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.gene80427.t1 | RHN59965.1 | 79.1 | 158 | 16 | 1 | 1 | 158 | 176 | 316 | 5.30E-61 | 243.8 |
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.gene80427.t1 | A0A396I8I4 | 79.1 | 158 | 16 | 1 | 1 | 158 | 176 | 316 | 3.9e-61 | 243.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050026 | MS.gene80427 | 0.803277 | 3.77E-49 | -1.69E-46 |
| MS.gene052447 | MS.gene80427 | 0.811202 | 7.88E-51 | -1.69E-46 |
| MS.gene05329 | MS.gene80427 | 0.804397 | 2.20E-49 | -1.69E-46 |
| MS.gene05435 | MS.gene80427 | 0.808924 | 2.44E-50 | -1.69E-46 |
| MS.gene05531 | MS.gene80427 | 0.820801 | 5.66E-53 | -1.69E-46 |
| MS.gene05925 | MS.gene80427 | 0.811192 | 7.92E-51 | -1.69E-46 |
| MS.gene059276 | MS.gene80427 | 0.802534 | 5.36E-49 | -1.69E-46 |
| MS.gene059458 | MS.gene80427 | 0.816328 | 5.85E-52 | -1.69E-46 |
| MS.gene059459 | MS.gene80427 | 0.803473 | 3.43E-49 | -1.69E-46 |
| MS.gene059921 | MS.gene80427 | 0.816418 | 5.59E-52 | -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.gene80427.t1 | MTR_0144s0030 | 60.959 | 146 | 46 | 2 | 6 | 147 | 256 | 394 | 4.97e-50 | 171 |
| MS.gene80427.t1 | MTR_6g453310 | 51.220 | 123 | 17 | 1 | 15 | 137 | 2 | 81 | 2.12e-29 | 108 |
| MS.gene80427.t1 | MTR_3g008230 | 83.019 | 53 | 9 | 0 | 20 | 72 | 165 | 217 | 5.85e-25 | 95.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 45 sgRNAs with CRISPR-Local
Find 77 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTCTTATTCTCCTCGGTTTC+AGG | 0.131386 | 6.3:-29792598 | None:intergenic |
| GAGGGAAATGTTGGAACTTC+TGG | 0.223270 | 6.3:+29792514 | MS.gene80427:CDS |
| TTGGTTGTGTTTGTTTCTTT+TGG | 0.237371 | 6.3:-29792553 | None:intergenic |
| AAGAGTTCAAGTAATGAAAA+AGG | 0.243861 | 6.3:+29792616 | MS.gene80427:CDS |
| TCAGAAGGTCGATGACCTTA+TGG | 0.273335 | 6.3:+29791681 | MS.gene80427:CDS |
| TTGTATTTCCCTGTCAGAAA+TGG | 0.318650 | 6.3:-29791610 | None:intergenic |
| ATTAATTACATGAAGAAAAT+GGG | 0.353915 | 6.3:+29791577 | None:intergenic |
| CACTTCAATCGGATTGTCCT+TGG | 0.371513 | 6.3:-29792572 | None:intergenic |
| CATCGACCTTCTGAAGGTCT+TGG | 0.389853 | 6.3:-29791672 | None:intergenic |
| AGATACCTGTCCACTCTCTA+AGG | 0.401736 | 6.3:+29791783 | MS.gene80427:CDS |
| AGCGGTCATCACTTCGTGAT+TGG | 0.407724 | 6.3:+29791632 | MS.gene80427:CDS |
| CTCAGCTATTCTTCTTTCCA+AGG | 0.421507 | 6.3:-29792494 | None:intergenic |
| TGTATTTCCCTGTCAGAAAT+GGG | 0.423421 | 6.3:-29791609 | None:intergenic |
| AGATGCATCTTAATCATTGT+AGG | 0.431448 | 6.3:+29792437 | MS.gene80427:CDS |
