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.gene42323.t1 | KEH36177.1 | 85.8 | 288 | 30 | 2 | 1 | 288 | 1 | 277 | 6.60E-110 | 407.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene42323.t1 | A0A072V2U5 | 85.8 | 288 | 30 | 2 | 1 | 288 | 1 | 277 | 4.8e-110 | 407.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene051360 | MS.gene42323 | 0.806956 | 6.39E-50 | -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.gene42323.t1 | MTR_3g112100 | 87.500 | 288 | 25 | 2 | 1 | 288 | 1 | 277 | 1.00e-173 | 481 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 62 sgRNAs with CRISPR-Local
Find 70 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTAAAATTAATTTCCTAATA+TGG | 0.169496 | 3.2:-89415815 | None:intergenic |
| TGAATCTCCTCAACTCTTTC+GGG | 0.202962 | 3.2:-89415625 | None:intergenic |
| TTGAATCTCCTCAACTCTTT+CGG | 0.229356 | 3.2:-89415626 | None:intergenic |
| CTTGGCCCTGACTCCATATT+AGG | 0.296205 | 3.2:+89415802 | MS.gene42323:CDS |
| GACTCTACGCGATCGGTAAC+AGG | 0.314731 | 3.2:-89415359 | None:intergenic |
| TGGTGGAAACGTCGTCGTTT+TGG | 0.336274 | 3.2:-89415175 | None:intergenic |
| GACAACTACTGGAGATAATA+AGG | 0.340624 | 3.2:+89415535 | MS.gene42323:CDS |
| TAAAATAACCGCAGAGGTTC+CGG | 0.353978 | 3.2:+89415271 | MS.gene42323:CDS |
| TTGGTTGGAGAGTTTATATA+TGG | 0.358818 | 3.2:-89415156 | None:intergenic |
| TTTCGGAGGAAAAGTGTTAC+AGG | 0.363849 | 3.2:+89415558 | MS.gene42323:CDS |
| GGGTCTTGTTGTTGTTTCTC+AGG | 0.369884 | 3.2:-89415305 | None:intergenic |
| TAATTTCCTAATATGGAGTC+AGG | 0.394555 | 3.2:-89415808 | None:intergenic |
| TACTGGAGATAATAAGGTTT+CGG | 0.401649 | 3.2:+89415541 | MS.gene42323:CDS |
| AGAGTCGCTGAAGAGGGATT+TGG | 0.407242 | 3.2:-89415096 | None:intergenic |
| AAAGCAAGAGAGTGGCAAAA+AGG | 0.415088 | 3.2:-89415013 | None:intergenic |
| GTAACTGCCATGACAGGTTC+AGG | 0.423281 | 3.2:-89415464 | None:intergenic |
| TGCACGACCGTGACAACTAC+TGG | 0.446775 | 3.2:+89415524 | MS.gene42323:CDS |
| TTACCGATCGCGTAGAGTCT+TGG | 0.447245 | 3.2:+89415363 | MS.gene42323:CDS |
| CAACACATGTTTGAAGAAGA+AGG | 0.449031 | 3.2:+89415646 | MS.gene42323:CDS |
| ACAAGTGGAAAATGTATTCA+AGG | 0.458274 | 3.2:-89414986 | None:intergenic |
| TGTTGAAGAATTGAGTAAAG+AGG | 0.462598 | 3.2:+89415691 | MS.gene42323:CDS |
| GTCTCAGAAAACAGAGTACT+TGG | 0.484229 | 3.2:+89415784 | MS.gene42323:CDS |
| GGAGTGTTATGAACGGAGTC+TGG | 0.486988 | 3.2:+89415592 | MS.gene42323:CDS |
