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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0810450 | G7KF08 | 91.083 | 157 | 13 | 1 | 1 | 156 | 1 | 157 | 4.19e-86 | 258 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0810450 | Msa1430950 | 0.809117 | 2.217397e-50 | -8.615850e-47 |
| Msa0307740 | Msa0810450 | 0.800761 | 1.238290e-48 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0810450 | MtrunA17_Chr5g0404641 | 91.083 | 157 | 13 | 1 | 1 | 156 | 1 | 157 | 8.07e-90 | 258 |
| Msa0810450 | MtrunA17_Chr8g0387471 | 41.892 | 74 | 42 | 1 | 2 | 75 | 1 | 73 | 3.33e-13 | 62.8 |
| Msa0810450 | MtrunA17_Chr4g0065651 | 39.706 | 68 | 41 | 0 | 2 | 69 | 9 | 76 | 4.17e-12 | 62.8 |
| Msa0810450 | MtrunA17_Chr2g0287751 | 41.538 | 65 | 38 | 0 | 2 | 66 | 9 | 73 | 4.21e-12 | 62.8 |
| Msa0810450 | MtrunA17_Chr0c22g0493881 | 39.706 | 68 | 41 | 0 | 2 | 69 | 9 | 76 | 7.41e-12 | 62.0 |
| Msa0810450 | MtrunA17_Chr6g0469571 | 43.478 | 69 | 38 | 1 | 4 | 72 | 3 | 70 | 2.38e-11 | 57.8 |
| Msa0810450 | MtrunA17_Chr4g0065621 | 39.706 | 68 | 41 | 0 | 2 | 69 | 9 | 76 | 2.66e-11 | 60.5 |
| Msa0810450 | MtrunA17_Chr6g0469551 | 43.478 | 69 | 38 | 1 | 4 | 72 | 3 | 70 | 3.10e-11 | 57.4 |
| Msa0810450 | MtrunA17_Chr6g0469541 | 43.478 | 69 | 38 | 1 | 2 | 70 | 1 | 68 | 3.83e-11 | 57.0 |
| Msa0810450 | MtrunA17_Chr7g0233181 | 45.714 | 70 | 37 | 1 | 2 | 71 | 1 | 69 | 4.79e-11 | 56.6 |
| Msa0810450 | MtrunA17_Chr1g0202541 | 40.000 | 70 | 41 | 1 | 2 | 71 | 1 | 69 | 8.79e-11 | 56.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0810450 | AT3G05220.1 | 37.879 | 66 | 41 | 0 | 2 | 67 | 9 | 74 | 3.14e-11 | 60.8 |
| Msa0810450 | AT3G06130.1 | 38.961 | 77 | 45 | 1 | 2 | 78 | 9 | 83 | 5.35e-11 | 60.1 |
| Msa0810450 | AT3G06130.2 | 38.961 | 77 | 45 | 1 | 2 | 78 | 9 | 83 | 5.77e-11 | 59.7 |
Find 57 sgRNAs with CRISPR-Local
Find 76 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCAGGTGGAGGGGCAGGGCC+TGG | 0.159387 | 5_3:+38868741 | None:intergenic |
| CAGGTGGAGGGGCAGGGCCT+GGG | 0.214817 | 5_3:+38868742 | None:intergenic |
| AAGGGAACATTGACAATATT+AGG | 0.225728 | 5_3:-38868843 | Msa0810450:CDS |
| AGGTGGAGGGGCAGGGCCTG+GGG | 0.256026 | 5_3:+38868743 | None:intergenic |
| GGAGGCGCTGGGCCAGGTGG+AGG | 0.296347 | 5_3:+38868729 | None:intergenic |
| CATAATAATGCAAGATGTAT+TGG | 0.312448 | 5_3:+38868512 | None:intergenic |
| ATCCGAACTATTATGTCATA+TGG | 0.314119 | 5_3:+38868810 | None:intergenic |
| TAAGCCCAGCCCAGTGAGTT+TGG | 0.325149 | 5_3:-38868634 | Msa0810450:CDS |
| TATAGGGCACGTAAGATATT+TGG | 0.325989 | 5_3:+38868610 | None:intergenic |
| GCATCCTGTTTCGGAGGCGC+TGG | 0.328632 | 5_3:+38868717 | None:intergenic |
| TGGCCCAGCGCCTCCGAAAC+AGG | 0.337575 | 5_3:-38868721 | Msa0810450:CDS |
| GCTGGGCCAGGTGGAGGGGC+AGG | 0.347324 | 5_3:+38868735 | None:intergenic |
