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.gene43829.t1 | RHN56509.1 | 83.2 | 327 | 47 | 4 | 1 | 321 | 1 | 325 | 5.90E-135 | 490.7 |
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.gene43829.t1 | A0A396HT34 | 83.2 | 327 | 47 | 4 | 1 | 321 | 1 | 325 | 4.3e-135 | 490.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050020 | MS.gene43829 | 0.83735 | 5.48E-57 | -1.69E-46 |
| MS.gene05157 | MS.gene43829 | 0.812016 | 5.24E-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene43829.t1 | MTR_5g071090 | 82.075 | 318 | 22 | 4 | 25 | 339 | 27 | 312 | 2.45e-171 | 480 |
| MS.gene43829.t1 | MTR_3g464300 | 34.694 | 392 | 166 | 12 | 26 | 336 | 27 | 409 | 3.88e-47 | 166 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 33 sgRNAs with CRISPR-Local
Find 101 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACAATGAGTGTGTAGATATT+TGG | 0.183054 | 5.2:-59871760 | MS.gene43829:CDS |
| TGGTGTAGTTGCAAGGTTAA+TGG | 0.255423 | 5.2:-59872754 | MS.gene43829:CDS |
| AAGAGTTTGTTTAAGGAAGT+TGG | 0.287665 | 5.2:-59872477 | MS.gene43829:CDS |
| GGTGTAGTTGCAAGGTTAAT+GGG | 0.347018 | 5.2:-59872753 | MS.gene43829:CDS |
| TGAAGAAGAGAGAAAAGTTA+AGG | 0.378603 | 5.2:-59871831 | MS.gene43829:CDS |
| TCAAAATCAAAGACAGAAAC+AGG | 0.397845 | 5.2:+59872363 | None:intergenic |
| GAGCATGATGTTTCTGGAAC+AGG | 0.399353 | 5.2:-59872342 | MS.gene43829:intron |
| AGTTGCAAGGTTAATGGGAT+TGG | 0.401363 | 5.2:-59872748 | MS.gene43829:CDS |
| CAAGCTAGTTGATGATGAAT+TGG | 0.402114 | 5.2:-59871726 | MS.gene43829:CDS |
| CAAAGGAAGAAGAAAAGAAA+AGG | 0.402477 | 5.2:-59872568 | MS.gene43829:CDS |
| GAAATTATAGTTCTAGTAGT+AGG | 0.402687 | 5.2:+59872789 | None:intergenic |
| GTTAATGGGATTGGATTCAA+TGG | 0.432909 | 5.2:-59872739 | MS.gene43829:CDS |
| ATTGAGAACAATTTGAATGA+AGG | 0.441642 | 5.2:-59871806 | MS.gene43829:CDS |
| CTTCTTCTGGTGTAGTTGCA+AGG | 0.448678 | 5.2:-59872761 | MS.gene43829:CDS |
| TTGTTTAAGGAAGTTGGAAA+TGG | 0.464241 | 5.2:-59872471 | MS.gene43829:CDS |
| GACACTTCTTCGTGAGCTGC+TGG | 0.465029 | 5.2:-59870606 | MS.gene43829:CDS |
| ATTATAGTTCTAGTAGTAGG+AGG | 0.474477 | 5.2:+59872792 | None:intergenic |
| TTGAAAATTCTTCTTCGACT+TGG | 0.474821 | 5.2:-59870575 | MS.gene43829:CDS |
| TTTGTGATGTTGATATGAGT+TGG | 0.497412 | 5.2:-59871925 | MS.gene43829:CDS |
| GTGAATTGCATGAAGTAAAG+AGG | 0.512937 | 5.2:-59871694 | MS.gene43829:CDS |
| TTGCAATGTGTAAGTGAACT+TGG | 0.522297 | 5.2:+59872690 | None:intergenic |
| CTAGTTGATGATGAATTGGT+TGG | 0.537429 | 5.2:-59871722 | MS.gene43829:CDS |
| CAGAATGTTGAATAAAGAGC+TGG | 0.546875 | 5.2:+59871870 | None:intergenic |
| AGTAGAAAATTCAAGTCCAA+AGG | 0.548034 | 5.2:-59872585 | MS.gene43829:CDS |
| AAAGGAAGAAGAAAAGAAAA+GGG | 0.548330 | 5.2:-59872567 | MS.gene43829:CDS |
