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.gene05578.t1 | RHN67602.1 | 57.6 | 257 | 79 | 6 | 1 | 244 | 12 | 251 | 6.80E-63 | 250.8 |
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.gene05578.t1 | A0A396IPT9 | 57.6 | 257 | 79 | 6 | 1 | 244 | 12 | 251 | 4.9e-63 | 250.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene05578 | MS.gene072320 | 0.801146 | 1.03E-48 | -1.69E-46 |
| MS.gene05578 | MS.gene08896 | 0.809432 | 1.90E-50 | -1.69E-46 |
| MS.gene05578 | MS.gene42436 | 0.814554 | 1.45E-51 | -1.69E-46 |
| MS.gene05578 | MS.gene76063 | 0.801071 | 1.07E-48 | -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.gene05578.t1 | MTR_0177s0050 | 41.322 | 121 | 57 | 3 | 5 | 123 | 201 | 309 | 1.35e-16 | 78.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 52 sgRNAs with CRISPR-Local
Find 90 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TACTTCTCCACAACAATTTA+AGG | 0.122975 | 3.2:-54039521 | MS.gene05578:CDS |
| CACACTGAATTTAAAGTCTT+TGG | 0.192763 | 3.2:+54039555 | None:intergenic |
| AACCCTCCTTTGGTCATTCT+TGG | 0.254190 | 3.2:+54039450 | None:intergenic |
| CAAACACCATTTCACAAGTA+TGG | 0.271250 | 3.2:+54039329 | None:intergenic |
| ACATGGTTCACTGCCGAAAT+TGG | 0.281452 | 3.2:+54038922 | None:intergenic |
| TGAGAAGCAAGGAAACTTAT+AGG | 0.290326 | 3.2:-54039372 | MS.gene05578:CDS |
| TGCATATGTGGAACCAATTT+CGG | 0.298281 | 3.2:-54038935 | MS.gene05578:CDS |
| CGAGAGCACAATGTATTAAA+TGG | 0.304628 | 3.2:-54039490 | MS.gene05578:CDS |
| CCATTTCACAAGTATGGTTT+TGG | 0.309172 | 3.2:+54039335 | None:intergenic |
| CGAGAAGTCAACAAATGAAT+TGG | 0.348297 | 3.2:-54039653 | MS.gene05578:CDS |
| ACATGAGATGGTACAAGGTT+AGG | 0.357277 | 3.2:+54038883 | None:intergenic |
| GCTCATGCTTGGAACTCTTA+AGG | 0.364028 | 3.2:+54039302 | None:intergenic |
| TCTATTGAACTTCCTTGTAT+TGG | 0.374726 | 3.2:+54039244 | None:intergenic |
| ACTTCTCCACAACAATTTAA+GGG | 0.386530 | 3.2:-54039520 | MS.gene05578:CDS |
| ATTGGTAGCTGTTGTGTAGT+TGG | 0.392402 | 3.2:+54039262 | None:intergenic |
| CTTATATTAGGGGAGGACTA+AGG | 0.394141 | 3.2:-54039124 | MS.gene05578:intron |
| GAGAAGCAAGGAAACTTATA+GGG | 0.399259 | 3.2:-54039371 | MS.gene05578:CDS |
| AAACAGCTTTAACCCTCCTT+TGG | 0.404711 | 3.2:+54039440 | None:intergenic |
| CTTCTACATTGAACTTATCA+TGG | 0.405015 | 3.2:+54039587 | None:intergenic |
| TCTGATATTGTGCTCATGCT+TGG | 0.412067 | 3.2:+54039291 | None:intergenic |
| ACATTGAACTTATCATGGTT+CGG | 0.417239 | 3.2:+54039592 | None:intergenic |
| TCTCCATCAACAAGCACTTC+CGG | 0.421930 | 3.2:+54039012 | None:intergenic |
| TCGACAGACACTTCTTGATT+CGG | 0.432410 | 3.2:+54038979 | None:intergenic |
| ATACAAGGAAGTTCAATAGA+TGG | 0.436733 | 3.2:-54039241 | MS.gene05578:CDS |
| AGACCAAAGGAAAATACTAT+AGG | 0.440422 | 3.2:-54038402 | None:intergenic |