| AAGAGCGTAGAGATGAGAAA+AGG | 0.490470 | 3.2:-89415072 | None:intergenic |
| ACATAAGAAGATGATGCAAT+GGG | 0.497256 | 3.2:+89415748 | MS.gene42323:CDS |
| TTCTCCAACGAAGACACTAC+AGG | 0.508824 | 3.2:-89415326 | None:intergenic |
| TCTTAAAATAACCTCTTCAT+CGG | 0.520835 | 3.2:+89415214 | MS.gene42323:CDS |
| GTGTTACAGGAGAGTTCAAT+CGG | 0.523641 | 3.2:+89415571 | MS.gene42323:CDS |
| AACATAAGAAGATGATGCAA+TGG | 0.524063 | 3.2:+89415747 | MS.gene42323:CDS |
| GTCTCAGTAACTGCCATGAC+AGG | 0.529041 | 3.2:-89415470 | None:intergenic |
| CACCAACAAACACCATGAAA+AGG | 0.532293 | 3.2:+89414943 | None:intergenic |
| CATAGAAAGAGTCGCTGAAG+AGG | 0.548724 | 3.2:-89415103 | None:intergenic |
| TCGCGTAGAGTCTTGGTTGG+AGG | 0.551551 | 3.2:+89415370 | MS.gene42323:CDS |
| AAAACATTGGTAATCGGTGT+CGG | 0.558677 | 3.2:-89415249 | None:intergenic |
| CGTGCAACACGTTGTTGTTG+TGG | 0.561323 | 3.2:-89415507 | None:intergenic |
| TTCTCAGGCAAAGACTCTAC+CGG | 0.563642 | 3.2:-89415290 | None:intergenic |
| AAGACATTGGTTGTAGACAA+TGG | 0.574027 | 3.2:-89415195 | None:intergenic |
| AGACCCTGTAGTGTCTTCGT+TGG | 0.577112 | 3.2:+89415322 | MS.gene42323:CDS |
| CGATCGCGTAGAGTCTTGGT+TGG | 0.577565 | 3.2:+89415367 | MS.gene42323:CDS |
| ATAGAAAGAGTCGCTGAAGA+GGG | 0.577864 | 3.2:-89415102 | None:intergenic |
| GGAGGAACCTGAACCTGTCA+TGG | 0.581065 | 3.2:+89415457 | MS.gene42323:CDS |
| AGAAAAGGATTTGAGAGCGA+TGG | 0.581973 | 3.2:-89415057 | None:intergenic |
| ATTATCTCCAGTAGTTGTCA+CGG | 0.591123 | 3.2:-89415531 | None:intergenic |
| CGAATAACCCGAAAGAGTTG+AGG | 0.594150 | 3.2:+89415618 | MS.gene42323:CDS |
| AGTAACTAACTCCGATGAAG+AGG | 0.607096 | 3.2:-89415225 | None:intergenic |
| ATATGGAGAGAATGATAACA+TGG | 0.610639 | 3.2:-89415139 | None:intergenic |
| AATTTCCTAATATGGAGTCA+GGG | 0.612963 | 3.2:-89415807 | None:intergenic |
| TGGAGATAATAAGGTTTCGG+AGG | 0.614568 | 3.2:+89415544 | MS.gene42323:CDS |
| CAACCAAGACTCTACGCGAT+CGG | 0.620858 | 3.2:-89415366 | None:intergenic |
| TAAAGAGGAGTTCAAGCGCA+CGG | 0.627740 | 3.2:+89415706 | MS.gene42323:CDS |
| CATGGCAGTTACTGAGACCG+CGG | 0.630430 | 3.2:+89415475 | MS.gene42323:CDS |
| TCTCCAACGAAGACACTACA+GGG | 0.639406 | 3.2:-89415325 | None:intergenic |
| TTCAATCGGAGTGTTATGAA+CGG | 0.647297 | 3.2:+89415585 | MS.gene42323:CDS |
| GTGTTATGAACGGAGTCTGG+TGG | 0.647712 | 3.2:+89415595 | MS.gene42323:CDS |
| TGAAGAAGAAGGAACCGCAG+AGG | 0.656653 | 3.2:+89415657 | MS.gene42323:CDS |
