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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0797270 | RHN53861.1 | 98.276 | 116 | 2 | 0 | 1 | 116 | 1 | 116 | 5.11e-77 | 233 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0797270 | sp|O49696|ALMTC_ARATH | 56.757 | 111 | 30 | 4 | 5 | 115 | 5 | 97 | 2.95e-28 | 110 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0797270 | A0A396HMY7 | 98.276 | 116 | 2 | 0 | 1 | 116 | 1 | 116 | 2.44e-77 | 233 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0713530 | Msa0797270 | 0.816596 | 5.098404e-52 | -8.615850e-47 |
| Msa0736930 | Msa0797270 | 0.819095 | 1.390595e-52 | -8.615850e-47 |
| Msa0755590 | Msa0797270 | 0.803790 | 2.946381e-49 | -8.615850e-47 |
| Msa0797270 | Msa0797280 | 0.818995 | 1.464968e-52 | -8.615850e-47 |
| Msa0797270 | Msa0887070 | 0.803064 | 4.166632e-49 | -8.615850e-47 |
| Msa0797270 | Msa0950410 | 0.806199 | 9.235402e-50 | -8.615850e-47 |
| Msa0797270 | Msa1033670 | 0.801372 | 9.287996e-49 | -8.615850e-47 |
| Msa0797270 | Msa1195860 | 0.800080 | 1.704168e-48 | -8.615850e-47 |
| Msa0797270 | Msa1248400 | 0.813271 | 2.785710e-51 | -8.615850e-47 |
| Msa0797270 | Msa1274310 | 0.814218 | 1.723489e-51 | -8.615850e-47 |
| Msa0797270 | Msa1289340 | 0.825240 | 5.220395e-54 | -8.615850e-47 |
| Msa0797270 | Msa1343770 | 0.831759 | 1.391685e-55 | -8.615850e-47 |
| Msa0416990 | Msa0797270 | 0.806030 | 1.002649e-49 | -8.615850e-47 |
| Msa0417130 | Msa0797270 | 0.815370 | 9.571801e-52 | -8.615850e-47 |
| Msa0463960 | Msa0797270 | 0.804770 | 1.841644e-49 | -8.615850e-47 |
| Msa0256170 | Msa0797270 | 0.804826 | 1.793125e-49 | -8.615850e-47 |
| Msa0509500 | Msa0797270 | 0.808286 | 3.336622e-50 | -8.615850e-47 |
| Msa0558890 | Msa0797270 | 0.806961 | 6.377520e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0797270 | MtrunA17_Chr5g0400481 | 98.276 | 116 | 2 | 0 | 1 | 116 | 1 | 116 | 4.70e-81 | 233 |
| Msa0797270 | MtrunA17_Chr4g0054741 | 66.087 | 115 | 31 | 2 | 1 | 115 | 1 | 107 | 4.57e-46 | 155 |
| Msa0797270 | MtrunA17_Chr4g0054761 | 66.379 | 116 | 31 | 2 | 1 | 116 | 1 | 108 | 6.11e-41 | 133 |
| Msa0797270 | MtrunA17_Chr1g0212251 | 60.494 | 81 | 32 | 0 | 35 | 115 | 15 | 95 | 4.05e-28 | 106 |
| Msa0797270 | MtrunA17_Chr1g0212201 | 47.368 | 95 | 50 | 0 | 22 | 116 | 6 | 100 | 3.51e-26 | 101 |
| Msa0797270 | MtrunA17_Chr1g0212291 | 51.579 | 95 | 46 | 0 | 21 | 115 | 2 | 96 | 1.49e-20 | 85.5 |
| Msa0797270 | MtrunA17_Chr1g0188871 | 55.000 | 60 | 27 | 0 | 53 | 112 | 42 | 101 | 6.74e-19 | 80.5 |
