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.gene97553.t1 | XP_013447780.1 | 92.1 | 252 | 20 | 0 | 1 | 252 | 17 | 268 | 2.10E-115 | 425.2 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene97553.t1 | P93332 | 90.9 | 252 | 23 | 0 | 1 | 252 | 17 | 268 | 3.5e-116 | 419.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene97553.t1 | A0A072TX72 | 92.1 | 252 | 20 | 0 | 1 | 252 | 17 | 268 | 1.5e-115 | 425.2 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene054277 | MS.gene97553 | 0.803116 | 4.06E-49 | -1.69E-46 |
| MS.gene054742 | MS.gene97553 | 0.851301 | 9.70E-61 | -1.69E-46 |
| MS.gene056590 | MS.gene97553 | 0.811728 | 6.06E-51 | -1.69E-46 |
| MS.gene056591 | MS.gene97553 | 0.811624 | 6.38E-51 | -1.69E-46 |
| MS.gene056920 | MS.gene97553 | 0.842591 | 2.36E-58 | -1.69E-46 |
| MS.gene060087 | MS.gene97553 | 0.810815 | 9.56E-51 | -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 |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 59 sgRNAs with CRISPR-Local
Find 73 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CATTTCGTTCTTGGTGTTCT+TGG | 0.169280 | 7.4:+94186330 | MS.gene97553:CDS |
| CACACATCCAAATGAGTTTA+TGG | 0.188728 | 7.4:-94186581 | None:intergenic |
| CCACTTCGTGTCCAAGTTCT+TGG | 0.244317 | 7.4:+94186857 | MS.gene97553:CDS |
| TCGATTTCTTCTTGTATATA+CGG | 0.244759 | 7.4:-94186459 | None:intergenic |
| CTCATTACCATAAACTCATT+TGG | 0.319248 | 7.4:+94186574 | MS.gene97553:CDS |
| AGGTAACGTCATTTCGTTCT+TGG | 0.323739 | 7.4:+94186321 | None:intergenic |
| CTTAACTTTCAAGTTACTTT+CGG | 0.328483 | 7.4:+94186775 | MS.gene97553:CDS |
| AATGTGTTGGGTTTCGTATT+GGG | 0.328786 | 7.4:+94187409 | MS.gene97553:CDS |
| CTTTGTTCAGCTCCATGCTT+TGG | 0.359151 | 7.4:+94186515 | MS.gene97553:CDS |
| AATACGAAACCCAACACATT+TGG | 0.368529 | 7.4:-94187406 | None:intergenic |
| AAATGTGTTGGGTTTCGTAT+TGG | 0.380441 | 7.4:+94187408 | MS.gene97553:CDS |
| CACAAACCCATCCAAGAACT+TGG | 0.408159 | 7.4:-94186868 | None:intergenic |
| ATTTAAACTCCAGAGCCAAT+AGG | 0.432197 | 7.4:-94187613 | None:intergenic |
| TTCGTGTCCAAGTTCTTGGA+TGG | 0.434485 | 7.4:+94186861 | MS.gene97553:CDS |
| ATACGAAACCCAACACATTT+GGG | 0.439248 | 7.4:-94187405 | None:intergenic |
| TGCTGCTGTATGCAATCTAT+AGG | 0.452278 | 7.4:+94187443 | MS.gene97553:CDS |
| AATAATACCCTTGCATCTCT+TGG | 0.455895 | 7.4:-94186643 | None:intergenic |
| GTTCAAAGTGAGGAACCTAT+TGG | 0.474459 | 7.4:+94187598 | MS.gene97553:CDS |
| AGTGAGGAACCTATTGGCTC+TGG | 0.490260 | 7.4:+94187604 | MS.gene97553:CDS |
| GTACATACCACAATGCTTAG+TGG | 0.491986 | 7.4:-94186920 | None:intergenic |
| GCCACAATGTGGTTTGGCTA+CGG | 0.514248 | 7.4:+94187108 | MS.gene97553:CDS |
