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.gene69567.t1 | RHN66880.1 | 93.8 | 113 | 7 | 0 | 1 | 113 | 132 | 244 | 5.40E-56 | 226.9 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene69567.t1 | Q9SHJ5 | 43.7 | 119 | 59 | 4 | 1 | 111 | 178 | 296 | 5.9e-19 | 95.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene69567.t1 | A0A396INJ8 | 93.8 | 113 | 7 | 0 | 1 | 113 | 132 | 244 | 3.9e-56 | 226.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene057750 | MS.gene69567 | 0.805149 | 1.53E-49 | -1.69E-46 |
| MS.gene059124 | MS.gene69567 | 0.833044 | 6.69E-56 | -1.69E-46 |
| MS.gene060998 | MS.gene69567 | 0.805693 | 1.18E-49 | -1.69E-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene69567.t1 | MTR_3g448430 | 93.694 | 111 | 7 | 0 | 1 | 111 | 116 | 226 | 1.08e-70 | 220 |
| MS.gene69567.t1 | MTR_5g091660 | 60.360 | 111 | 44 | 0 | 1 | 111 | 133 | 243 | 8.03e-42 | 145 |
| MS.gene69567.t1 | MTR_1g040500 | 41.228 | 114 | 63 | 2 | 1 | 111 | 92 | 204 | 2.03e-20 | 85.9 |
| MS.gene69567.t1 | MTR_7g067380 | 39.130 | 115 | 65 | 3 | 1 | 111 | 96 | 209 | 1.16e-17 | 77.8 |
| MS.gene69567.t1 | MTR_4g415290 | 37.931 | 116 | 66 | 4 | 1 | 111 | 93 | 207 | 4.10e-16 | 73.6 |
| MS.gene69567.t1 | MTR_8g030620 | 34.483 | 116 | 70 | 3 | 1 | 111 | 99 | 213 | 4.49e-15 | 70.5 |
| MS.gene69567.t1 | MTR_5g080360 | 31.034 | 116 | 74 | 3 | 1 | 111 | 74 | 188 | 1.80e-13 | 65.9 |
| MS.gene69567.t1 | MTR_1g086650 | 35.965 | 114 | 61 | 3 | 4 | 111 | 134 | 241 | 6.52e-12 | 61.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene69567.t1 | AT1G06520 | 43.697 | 119 | 59 | 4 | 1 | 111 | 178 | 296 | 1.19e-23 | 95.1 |
| MS.gene69567.t1 | AT3G11430 | 40.336 | 119 | 64 | 5 | 1 | 114 | 83 | 199 | 9.09e-18 | 78.2 |
| MS.gene69567.t1 | AT4G00400 | 36.207 | 116 | 68 | 3 | 1 | 111 | 94 | 208 | 5.38e-17 | 76.3 |
| MS.gene69567.t1 | AT5G06090 | 38.793 | 116 | 64 | 5 | 1 | 111 | 81 | 194 | 1.52e-16 | 74.7 |
| MS.gene69567.t1 | AT2G38110 | 33.898 | 118 | 70 | 4 | 1 | 111 | 96 | 212 | 1.95e-14 | 68.9 |
| MS.gene69567.t1 | AT1G01610 | 35.897 | 117 | 68 | 4 | 1 | 111 | 94 | 209 | 4.72e-14 | 67.8 |
| MS.gene69567.t1 | AT4G01950 | 38.961 | 77 | 43 | 2 | 5 | 77 | 116 | 192 | 9.63e-11 | 58.2 |
Find 23 sgRNAs with CRISPR-Local
Find 27 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACTTCACTGGTTTGATTTCT+AGG | 0.170723 | 3.1:-33953574 | MS.gene69567:CDS |
| AGTGCTCTCATGGATTATTT+TGG | 0.183297 | 3.1:-33953530 | MS.gene69567:CDS |
| GGATATAGAAGGCCTGATTT+AGG | 0.310254 | 3.1:-33953509 | MS.gene69567:CDS |
| AGAAGGCCTGATTTAGGAAT+TGG | 0.322699 | 3.1:-33953503 | MS.gene69567:CDS |
| CATGGAGAATCTTAACCTTA+AGG | 0.353285 | 3.1:-33953732 | MS.gene69567:CDS |
| TAGGCATGGTTTGGTTGATA+AGG | 0.411704 | 3.1:-33953555 | MS.gene69567:CDS |
| TATAGTGGAAGGGTTTCTTA+AGG | 0.415468 | 3.1:-33953651 | MS.gene69567:CDS |
| GTGCTTCCAATTCCTAAATC+AGG | 0.432690 | 3.1:+33953497 | None:intergenic |
| TTTGATTTCTAGGCATGGTT+TGG | 0.440519 | 3.1:-33953564 | MS.gene69567:CDS |
| TTTCTTAAGGAATATTTGAA+TGG | 0.451191 | 3.1:-33953638 | MS.gene69567:CDS |
| AGATTCTCCATGTAAAACTT+AGG | 0.464967 | 3.1:+33953743 | None:intergenic |
| TTGTGTGCCTAGAGTTATAG+TGG | 0.476561 | 3.1:-33953666 | MS.gene69567:CDS |
| ACAAAACCTCACAAGCCTTA+AGG | 0.479431 | 3.1:+33953717 | None:intergenic |
| ACTGTTGGATGCTACTTCAC+TGG | 0.486698 | 3.1:-33953587 | MS.gene69567:CDS |
| ACTGGTTTGATTTCTAGGCA+TGG | 0.499174 | 3.1:-33953569 | MS.gene69567:CDS |
| TGATAAGGATAGTGCTCTCA+TGG | 0.519997 | 3.1:-33953540 | MS.gene69567:CDS |