| TAAGAAGATGATGCAATGGG+AGG | 0.667634 | 3.2:+89415751 | MS.gene42323:CDS |
| TGCAATGGGAGGAACAAGCA+CGG | 0.671220 | 3.2:+89415762 | MS.gene42323:CDS |
| AAATGTATTCAAGGTTACGA+CGG | 0.671817 | 3.2:-89414977 | None:intergenic |
| TGTTGTGGTCTCAGTAACCG+CGG | 0.693857 | 3.2:-89415492 | None:intergenic |
| AGACTCTACCGGAACCTCTG+CGG | 0.703722 | 3.2:-89415279 | None:intergenic |
| ACATTGGTTGTAGACAATGG+TGG | 0.711206 | 3.2:-89415192 | None:intergenic |
| ACATAACACAAACTCCTCTG+CGG | 0.740468 | 3.2:-89415671 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TATTTTAAAACATTGGTAAT+CGG | - | chr3.2:89415258-89415277 | None:intergenic | 15.0% |
| !!! | ACAACAAAATTTTTGCAATT+CGG | + | chr3.2:89415394-89415413 | MS.gene42323:CDS | 20.0% |
| ! | TCTTAAAATAACCTCTTCAT+CGG | + | chr3.2:89415214-89415233 | MS.gene42323:CDS | 25.0% |
| !!! | AAGAGGTTATTTTAAGACAT+TGG | - | chr3.2:89415211-89415230 | None:intergenic | 25.0% |
| AAATGTATTCAAGGTTACGA+CGG | - | chr3.2:89414980-89414999 | None:intergenic | 30.0% | |
| AACATAAGAAGATGATGCAA+TGG | + | chr3.2:89415747-89415766 | MS.gene42323:CDS | 30.0% | |
| ACAAGTGGAAAATGTATTCA+AGG | - | chr3.2:89414989-89415008 | None:intergenic | 30.0% | |
| ACATAAGAAGATGATGCAAT+GGG | + | chr3.2:89415748-89415767 | MS.gene42323:CDS | 30.0% | |
| ATATGGAGAGAATGATAACA+TGG | - | chr3.2:89415142-89415161 | None:intergenic | 30.0% | |
| TACTGGAGATAATAAGGTTT+CGG | + | chr3.2:89415541-89415560 | MS.gene42323:CDS | 30.0% | |
| TGTTGAAGAATTGAGTAAAG+AGG | + | chr3.2:89415691-89415710 | MS.gene42323:CDS | 30.0% | |
| TTGGTTGGAGAGTTTATATA+TGG | - | chr3.2:89415159-89415178 | None:intergenic | 30.0% | |
| ! | AATTTTTGCAATTCGGAAGT+TGG | + | chr3.2:89415401-89415420 | MS.gene42323:CDS | 30.0% |
| !!! | ATGTTTTAAAATAACCGCAG+AGG | + | chr3.2:89415265-89415284 | MS.gene42323:CDS | 30.0% |
| !!! | CTGCGGTTATTTTAAAACAT+TGG | - | chr3.2:89415265-89415284 | None:intergenic | 30.0% |
| ATTATCTCCAGTAGTTGTCA+CGG | - | chr3.2:89415534-89415553 | None:intergenic | 35.0% | |
| CAACACATGTTTGAAGAAGA+AGG | + | chr3.2:89415646-89415665 | MS.gene42323:CDS | 35.0% | |
| GACAACTACTGGAGATAATA+AGG | + | chr3.2:89415535-89415554 | MS.gene42323:CDS | 35.0% | |
| TTGAATCTCCTCAACTCTTT+CGG | - | chr3.2:89415629-89415648 | None:intergenic | 35.0% | |
| ! | AAAACATTGGTAATCGGTGT+CGG | - | chr3.2:89415252-89415271 | None:intergenic | 35.0% |
| ! | AAGACATTGGTTGTAGACAA+TGG | - | chr3.2:89415198-89415217 | None:intergenic | 35.0% |