| TTGAGTGCCACAATGTGGTT+TGG | 0.514750 | 7.4:+94187102 | MS.gene97553:CDS |
| TCGTGTCCAAGTTCTTGGAT+GGG | 0.519498 | 7.4:+94186862 | MS.gene97553:CDS |
| CTGAACAAAGCTACTAGGTA+AGG | 0.520832 | 7.4:-94186502 | None:intergenic |
| TGGAGCTGAACAAAGCTACT+AGG | 0.521833 | 7.4:-94186507 | None:intergenic |
| CTGCAAAGACACTAACACTA+AGG | 0.526938 | 7.4:-94186895 | None:intergenic |
| GTGCAGCTCCCAAATGTGTT+GGG | 0.530668 | 7.4:+94187397 | MS.gene97553:intron |
| GAACAAGGGTGATGATAATG+AGG | 0.540496 | 7.4:+94187570 | MS.gene97553:CDS |
| ATGCAATCTATAGGAATGGT+GGG | 0.547366 | 7.4:+94187452 | MS.gene97553:CDS |
| CAAATGAGTTTATGGTAATG+AGG | 0.551806 | 7.4:-94186573 | None:intergenic |
| CATAAACTCATTTGGATGTG+TGG | 0.553344 | 7.4:+94186582 | MS.gene97553:CDS |
| GTTACTTTCGGCAATGAACG+TGG | 0.564481 | 7.4:+94186787 | MS.gene97553:CDS |
| TACAAGAAGAAATCGACAGA+GGG | 0.564739 | 7.4:+94186466 | MS.gene97553:CDS |
| GACACGAAGTGGACCATGCA+CGG | 0.579340 | 7.4:-94186846 | None:intergenic |
| TGGCTACGGTCTCTTCCTCA+AGG | 0.581206 | 7.4:+94187122 | MS.gene97553:CDS |
| TGTGCAGCTCCCAAATGTGT+TGG | 0.581637 | 7.4:+94187396 | MS.gene97553:intron |
| TATTGTTATAGAGACCCAAT+CGG | 0.581864 | 7.4:+94187525 | MS.gene97553:CDS |
| GATGTACAATATGATGTAGA+TGG | 0.583280 | 7.4:-94186611 | None:intergenic |
| GTCACTAACTATGCCGTGCA+TGG | 0.586420 | 7.4:+94186833 | MS.gene97553:CDS |
| CCAAGAACTTGGACACGAAG+TGG | 0.588617 | 7.4:-94186857 | None:intergenic |
| CGGCATAGTTAGTGACTATG+AGG | 0.591246 | 7.4:-94186826 | None:intergenic |
| GACTATGAGGATCAAAGCAA+AGG | 0.596059 | 7.4:-94186813 | None:intergenic |
| CTGTATGCAATCTATAGGAA+TGG | 0.607405 | 7.4:+94187448 | MS.gene97553:CDS |
| CTATGCACCAAGAGATGCAA+GGG | 0.607841 | 7.4:+94186636 | MS.gene97553:CDS |
| TGCATAGTACAACCAAAGCA+TGG | 0.611574 | 7.4:-94186527 | None:intergenic |
| TATGCAATCTATAGGAATGG+TGG | 0.615800 | 7.4:+94187451 | MS.gene97553:CDS |
| CAGCAATGCATATGTCCTTG+AGG | 0.616655 | 7.4:-94187137 | None:intergenic |
| AGAGTGAATGACAAATTGAA+AGG | 0.622293 | 7.4:-94187075 | None:intergenic |
| TACTTTCGGCAATGAACGTG+GGG | 0.627256 | 7.4:+94186789 | MS.gene97553:CDS |
| TTACTTTCGGCAATGAACGT+GGG | 0.632501 | 7.4:+94186788 | MS.gene97553:CDS |
| TGCAAAGACACTAACACTAA+GGG | 0.634955 | 7.4:-94186894 | None:intergenic |
| TGCAATCTATAGGAATGGTG+GGG | 0.637303 | 7.4:+94187453 | MS.gene97553:CDS |
| TGCAGCACCACTAAGCATTG+TGG | 0.637500 | 7.4:+94186913 | MS.gene97553:CDS |
| TGAACAAGAAAAGAAGAACA+AGG | 0.638374 | 7.4:+94187555 | MS.gene97553:CDS |
| GAACAAGAAAAGAAGAACAA+GGG | 0.658330 | 7.4:+94187556 | MS.gene97553:CDS |
| TCTATGCACCAAGAGATGCA+AGG | 0.675820 | 7.4:+94186635 | MS.gene97553:CDS |
| TCACATTGAGTGCCACAATG+TGG | 0.691357 | 7.4:+94187097 | MS.gene97553:CDS |