| CAGAAGGTCGATGACCTTAT+GGG | 0.433366 | 6.3:+29791682 | MS.gene80427:CDS |
| CTTCTATTATCTTCAGTCTC+AGG | 0.438068 | 6.3:-29792649 | None:intergenic |
| GCGGTCATCACTTCGTGATT+GGG | 0.442115 | 6.3:+29791633 | MS.gene80427:CDS |
| AGGGAAATGTTGGAACTTCT+GGG | 0.461640 | 6.3:+29792515 | MS.gene80427:CDS |
| GTTTCAGGTTGCACTTCAAT+CGG | 0.467338 | 6.3:-29792583 | None:intergenic |
| AGAATAGCTGAGGGAAATGT+TGG | 0.469982 | 6.3:+29792505 | MS.gene80427:CDS |
| CACTACAACCGCGAAAACCT+TGG | 0.475112 | 6.3:+29792477 | MS.gene80427:CDS |
| TTCGTCGGTGCTGTACAGTC+TGG | 0.493555 | 6.3:-29791734 | None:intergenic |
| TCGAGCATGGACTGACGGAC+GGG | 0.496918 | 6.3:+29791707 | MS.gene80427:CDS |
| GTCCATGCTCGAGTCCCATA+AGG | 0.513630 | 6.3:-29791696 | None:intergenic |
| GACCTTATGGGACTCGAGCA+TGG | 0.517301 | 6.3:+29791694 | MS.gene80427:CDS |
| ACTTGAACTCTTATTCTCCT+CGG | 0.523827 | 6.3:-29792605 | None:intergenic |
| AAGAGAAGCCCATTTCTGAC+AGG | 0.531384 | 6.3:+29791601 | MS.gene80427:CDS |
| CTCGAGCATGGACTGACGGA+CGG | 0.554947 | 6.3:+29791706 | MS.gene80427:CDS |
| TGAAGTGCAACCTGAAACCG+AGG | 0.557192 | 6.3:+29792588 | MS.gene80427:CDS |
| GATAATAGAAGTTTGAGTGC+CGG | 0.560056 | 6.3:+29792661 | MS.gene80427:CDS |
| TCGTGATTGGGATGTCAAGA+AGG | 0.569381 | 6.3:+29791645 | MS.gene80427:CDS |
| TAAGGTCATCGACCTTCTGA+AGG | 0.580610 | 6.3:-29791678 | None:intergenic |
| TCTCACCTTAGAGAGTGGAC+AGG | 0.598675 | 6.3:-29791788 | None:intergenic |
| CAATACAAGCGGACCTTCGT+CGG | 0.607737 | 6.3:-29791749 | None:intergenic |
| CGAGCATGGACTGACGGACG+GGG | 0.619226 | 6.3:+29791708 | MS.gene80427:CDS |
| CTTGGAAAGAAGAATAGCTG+AGG | 0.620235 | 6.3:+29792495 | MS.gene80427:CDS |
| GCATCAAAACACAATACAAG+CGG | 0.625263 | 6.3:-29791760 | None:intergenic |
| TTAATTACATGAAGAAAATG+GGG | 0.626557 | 6.3:+29791578 | None:intergenic |
| GGGACTCGAGCATGGACTGA+CGG | 0.629536 | 6.3:+29791702 | MS.gene80427:CDS |
| TTGGAAAGAAGAATAGCTGA+GGG | 0.649019 | 6.3:+29792496 | MS.gene80427:CDS |
| GGCAAACCAAGACCTTCAGA+AGG | 0.649702 | 6.3:+29791666 | MS.gene80427:CDS |
| TTCTGACAGGGAAATACAAG+CGG | 0.657286 | 6.3:+29791614 | MS.gene80427:CDS |
| AAAAGAAACAAACACAACCA+AGG | 0.660541 | 6.3:+29792555 | MS.gene80427:CDS |
| AGAGAAGCCCATTTCTGACA+GGG | 0.665195 | 6.3:+29791602 | MS.gene80427:CDS |
| AGACTGTACAGCACCGACGA+AGG | 0.685851 | 6.3:+29791736 | MS.gene80427:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATCATTAATATAGATTAAA+TGG | + | chr6.3:29791854-29791873 | MS.gene80427:intron | 10.0% |