| CTTTAAATTCAGTGTGGGAA+TGG | 0.446014 | 3.2:-54039548 | MS.gene05578:CDS |
| CAACCGGAAGTGCTTGTTGA+TGG | 0.450513 | 3.2:-54039015 | MS.gene05578:CDS |
| AGGATTAGAGCAACAACAAC+CGG | 0.456376 | 3.2:-54039031 | MS.gene05578:CDS |
| CATGAGATGGTACAAGGTTA+GGG | 0.471041 | 3.2:+54038884 | None:intergenic |
| CCAAAACCATACTTGTGAAA+TGG | 0.483098 | 3.2:-54039335 | MS.gene05578:CDS |
| GGTCAGTAGCTCTTGGTACA+TGG | 0.490067 | 3.2:+54038905 | None:intergenic |
| TTATATTAGGGGAGGACTAA+GGG | 0.507678 | 3.2:-54039123 | MS.gene05578:intron |
| GTCTGTCGATGGCGATATGA+TGG | 0.516906 | 3.2:-54038965 | MS.gene05578:CDS |
| ACTTCTTGATTCGGATTGAG+AGG | 0.539416 | 3.2:+54038988 | None:intergenic |
| ACAACGCCCTTAAATTGTTG+TGG | 0.554916 | 3.2:+54039514 | None:intergenic |
| TTGCCAAGAATGACCAAAGG+AGG | 0.556526 | 3.2:-54039453 | MS.gene05578:CDS |
| CAGAAGCACAATGTGTGGAA+TGG | 0.557455 | 3.2:-54039680 | None:intergenic |
| ACACAACAGCTACCAATACA+AGG | 0.563142 | 3.2:-54039256 | MS.gene05578:CDS |
| AAAGACTTTAAATTCAGTGT+GGG | 0.571518 | 3.2:-54039553 | MS.gene05578:CDS |
| GACTCACATGAGATGGTACA+AGG | 0.575168 | 3.2:+54038878 | None:intergenic |
| TGTGAGTATAGTGAGAAGCA+AGG | 0.584692 | 3.2:-54039383 | MS.gene05578:CDS |
| AGGTTAGGGTCAGTAGCTCT+TGG | 0.584981 | 3.2:+54038898 | None:intergenic |
| ACAAACAGACTCACATGAGA+TGG | 0.593283 | 3.2:+54038871 | None:intergenic |
| GTGGGTTATAAGAAGACAGA+AGG | 0.595620 | 3.2:-54039051 | MS.gene05578:CDS |
| AATCAAGAAGTGTCTGTCGA+TGG | 0.597926 | 3.2:-54038976 | MS.gene05578:CDS |
| AACAAAAGAACGTCTCAATG+TGG | 0.603822 | 3.2:-54039070 | MS.gene05578:CDS |
| TGCCAAGAATGACCAAAGGA+GGG | 0.613417 | 3.2:-54039452 | MS.gene05578:CDS |
| GTTATATTAAGATAGACCAA+AGG | 0.615774 | 3.2:-54038415 | MS.gene05578:intron |
| ACAAAAGAACGTCTCAATGT+GGG | 0.621806 | 3.2:-54039069 | MS.gene05578:CDS |
| CAAAGACTTTAAATTCAGTG+TGG | 0.622276 | 3.2:-54039554 | MS.gene05578:CDS |
| ATATTCAGAAGCACAATGTG+TGG | 0.623308 | 3.2:-54039685 | None:intergenic |
| AATTTGCCAAGAATGACCAA+AGG | 0.685310 | 3.2:-54039456 | MS.gene05578:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATTCTTAGTTACTTAATAA+TGG | - | chr3.2:54039239-54039258 | MS.gene05578:CDS | 15.0% |
| !!! | TTATGTGTTTTCTTATATTA+GGG | - | chr3.2:54038938-54038957 | MS.gene05578:CDS | 15.0% |
| !! | AAGAAAATTGGATTTAAAGA+TGG | - | chr3.2:54039320-54039339 | MS.gene05578:CDS | 20.0% |
| !! | TTGGTATAAAATGAAGTTAT+TGG | + | chr3.2:54039595-54039614 | None:intergenic | 20.0% |
| !!! | ATGAAATTTTTTCAAGCTTT+TGG | + | chr3.2:54039541-54039560 | None:intergenic | 20.0% |
| !!! | GTTATGTGTTTTCTTATATT+AGG | - | chr3.2:54038937-54038956 | MS.gene05578:CDS | 20.0% |
| !!! | TATGTGTTTTCTTATATTAG+GGG | - | chr3.2:54038939-54038958 | MS.gene05578:CDS | 20.0% |
| ! | AAAGACTTTAAATTCAGTGT+GGG | - | chr3.2:54038520-54038539 | MS.gene05578:intron | 25.0% |
