAGCAAAGGAAGAGAAGA+AGG | 0.518126 | 2.3:+12789096 | MS.gene073078:CDS |
| GCTTCAGTTCCATCCGGTGG+TGG | 0.522209 | 2.3:+12789016 | MS.gene073078:CDS |
| GGATTGGTTGCCTCCCAAAA+CGG | 0.534645 | 2.3:-12787796 | None:intergenic |
| CAACTCAATGTTGCCATCCT+CGG | 0.536919 | 2.3:-12788930 | None:intergenic |
| GCAACAGCACCACCACCGGA+TGG | 0.539099 | 2.3:-12789025 | None:intergenic |
| TGTTTAAGATCAGCAGCTGA+AGG | 0.541739 | 2.3:-12787819 | None:intergenic |
| TCTTCCACTGGCAATAAGCT+CGG | 0.547245 | 2.3:-12788984 | None:intergenic |
| GTTTAAGATCAGCAGCTGAA+GGG | 0.564265 | 2.3:-12787818 | None:intergenic |
| TTTAAGATCAGCAGCTGAAG+GGG | 0.564880 | 2.3:-12787817 | None:intergenic |
| AAGTTGGCTTCAGTTCCATC+CGG | 0.567453 | 2.3:+12789010 | MS.gene073078:CDS |
| GTTGGAGTTGAGGCCGAGGA+TGG | 0.573673 | 2.3:+12788917 | MS.gene073078:intron |
| GTTGCTCCTAAGTGAAGTCA+AGG | 0.590863 | 2.3:+12788949 | MS.gene073078:CDS |
| GCTGTGTCTGCTGCAACTGG+AGG | 0.592795 | 2.3:+12789046 | MS.gene073078:CDS |
| TATGATTGTAGTTGGAGTTG+AGG | 0.599920 | 2.3:+12788907 | MS.gene073078:intron |
| TTTGCCGAGCTTATTGCCAG+TGG | 0.606365 | 2.3:+12788980 | MS.gene073078:CDS |
| TTGGCTTCAGTTCCATCCGG+TGG | 0.607108 | 2.3:+12789013 | MS.gene073078:CDS |
| CCTAAGTGAAGTCAAGGGCA+AGG | 0.616488 | 2.3:+12788955 | MS.gene073078:CDS |
| TGTAGTTGGAGTTGAGGCCG+AGG | 0.617745 | 2.3:+12788913 | MS.gene073078:intron |
| TTGCTCCTAAGTGAAGTCAA+GGG | 0.680870 | 2.3:+12788950 | MS.gene073078:CDS |
| AGCAAAGGAAGAGAAGAAGG+TGG | 0.683753 | 2.3:+12789099 | MS.gene073078:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AAATAATTTTAATTCAAGTT+TGG | + | chr2.3:12788276-12788295 | MS.gene073078:intron | 10.0% |
| !!! | AATAATTTTAATTCAAGTTT+GGG | + | chr2.3:12788277-12788296 | MS.gene073078:intron | 10.0% |
| !! | AACAAGATTAAAGATTAAAT+TGG | - | chr2.3:12787872-12787891 | None:intergenic | 15.0% |
| !! | ACAAGATTAAAGATTAAATT+GGG | - | chr2.3:12787871-12787890 | None:intergenic | 15.0% |
| !! | ATGAAAATTGATCAAAATAT+TGG | + | chr2.3:12788358-12788377 | MS.gene073078:intron | 15.0% |
| !! | ATTAAAATCAAACCAATATA+TGG | - | chr2.3:12788633-12788652 | None:intergenic | 15.0% |
| !! | TTAAAATCAAACCAATATAT+GGG | - | chr2.3:12788632-12788651 | None:intergenic | 15.0% |
| !!! | AAAAAAAGTGACTTTATTTT+TGG | + | chr2.3:12788881-12788900 | MS.gene073078:intron | 15.0% |
| !!! | AAAAAAGTGACTTTATTTTT+GGG | + | chr2.3:12788882-12788901 | MS.gene073078:intron | 15.0% |
| !!! | TTTAACTTTAATTCAAGTTT+GGG | + | chr2.3:12788310-12788329 | MS.gene073078:intron | 15.0% |
| !! | AATAGTTTATGCAAATTCAT+AGG | + | chr2.3:12788546-12788565 | MS.gene073078:intron | 20.0% |
| !! | ATGGATCTACTAAAATAATT+CGG | - | chr2.3:12787967-12787986 | None:intergenic | 20.0% |
| !! | TAAAATCAAACCAATATATG+GGG | - | chr2.3:12788631-12788650 | None:intergenic | 20.0% |
| !!! | AAATATTGGTTTATTTGGAT+TGG | + | chr2.3:12788372-12788391 | MS.gene073078:intron | 20.0% |
| !!! | ATATTCTACACTTTTACTTA+TGG | - | chr2.3:12787986-12788005 | None:intergenic | 20.0% |
| !!! | GATCAAAATATTGGTTTATT+TGG | + | chr2.3:12788367-12788386 | MS.gene073078:intron | 20.0% |