| !! | ATAAAAACACAATATTATGT+TGG | - | chr6.3:29792369-29792388 | None:intergenic | 15.0% |
| !!! | AACATAATATTGTGTTTTTA+TGG | + | chr6.3:29792368-29792387 | MS.gene80427:intron | 15.0% |
| !! | AATCATTAGTATTGTTAAAC+CGG | + | chr6.3:29792328-29792347 | MS.gene80427:intron | 20.0% |
| !! | CTACTATTTATGCAATATTA+TGG | + | chr6.3:29791827-29791846 | MS.gene80427:intron | 20.0% |
| !! | GATTATATAACAATACTACT+GGG | - | chr6.3:29792312-29792331 | None:intergenic | 20.0% |
| !! | TATATGATCCTATCAAAATT+TGG | - | chr6.3:29792224-29792243 | None:intergenic | 20.0% |
| !! | TGATTATATAACAATACTAC+TGG | - | chr6.3:29792313-29792332 | None:intergenic | 20.0% |
| !! | TTAAGGAAATAATTTCAGAT+TGG | + | chr6.3:29792063-29792082 | MS.gene80427:intron | 20.0% |
| !!! | AAATTTTGATAGGATCATAT+AGG | + | chr6.3:29792223-29792242 | MS.gene80427:intron | 20.0% |
| !!! | CTTAATTTAACTTATACTAG+CGG | - | chr6.3:29792163-29792182 | None:intergenic | 20.0% |
| !!! | TTTTATGTATGTGTACTATT+AGG | - | chr6.3:29792404-29792423 | None:intergenic | 20.0% |
| ! | AAGAGTTCAAGTAATGAAAA+AGG | + | chr6.3:29792616-29792635 | MS.gene80427:CDS | 25.0% |
| ! | AGAGTTCAAGTAATGAAAAA+GGG | + | chr6.3:29792617-29792636 | MS.gene80427:CDS | 25.0% |
| ! | CACATACATAAAAAAATTGC+AGG | + | chr6.3:29792411-29792430 | MS.gene80427:intron | 25.0% |
| ! | TAACTAACAAGTAACAAACA+AGG | - | chr6.3:29792089-29792108 | None:intergenic | 25.0% |
| ! | TAGATTAAATGGTTTCAAGA+TGG | + | chr6.3:29791865-29791884 | MS.gene80427:intron | 25.0% |
| ! | TTGAGAGATATAAACTACTA+TGG | - | chr6.3:29791911-29791930 | None:intergenic | 25.0% |
| ! | TTGGAAATCATTAAGATATC+CGG | - | chr6.3:29792350-29792369 | None:intergenic | 25.0% |
| AAAAGAAACAAACACAACCA+AGG | + | chr6.3:29792555-29792574 | MS.gene80427:CDS | 30.0% | |
| AGATGCATCTTAATCATTGT+AGG | + | chr6.3:29792437-29792456 | MS.gene80427:CDS | 30.0% | |
| TCATGTCTTGTGTGAATTTA+AGG | - | chr6.3:29792200-29792219 | None:intergenic | 30.0% | |
| TTCAAGTAATGAAAAAGGGA+TGG | + | chr6.3:29792621-29792640 | MS.gene80427:CDS | 30.0% | |
| ! | TGTGAATTTAAGGCTCTTTA+TGG | - | chr6.3:29792190-29792209 | None:intergenic | 30.0% |
| !! | ATTTCCTTAAGTTGAAGACA+AGG | - | chr6.3:29792053-29792072 | None:intergenic | 30.0% |
| !! | GACATGAACCAAATTTTGAT+AGG | + | chr6.3:29792213-29792232 | MS.gene80427:intron | 30.0% |
| !! | TTGGTTGTGTTTGTTTCTTT+TGG | - | chr6.3:29792556-29792575 | None:intergenic | 30.0% |
| !! | TTTCCTTAAGTTGAAGACAA+GGG | - | chr6.3:29792052-29792071 | None:intergenic | 30.0% |