| ATACAAGAAGAAATCGACAG+AGG | 0.715649 | 7.4:+94186465 | MS.gene97553:CDS |
| ACCGTAGCCAAACCACATTG+TGG | 0.726020 | 7.4:-94187109 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAAGAAAAAATAAAATTAG+TGG | + | chr7.4:94187181-94187200 | MS.gene97553:intron | 10.0% |
| !! | ATTTAAATAAATACTTACAT+TGG | - | chr7.4:94186358-94186377 | None:intergenic | 10.0% |
| !! | CATTCAATAATAAATATTTA+AGG | - | chr7.4:94186750-94186769 | None:intergenic | 10.0% |
| !! | TTATATATATTAATTGAGTA+AGG | - | chr7.4:94186957-94186976 | None:intergenic | 10.0% |
| !! | AGATATTAATGTTCAATTAT+TGG | - | chr7.4:94186698-94186717 | None:intergenic | 15.0% |
| !! | TGATTTCATCAAAAATAATT+AGG | - | chr7.4:94187306-94187325 | None:intergenic | 15.0% |
| !!! | TTTTCTTGAAATTTATATGT+AGG | + | chr7.4:94187017-94187036 | MS.gene97553:intron | 15.0% |
| !! | AAAACAATCAAATTATGACA+AGG | - | chr7.4:94187230-94187249 | None:intergenic | 20.0% |
| !! | TTAATGTTCAATTATTGGAT+TGG | - | chr7.4:94186693-94186712 | None:intergenic | 20.0% |
| !!! | AGTTTGATTTATGAACTTAA+TGG | + | chr7.4:94186985-94187004 | MS.gene97553:intron | 20.0% |
| ! | TCGATTTCTTCTTGTATATA+CGG | - | chr7.4:94186462-94186481 | None:intergenic | 25.0% |
| !! | TCTATAACAATACTTTTGAG+TGG | - | chr7.4:94187517-94187536 | None:intergenic | 25.0% |
| !!! | CTTAACTTTCAAGTTACTTT+CGG | + | chr7.4:94186775-94186794 | MS.gene97553:CDS | 25.0% |
| !!! | TTGTTCAATTTTTTCCGATT+GGG | - | chr7.4:94187542-94187561 | None:intergenic | 25.0% |
| AGAGTGAATGACAAATTGAA+AGG | - | chr7.4:94187078-94187097 | None:intergenic | 30.0% | |
| CTCATTACCATAAACTCATT+TGG | + | chr7.4:94186574-94186593 | MS.gene97553:CDS | 30.0% | |
| GAACAAGAAAAGAAGAACAA+GGG | + | chr7.4:94187556-94187575 | MS.gene97553:CDS | 30.0% | |
| GATGTACAATATGATGTAGA+TGG | - | chr7.4:94186614-94186633 | None:intergenic | 30.0% | |
| TATTGTTATAGAGACCCAAT+CGG | + | chr7.4:94187525-94187544 | MS.gene97553:CDS | 30.0% | |
| TGAACAAGAAAAGAAGAACA+AGG | + | chr7.4:94187555-94187574 | MS.gene97553:CDS | 30.0% | |
| TGGGGAAAAAACTATGAAAA+AGG | + | chr7.4:94187471-94187490 | MS.gene97553:CDS | 30.0% | |
| ! | CAAATGAGTTTATGGTAATG+AGG | - | chr7.4:94186576-94186595 | None:intergenic | 30.0% |
| !!! | CTTGTTCAATTTTTTCCGAT+TGG | - | chr7.4:94187543-94187562 | None:intergenic | 30.0% |
| AAATGTGTTGGGTTTCGTAT+TGG | + | chr7.4:94187408-94187427 | MS.gene97553:CDS | 35.0% | |
| AATAATACCCTTGCATCTCT+TGG | - | chr7.4:94186646-94186665 | None:intergenic | 35.0% | |
| AATACGAAACCCAACACATT+TGG | - | chr7.4:94187409-94187428 | None:intergenic | 35.0% | |
| AATGTGTTGGGTTTCGTATT+GGG | + | chr7.4:94187409-94187428 | MS.gene97553:CDS | 35.0% | |