| ! | AATAGATGGATCTAAAAAGA+GGG | - | chr3.2:54038846-54038865 | MS.gene05578:intron | 25.0% |
| ! | AATTGGATTTAAAGATGGTA+AGG | - | chr3.2:54039325-54039344 | MS.gene05578:CDS | 25.0% |
| ! | GAAAAAAGTGACAAGAAAAT+TGG | - | chr3.2:54039308-54039327 | MS.gene05578:CDS | 25.0% |
| ! | GTTATATTAAGATAGACCAA+AGG | - | chr3.2:54039658-54039677 | MS.gene05578:CDS | 25.0% |
| ! | TAAAAAAGCTTTGCAGTTAT+TGG | + | chr3.2:54039614-54039633 | None:intergenic | 25.0% |
| !! | AAACATTGTATCCACATTTT+TGG | + | chr3.2:54038669-54038688 | None:intergenic | 25.0% |
| !!! | ACCATCATATACTTTTTTGA+TGG | + | chr3.2:54039379-54039398 | None:intergenic | 25.0% |
| !!! | TCTTTTGTTTTTCTCTTTGT+TGG | + | chr3.2:54038992-54039011 | None:intergenic | 25.0% |
| ACATTGAACTTATCATGGTT+CGG | + | chr3.2:54038484-54038503 | None:intergenic | 30.0% | |
| ACTTCTCCACAACAATTTAA+GGG | - | chr3.2:54038553-54038572 | MS.gene05578:intron | 30.0% | |
| ATACAAGGAAGTTCAATAGA+TGG | - | chr3.2:54038832-54038851 | MS.gene05578:intron | 30.0% | |
| CAAAGACTTTAAATTCAGTG+TGG | - | chr3.2:54038519-54038538 | MS.gene05578:intron | 30.0% | |
| CAATAGATGGATCTAAAAAG+AGG | - | chr3.2:54038845-54038864 | MS.gene05578:intron | 30.0% | |
| CTTCTACATTGAACTTATCA+TGG | + | chr3.2:54038489-54038508 | None:intergenic | 30.0% | |
| TACTTCTCCACAACAATTTA+AGG | - | chr3.2:54038552-54038571 | MS.gene05578:intron | 30.0% | |
| TAGTAATAGATTGAGAACCT+TGG | - | chr3.2:54039353-54039372 | MS.gene05578:CDS | 30.0% | |
| TCATCATCGTTAATCACAAT+TGG | + | chr3.2:54039423-54039442 | None:intergenic | 30.0% | |
| TCTATTGAACTTCCTTGTAT+TGG | + | chr3.2:54038832-54038851 | None:intergenic | 30.0% | |
| TGTAAGTTCAACCAAAAATG+TGG | - | chr3.2:54038655-54038674 | MS.gene05578:intron | 30.0% | |
| ! | AAAAAAGTATATGATGGTCC+TGG | - | chr3.2:54039381-54039400 | MS.gene05578:CDS | 30.0% |
| ! | AAAAAGTATATGATGGTCCT+GGG | - | chr3.2:54039382-54039401 | MS.gene05578:CDS | 30.0% |
| ! | CACACTGAATTTAAAGTCTT+TGG | + | chr3.2:54038521-54038540 | None:intergenic | 30.0% |
| ! | GCCATCAAAAAAGTATATGA+TGG | - | chr3.2:54039375-54039394 | MS.gene05578:CDS | 30.0% |
| !!! | ATATACTTTTTTGATGGCCA+AGG | + | chr3.2:54039373-54039392 | None:intergenic | 30.0% |
| AACAAAAGAACGTCTCAATG+TGG | - | chr3.2:54039003-54039022 | MS.gene05578:CDS | 35.0% | |
| AATTCCATCCCAACTTCTTA+AGG | + | chr3.2:54039517-54039536 | None:intergenic | 35.0% | |
| AATTTGCCAAGAATGACCAA+AGG | - | chr3.2:54038617-54038636 | MS.gene05578:intron | 35.0% | |
| ACAAAAGAACGTCTCAATGT+GGG | - | chr3.2:54039004-54039023 | MS.gene05578:CDS | 35.0% | |
| ACTTTATGTAACACCTCTCT+TGG | - | chr3.2:54039262-54039281 | MS.gene05578:CDS | 35.0% | |
| ATCGTTAATCACAATTGGAC+TGG | + | chr3.2:54039418-54039437 | None:intergenic | 35.0% | |