| AGGCGCTGGGCCAGGTGGAG+GGG | 0.355304 | 5_3:+38868731 | None:intergenic |
| TGGTCCAAACTCACTGGGCT+GGG | 0.376798 | 5_3:+38868630 | None:intergenic |
| TGGTACTGTGGGTAGTAATA+AGG | 0.380119 | 5_3:+38868579 | None:intergenic |
| ATGCTGAAGTTGTGAGTATA+GGG | 0.381806 | 5_3:-38868770 | Msa0810450:CDS |
| AGGGAACATTGACAATATTA+GGG | 0.387340 | 5_3:-38868842 | Msa0810450:CDS |
| CATGCTGAAGTTGTGAGTAT+AGG | 0.390925 | 5_3:-38868771 | Msa0810450:CDS |
| CCAGGCCCTGCCCCTCCACC+TGG | 0.400285 | 5_3:-38868741 | Msa0810450:CDS |
| GGTGGAGGGGCAGGGCCTGG+GGG | 0.400528 | 5_3:+38868744 | None:intergenic |
| GTAATAAGGCATCTGCGTAT+AGG | 0.404741 | 5_3:+38868593 | None:intergenic |
| TAATAAGGCATCTGCGTATA+GGG | 0.410219 | 5_3:+38868594 | None:intergenic |
| GAGGCGCTGGGCCAGGTGGA+GGG | 0.417547 | 5_3:+38868730 | None:intergenic |
| ACTGGCTGGCCCTGGTACTG+TGG | 0.417755 | 5_3:+38868567 | None:intergenic |
| ATAATAATGCAAGATGTATT+GGG | 0.421751 | 5_3:+38868513 | None:intergenic |
| TTCATGTGCACCACAGCAAC+TGG | 0.422470 | 5_3:+38868549 | None:intergenic |
| TGTTTCGGAGGCGCTGGGCC+AGG | 0.425807 | 5_3:+38868723 | None:intergenic |
| CCCGAAGAAAAGAGTAAGCC+TGG | 0.434145 | 5_3:-38868666 | Msa0810450:CDS |
| CTGGGCCAGGTGGAGGGGCA+GGG | 0.439351 | 5_3:+38868736 | None:intergenic |
| CTGGGCTTATCCTTATCTCC+AGG | 0.440999 | 5_3:+38868648 | None:intergenic |
| AAAACCGTCTCTTCTCTTGA+AGG | 0.441658 | 5_3:-38869059 | Msa0810450:intron |
| GGTCAAGAAAACTGTCTTGA+AGG | 0.445221 | 5_3:-38869120 | Msa0810450:CDS |
| TTGGTCCAAACTCACTGGGC+TGG | 0.450959 | 5_3:+38868629 | None:intergenic |
| ATGACATAATAGTTCGGATA+AGG | 0.460277 | 5_3:-38868806 | Msa0810450:CDS |
| AAAGAGTAAGCCTGGAGATA+AGG | 0.461929 | 5_3:-38868658 | Msa0810450:CDS |
| GATATTTGGTCCAAACTCAC+TGG | 0.464660 | 5_3:+38868624 | None:intergenic |
| TTATTACTACCCACAGTACC+AGG | 0.477048 | 5_3:-38868577 | Msa0810450:CDS |
| CATCCTGTTTCGGAGGCGCT+GGG | 0.483885 | 5_3:+38868718 | None:intergenic |
| CCAGGGCCAGCCAGTTGCTG+TGG | 0.497168 | 5_3:-38868559 | Msa0810450:CDS |
| CTGGCTGGCCCTGGTACTGT+GGG | 0.497483 | 5_3:+38868568 | None:intergenic |
| CCACAGCAACTGGCTGGCCC+TGG | 0.503535 | 5_3:+38868559 | None:intergenic |
| TTGCTGTGGTGCACATGAAT+AGG | 0.509643 | 5_3:-38868545 | Msa0810450:CDS |
| ACCCATATGACATAATAGTT+CGG | 0.515071 | 5_3:-38868812 | Msa0810450:CDS |
| TCCGAACTATTATGTCATAT+GGG | 0.521231 | 5_3:+38868811 | None:intergenic |
| TGTGCACCACAGCAACTGGC+TGG | 0.525693 | 5_3:+38868553 | None:intergenic |
| ATAGTTCGGATAAGGAAAGC+AGG | 0.528580 | 5_3:-38868798 | Msa0810450:CDS |
| TTCGGAGGCGCTGGGCCAGG+TGG | 0.533817 | 5_3:+38868726 | None:intergenic |
| AATTGAAGCTGATGAAGTGA+AGG | 0.538003 | 5_3:-38868862 | Msa0810450:CDS |
| CTGTGGTGCACATGAATAGG+TGG | 0.563070 | 5_3:-38868542 | Msa0810450:CDS |
