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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0342040 | XP_003597730.1 | 98.276 | 116 | 2 | 0 | 1 | 116 | 49 | 164 | 2.01e-81 | 247 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0342040 | sp|Q9M815|PCR8_ARATH | 66.972 | 109 | 36 | 0 | 1 | 109 | 69 | 177 | 2.45e-55 | 174 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0342020 | Msa0342040 | 0.915212 | 7.696702e-85 | -8.615850e-47 |
| Msa0342040 | Msa0398770 | 0.804052 | 2.598697e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0342040 | MtrunA17_Chr2g0331531 | 98.276 | 116 | 2 | 0 | 1 | 116 | 49 | 164 | 1.85e-85 | 247 |
| Msa0342040 | MtrunA17_Chr4g0045011 | 40.870 | 115 | 68 | 0 | 1 | 115 | 80 | 194 | 7.08e-25 | 94.0 |
| Msa0342040 | MtrunA17_Chr4g0045001 | 45.745 | 94 | 51 | 0 | 1 | 94 | 67 | 160 | 2.58e-23 | 89.0 |
| Msa0342040 | MtrunA17_Chr1g0187341 | 48.454 | 97 | 49 | 1 | 1 | 97 | 28 | 123 | 1.12e-21 | 84.0 |
| Msa0342040 | MtrunA17_Chr5g0402421 | 38.144 | 97 | 60 | 0 | 1 | 97 | 71 | 167 | 1.01e-20 | 83.2 |
| Msa0342040 | MtrunA17_Chr8g0391431 | 38.144 | 97 | 60 | 0 | 1 | 97 | 68 | 164 | 1.47e-20 | 82.8 |
| Msa0342040 | MtrunA17_Chr8g0391441 | 38.739 | 111 | 68 | 0 | 1 | 111 | 50 | 160 | 1.52e-19 | 79.3 |
| Msa0342040 | MtrunA17_Chr8g0391401 | 36.066 | 122 | 66 | 4 | 1 | 114 | 25 | 142 | 3.58e-17 | 72.8 |
| Msa0342040 | MtrunA17_Chr6g0484871 | 40.000 | 90 | 53 | 1 | 6 | 95 | 39 | 127 | 7.02e-16 | 69.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0342040 | AT1G52200.1 | 66.972 | 109 | 36 | 0 | 1 | 109 | 69 | 177 | 2.49e-56 | 174 |
| Msa0342040 | AT1G52200.2 | 67.647 | 102 | 33 | 0 | 1 | 102 | 69 | 170 | 1.22e-51 | 162 |
| Msa0342040 | AT3G18470.1 | 48.454 | 97 | 50 | 0 | 1 | 97 | 21 | 117 | 8.34e-30 | 105 |
| Msa0342040 | AT1G49030.1 | 47.706 | 109 | 57 | 0 | 1 | 109 | 104 | 212 | 3.84e-28 | 103 |
| Msa0342040 | AT3G18460.1 | 43.689 | 103 | 57 | 1 | 1 | 103 | 70 | 171 | 5.89e-27 | 99.4 |
| Msa0342040 | AT1G58320.1 | 53.125 | 96 | 44 | 1 | 1 | 96 | 34 | 128 | 3.10e-26 | 96.7 |
| Msa0342040 | AT3G18450.1 | 40.741 | 108 | 61 | 2 | 1 | 108 | 68 | 172 | 4.72e-23 | 89.4 |
| Msa0342040 | AT1G14870.1 | 38.095 | 105 | 65 | 0 | 1 | 105 | 32 | 136 | 3.35e-21 | 83.6 |
| Msa0342040 | AT5G35525.1 | 36.190 | 105 | 67 | 0 | 1 | 105 | 32 | 136 | 9.23e-21 | 82.4 |
| Msa0342040 | AT1G68630.1 | 40.426 | 94 | 55 | 1 | 2 | 95 | 46 | 138 | 1.05e-20 | 82.8 |
| Msa0342040 | AT1G14870.2 | 39.362 | 94 | 57 | 0 | 1 | 94 | 32 | 125 | 3.21e-18 | 75.9 |