| Msa0797270 | MtrunA17_Chr1g0188881 | 56.667 | 60 | 26 | 0 | 53 | 112 | 48 | 107 | 8.32e-19 | 80.5 |
| Msa0797270 | MtrunA17_Chr4g0025591 | 45.679 | 81 | 37 | 1 | 42 | 115 | 19 | 99 | 1.80e-17 | 76.6 |
| Msa0797270 | MtrunA17_Chr2g0321971 | 58.621 | 58 | 24 | 0 | 58 | 115 | 38 | 95 | 9.81e-17 | 74.3 |
| Msa0797270 | MtrunA17_Chr8g0390911 | 38.710 | 93 | 44 | 3 | 21 | 112 | 40 | 120 | 1.19e-15 | 67.4 |
| Msa0797270 | MtrunA17_Chr7g0259731 | 51.852 | 54 | 26 | 0 | 62 | 115 | 61 | 114 | 8.16e-15 | 68.9 |
| Msa0797270 | MtrunA17_Chr2g0321961 | 51.724 | 58 | 28 | 0 | 58 | 115 | 38 | 95 | 4.21e-14 | 67.0 |
| Msa0797270 | MtrunA17_Chr8g0390931 | 44.595 | 74 | 39 | 2 | 44 | 116 | 47 | 119 | 2.88e-13 | 64.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0797270 | AT4G17970.1 | 56.757 | 111 | 30 | 4 | 5 | 115 | 5 | 97 | 3.00e-29 | 110 |
| Msa0797270 | AT5G46610.3 | 71.875 | 64 | 18 | 0 | 53 | 116 | 37 | 100 | 1.75e-24 | 96.7 |
| Msa0797270 | AT5G46610.1 | 71.875 | 64 | 18 | 0 | 53 | 116 | 37 | 100 | 8.60e-24 | 95.1 |
| Msa0797270 | AT5G46600.1 | 68.254 | 63 | 20 | 0 | 53 | 115 | 38 | 100 | 8.80e-24 | 95.1 |
| Msa0797270 | AT5G46610.2 | 74.576 | 59 | 15 | 0 | 53 | 111 | 37 | 95 | 1.02e-22 | 92.0 |
| Msa0797270 | AT4G17585.1 | 61.039 | 77 | 25 | 2 | 41 | 116 | 27 | 99 | 1.88e-22 | 86.3 |
| Msa0797270 | AT1G08440.1 | 63.793 | 58 | 21 | 0 | 58 | 115 | 14 | 71 | 8.30e-19 | 80.9 |
| Msa0797270 | AT2G27240.2 | 60.345 | 58 | 23 | 0 | 58 | 115 | 14 | 71 | 4.27e-17 | 75.9 |
| Msa0797270 | AT2G27240.1 | 60.345 | 58 | 23 | 0 | 58 | 115 | 14 | 71 | 4.79e-17 | 75.9 |
| Msa0797270 | AT4G00910.1 | 48.333 | 60 | 31 | 0 | 53 | 112 | 54 | 113 | 1.20e-15 | 71.6 |
| Msa0797270 | AT1G08430.1 | 57.377 | 61 | 23 | 1 | 58 | 115 | 14 | 74 | 1.16e-14 | 68.9 |
| Msa0797270 | AT3G11680.2 | 36.782 | 87 | 50 | 1 | 15 | 101 | 1 | 82 | 3.93e-12 | 61.6 |
| Msa0797270 | AT3G11680.1 | 40.299 | 67 | 40 | 0 | 35 | 101 | 14 | 80 | 1.99e-11 | 59.7 |
| Msa0797270 | AT3G18440.1 | 37.500 | 64 | 40 | 0 | 53 | 116 | 75 | 138 | 3.95e-11 | 58.9 |
Find 28 sgRNAs with CRISPR-Local
Find 34 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTAGCTTCTTTGTTGTATT+TGG | 0.117643 | 5_3:+9349953 | Msa0797270:CDS |
| CCACTTCCAACATGCACTAT+AGG | 0.290880 | 5_3:-9349729 | None:intergenic |
| AGATTGGACAGAGTGCAATT+TGG | 0.311610 | 5_3:+9349994 | Msa0797270:CDS |
| AAGGAAATGGAAATGGAAAT+AGG | 0.333860 | 5_3:+9349753 | Msa0797270:CDS |
| AGCTTCTTTGTTGTATTTGG+TGG | 0.345036 | 5_3:+9349956 | Msa0797270:CDS |
| CACTTCCAACATGCACTATA+GGG | 0.362765 | 5_3:-9349728 | None:intergenic |