| ACTTGAACTCTTATTCTCCT+CGG | - | chr6.3:29792608-29792627 | None:intergenic | 35.0% | |
| ATTCCCTTGTCTTCAACTTA+AGG | + | chr6.3:29792046-29792065 | MS.gene80427:intron | 35.0% | |
| CTTCTATTATCTTCAGTCTC+AGG | - | chr6.3:29792652-29792671 | None:intergenic | 35.0% | |
| GATAATAGAAGTTTGAGTGC+CGG | + | chr6.3:29792661-29792680 | MS.gene80427:CDS | 35.0% | |
| GATTGAAACTATATGTGTGC+TGG | - | chr6.3:29792010-29792029 | None:intergenic | 35.0% | |
| GCATCAAAACACAATACAAG+CGG | - | chr6.3:29791763-29791782 | None:intergenic | 35.0% | |
| GGGAATATGAAAACTATACG+TGG | - | chr6.3:29792032-29792051 | None:intergenic | 35.0% | |
| GTTGATGCTCATTCTATAGT+AGG | - | chr6.3:29792133-29792152 | None:intergenic | 35.0% | |
| TACTGGGATAATTACAACTG+AGG | - | chr6.3:29792296-29792315 | None:intergenic | 35.0% | |
| TGTATTTCCCTGTCAGAAAT+GGG | - | chr6.3:29791612-29791631 | None:intergenic | 35.0% | |
| TTATATCTCTCAACTGCACT+TGG | + | chr6.3:29791918-29791937 | MS.gene80427:intron | 35.0% | |
| TTGGAAAGAAGAATAGCTGA+GGG | + | chr6.3:29792496-29792515 | MS.gene80427:CDS | 35.0% | |
| TTGTATTTCCCTGTCAGAAA+TGG | - | chr6.3:29791613-29791632 | None:intergenic | 35.0% | |
| TTGTCATTACATGCATGTGT+TGG | + | chr6.3:29791962-29791981 | MS.gene80427:intron | 35.0% | |
| AGAATAGCTGAGGGAAATGT+TGG | + | chr6.3:29792505-29792524 | MS.gene80427:CDS | 40.0% | |
| AGGGAAATGTTGGAACTTCT+GGG | + | chr6.3:29792515-29792534 | MS.gene80427:CDS | 40.0% | |
| CTCAGCTATTCTTCTTTCCA+AGG | - | chr6.3:29792497-29792516 | None:intergenic | 40.0% | |
| CTTGGAAAGAAGAATAGCTG+AGG | + | chr6.3:29792495-29792514 | MS.gene80427:CDS | 40.0% | |
| GCTCATTCTATAGTAGGTGA+TGG | - | chr6.3:29792127-29792146 | None:intergenic | 40.0% | |
| TTCTGACAGGGAAATACAAG+CGG | + | chr6.3:29791614-29791633 | MS.gene80427:CDS | 40.0% | |
| ! | TCTTCTTTCCAAGGTTTTCG+CGG | - | chr6.3:29792488-29792507 | None:intergenic | 40.0% |
| ! | TTTTCTCTCACCTTAGAGAG+TGG | - | chr6.3:29791796-29791815 | None:intergenic | 40.0% |
| !! | GTTTCAGGTTGCACTTCAAT+CGG | - | chr6.3:29792586-29792605 | None:intergenic | 40.0% |
| AAGAGAAGCCCATTTCTGAC+AGG | + | chr6.3:29791601-29791620 | MS.gene80427:CDS | 45.0% | |
| AGAGAAGCCCATTTCTGACA+GGG | + | chr6.3:29791602-29791621 | MS.gene80427:CDS | 45.0% | |
| AGATACCTGTCCACTCTCTA+AGG | + | chr6.3:29791783-29791802 | MS.gene80427:CDS | 45.0% | |
| CACTTCAATCGGATTGTCCT+TGG | - | chr6.3:29792575-29792594 | None:intergenic | 45.0% | |
| CAGAAGGTCGATGACCTTAT+GGG | + | chr6.3:29791682-29791701 | MS.gene80427:CDS | 45.0% | |