| Msa0342040 | AT1G14880.1 | 35.238 | 105 | 68 | 0 | 1 | 105 | 31 | 135 | 4.27e-18 | 75.5 |
| Msa0342040 | AT1G68610.1 | 38.655 | 119 | 68 | 3 | 1 | 116 | 35 | 151 | 3.40e-17 | 73.6 |
| Msa0342040 | AT2G40935.3 | 34.694 | 98 | 47 | 2 | 4 | 85 | 55 | 151 | 5.89e-12 | 60.1 |
| Msa0342040 | AT2G40935.2 | 34.694 | 98 | 47 | 2 | 4 | 85 | 42 | 138 | 5.98e-12 | 60.1 |
| Msa0342040 | AT2G40935.7 | 34.694 | 98 | 47 | 2 | 4 | 85 | 42 | 138 | 5.98e-12 | 60.1 |
| Msa0342040 | AT2G40935.4 | 34.694 | 98 | 47 | 2 | 4 | 85 | 42 | 138 | 5.98e-12 | 60.1 |
| Msa0342040 | AT2G40935.8 | 34.694 | 98 | 47 | 2 | 4 | 85 | 66 | 162 | 7.11e-12 | 60.1 |
| Msa0342040 | AT2G40935.9 | 34.694 | 98 | 47 | 2 | 4 | 85 | 66 | 162 | 7.11e-12 | 60.1 |
| Msa0342040 | AT2G40935.1 | 34.694 | 98 | 47 | 2 | 4 | 85 | 66 | 162 | 7.11e-12 | 60.1 |
| Msa0342040 | AT2G40935.6 | 34.694 | 98 | 47 | 2 | 4 | 85 | 66 | 162 | 7.11e-12 | 60.1 |
| Msa0342040 | AT2G40935.5 | 34.694 | 98 | 47 | 2 | 4 | 85 | 66 | 162 | 7.11e-12 | 60.1 |
Find 26 sgRNAs with CRISPR-Local
Find 38 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GATCACTACAGCATTCTTGC+AGG | 0.359170 | 2_4:-63943316 | Msa0342030:intron |
| GTTAAGGAAGAAGTATGATT+TGG | 0.371388 | 2_4:+63943027 | Msa0342040:CDS |
| TTCAGAGAGCTCAAAATTAG+AGG | 0.383494 | 2_4:+63943115 | Msa0342040:CDS |
| TTTGTGCACACAATGGATTA+TGG | 0.383643 | 2_4:+63942985 | Msa0342040:CDS |
| TTGTGCACACAATGGATTAT+GGG | 0.412784 | 2_4:+63942986 | Msa0342040:CDS |
| ATAATGTAAGGTTGCCATCT+TGG | 0.416334 | 2_4:+63942932 | Msa0342040:intron |
| CAGGGTGGATTGTTCAATGT+TGG | 0.433746 | 2_4:-63943297 | Msa0342030:intron |
| AGAGGACTTGACCCTGCTCT+TGG | 0.473756 | 2_4:+63943133 | Msa0342040:CDS |
| CAAAGTATAGAACAAAGTTA+AGG | 0.474519 | 2_4:+63943011 | Msa0342040:CDS |
| TGGACAGATAGCAGAAGTAT+TGG | 0.475164 | 2_4:+63942815 | Msa0342040:CDS |
| GTGAATTAAATACCAAGAGC+AGG | 0.481342 | 2_4:-63943145 | Msa0342030:intron |
| AAGGAAGAAGTATGATTTGG+TGG | 0.502714 | 2_4:+63943030 | Msa0342040:CDS |
| ATCCATTGTGTGCACAAAGC+AGG | 0.505668 | 2_4:-63942980 | Msa0342030:intron |
| CTCTCTGAACTCTTGACATA+GGG | 0.516209 | 2_4:-63943101 | Msa0342030:intron |
| ACAAAGCAGGCATCATTAGC+AGG | 0.519823 | 2_4:-63942967 | Msa0342030:intron |
| GCTCTCTGAACTCTTGACAT+AGG | 0.530518 | 2_4:-63943102 | Msa0342030:intron |
| GGTAAATGAAGCTTCCAAGA+TGG | 0.581380 | 2_4:-63942946 | Msa0342030:intron |
| CAGATAGCAGAAGTATTGGA+TGG | 0.622869 | 2_4:+63942819 | Msa0342040:CDS |
| ATCACTACAGCATTCTTGCA+GGG | 0.623086 | 2_4:-63943315 | Msa0342030:intron |