| GCTGGTTGATAATTTCTCCA+TGG | 0.593422 | 5_3:-38869141 | Msa0810450:exon |
| GTTACCTTCAAGAGAAGAGA+CGG | 0.600293 | 5_3:+38869055 | None:intergenic |
| ATTGAAGCTGATGAAGTGAA+GGG | 0.616569 | 5_3:-38868861 | Msa0810450:CDS |
| ATATTTGGTCCAAACTCACT+GGG | 0.624772 | 5_3:+38868625 | None:intergenic |
| TAGTTCGGATAAGGAAAGCA+GGG | 0.637627 | 5_3:-38868797 | Msa0810450:CDS |
| TGTGGTGCACATGAATAGGT+GGG | 0.692350 | 5_3:-38868541 | Msa0810450:CDS |
| TATTACTACCCACAGTACCA+GGG | 0.693803 | 5_3:-38868576 | Msa0810450:CDS |
| GGGAACATTGACAATATTAG+GGG | 0.701854 | 5_3:-38868841 | Msa0810450:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GATTGAATTAACATTTAAAA+TGG | - | chr5_3:38868690-38868709 | Msa0810450:CDS | 15.0% |
| !!! | AATTTTTTTCATTGAATTGC+AGG | - | chr5_3:38868756-38868775 | Msa0810450:CDS | 20.0% |
| !!! | ATTTTTTTCATTGAATTGCA+GGG | - | chr5_3:38868757-38868776 | Msa0810450:CDS | 20.0% |
| !! | ATAATAATGCAAGATGTATT+GGG | + | chr5_3:38869140-38869159 | None:intergenic | 20.0% |
| !! | ATGAGTTTCTTTTTGCATTT+TGG | + | chr5_3:38868570-38868589 | None:intergenic | 25.0% |
| ! | CATAATAATGCAAGATGTAT+TGG | + | chr5_3:38869141-38869160 | None:intergenic | 25.0% |
| TGTGTATAATCTAAATGCTG+TGG | + | chr5_3:38868620-38868639 | None:intergenic | 30.0% | |
| AGGAGATTAAGTACTAATGT+AGG | + | chr5_3:38868644-38868663 | None:intergenic | 30.0% | |
| CATAACAAAAATAGTGAGAG+AGG | + | chr5_3:38868670-38868689 | None:intergenic | 30.0% | |
| !!! | CTCTCTCACTATTTTTGTTA+TGG | - | chr5_3:38868668-38868687 | Msa0810450:CDS | 30.0% |
| AAGGGAACATTGACAATATT+AGG | - | chr5_3:38868807-38868826 | Msa0810450:CDS | 30.0% | |
| AGGGAACATTGACAATATTA+GGG | - | chr5_3:38868808-38868827 | Msa0810450:CDS | 30.0% | |
| ACCCATATGACATAATAGTT+CGG | - | chr5_3:38868838-38868857 | Msa0810450:CDS | 30.0% | |
| TCCGAACTATTATGTCATAT+GGG | + | chr5_3:38868842-38868861 | None:intergenic | 30.0% | |
| ATCCGAACTATTATGTCATA+TGG | + | chr5_3:38868843-38868862 | None:intergenic | 30.0% | |
| ATGACATAATAGTTCGGATA+AGG | - | chr5_3:38868844-38868863 | Msa0810450:CDS | 30.0% | |
| AAAAATAGTGAGAGAGGAGA+AGG | + | chr5_3:38868664-38868683 | None:intergenic | 35.0% | |
| AATTGAAGCTGATGAAGTGA+AGG | - | chr5_3:38868788-38868807 | Msa0810450:CDS | 35.0% | |
| ATTGAAGCTGATGAAGTGAA+GGG | - | chr5_3:38868789-38868808 | Msa0810450:CDS | 35.0% | |
| GGGAACATTGACAATATTAG+GGG | - | chr5_3:38868809-38868828 | Msa0810450:CDS | 35.0% | |
| ATGCTGAAGTTGTGAGTATA+GGG | - | chr5_3:38868880-38868899 | Msa0810450:intron | 35.0% | |
| !!! | TTCGGGCTTTTTATTTTCCA+CGG | + | chr5_3:38868970-38868989 | None:intergenic | 35.0% |
| ATATTTGGTCCAAACTCACT+GGG | + | chr5_3:38869028-38869047 | None:intergenic | 35.0% | |
| TATAGGGCACGTAAGATATT+TGG | + | chr5_3:38869043-38869062 | None:intergenic | 35.0% | |