| TTGGTGTTTAGCTTTGAAAG+TGG | 0.552499 | 5.2:-59872615 | MS.gene43829:CDS |
| TTATAGTTCTAGTAGTAGGA+GGG | 0.559285 | 5.2:+59872793 | None:intergenic |
| TCAAGCAAATGAAAAGCTTG+TGG | 0.565993 | 5.2:+59872651 | None:intergenic |
| AACATGTTGTGTTGAAGAGA+AGG | 0.571785 | 5.2:-59872418 | MS.gene43829:CDS |
| ACTTCTTCGTGAGCTGCTGG+TGG | 0.588466 | 5.2:-59870603 | MS.gene43829:CDS |
| CTAAAGTTTGATGAAGATGA+TGG | 0.588538 | 5.2:+59872942 | None:intergenic |
| AGAGAAAAGGTGAATGATGA+TGG | 0.597704 | 5.2:-59872516 | MS.gene43829:CDS |
| GTGTTTAGCTTTGAAAGTGG+AGG | 0.617135 | 5.2:-59872612 | MS.gene43829:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAAATTGAAAAAACAATTAA+AGG | + | chr5.2:59871884-59871903 | None:intergenic | 10.0% |
| !! | ACTATTTCCAAAAAATAAAA+AGG | + | chr5.2:59871262-59871281 | None:intergenic | 15.0% |
| !!! | AAATTTTTTTTTTTGAAGGA+AGG | + | chr5.2:59872528-59872547 | None:intergenic | 15.0% |
| !!! | TCAAATTTTCAATTGTAAAT+TGG | - | chr5.2:59872177-59872196 | MS.gene43829:intron | 15.0% |
| !! | AAATTTGAATGAAATAGTAC+AGG | + | chr5.2:59872165-59872184 | None:intergenic | 20.0% |
| !! | ATCCTGAAAAAAAAAAAGAA+AGG | + | chr5.2:59872910-59872929 | None:intergenic | 20.0% |
| !! | CAAATTTAATACATGGAAAA+CGG | + | chr5.2:59871396-59871415 | None:intergenic | 20.0% |
| !! | TAGTTAGCAAATTTAATACA+TGG | + | chr5.2:59871403-59871422 | None:intergenic | 20.0% |
| !! | TTGATAAGAGAAAAGAAAAT+TGG | + | chr5.2:59872070-59872089 | None:intergenic | 20.0% |
| !!! | ATCCTTTCTTTTTTTTTTTC+AGG | - | chr5.2:59872905-59872924 | MS.gene43829:CDS | 20.0% |
| !!! | ATTATTTCAACAAGCTTTTA+AGG | - | chr5.2:59871182-59871201 | MS.gene43829:intron | 20.0% |
| !!! | GATCTTACCTTTTTATTTTT+TGG | - | chr5.2:59871252-59871271 | MS.gene43829:intron | 20.0% |
| !!! | GGCTAAATTTTTTTTTTTGA+AGG | + | chr5.2:59872532-59872551 | None:intergenic | 20.0% |
| ! | AAAGGAAGAAGAAAAGAAAA+GGG | - | chr5.2:59870814-59870833 | MS.gene43829:intron | 25.0% |
| ! | AATTTAATGCATGTTTGGAT+TGG | - | chr5.2:59871110-59871129 | MS.gene43829:intron | 25.0% |
| ! | ATAAACAATTAGGTCATGTT+TGG | + | chr5.2:59871323-59871342 | None:intergenic | 25.0% |
| ! | ATAATTTCTTCTTCTTCTTC+TGG | - | chr5.2:59870607-59870626 | MS.gene43829:CDS | 25.0% |
| ! | ATTGAGAACAATTTGAATGA+AGG | - | chr5.2:59871575-59871594 | MS.gene43829:intron | 25.0% |
| ! | CACTATGTATCTAAATTCTA+AGG | + | chr5.2:59871360-59871379 | None:intergenic | 25.0% |
| ! | CCAAACATGCATTAAATTTA+AGG | + | chr5.2:59871108-59871127 | None:intergenic | 25.0% |
| ! | CCTTAAATTTAATGCATGTT+TGG | - | chr5.2:59871105-59871124 | MS.gene43829:intron | 25.0% |
| ! | CTAACTCATTTAACTAACTA+AGG | + | chr5.2:59871990-59872009 | None:intergenic | 25.0% |
| ! | TTCTCTAATCCTATGAAAAA+TGG | + | chr5.2:59870518-59870537 | None:intergenic | 25.0% |