| CAAACACCATTTCACAAGTA+TGG | + | chr3.2:54038747-54038766 | None:intergenic | 35.0% | |
| CCAAAACCATACTTGTGAAA+TGG | - | chr3.2:54038738-54038757 | MS.gene05578:intron | 35.0% | |
| CGAGAAGTCAACAAATGAAT+TGG | - | chr3.2:54038420-54038439 | MS.gene05578:intron | 35.0% | |
| CTTTAAATTCAGTGTGGGAA+TGG | - | chr3.2:54038525-54038544 | MS.gene05578:intron | 35.0% | |
| GAGAAGCAAGGAAACTTATA+GGG | - | chr3.2:54038702-54038721 | MS.gene05578:intron | 35.0% | |
| GAGTTAAATGATCCGAAAGT+TGG | - | chr3.2:54039477-54039496 | MS.gene05578:CDS | 35.0% | |
| TGAGAAGCAAGGAAACTTAT+AGG | - | chr3.2:54038701-54038720 | MS.gene05578:intron | 35.0% | |
| TGCATATGTGGAACCAATTT+CGG | - | chr3.2:54039138-54039157 | MS.gene05578:intron | 35.0% | |
| TGGATTTAAAGATGGTAAGG+AGG | - | chr3.2:54039328-54039347 | MS.gene05578:CDS | 35.0% | |
| TTATATTAGGGGAGGACTAA+GGG | - | chr3.2:54038950-54038969 | MS.gene05578:CDS | 35.0% | |
| TTTCCTACAATATCCAAGAG+AGG | + | chr3.2:54039278-54039297 | None:intergenic | 35.0% | |
| ! | CCATTTCACAAGTATGGTTT+TGG | + | chr3.2:54038741-54038760 | None:intergenic | 35.0% |
| ! | CGAGAGCACAATGTATTAAA+TGG | - | chr3.2:54038583-54038602 | MS.gene05578:intron | 35.0% |
| ! | GTGTTTTCTTATATTAGGGG+AGG | - | chr3.2:54038942-54038961 | MS.gene05578:CDS | 35.0% |
| AAAGTCCTAATCAAAGCACG+AGG | + | chr3.2:54039565-54039584 | None:intergenic | 40.0% | |
| ACAAACAGACTCACATGAGA+TGG | + | chr3.2:54039205-54039224 | None:intergenic | 40.0% | |
| ACAACGCCCTTAAATTGTTG+TGG | + | chr3.2:54038562-54038581 | None:intergenic | 40.0% | |
| ACACAACAGCTACCAATACA+AGG | - | chr3.2:54038817-54038836 | MS.gene05578:intron | 40.0% | |
| ACACCTCTCTTGGATATTGT+AGG | - | chr3.2:54039272-54039291 | MS.gene05578:CDS | 40.0% | |
| ACATGAGATGGTACAAGGTT+AGG | + | chr3.2:54039193-54039212 | None:intergenic | 40.0% | |
| AGGATTAGAGCAACAACAAC+CGG | - | chr3.2:54039042-54039061 | MS.gene05578:CDS | 40.0% | |
| CATGAGATGGTACAAGGTTA+GGG | + | chr3.2:54039192-54039211 | None:intergenic | 40.0% | |
| CATGCATGCCTTAAGAAGTT+GGG | - | chr3.2:54039506-54039525 | MS.gene05578:CDS | 40.0% | |
| CTTATATTAGGGGAGGACTA+AGG | - | chr3.2:54038949-54038968 | MS.gene05578:CDS | 40.0% | |
| GATGGCGAAAAATGCATATG+TGG | - | chr3.2:54039126-54039145 | MS.gene05578:intron | 40.0% | |
| TCATTCCTCGTGCTTTGATT+AGG | - | chr3.2:54039557-54039576 | MS.gene05578:CDS | 40.0% | |
| TCGACAGACACTTCTTGATT+CGG | + | chr3.2:54039097-54039116 | None:intergenic | 40.0% | |
| TCTGATATTGTGCTCATGCT+TGG | + | chr3.2:54038785-54038804 | None:intergenic | 40.0% | |
| TGCATGCAACTTCCAACTTT+CGG | + | chr3.2:54039492-54039511 | None:intergenic | 40.0% | |
| TGTGAGTATAGTGAGAAGCA+AGG | - | chr3.2:54038690-54038709 | MS.gene05578:intron | 40.0% | |
| ! | AAACAGCTTTAACCCTCCTT+TGG | + | chr3.2:54038636-54038655 | None:intergenic | 40.0% |