| CTCTTATTCTCCTCGGTTTC+AGG | - | chr6.3:29792601-29792620 | None:intergenic | 45.0% | |
| GAGGGAAATGTTGGAACTTC+TGG | + | chr6.3:29792514-29792533 | MS.gene80427:CDS | 45.0% | |
| TAAGGTCATCGACCTTCTGA+AGG | - | chr6.3:29791681-29791700 | None:intergenic | 45.0% | |
| TCAGAAGGTCGATGACCTTA+TGG | + | chr6.3:29791681-29791700 | MS.gene80427:CDS | 45.0% | |
| TCGTGATTGGGATGTCAAGA+AGG | + | chr6.3:29791645-29791664 | MS.gene80427:CDS | 45.0% | |
| AGCGGTCATCACTTCGTGAT+TGG | + | chr6.3:29791632-29791651 | MS.gene80427:CDS | 50.0% | |
| CAATACAAGCGGACCTTCGT+CGG | - | chr6.3:29791752-29791771 | None:intergenic | 50.0% | |
| CACTACAACCGCGAAAACCT+TGG | + | chr6.3:29792477-29792496 | MS.gene80427:CDS | 50.0% | |
| GCGGTCATCACTTCGTGATT+GGG | + | chr6.3:29791633-29791652 | MS.gene80427:CDS | 50.0% | |
| GGCAAACCAAGACCTTCAGA+AGG | + | chr6.3:29791666-29791685 | MS.gene80427:CDS | 50.0% | |
| TCTCACCTTAGAGAGTGGAC+AGG | - | chr6.3:29791791-29791810 | None:intergenic | 50.0% | |
| TGAAGTGCAACCTGAAACCG+AGG | + | chr6.3:29792588-29792607 | MS.gene80427:CDS | 50.0% | |
| ! | CATCGACCTTCTGAAGGTCT+TGG | - | chr6.3:29791675-29791694 | None:intergenic | 50.0% |
| GACCTTATGGGACTCGAGCA+TGG | + | chr6.3:29791694-29791713 | MS.gene80427:CDS | 55.0% | |
| GTCCATGCTCGAGTCCCATA+AGG | - | chr6.3:29791699-29791718 | None:intergenic | 55.0% | |
| !! | AGACTGTACAGCACCGACGA+AGG | + | chr6.3:29791736-29791755 | MS.gene80427:CDS | 55.0% |
| !! | TTCGTCGGTGCTGTACAGTC+TGG | - | chr6.3:29791737-29791756 | None:intergenic | 55.0% |
| ! | CTCGAGCATGGACTGACGGA+CGG | + | chr6.3:29791706-29791725 | MS.gene80427:CDS | 60.0% |
| ! | GGGACTCGAGCATGGACTGA+CGG | + | chr6.3:29791702-29791721 | MS.gene80427:CDS | 60.0% |
| ! | TCGAGCATGGACTGACGGAC+GGG | + | chr6.3:29791707-29791726 | MS.gene80427:CDS | 60.0% |
| ! | CGAGCATGGACTGACGGACG+GGG | + | chr6.3:29791708-29791727 | MS.gene80427:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6.3 | gene | 29791592 | 29792699 | 29791592 | ID=MS.gene80427 |
| chr6.3 | mRNA | 29791592 | 29792699 | 29791592 | ID=MS.gene80427.t1;Parent=MS.gene80427 |
| chr6.3 | exon | 29791592 | 29791804 | 29791592 | ID=MS.gene80427.t1.exon1;Parent=MS.gene80427.t1 |
| chr6.3 | CDS | 29791592 | 29791804 | 29791592 | ID=cds.MS.gene80427.t1;Parent=MS.gene80427.t1 |
| chr6.3 | exon | 29792433 | 29792699 | 29792433 | ID=MS.gene80427.t1.exon2;Parent=MS.gene80427.t1 |
| chr6.3 | CDS | 29792433 | 29792699 | 29792433 | ID=cds.MS.gene80427.t1;Parent=MS.gene80427.t1 |
| Gene Sequence |
| Protein sequence |