| ! | TTGTGTTTGCATAAACAATT+AGG | + | chr5.2:59871333-59871352 | None:intergenic | 25.0% |
| !!! | GAAATTATAGTTCTAGTAGT+AGG | + | chr5.2:59870595-59870614 | None:intergenic | 25.0% |
| !!! | TTTTGAGAAGAGTTTGTTTA+AGG | - | chr5.2:59870897-59870916 | MS.gene43829:intron | 25.0% |
| AAATCCAAACACAGTTTAGA+GGG | - | chr5.2:59872654-59872673 | MS.gene43829:CDS | 30.0% | |
| AACAGTGTGATAATAATGTG+TGG | - | chr5.2:59872734-59872753 | MS.gene43829:CDS | 30.0% | |
| ACAATGAGTGTGTAGATATT+TGG | - | chr5.2:59871621-59871640 | MS.gene43829:CDS | 30.0% | |
| AGTAGAAAATTCAAGTCCAA+AGG | - | chr5.2:59870796-59870815 | MS.gene43829:intron | 30.0% | |
| AGTTGAAGCTAGAATAGTAA+GGG | - | chr5.2:59872829-59872848 | MS.gene43829:CDS | 30.0% | |
| ATACAAGTGATTACAGAGAA+AGG | + | chr5.2:59871930-59871949 | None:intergenic | 30.0% | |
| CAAAGGAAGAAGAAAAGAAA+AGG | - | chr5.2:59870813-59870832 | MS.gene43829:intron | 30.0% | |
| CATATATAAACATGTTGCAG+AGG | - | chr5.2:59871427-59871446 | MS.gene43829:intron | 30.0% | |
| CTAAAGTTTGATGAAGATGA+TGG | + | chr5.2:59870442-59870461 | None:intergenic | 30.0% | |
| CTATTGAAATGCTCATAAGT+TGG | - | chr5.2:59871153-59871172 | MS.gene43829:intron | 30.0% | |
| GAAGAAAAACAAGAGAGAAA+AGG | - | chr5.2:59870852-59870871 | MS.gene43829:intron | 30.0% | |
| GTACAGGTAGAGAAAAATAA+AGG | + | chr5.2:59872149-59872168 | None:intergenic | 30.0% | |
| TACAAGTGATTACAGAGAAA+GGG | + | chr5.2:59871929-59871948 | None:intergenic | 30.0% | |
| TCAAAATCAAAGACAGAAAC+AGG | + | chr5.2:59871021-59871040 | None:intergenic | 30.0% | |
| TGAAGAAGAGAGAAAAGTTA+AGG | - | chr5.2:59871550-59871569 | MS.gene43829:intron | 30.0% | |
| TTAAGGATAGCTTACGAAAA+CGG | - | chr5.2:59871199-59871218 | MS.gene43829:intron | 30.0% | |
| TTCAATTGTAAATTGGCACA+TGG | - | chr5.2:59872184-59872203 | MS.gene43829:intron | 30.0% | |
| TTGAAAATTCTTCTTCGACT+TGG | - | chr5.2:59872806-59872825 | MS.gene43829:CDS | 30.0% | |
| TTGTTTAAGGAAGTTGGAAA+TGG | - | chr5.2:59870910-59870929 | MS.gene43829:intron | 30.0% | |
| TTTGTGATGTTGATATGAGT+TGG | - | chr5.2:59871456-59871475 | MS.gene43829:intron | 30.0% | |
| ! | AAGAGTTTGTTTAAGGAAGT+TGG | - | chr5.2:59870904-59870923 | MS.gene43829:intron | 30.0% |
| ! | ATCTGAGACTGAATTATTAG+TGG | + | chr5.2:59872555-59872574 | None:intergenic | 30.0% |
| ! | CTTTTCTTTTCTTCTTCCTT+TGG | + | chr5.2:59870815-59870834 | None:intergenic | 30.0% |
| ! | GCTTGAAAATGAGAACTTTT+TGG | - | chr5.2:59870747-59870766 | MS.gene43829:intron | 30.0% |
| ! | TCTGAGACTGAATTATTAGT+GGG | + | chr5.2:59872554-59872573 | None:intergenic | 30.0% |
| !! | ATTATAGTTCTAGTAGTAGG+AGG | + | chr5.2:59870592-59870611 | None:intergenic | 30.0% |