| ! | AGATTCGTCTCTGATTTTTG+AGG | + | chr3.2:89415424-89415443 | MS.gene42323:CDS | 35.0% |
| ! | TTCAATCGGAGTGTTATGAA+CGG | + | chr3.2:89415585-89415604 | MS.gene42323:CDS | 35.0% |
| AAAGCAAGAGAGTGGCAAAA+AGG | - | chr3.2:89415016-89415035 | None:intergenic | 40.0% | |
| ACATAACACAAACTCCTCTG+CGG | - | chr3.2:89415674-89415693 | None:intergenic | 40.0% | |
| AGAAAAGGATTTGAGAGCGA+TGG | - | chr3.2:89415060-89415079 | None:intergenic | 40.0% | |
| AGTAACTAACTCCGATGAAG+AGG | - | chr3.2:89415228-89415247 | None:intergenic | 40.0% | |
| ATAGAAAGAGTCGCTGAAGA+GGG | - | chr3.2:89415105-89415124 | None:intergenic | 40.0% | |
| GTGTTACAGGAGAGTTCAAT+CGG | + | chr3.2:89415571-89415590 | MS.gene42323:CDS | 40.0% | |
| TAAAATAACCGCAGAGGTTC+CGG | + | chr3.2:89415271-89415290 | MS.gene42323:CDS | 40.0% | |
| TAAGAAGATGATGCAATGGG+AGG | + | chr3.2:89415751-89415770 | MS.gene42323:CDS | 40.0% | |
| TGAATCTCCTCAACTCTTTC+GGG | - | chr3.2:89415628-89415647 | None:intergenic | 40.0% | |
| TGGAGATAATAAGGTTTCGG+AGG | + | chr3.2:89415544-89415563 | MS.gene42323:CDS | 40.0% | |
| TGGCAAAAAGGTTGAACAAG+TGG | - | chr3.2:89415004-89415023 | None:intergenic | 40.0% | |
| ! | AAGAGCGTAGAGATGAGAAA+AGG | - | chr3.2:89415075-89415094 | None:intergenic | 40.0% |
| ! | ACATTGGTTGTAGACAATGG+TGG | - | chr3.2:89415195-89415214 | None:intergenic | 40.0% |
| ! | GTCTCAGAAAACAGAGTACT+TGG | + | chr3.2:89415784-89415803 | MS.gene42323:CDS | 40.0% |
| !! | GATTTTTGAGGAAACTGTCG+CGG | + | chr3.2:89415436-89415455 | MS.gene42323:CDS | 40.0% |
| !! | TTTCGGAGGAAAAGTGTTAC+AGG | + | chr3.2:89415558-89415577 | MS.gene42323:CDS | 40.0% |
| !!! | TTGCCACTCTCTTGCTTTTT+TGG | + | chr3.2:89415018-89415037 | MS.gene42323:CDS | 40.0% |
| CATAGAAAGAGTCGCTGAAG+AGG | - | chr3.2:89415106-89415125 | None:intergenic | 45.0% | |
| CGAATAACCCGAAAGAGTTG+AGG | + | chr3.2:89415618-89415637 | MS.gene42323:CDS | 45.0% | |
| GTGCCAAAAAAGCAAGAGAG+TGG | - | chr3.2:89415024-89415043 | None:intergenic | 45.0% | |
| TAAAGAGGAGTTCAAGCGCA+CGG | + | chr3.2:89415706-89415725 | MS.gene42323:CDS | 45.0% | |
| TCTCCAACGAAGACACTACA+GGG | - | chr3.2:89415328-89415347 | None:intergenic | 45.0% | |
| TTCTCAGGCAAAGACTCTAC+CGG | - | chr3.2:89415293-89415312 | None:intergenic | 45.0% | |
| TTCTCCAACGAAGACACTAC+AGG | - | chr3.2:89415329-89415348 | None:intergenic | 45.0% | |
| !! | GGGTCTTGTTGTTGTTTCTC+AGG | - | chr3.2:89415308-89415327 | None:intergenic | 45.0% |