| !!! | GGATTTGGTTAATTTATAAT+CGG | + | chr2.3:12788134-12788153 | MS.gene073078:intron | 20.0% |
| !!! | GTATATTTTTTTACTGTTGA+AGG | + | chr2.3:12788768-12788787 | MS.gene073078:intron | 20.0% |
| !!! | GTTTAACTTTAATTCAAGTT+TGG | + | chr2.3:12788309-12788328 | MS.gene073078:intron | 20.0% |
| !!! | TGCTAATTTAATTCAAGTTT+AGG | + | chr2.3:12788113-12788132 | MS.gene073078:intron | 20.0% |
| !!! | TTCATTTTTACAGATGTATT+AGG | + | chr2.3:12788692-12788711 | MS.gene073078:intron | 20.0% |
| !!! | TTTAATTCAAGTTTAGGATT+TGG | + | chr2.3:12788119-12788138 | MS.gene073078:intron | 20.0% |
| !! | TTTTACTGTTGAAGGAAAAA+TGG | + | chr2.3:12788776-12788795 | MS.gene073078:intron | 25.0% |
| !!! | ATTTTAATTCAAGTTTGGGT+TGG | + | chr2.3:12788281-12788300 | MS.gene073078:intron | 25.0% |
| !!! | GCATTTTTTGTTTGTTTTTC+CGG | + | chr2.3:12787925-12787944 | MS.gene073078:intron | 25.0% |
| !!! | GCTTAGTTTTATACATTGTT+TGG | + | chr2.3:12788653-12788672 | MS.gene073078:intron | 25.0% |
| !!! | TTTTAATTCAAGTTTGGGTT+GGG | + | chr2.3:12788282-12788301 | MS.gene073078:intron | 25.0% |
| AAATAATCAATCCTAGACTG+TGG | + | chr2.3:12788068-12788087 | MS.gene073078:intron | 30.0% | |
| AATAATCAATCCTAGACTGT+GGG | + | chr2.3:12788069-12788088 | MS.gene073078:intron | 30.0% | |
| CTTAAACAAATTCTTGGATC+AGG | + | chr2.3:12787834-12787853 | MS.gene073078:CDS | 30.0% | |
| GCTGATCTTAAACAAATTCT+TGG | + | chr2.3:12787828-12787847 | MS.gene073078:CDS | 30.0% | |
| TATCTACTGTTAGACTGTTA+AGG | + | chr2.3:12788408-12788427 | MS.gene073078:intron | 30.0% | |
| AATCAAACAGCCCCATATAT+TGG | + | chr2.3:12788618-12788637 | MS.gene073078:intron | 35.0% | |
| TATCTACTGTTGGACAGTTT+GGG | + | chr2.3:12788213-12788232 | MS.gene073078:intron | 35.0% | |
| TATGATTGTAGTTGGAGTTG+AGG | + | chr2.3:12788907-12788926 | MS.gene073078:intron | 35.0% | |
| TGAATGAACATGTGTCTGTT+TGG | + | chr2.3:12788172-12788191 | MS.gene073078:intron | 35.0% | |
| TTATCTACTGTTGGACAGTT+TGG | + | chr2.3:12788212-12788231 | MS.gene073078:intron | 35.0% | |
| TTTGGGTCTATGATTGTAGT+TGG | + | chr2.3:12788899-12788918 | MS.gene073078:intron | 35.0% | |
| CGGATACTAATCATCGAAAC+CGG | - | chr2.3:12787947-12787966 | None:intergenic | 40.0% | |
| CGTTTGAGCTTATCTACTGT+TGG | + | chr2.3:12788203-12788222 | MS.gene073078:intron | 40.0% | |
| CTTCATTATACCCACAGTCT+AGG | - | chr2.3:12788082-12788101 | None:intergenic | 40.0% | |
| GAACATGTGTCTGTTTGGAT+TGG | + | chr2.3:12788177-12788196 | MS.gene073078:intron | 40.0% | |
| GATTATCGCAGCTTACTTGT+TGG | + | chr2.3:12787773-12787792 | MS.gene073078:CDS | 40.0% | |
| TTGCTCCTAAGTGAAGTCAA+GGG | + | chr2.3:12788950-12788969 | MS.gene073078:CDS | 40.0% | |
| ! | GTTTAAGATCAGCAGCTGAA+GGG | - | chr2.3:12787821-12787840 | None:intergenic | 40.0% |
| ! | TGTTTAAGATCAGCAGCTGA+AGG | - | chr2.3:12787822-12787841 | None:intergenic | 40.0% |
| ! | TTTAAGATCAGCAGCTGAAG+GGG | - | chr2.3:12787820-12787839 | None:intergenic | 40.0% |
| AGAGAAGAAGGTGGAAGAGA+AGG | + | chr2.3:12789108-12789127 | MS.gene073078:CDS | 45.0% | |