| !! | GTTTCACAACCATTTTTCAT+AGG | - | chr5.2:59870506-59870525 | MS.gene43829:intron | 30.0% |
| !! | TTATAGTTCTAGTAGTAGGA+GGG | + | chr5.2:59870591-59870610 | None:intergenic | 30.0% |
| !!! | GGAAGGAAGACTAAATTTTT+TGG | + | chr5.2:59872511-59872530 | None:intergenic | 30.0% |
| AACATGTTGTGTTGAAGAGA+AGG | - | chr5.2:59870963-59870982 | MS.gene43829:intron | 35.0% | |
| AATCCAAACACAGTTTAGAG+GGG | - | chr5.2:59872655-59872674 | MS.gene43829:CDS | 35.0% | |
| AGAGAAAAGGTGAATGATGA+TGG | - | chr5.2:59870865-59870884 | MS.gene43829:intron | 35.0% | |
| CAAATCCAAACACAGTTTAG+AGG | - | chr5.2:59872653-59872672 | MS.gene43829:CDS | 35.0% | |
| CAGAATGTTGAATAAAGAGC+TGG | + | chr5.2:59871514-59871533 | None:intergenic | 35.0% | |
| CTCTAAACTGTGTTTGGATT+TGG | + | chr5.2:59872655-59872674 | None:intergenic | 35.0% | |
| CTGAGACTGAATTATTAGTG+GGG | + | chr5.2:59872553-59872572 | None:intergenic | 35.0% | |
| GAGTTGAAGCTAGAATAGTA+AGG | - | chr5.2:59872828-59872847 | MS.gene43829:CDS | 35.0% | |
| GTGAATTGCATGAAGTAAAG+AGG | - | chr5.2:59871687-59871706 | MS.gene43829:CDS | 35.0% | |
| GTTAATGGGATTGGATTCAA+TGG | - | chr5.2:59870642-59870661 | MS.gene43829:intron | 35.0% | |
| TCAAGCAAATGAAAAGCTTG+TGG | + | chr5.2:59870733-59870752 | None:intergenic | 35.0% | |
| TTAGAGGGGAAAAACTTCAT+AGG | - | chr5.2:59872669-59872688 | MS.gene43829:CDS | 35.0% | |
| TTCAGGATTATTTATCCTGC+AGG | - | chr5.2:59872922-59872941 | MS.gene43829:CDS | 35.0% | |
| TTGCAATGTGTAAGTGAACT+TGG | + | chr5.2:59870694-59870713 | None:intergenic | 35.0% | |
| ! | GATTTTGAGCATGATGTTTC+TGG | - | chr5.2:59871033-59871052 | MS.gene43829:intron | 35.0% |
| !! | CAAGCTAGTTGATGATGAAT+TGG | - | chr5.2:59871655-59871674 | MS.gene43829:CDS | 35.0% |
| !! | CTAGTTGATGATGAATTGGT+TGG | - | chr5.2:59871659-59871678 | MS.gene43829:CDS | 35.0% |
| !! | TTGGTGTTTAGCTTTGAAAG+TGG | - | chr5.2:59870766-59870785 | MS.gene43829:intron | 35.0% |
| !!! | CTTCAGTTTTTTCGACACAA+GGG | + | chr5.2:59872595-59872614 | None:intergenic | 35.0% |
| !!! | TTCAGTTTTTTCGACACAAG+GGG | + | chr5.2:59872594-59872613 | None:intergenic | 35.0% |
| AATTGGCACATGGTGCAAAT+AGG | - | chr5.2:59872194-59872213 | MS.gene43829:intron | 40.0% | |
| AGTTGCAAGGTTAATGGGAT+TGG | - | chr5.2:59870633-59870652 | MS.gene43829:intron | 40.0% | |
| GGTGTAGTTGCAAGGTTAAT+GGG | - | chr5.2:59870628-59870647 | MS.gene43829:intron | 40.0% | |
| TGGTGTAGTTGCAAGGTTAA+TGG | - | chr5.2:59870627-59870646 | MS.gene43829:intron | 40.0% | |
| TTTCCCCTCTAAACTGTGTT+TGG | + | chr5.2:59872661-59872680 | None:intergenic | 40.0% | |
| ! | GTGTGGTAGTTCTATTCAGA+TGG | - | chr5.2:59872751-59872770 | MS.gene43829:CDS | 40.0% |
| !! | GTGTTTAGCTTTGAAAGTGG+AGG | - | chr5.2:59870769-59870788 | MS.gene43829:intron | 40.0% |