| ATACAAGAAGAAATCGACAG+AGG | + | chr7.4:94186465-94186484 | MS.gene97553:CDS | 35.0% | |
| ATACGAAACCCAACACATTT+GGG | - | chr7.4:94187408-94187427 | None:intergenic | 35.0% | |
| ATGCAATCTATAGGAATGGT+GGG | + | chr7.4:94187452-94187471 | MS.gene97553:CDS | 35.0% | |
| CACACATCCAAATGAGTTTA+TGG | - | chr7.4:94186584-94186603 | None:intergenic | 35.0% | |
| CATAAACTCATTTGGATGTG+TGG | + | chr7.4:94186582-94186601 | MS.gene97553:CDS | 35.0% | |
| CTGTATGCAATCTATAGGAA+TGG | + | chr7.4:94187448-94187467 | MS.gene97553:CDS | 35.0% | |
| TACAAGAAGAAATCGACAGA+GGG | + | chr7.4:94186466-94186485 | MS.gene97553:CDS | 35.0% | |
| TATGCAATCTATAGGAATGG+TGG | + | chr7.4:94187451-94187470 | MS.gene97553:CDS | 35.0% | |
| TGAGGAAAAAGTTCAAAGTG+AGG | + | chr7.4:94187588-94187607 | MS.gene97553:CDS | 35.0% | |
| TGCAAAGACACTAACACTAA+GGG | - | chr7.4:94186897-94186916 | None:intergenic | 35.0% | |
| !! | ATACTTTTGAGTGGCTCAAT+TGG | - | chr7.4:94187508-94187527 | None:intergenic | 35.0% |
| CTGAACAAAGCTACTAGGTA+AGG | - | chr7.4:94186505-94186524 | None:intergenic | 40.0% | |
| CTGCAAAGACACTAACACTA+AGG | - | chr7.4:94186898-94186917 | None:intergenic | 40.0% | |
| GACTATGAGGATCAAAGCAA+AGG | - | chr7.4:94186816-94186835 | None:intergenic | 40.0% | |
| GTACATACCACAATGCTTAG+TGG | - | chr7.4:94186923-94186942 | None:intergenic | 40.0% | |
| GTTCAAAGTGAGGAACCTAT+TGG | + | chr7.4:94187598-94187617 | MS.gene97553:CDS | 40.0% | |
| TGCAATCTATAGGAATGGTG+GGG | + | chr7.4:94187453-94187472 | MS.gene97553:CDS | 40.0% | |
| TGCATAGTACAACCAAAGCA+TGG | - | chr7.4:94186530-94186549 | None:intergenic | 40.0% | |
| TGCTGCTGTATGCAATCTAT+AGG | + | chr7.4:94187443-94187462 | MS.gene97553:CDS | 40.0% | |
| TTACTTTCGGCAATGAACGT+GGG | + | chr7.4:94186788-94186807 | MS.gene97553:CDS | 40.0% | |
| ! | GAACAAGGGTGATGATAATG+AGG | + | chr7.4:94187570-94187589 | MS.gene97553:CDS | 40.0% |
| !! | CATTTCGTTCTTGGTGTTCT+TGG | + | chr7.4:94186330-94186349 | MS.gene97553:CDS | 40.0% |
| CACAAACCCATCCAAGAACT+TGG | - | chr7.4:94186871-94186890 | None:intergenic | 45.0% | |
| CAGCAATGCATATGTCCTTG+AGG | - | chr7.4:94187140-94187159 | None:intergenic | 45.0% | |
| CGGCATAGTTAGTGACTATG+AGG | - | chr7.4:94186829-94186848 | None:intergenic | 45.0% | |
| CTATGCACCAAGAGATGCAA+GGG | + | chr7.4:94186636-94186655 | MS.gene97553:CDS | 45.0% | |
| CTTTGTTCAGCTCCATGCTT+TGG | + | chr7.4:94186515-94186534 | MS.gene97553:CDS | 45.0% | |
| TACTTTCGGCAATGAACGTG+GGG | + | chr7.4:94186789-94186808 | MS.gene97553:CDS | 45.0% | |
| TCACATTGAGTGCCACAATG+TGG | + | chr7.4:94187097-94187116 | MS.gene97553:CDS | 45.0% | |
| TCGTGTCCAAGTTCTTGGAT+GGG | + | chr7.4:94186862-94186881 | MS.gene97553:CDS | 45.0% | |