| GATTGGACAGAGTGCAATTT+GGG | 0.401481 | 5_3:+9349995 | Msa0797270:CDS |
| GAGCCACTTTACCATGAGAT+TGG | 0.434876 | 5_3:+9349978 | Msa0797270:CDS |
| AATGCATGGATCACCCTTCT+CGG | 0.437349 | 5_3:-9349909 | None:intergenic |
| AATGAGAGTGAGAATGAGAA+TGG | 0.466054 | 5_3:+9349780 | Msa0797270:CDS |
| GTGATCCATGCATTCAAAGT+TGG | 0.477949 | 5_3:+9349918 | Msa0797270:CDS |
| GGAGAGTTCCTAGCTTGGCT+TGG | 0.484559 | 5_3:+9349856 | Msa0797270:CDS |
| AAGTGGCAAGGAAATGGAAA+TGG | 0.487550 | 5_3:+9349746 | Msa0797270:CDS |
| GTTGTGCTTGAGTTCACTGC+TGG | 0.488607 | 5_3:+9350035 | Msa0797270:CDS |
| TGTTGGAAGTGGCAAGGAAA+TGG | 0.491625 | 5_3:+9349740 | Msa0797270:CDS |
| GCTTGGCTTGGAAGACTACA+TGG | 0.510395 | 5_3:+9349868 | Msa0797270:CDS |
| CCTATAGTGCATGTTGGAAG+TGG | 0.523504 | 5_3:+9349729 | Msa0797270:CDS |
| TGGAAGACTACATGGAATGT+TGG | 0.532227 | 5_3:+9349876 | Msa0797270:CDS |
| ACAAACCAACTTTGAATGCA+TGG | 0.533262 | 5_3:-9349923 | None:intergenic |
| GCTAAGGAGAGTTCCTAGCT+TGG | 0.543789 | 5_3:+9349851 | Msa0797270:CDS |
| TGTCCAATCTCATGGTAAAG+TGG | 0.545106 | 5_3:-9349981 | None:intergenic |
| GTAGTCTTCCAAGCCAAGCT+AGG | 0.551573 | 5_3:-9349864 | None:intergenic |
| TTGGGCTGTCATGACTGTTG+TGG | 0.564819 | 5_3:+9350013 | Msa0797270:CDS |
| TTGCACTCTGTCCAATCTCA+TGG | 0.565734 | 5_3:-9349989 | None:intergenic |
| TTGGATATGAAGATCCGAGA+AGG | 0.603501 | 5_3:+9349895 | Msa0797270:CDS |
| ATGTTCCCTATAGTGCATGT+TGG | 0.631551 | 5_3:+9349723 | Msa0797270:CDS |
| TGGATATGAAGATCCGAGAA+GGG | 0.636881 | 5_3:+9349896 | Msa0797270:CDS |
| AGTGCATGTTGGAAGTGGCA+AGG | 0.639169 | 5_3:+9349734 | Msa0797270:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | AATGAGAATGGAAAAATGAT+TGG | + | chr5_3:9349792-9349811 | Msa0797270:CDS | 25.0% |
| ! | ATGAGAATGGAAAAATGATT+GGG | + | chr5_3:9349793-9349812 | Msa0797270:CDS | 25.0% |
| !! | TTTAGCTTCTTTGTTGTATT+TGG | + | chr5_3:9349953-9349972 | Msa0797270:CDS | 25.0% |
| AAGGAAATGGAAATGGAAAT+AGG | + | chr5_3:9349753-9349772 | Msa0797270:CDS | 30.0% | |
| AATGAGAGTGAGAATGAGAA+TGG | + | chr5_3:9349780-9349799 | Msa0797270:CDS | 35.0% | |
| ATGGAAAAATGATTGGGAAG+TGG | + | chr5_3:9349799-9349818 | Msa0797270:CDS | 35.0% | |
| ! | AACAAACGTGTGCATGTTTT+TGG | + | chr5_3:9349822-9349841 | Msa0797270:CDS | 35.0% |
| ACAAACCAACTTTGAATGCA+TGG | - | chr5_3:9349926-9349945 | None:intergenic | 35.0% | |
| ! | AGCTTCTTTGTTGTATTTGG+TGG | + | chr5_3:9349956-9349975 | Msa0797270:CDS | 35.0% |
| ATGTTCCCTATAGTGCATGT+TGG | + | chr5_3:9349723-9349742 | Msa0797270:CDS | 40.0% | |