| !!! | GCTTCAGTTTTTTCGACACA+AGG | + | chr5.2:59872596-59872615 | None:intergenic | 40.0% |
| AGCTCAAAAACTGTTGCTGC+AGG | - | chr5.2:59870481-59870500 | MS.gene43829:intron | 45.0% | |
| CTTCTTCTGGTGTAGTTGCA+AGG | - | chr5.2:59870620-59870639 | MS.gene43829:intron | 45.0% | |
| GAGGGGAAAAACTTCATAGG+TGG | - | chr5.2:59872672-59872691 | MS.gene43829:CDS | 45.0% | |
| GCTCAAAAACTGTTGCTGCA+GGG | - | chr5.2:59870482-59870501 | MS.gene43829:intron | 45.0% | |
| TGATCTTGAAAGCTTCCTGC+AGG | + | chr5.2:59872940-59872959 | None:intergenic | 45.0% | |
| !! | AGCTGGTCATTTTCAAGCAC+TGG | + | chr5.2:59871497-59871516 | None:intergenic | 45.0% |
| !! | GAGCATGATGTTTCTGGAAC+AGG | - | chr5.2:59871039-59871058 | MS.gene43829:intron | 45.0% |
| TGTGTGTGTGTGTGTGTGTG+TGG | - | chr5.2:59872365-59872384 | MS.gene43829:CDS | 50.0% | |
| ACTTCTTCGTGAGCTGCTGG+TGG | - | chr5.2:59872778-59872797 | MS.gene43829:CDS | 55.0% | |
| GACACTTCTTCGTGAGCTGC+TGG | - | chr5.2:59872775-59872794 | MS.gene43829:CDS | 55.0% | |
| TCTCAGATCCGCCCCTGCAA+GGG | - | chr5.2:59872567-59872586 | MS.gene43829:CDS | 60.0% | |
| ACACAAGGGGCCCCTTGCAG+GGG | + | chr5.2:59872581-59872600 | None:intergenic | 65.0% | |
| CTCAGATCCGCCCCTGCAAG+GGG | - | chr5.2:59872568-59872587 | MS.gene43829:CDS | 65.0% | |
| GACACAAGGGGCCCCTTGCA+GGG | + | chr5.2:59872582-59872601 | None:intergenic | 65.0% | |
| GTCTCAGATCCGCCCCTGCA+AGG | - | chr5.2:59872566-59872585 | MS.gene43829:CDS | 65.0% | |
| ! | TGCGTGAAAGTGTGCGCGCG+CGG | - | chr5.2:59872396-59872415 | MS.gene43829:CDS | 65.0% |
| CGACACAAGGGGCCCCTTGC+AGG | + | chr5.2:59872583-59872602 | None:intergenic | 70.0% | |
| CAAGGGGCCCCTTGCAGGGG+CGG | + | chr5.2:59872578-59872597 | None:intergenic | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.2 | gene | 59870406 | 59872997 | 59870406 | ID=MS.gene43829 |
| chr5.2 | mRNA | 59870406 | 59872997 | 59870406 | ID=MS.gene43829.t1;Parent=MS.gene43829 |
| chr5.2 | exon | 59872343 | 59872997 | 59872343 | ID=MS.gene43829.t1.exon1;Parent=MS.gene43829.t1 |
| chr5.2 | CDS | 59872343 | 59872997 | 59872343 | ID=cds.MS.gene43829.t1;Parent=MS.gene43829.t1 |
| chr5.2 | exon | 59871610 | 59871956 | 59871610 | ID=MS.gene43829.t1.exon2;Parent=MS.gene43829.t1 |
| chr5.2 | CDS | 59871610 | 59871956 | 59871610 | ID=cds.MS.gene43829.t1;Parent=MS.gene43829.t1 |
| chr5.2 | exon | 59870559 | 59870633 | 59870559 | ID=MS.gene43829.t1.exon3;Parent=MS.gene43829.t1 |
| chr5.2 | CDS | 59870559 | 59870633 | 59870559 | ID=cds.MS.gene43829.t1;Parent=MS.gene43829.t1 |
| chr5.2 | exon | 59870406 | 59870459 | 59870406 | ID=MS.gene43829.t1.exon4;Parent=MS.gene43829.t1 |
| chr5.2 | CDS | 59870406 | 59870459 | 59870406 | ID=cds.MS.gene43829.t1;Parent=MS.gene43829.t1 |
| Gene Sequence |
| Protein sequence |