| ! | TAATAAGGCATCTGCGTATA+GGG | + | chr5_3:38869059-38869078 | None:intergenic | 35.0% |
| !! | GCTGGTTGATAATTTCTCCA+TGG | - | chr5_3:38868509-38868528 | Msa0810450:CDS | 40.0% |
| ! | CAAGACAGTTTTCTTGACCA+TGG | + | chr5_3:38868529-38868548 | None:intergenic | 40.0% |
| GGTCAAGAAAACTGTCTTGA+AGG | - | chr5_3:38868530-38868549 | Msa0810450:CDS | 40.0% | |
| AAAACCGTCTCTTCTCTTGA+AGG | - | chr5_3:38868591-38868610 | Msa0810450:CDS | 40.0% | |
| GTTACCTTCAAGAGAAGAGA+CGG | + | chr5_3:38868598-38868617 | None:intergenic | 40.0% | |
| ATAGTTCGGATAAGGAAAGC+AGG | - | chr5_3:38868852-38868871 | Msa0810450:CDS | 40.0% | |
| TAGTTCGGATAAGGAAAGCA+GGG | - | chr5_3:38868853-38868872 | Msa0810450:CDS | 40.0% | |
| CATGCTGAAGTTGTGAGTAT+AGG | - | chr5_3:38868879-38868898 | Msa0810450:intron | 40.0% | |
| ! | TTTTTCGCAGCATCCTGTTT+CGG | + | chr5_3:38868945-38868964 | None:intergenic | 40.0% |
| !!! | TCGGGCTTTTTATTTTCCAC+GGG | + | chr5_3:38868969-38868988 | None:intergenic | 40.0% |
| ! | TCCAGGCTTACTCTTTTCTT+CGG | + | chr5_3:38868988-38869007 | None:intergenic | 40.0% |
| AAAGAGTAAGCCTGGAGATA+AGG | - | chr5_3:38868992-38869011 | Msa0810450:intron | 40.0% | |
| GATATTTGGTCCAAACTCAC+TGG | + | chr5_3:38869029-38869048 | None:intergenic | 40.0% | |
| ! | GTAATAAGGCATCTGCGTAT+AGG | + | chr5_3:38869060-38869079 | None:intergenic | 40.0% |
| TGGTACTGTGGGTAGTAATA+AGG | + | chr5_3:38869074-38869093 | None:intergenic | 40.0% | |
| TTATTACTACCCACAGTACC+AGG | - | chr5_3:38869073-38869092 | Msa0810450:CDS | 40.0% | |
| TATTACTACCCACAGTACCA+GGG | - | chr5_3:38869074-38869093 | Msa0810450:CDS | 40.0% | |
| ! | CCAGGCTTACTCTTTTCTTC+GGG | + | chr5_3:38868987-38869006 | None:intergenic | 45.0% |
| TTGCTGTGGTGCACATGAAT+AGG | - | chr5_3:38869105-38869124 | Msa0810450:CDS | 45.0% | |
| TGTGGTGCACATGAATAGGT+GGG | - | chr5_3:38869109-38869128 | Msa0810450:CDS | 45.0% | |
| CCCGAAGAAAAGAGTAAGCC+TGG | - | chr5_3:38868984-38869003 | Msa0810450:intron | 50.0% | |
| CTGGGCTTATCCTTATCTCC+AGG | + | chr5_3:38869005-38869024 | None:intergenic | 50.0% | |
| TTCATGTGCACCACAGCAAC+TGG | + | chr5_3:38869104-38869123 | None:intergenic | 50.0% | |
| CTGTGGTGCACATGAATAGG+TGG | - | chr5_3:38869108-38869127 | Msa0810450:CDS | 50.0% | |
| TTCGCAGCATCCTGTTTCGG+AGG | + | chr5_3:38868942-38868961 | None:intergenic | 55.0% | |
| TAAGCCCAGCCCAGTGAGTT+TGG | - | chr5_3:38869016-38869035 | Msa0810450:intron | 55.0% | |
| TGGTCCAAACTCACTGGGCT+GGG | + | chr5_3:38869023-38869042 | None:intergenic | 55.0% | |
| TTGGTCCAAACTCACTGGGC+TGG | + | chr5_3:38869024-38869043 | None:intergenic | 55.0% | |
| !! | CATCCTGTTTCGGAGGCGCT+GGG | + | chr5_3:38868935-38868954 | None:intergenic | 60.0% |
| GGATGCTGCGAAAAAGCCCG+TGG | - | chr5_3:38868950-38868969 | Msa0810450:intron | 60.0% | |