| TCTATGCACCAAGAGATGCA+AGG | + | chr7.4:94186635-94186654 | MS.gene97553:CDS | 45.0% | |
| TGGAGCTGAACAAAGCTACT+AGG | - | chr7.4:94186510-94186529 | None:intergenic | 45.0% | |
| TTCGTGTCCAAGTTCTTGGA+TGG | + | chr7.4:94186861-94186880 | MS.gene97553:CDS | 45.0% | |
| TTGAGTGCCACAATGTGGTT+TGG | + | chr7.4:94187102-94187121 | MS.gene97553:CDS | 45.0% | |
| ! | GTTACTTTCGGCAATGAACG+TGG | + | chr7.4:94186787-94186806 | MS.gene97553:CDS | 45.0% |
| ACCGTAGCCAAACCACATTG+TGG | - | chr7.4:94187112-94187131 | None:intergenic | 50.0% | |
| CCAAGAACTTGGACACGAAG+TGG | - | chr7.4:94186860-94186879 | None:intergenic | 50.0% | |
| CCACTTCGTGTCCAAGTTCT+TGG | + | chr7.4:94186857-94186876 | MS.gene97553:CDS | 50.0% | |
| GTCACTAACTATGCCGTGCA+TGG | + | chr7.4:94186833-94186852 | MS.gene97553:CDS | 50.0% | |
| GTGCAGCTCCCAAATGTGTT+GGG | + | chr7.4:94187397-94187416 | MS.gene97553:intron | 50.0% | |
| TGTGCAGCTCCCAAATGTGT+TGG | + | chr7.4:94187396-94187415 | MS.gene97553:intron | 50.0% | |
| ! | GCCACAATGTGGTTTGGCTA+CGG | + | chr7.4:94187108-94187127 | MS.gene97553:CDS | 50.0% |
| ! | TGCAGCACCACTAAGCATTG+TGG | + | chr7.4:94186913-94186932 | MS.gene97553:CDS | 50.0% |
| !! | AGTGAGGAACCTATTGGCTC+TGG | + | chr7.4:94187604-94187623 | MS.gene97553:CDS | 50.0% |
| GACACGAAGTGGACCATGCA+CGG | - | chr7.4:94186849-94186868 | None:intergenic | 55.0% | |
| TGGCTACGGTCTCTTCCTCA+AGG | + | chr7.4:94187122-94187141 | MS.gene97553:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7.4 | gene | 94186323 | 94187633 | 94186323 | ID=MS.gene97553 |
| chr7.4 | mRNA | 94186323 | 94187633 | 94186323 | ID=MS.gene97553.t1;Parent=MS.gene97553 |
| chr7.4 | exon | 94186323 | 94186359 | 94186323 | ID=MS.gene97553.t1.exon1;Parent=MS.gene97553.t1 |
| chr7.4 | CDS | 94186323 | 94186359 | 94186323 | ID=cds.MS.gene97553.t1;Parent=MS.gene97553.t1 |
| chr7.4 | exon | 94186447 | 94186657 | 94186447 | ID=MS.gene97553.t1.exon2;Parent=MS.gene97553.t1 |
| chr7.4 | CDS | 94186447 | 94186657 | 94186447 | ID=cds.MS.gene97553.t1;Parent=MS.gene97553.t1 |
| chr7.4 | exon | 94186773 | 94186934 | 94186773 | ID=MS.gene97553.t1.exon3;Parent=MS.gene97553.t1 |
| chr7.4 | CDS | 94186773 | 94186934 | 94186773 | ID=cds.MS.gene97553.t1;Parent=MS.gene97553.t1 |
| chr7.4 | exon | 94187039 | 94187158 | 94187039 | ID=MS.gene97553.t1.exon4;Parent=MS.gene97553.t1 |
| chr7.4 | CDS | 94187039 | 94187158 | 94187039 | ID=cds.MS.gene97553.t1;Parent=MS.gene97553.t1 |
| chr7.4 | exon | 94187403 | 94187633 | 94187403 | ID=MS.gene97553.t1.exon5;Parent=MS.gene97553.t1 |
| chr7.4 | CDS | 94187403 | 94187633 | 94187403 | ID=cds.MS.gene97553.t1;Parent=MS.gene97553.t1 |
| Gene Sequence |
| Protein sequence |