| TGAATTAAATACCAAGAGCA+GGG | 0.629149 | 2_4:-63943144 | Msa0342030:intron |
| ATCTGTCCAAATGTTACACA+AGG | 0.643300 | 2_4:-63942801 | Msa0342030:intron |
| TGCCTGCTTTGTGCACACAA+TGG | 0.656127 | 2_4:+63942978 | Msa0342040:CDS |
| TGAGAAATCACATCTGAATG+TGG | 0.657682 | 2_4:-63943058 | Msa0342030:intron |
| ATAGCAGAAGTATTGGATGG+TGG | 0.672429 | 2_4:+63942822 | Msa0342040:CDS |
| ACTACAGCATTCTTGCAGGG+TGG | 0.681939 | 2_4:-63943312 | Msa0342030:intron |
| TCTTGACATAGGGAACAACA+AGG | 0.757057 | 2_4:-63943091 | Msa0342030:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTTTATTTAATCAAATACA+TGG | - | chr2_4:63942883-63942902 | Msa0342030:intron | 10.0% |
| !! | TTGTTAATTGTAATAATGTA+AGG | + | chr2_4:63942920-63942939 | Msa0342040:intron | 15.0% |
| !! | TTTATTCATCAAATATAAAG+TGG | - | chr2_4:63943173-63943192 | Msa0342030:intron | 15.0% |
| ! | AATCAAATACATGGTGATTT+GGG | - | chr2_4:63942874-63942893 | Msa0342030:intron | 25.0% |
| ! | TAATCAAATACATGGTGATT+TGG | - | chr2_4:63942875-63942894 | Msa0342030:intron | 25.0% |
| ! | CAAAGTATAGAACAAAGTTA+AGG | + | chr2_4:63943011-63943030 | Msa0342040:CDS | 25.0% |
| ! | ATTCATCAAATATAAAGTGG+AGG | - | chr2_4:63943170-63943189 | Msa0342030:intron | 25.0% |
| !!! | TATAACAAATTTTTGAGTGC+AGG | + | chr2_4:63943228-63943247 | Msa0342040:intron | 25.0% |
| !!! | ATAACAAATTTTTGAGTGCA+GGG | + | chr2_4:63943229-63943248 | Msa0342040:intron | 25.0% |
| ! | TTTTTGCCTTGTGTAACATT+TGG | + | chr2_4:63942795-63942814 | Msa0342040:CDS | 30.0% |
| ! | GTTAAGGAAGAAGTATGATT+TGG | + | chr2_4:63943027-63943046 | Msa0342040:CDS | 30.0% |
| TGAATTAAATACCAAGAGCA+GGG | - | chr2_4:63943147-63943166 | Msa0342030:intron | 30.0% | |
| ATCTGTCCAAATGTTACACA+AGG | - | chr2_4:63942804-63942823 | Msa0342030:intron | 35.0% | |
| ATAATGTAAGGTTGCCATCT+TGG | + | chr2_4:63942932-63942951 | Msa0342040:intron | 35.0% | |
| !! | TTTGTGCACACAATGGATTA+TGG | + | chr2_4:63942985-63943004 | Msa0342040:CDS | 35.0% |
| !! | TTGTGCACACAATGGATTAT+GGG | + | chr2_4:63942986-63943005 | Msa0342040:CDS | 35.0% |
| ! | AAGGAAGAAGTATGATTTGG+TGG | + | chr2_4:63943030-63943049 | Msa0342040:CDS | 35.0% |
| TGAGAAATCACATCTGAATG+TGG | - | chr2_4:63943061-63943080 | Msa0342030:intron | 35.0% | |
| TTCAGAGAGCTCAAAATTAG+AGG | + | chr2_4:63943115-63943134 | Msa0342040:CDS | 35.0% | |
| GTGAATTAAATACCAAGAGC+AGG | - | chr2_4:63943148-63943167 | Msa0342030:intron | 35.0% | |
| ! | TGGACAGATAGCAGAAGTAT+TGG | + | chr2_4:63942815-63942834 | Msa0342040:CDS | 40.0% |