| ! | ATTGGTAGCTGTTGTGTAGT+TGG | + | chr3.2:54038814-54038833 | None:intergenic | 40.0% |
| ! | GTGGGTTATAAGAAGACAGA+AGG | - | chr3.2:54039022-54039041 | MS.gene05578:CDS | 40.0% |
| ! | TGATGATGATGCTGATGATG+AGG | - | chr3.2:54039449-54039468 | MS.gene05578:CDS | 40.0% |
| !! | AATCAAGAAGTGTCTGTCGA+TGG | - | chr3.2:54039097-54039116 | MS.gene05578:CDS | 40.0% |
| !! | ACTTCTTGATTCGGATTGAG+AGG | + | chr3.2:54039088-54039107 | None:intergenic | 40.0% |
| AACCCTCCTTTGGTCATTCT+TGG | + | chr3.2:54038626-54038645 | None:intergenic | 45.0% | |
| ACATGGTTCACTGCCGAAAT+TGG | + | chr3.2:54039154-54039173 | None:intergenic | 45.0% | |
| CATGCCTTAAGAAGTTGGGA+TGG | - | chr3.2:54039510-54039529 | MS.gene05578:CDS | 45.0% | |
| GACTCACATGAGATGGTACA+AGG | + | chr3.2:54039198-54039217 | None:intergenic | 45.0% | |
| GCATGCATGCCTTAAGAAGT+TGG | - | chr3.2:54039505-54039524 | MS.gene05578:CDS | 45.0% | |
| GCTCATGCTTGGAACTCTTA+AGG | + | chr3.2:54038774-54038793 | None:intergenic | 45.0% | |
| TCTCCATCAACAAGCACTTC+CGG | + | chr3.2:54039064-54039083 | None:intergenic | 45.0% | |
| TGCCAAGAATGACCAAAGGA+GGG | - | chr3.2:54038621-54038640 | MS.gene05578:intron | 45.0% | |
| TTGCCAAGAATGACCAAAGG+AGG | - | chr3.2:54038620-54038639 | MS.gene05578:intron | 45.0% | |
| ! | TGATGATGCTGATGATGAGG+AGG | - | chr3.2:54039452-54039471 | MS.gene05578:CDS | 45.0% |
| AGGTTAGGGTCAGTAGCTCT+TGG | + | chr3.2:54039178-54039197 | None:intergenic | 50.0% | |
| GGTCAGTAGCTCTTGGTACA+TGG | + | chr3.2:54039171-54039190 | None:intergenic | 50.0% | |
| GTCTGTCGATGGCGATATGA+TGG | - | chr3.2:54039108-54039127 | MS.gene05578:CDS | 50.0% | |
| ! | TGATGCTGATGATGAGGAGG+AGG | - | chr3.2:54039455-54039474 | MS.gene05578:CDS | 50.0% |
| !! | CAACCGGAAGTGCTTGTTGA+TGG | - | chr3.2:54039058-54039077 | MS.gene05578:CDS | 50.0% |
| !! | GGACTGGCTGCATCTCTCCC+AGG | + | chr3.2:54039402-54039421 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.2 | gene | 54038403 | 54039692 | 54038403 | ID=MS.gene05578 |
| chr3.2 | mRNA | 54038403 | 54039692 | 54038403 | ID=MS.gene05578.t1;Parent=MS.gene05578 |
| chr3.2 | exon | 54039228 | 54039692 | 54039228 | ID=MS.gene05578.t1.exon1;Parent=MS.gene05578.t1 |
| chr3.2 | CDS | 54039228 | 54039692 | 54039228 | ID=cds.MS.gene05578.t1;Parent=MS.gene05578.t1 |
| chr3.2 | exon | 54038885 | 54039136 | 54038885 | ID=MS.gene05578.t1.exon2;Parent=MS.gene05578.t1 |
| chr3.2 | CDS | 54038885 | 54039136 | 54038885 | ID=cds.MS.gene05578.t1;Parent=MS.gene05578.t1 |
| chr3.2 | exon | 54038403 | 54038426 | 54038403 | ID=MS.gene05578.t1.exon3;Parent=MS.gene05578.t1 |
| chr3.2 | CDS | 54038403 | 54038426 | 54038403 | ID=cds.MS.gene05578.t1;Parent=MS.gene05578.t1 |
| Gene Sequence |
| Protein sequence |