| TCTTAACCTTAAGGCTTGTG+AGG | 0.549494 | 3.1:-33953723 | MS.gene69567:CDS |
| GTGCCTAGAGTTATAGTGGA+AGG | 0.556791 | 3.1:-33953662 | MS.gene69567:CDS |
| GCTACAGAGTTACACACTGT+TGG | 0.560729 | 3.1:-33953602 | MS.gene69567:CDS |
| AGGACATGGAAATGATTGCA+AGG | 0.571708 | 3.1:-33953775 | None:intergenic |
| TGCCTAGAGTTATAGTGGAA+GGG | 0.573670 | 3.1:-33953661 | MS.gene69567:CDS |
| AACCCTTCCACTATAACTCT+AGG | 0.586206 | 3.1:+33953659 | None:intergenic |
| GGACATGGAAATGATTGCAA+GGG | 0.595734 | 3.1:-33953774 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTTGCTATATTATATTCT+TGG | - | chr3.1:33953764-33953783 | MS.gene69567:CDS | 15.0% |
| !! | TTTCTTAAGGAATATTTGAA+TGG | - | chr3.1:33953541-33953560 | MS.gene69567:CDS | 20.0% |
| !!! | TCATTTTATCTCTTATTGTA+AGG | - | chr3.1:33953720-33953739 | MS.gene69567:CDS | 20.0% |
| !! | AGTTTTACCTAAGTTTTACA+TGG | - | chr3.1:33953429-33953448 | MS.gene69567:CDS | 25.0% |
| !!! | TGGATTATTTTGGATATAGA+AGG | - | chr3.1:33953659-33953678 | MS.gene69567:CDS | 25.0% |
| AGATTCTCCATGTAAAACTT+AGG | + | chr3.1:33953439-33953458 | None:intergenic | 30.0% | |
| CATGGAGAATCTTAACCTTA+AGG | - | chr3.1:33953447-33953466 | MS.gene69567:CDS | 35.0% | |
| ! | TATAGTGGAAGGGTTTCTTA+AGG | - | chr3.1:33953528-33953547 | MS.gene69567:CDS | 35.0% |
| ! | TTTGATTTCTAGGCATGGTT+TGG | - | chr3.1:33953615-33953634 | MS.gene69567:CDS | 35.0% |
| !! | ACTTCACTGGTTTGATTTCT+AGG | - | chr3.1:33953605-33953624 | MS.gene69567:CDS | 35.0% |
| !! | AGTGCTCTCATGGATTATTT+TGG | - | chr3.1:33953649-33953668 | MS.gene69567:CDS | 35.0% |
| AACCCTTCCACTATAACTCT+AGG | + | chr3.1:33953523-33953542 | None:intergenic | 40.0% | |
| ACAAAACCTCACAAGCCTTA+AGG | + | chr3.1:33953465-33953484 | None:intergenic | 40.0% | |
| AGAAGGCCTGATTTAGGAAT+TGG | - | chr3.1:33953676-33953695 | MS.gene69567:CDS | 40.0% | |
| GGATATAGAAGGCCTGATTT+AGG | - | chr3.1:33953670-33953689 | MS.gene69567:CDS | 40.0% | |
| GTGCTTCCAATTCCTAAATC+AGG | + | chr3.1:33953685-33953704 | None:intergenic | 40.0% | |
| TCTTAACCTTAAGGCTTGTG+AGG | - | chr3.1:33953456-33953475 | MS.gene69567:CDS | 40.0% | |
| TGATAAGGATAGTGCTCTCA+TGG | - | chr3.1:33953639-33953658 | MS.gene69567:CDS | 40.0% | |
| TTGTGTGCCTAGAGTTATAG+TGG | - | chr3.1:33953513-33953532 | MS.gene69567:CDS | 40.0% | |
| ! | TGCCTAGAGTTATAGTGGAA+GGG | - | chr3.1:33953518-33953537 | MS.gene69567:CDS | 40.0% |
| !! | ACTGGTTTGATTTCTAGGCA+TGG | - | chr3.1:33953610-33953629 | MS.gene69567:CDS | 40.0% |
| !! | GTGAGGTTTTGTCTTCAGTA+GGG | - | chr3.1:33953473-33953492 | MS.gene69567:CDS | 40.0% |
| !! | TAGGCATGGTTTGGTTGATA+AGG | - | chr3.1:33953624-33953643 | MS.gene69567:CDS | 40.0% |
| !! | TGTGAGGTTTTGTCTTCAGT+AGG | - | chr3.1:33953472-33953491 | MS.gene69567:CDS | 40.0% |
| GCTACAGAGTTACACACTGT+TGG | - | chr3.1:33953577-33953596 | MS.gene69567:CDS | 45.0% | |
| ! | ACTGTTGGATGCTACTTCAC+TGG | - | chr3.1:33953592-33953611 | MS.gene69567:CDS | 45.0% |
| ! | GTGCCTAGAGTTATAGTGGA+AGG | - | chr3.1:33953517-33953536 | MS.gene69567:CDS | 45.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.1 | gene | 33953409 | 33953792 | 33953409 | ID=MS.gene69567 |
| chr3.1 | mRNA | 33953409 | 33953792 | 33953409 | ID=MS.gene69567.t1;Parent=MS.gene69567 |
| chr3.1 | exon | 33953409 | 33953792 | 33953409 | ID=MS.gene69567.t1.exon1;Parent=MS.gene69567.t1 |
| chr3.1 | CDS | 33953409 | 33953792 | 33953409 | ID=cds.MS.gene69567.t1;Parent=MS.gene69567.t1 |
| Gene Sequence |
| Protein sequence |