| !! | CAGATAGCAGAAGTATTGGA+TGG | + | chr2_4:63942819-63942838 | Msa0342040:CDS | 40.0% |
| !! | ATAGCAGAAGTATTGGATGG+TGG | + | chr2_4:63942822-63942841 | Msa0342040:CDS | 40.0% |
| GGTAAATGAAGCTTCCAAGA+TGG | - | chr2_4:63942949-63942968 | Msa0342030:intron | 40.0% | |
| TCTTGACATAGGGAACAACA+AGG | - | chr2_4:63943094-63943113 | Msa0342030:intron | 40.0% | |
| CTCTCTGAACTCTTGACATA+GGG | - | chr2_4:63943104-63943123 | Msa0342030:intron | 40.0% | |
| !!! | ACAAATTTTTGAGTGCAGGG+TGG | + | chr2_4:63943232-63943251 | Msa0342040:intron | 40.0% |
| ATCACTACAGCATTCTTGCA+GGG | - | chr2_4:63943318-63943337 | Msa0342030:intron | 40.0% | |
| ! | TGGTGATTTGGGAGTTAGAG+AGG | - | chr2_4:63942863-63942882 | Msa0342030:intron | 45.0% |
| ACAAAGCAGGCATCATTAGC+AGG | - | chr2_4:63942970-63942989 | Msa0342030:intron | 45.0% | |
| ATCCATTGTGTGCACAAAGC+AGG | - | chr2_4:63942983-63943002 | Msa0342030:intron | 45.0% | |
| GCTCTCTGAACTCTTGACAT+AGG | - | chr2_4:63943105-63943124 | Msa0342030:intron | 45.0% | |
| !!! | TTTTTGAGTGCAGGGTGGAA+TGG | + | chr2_4:63943237-63943256 | Msa0342040:intron | 45.0% |
| !! | CAGGGTGGATTGTTCAATGT+TGG | - | chr2_4:63943300-63943319 | Msa0342030:intron | 45.0% |
| GATCACTACAGCATTCTTGC+AGG | - | chr2_4:63943319-63943338 | Msa0342030:intron | 45.0% | |
| TGCCTGCTTTGTGCACACAA+TGG | + | chr2_4:63942978-63942997 | Msa0342040:CDS | 50.0% | |
| ACTACAGCATTCTTGCAGGG+TGG | - | chr2_4:63943315-63943334 | Msa0342030:intron | 50.0% | |
| AGAGGACTTGACCCTGCTCT+TGG | + | chr2_4:63943133-63943152 | Msa0342040:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_4 | gene | 63942786 | 63943377 | 63942786 | ID=Msa0342040;Name=Msa0342040 |
| chr2_4 | mRNA | 63942786 | 63943377 | 63942786 | ID=Msa0342040-mRNA-1;Parent=Msa0342040;Name=Msa0342040-mRNA-1;_AED=0.41;_eAED=0.41;_QI=0|0|0|1|1|1|3|0|135 |
| chr2_4 | exon | 63942786 | 63942852 | 63942786 | ID=Msa0342040-mRNA-1:exon:20521;Parent=Msa0342040-mRNA-1 |
| chr2_4 | exon | 63942942 | 63943154 | 63942942 | ID=Msa0342040-mRNA-1:exon:20522;Parent=Msa0342040-mRNA-1 |
| chr2_4 | exon | 63943250 | 63943377 | 63943250 | ID=Msa0342040-mRNA-1:exon:20523;Parent=Msa0342040-mRNA-1 |
| chr2_4 | CDS | 63942786 | 63942852 | 63942786 | ID=Msa0342040-mRNA-1:cds;Parent=Msa0342040-mRNA-1 |
| chr2_4 | CDS | 63942942 | 63943154 | 63942942 | ID=Msa0342040-mRNA-1:cds;Parent=Msa0342040-mRNA-1 |
| chr2_4 | CDS | 63943250 | 63943377 | 63943250 | ID=Msa0342040-mRNA-1:cds;Parent=Msa0342040-mRNA-1 |
| Gene Sequence |
| Protein sequence |