| AGCAAAGGAAGAGAAGAAGG+TGG | + | chr2.3:12789099-12789118 | MS.gene073078:CDS | 45.0% | |
| AGCAGCAAAGGAAGAGAAGA+AGG | + | chr2.3:12789096-12789115 | MS.gene073078:CDS | 45.0% | |
| CAACTCAATGTTGCCATCCT+CGG | - | chr2.3:12788933-12788952 | None:intergenic | 45.0% | |
| GTTGCTCCTAAGTGAAGTCA+AGG | + | chr2.3:12788949-12788968 | MS.gene073078:CDS | 45.0% | |
| TCTTCCACTGGCAATAAGCT+CGG | - | chr2.3:12788987-12789006 | None:intergenic | 45.0% | |
| TGCCAGTGGAAGAGAAAAGT+TGG | + | chr2.3:12788994-12789013 | MS.gene073078:CDS | 45.0% | |
| ! | AAGTTGGCTTCAGTTCCATC+CGG | + | chr2.3:12789010-12789029 | MS.gene073078:CDS | 45.0% |
| ! | AGCCAACTTTTCTCTTCCAC+TGG | - | chr2.3:12788999-12789018 | None:intergenic | 45.0% |
| !! | AGCTTACTTGTTGGCCGTTT+TGG | + | chr2.3:12787782-12787801 | MS.gene073078:CDS | 45.0% |
| !! | GCTTACTTGTTGGCCGTTTT+GGG | + | chr2.3:12787783-12787802 | MS.gene073078:CDS | 45.0% |
| CCTAAGTGAAGTCAAGGGCA+AGG | + | chr2.3:12788955-12788974 | MS.gene073078:CDS | 50.0% | |
| CCTTGCCCTTGACTTCACTT+AGG | - | chr2.3:12788958-12788977 | None:intergenic | 50.0% | |
| TTTGCCGAGCTTATTGCCAG+TGG | + | chr2.3:12788980-12788999 | MS.gene073078:CDS | 50.0% | |
| ! | TCTTCCTTTGCTGCTTCAGC+AGG | - | chr2.3:12789091-12789110 | None:intergenic | 50.0% |
| !! | GGATTGGTTGCCTCCCAAAA+CGG | - | chr2.3:12787799-12787818 | None:intergenic | 50.0% |
| !! | TACTTGTTGGCCGTTTTGGG+AGG | + | chr2.3:12787786-12787805 | MS.gene073078:CDS | 50.0% |
| GATCAGCAGCTGAAGGGGAT+TGG | - | chr2.3:12787815-12787834 | None:intergenic | 55.0% | |
| GTTGCTGTGTCTGCTGCAAC+TGG | + | chr2.3:12789043-12789062 | MS.gene073078:CDS | 55.0% | |
| TGTAGTTGGAGTTGAGGCCG+AGG | + | chr2.3:12788913-12788932 | MS.gene073078:intron | 55.0% | |
| TTGGCTTCAGTTCCATCCGG+TGG | + | chr2.3:12789013-12789032 | MS.gene073078:CDS | 55.0% | |
| CACAGCAACAGCACCACCAC+CGG | - | chr2.3:12789032-12789051 | None:intergenic | 60.0% | |
| GCTGTGTCTGCTGCAACTGG+AGG | + | chr2.3:12789046-12789065 | MS.gene073078:CDS | 60.0% | |
| GCTTCAGTTCCATCCGGTGG+TGG | + | chr2.3:12789016-12789035 | MS.gene073078:CDS | 60.0% | |
| GTGTCTGCTGCAACTGGAGG+AGG | + | chr2.3:12789049-12789068 | MS.gene073078:CDS | 60.0% | |
| GTTGGAGTTGAGGCCGAGGA+TGG | + | chr2.3:12788917-12788936 | MS.gene073078:intron | 60.0% | |
| TGCGCCTGCTGAAGCAGCAA+AGG | + | chr2.3:12789084-12789103 | MS.gene073078:CDS | 60.0% | |
| GCAACAGCACCACCACCGGA+TGG | - | chr2.3:12789028-12789047 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2.3 | gene | 12787768 | 12789144 | 12787768 | ID=MS.gene073078 |
| chr2.3 | mRNA | 12787768 | 12789144 | 12787768 | ID=MS.gene073078.t1;Parent=MS.gene073078 |
| chr2.3 | exon | 12787768 | 12787855 | 12787768 | ID=MS.gene073078.t1.exon1;Parent=MS.gene073078.t1 |
| chr2.3 | CDS | 12787768 | 12787855 | 12787768 | ID=cds.MS.gene073078.t1;Parent=MS.gene073078.t1 |
| chr2.3 | exon | 12788918 | 12789144 | 12788918 | ID=MS.gene073078.t1.exon2;Parent=MS.gene073078.t1 |
| chr2.3 | CDS | 12788918 | 12789144 | 12788918 | ID=cds.MS.gene073078.t1;Parent=MS.gene073078.t1 |
| Gene Sequence |
| Protein sequence |