| TGTGCACCACAGCAACTGGC+TGG | + | chr5_3:38869100-38869119 | None:intergenic | 60.0% | |
| GTGAGTATAGGGCCTCCCCC+AGG | - | chr5_3:38868891-38868910 | Msa0810450:intron | 65.0% | |
| ! | GCATCCTGTTTCGGAGGCGC+TGG | + | chr5_3:38868936-38868955 | None:intergenic | 65.0% |
| ! | CTGGCTGGCCCTGGTACTGT+GGG | + | chr5_3:38869085-38869104 | None:intergenic | 65.0% |
| ! | ACTGGCTGGCCCTGGTACTG+TGG | + | chr5_3:38869086-38869105 | None:intergenic | 65.0% |
| !! | TGTTTCGGAGGCGCTGGGCC+AGG | + | chr5_3:38868930-38868949 | None:intergenic | 70.0% |
| TGGCCCAGCGCCTCCGAAAC+AGG | - | chr5_3:38868929-38868948 | Msa0810450:intron | 70.0% | |
| ! | CCACAGCAACTGGCTGGCCC+TGG | + | chr5_3:38869094-38869113 | None:intergenic | 70.0% |
| CCAGGGCCAGCCAGTTGCTG+TGG | - | chr5_3:38869091-38869110 | Msa0810450:CDS | 70.0% | |
| AGGTGGAGGGGCAGGGCCTG+GGG | + | chr5_3:38868910-38868929 | None:intergenic | 75.0% | |
| CAGGTGGAGGGGCAGGGCCT+GGG | + | chr5_3:38868911-38868930 | None:intergenic | 75.0% | |
| CTGGGCCAGGTGGAGGGGCA+GGG | + | chr5_3:38868917-38868936 | None:intergenic | 75.0% | |
| !! | AGGCGCTGGGCCAGGTGGAG+GGG | + | chr5_3:38868922-38868941 | None:intergenic | 75.0% |
| !! | GAGGCGCTGGGCCAGGTGGA+GGG | + | chr5_3:38868923-38868942 | None:intergenic | 75.0% |
| !! | TTCGGAGGCGCTGGGCCAGG+TGG | + | chr5_3:38868927-38868946 | None:intergenic | 75.0% |
| ! | GGTGGAGGGGCAGGGCCTGG+GGG | + | chr5_3:38868909-38868928 | None:intergenic | 80.0% |
| ! | CCAGGTGGAGGGGCAGGGCC+TGG | + | chr5_3:38868912-38868931 | None:intergenic | 80.0% |
| ! | CCAGGCCCTGCCCCTCCACC+TGG | - | chr5_3:38868909-38868928 | Msa0810450:intron | 80.0% |
| ! | GCTGGGCCAGGTGGAGGGGC+AGG | + | chr5_3:38868918-38868937 | None:intergenic | 80.0% |
| !!! | GGAGGCGCTGGGCCAGGTGG+AGG | + | chr5_3:38868924-38868943 | None:intergenic | 80.0% |
| ! | GGAGGGGCAGGGCCTGGGGG+AGG | + | chr5_3:38868906-38868925 | None:intergenic | 85.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_3 | gene | 38868509 | 38869163 | 38868509 | ID=Msa0810450;Name=Msa0810450 |
| chr5_3 | mRNA | 38868509 | 38869163 | 38868509 | ID=Msa0810450-mRNA-1;Parent=Msa0810450;Name=Msa0810450-mRNA-1;_AED=0.13;_eAED=0.13;_QI=19|1|0.5|1|1|1|2|0|156 |
| chr5_3 | exon | 38868509 | 38868894 | 38868509 | ID=Msa0810450-mRNA-1:exon:11816;Parent=Msa0810450-mRNA-1 |
| chr5_3 | exon | 38869060 | 38869163 | 38869060 | ID=Msa0810450-mRNA-1:exon:11815;Parent=Msa0810450-mRNA-1 |
| chr5_3 | five_prime_UTR | 38869145 | 38869163 | 38869145 | ID=Msa0810450-mRNA-1:five_prime_utr;Parent=Msa0810450-mRNA-1 |
| chr5_3 | CDS | 38869060 | 38869144 | 38869060 | ID=Msa0810450-mRNA-1:cds;Parent=Msa0810450-mRNA-1 |
| chr5_3 | CDS | 38868509 | 38868894 | 38868509 | ID=Msa0810450-mRNA-1:cds;Parent=Msa0810450-mRNA-1 |
| Gene Sequence |
| Protein sequence |