| CACTTCCAACATGCACTATA+GGG | - | chr5_3:9349731-9349750 | None:intergenic | 40.0% | |
| AAGTGGCAAGGAAATGGAAA+TGG | + | chr5_3:9349746-9349765 | Msa0797270:CDS | 40.0% | |
| !!! | ATGTTTTTGGTGAGAGGCTA+AGG | + | chr5_3:9349835-9349854 | Msa0797270:CDS | 40.0% |
| TGGAAGACTACATGGAATGT+TGG | + | chr5_3:9349876-9349895 | Msa0797270:CDS | 40.0% | |
| TTGGATATGAAGATCCGAGA+AGG | + | chr5_3:9349895-9349914 | Msa0797270:CDS | 40.0% | |
| TGGATATGAAGATCCGAGAA+GGG | + | chr5_3:9349896-9349915 | Msa0797270:CDS | 40.0% | |
| GTGATCCATGCATTCAAAGT+TGG | + | chr5_3:9349918-9349937 | Msa0797270:CDS | 40.0% | |
| TGTCCAATCTCATGGTAAAG+TGG | - | chr5_3:9349984-9350003 | None:intergenic | 40.0% | |
| AGATTGGACAGAGTGCAATT+TGG | + | chr5_3:9349994-9350013 | Msa0797270:CDS | 40.0% | |
| GATTGGACAGAGTGCAATTT+GGG | + | chr5_3:9349995-9350014 | Msa0797270:CDS | 40.0% | |
| CCACTTCCAACATGCACTAT+AGG | - | chr5_3:9349732-9349751 | None:intergenic | 45.0% | |
| CCTATAGTGCATGTTGGAAG+TGG | + | chr5_3:9349729-9349748 | Msa0797270:CDS | 45.0% | |
| TGTTGGAAGTGGCAAGGAAA+TGG | + | chr5_3:9349740-9349759 | Msa0797270:CDS | 45.0% | |
| !!! | GTGTGCATGTTTTTGGTGAG+AGG | + | chr5_3:9349829-9349848 | Msa0797270:CDS | 45.0% |
| AATGCATGGATCACCCTTCT+CGG | - | chr5_3:9349912-9349931 | None:intergenic | 45.0% | |
| ! | GAGCCACTTTACCATGAGAT+TGG | + | chr5_3:9349978-9349997 | Msa0797270:CDS | 45.0% |
| TTGCACTCTGTCCAATCTCA+TGG | - | chr5_3:9349992-9350011 | None:intergenic | 45.0% | |
| AGTGCATGTTGGAAGTGGCA+AGG | + | chr5_3:9349734-9349753 | Msa0797270:CDS | 50.0% | |
| GCTAAGGAGAGTTCCTAGCT+TGG | + | chr5_3:9349851-9349870 | Msa0797270:CDS | 50.0% | |
| GTAGTCTTCCAAGCCAAGCT+AGG | - | chr5_3:9349867-9349886 | None:intergenic | 50.0% | |
| !! | GCTTGGCTTGGAAGACTACA+TGG | + | chr5_3:9349868-9349887 | Msa0797270:CDS | 50.0% |
| TTGGGCTGTCATGACTGTTG+TGG | + | chr5_3:9350013-9350032 | Msa0797270:CDS | 50.0% | |
| GTTGTGCTTGAGTTCACTGC+TGG | + | chr5_3:9350035-9350054 | Msa0797270:CDS | 50.0% | |
| GGAGAGTTCCTAGCTTGGCT+TGG | + | chr5_3:9349856-9349875 | Msa0797270:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_3 | gene | 9349723 | 9350073 | 9349723 | ID=Msa0797270;Name=Msa0797270 |
| chr5_3 | mRNA | 9349723 | 9350073 | 9349723 | ID=Msa0797270-mRNA-1;Parent=Msa0797270;Name=Msa0797270-mRNA-1;_AED=0.11;_eAED=0.11;_QI=0|-1|0|1|-1|1|1|0|116 |
| chr5_3 | exon | 9349723 | 9350073 | 9349723 | ID=Msa0797270-mRNA-1:exon:4039;Parent=Msa0797270-mRNA-1 |
| chr5_3 | CDS | 9349723 | 9350073 | 9349723 | ID=Msa0797270-mRNA-1:cds;Parent=Msa0797270-mRNA-1 |
| Gene Sequence |
| Protein sequence |