| AGACCCTGTAGTGTCTTCGT+TGG | + | chr3.2:89415322-89415341 | MS.gene42323:CDS | 50.0% | |
| AGAGTCGCTGAAGAGGGATT+TGG | - | chr3.2:89415099-89415118 | None:intergenic | 50.0% | |
| CAACCAAGACTCTACGCGAT+CGG | - | chr3.2:89415369-89415388 | None:intergenic | 50.0% | |
| GTAACTGCCATGACAGGTTC+AGG | - | chr3.2:89415467-89415486 | None:intergenic | 50.0% | |
| GTCTCAGTAACTGCCATGAC+AGG | - | chr3.2:89415473-89415492 | None:intergenic | 50.0% | |
| GTGTTATGAACGGAGTCTGG+TGG | + | chr3.2:89415595-89415614 | MS.gene42323:CDS | 50.0% | |
| TGAAGAAGAAGGAACCGCAG+AGG | + | chr3.2:89415657-89415676 | MS.gene42323:CDS | 50.0% | |
| TGCAATGGGAGGAACAAGCA+CGG | + | chr3.2:89415762-89415781 | MS.gene42323:CDS | 50.0% | |
| TGTTGTGGTCTCAGTAACCG+CGG | - | chr3.2:89415495-89415514 | None:intergenic | 50.0% | |
| TTACCGATCGCGTAGAGTCT+TGG | + | chr3.2:89415363-89415382 | MS.gene42323:CDS | 50.0% | |
| ! | CGTGCAACACGTTGTTGTTG+TGG | - | chr3.2:89415510-89415529 | None:intergenic | 50.0% |
| ! | GGAGTGTTATGAACGGAGTC+TGG | + | chr3.2:89415592-89415611 | MS.gene42323:CDS | 50.0% |
| ! | TGGTGGAAACGTCGTCGTTT+TGG | - | chr3.2:89415178-89415197 | None:intergenic | 50.0% |
| !! | GGAAACGTCGTCGTTTTGGT+TGG | - | chr3.2:89415174-89415193 | None:intergenic | 50.0% |
| !! | TTTTGAGGAAACTGTCGCGG+AGG | + | chr3.2:89415439-89415458 | MS.gene42323:CDS | 50.0% |
| AGACTCTACCGGAACCTCTG+CGG | - | chr3.2:89415282-89415301 | None:intergenic | 55.0% | |
| CATGGCAGTTACTGAGACCG+CGG | + | chr3.2:89415475-89415494 | MS.gene42323:CDS | 55.0% | |
| CGATCGCGTAGAGTCTTGGT+TGG | + | chr3.2:89415367-89415386 | MS.gene42323:CDS | 55.0% | |
| GACTCTACGCGATCGGTAAC+AGG | - | chr3.2:89415362-89415381 | None:intergenic | 55.0% | |
| GGAGGAACCTGAACCTGTCA+TGG | + | chr3.2:89415457-89415476 | MS.gene42323:CDS | 55.0% | |
| TCGCGTAGAGTCTTGGTTGG+AGG | + | chr3.2:89415370-89415389 | MS.gene42323:CDS | 55.0% | |
| TGCACGACCGTGACAACTAC+TGG | + | chr3.2:89415524-89415543 | MS.gene42323:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.2 | gene | 89414957 | 89415823 | 89414957 | ID=MS.gene42323 |
| chr3.2 | mRNA | 89414957 | 89415823 | 89414957 | ID=MS.gene42323.t1;Parent=MS.gene42323 |
| chr3.2 | exon | 89414957 | 89415823 | 89414957 | ID=MS.gene42323.t1.exon1;Parent=MS.gene42323.t1 |
| chr3.2 | CDS | 89414957 | 89415823 | 89414957 | ID=cds.MS.gene42323.t1;Parent=MS.gene42323.t1 |
| Gene Sequence |
| Protein sequence |
