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.gene60235.t1 | XP_013454678.1 | 99.3 | 147 | 1 | 0 | 1 | 147 | 1 | 147 | 2.90E-85 | 324.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene60235.t1 | O13801 | 32.9 | 152 | 76 | 6 | 3 | 146 | 343 | 476 | 2.0e-10 | 67.0 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene60235.t1 | A0A072UG31 | 99.3 | 147 | 1 | 0 | 1 | 147 | 1 | 147 | 2.1e-85 | 324.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049418 | MS.gene60235 | 0.826311 | 2.91E-54 | -1.69E-46 |
| MS.gene050310 | MS.gene60235 | 0.808729 | 2.68E-50 | -1.69E-46 |
| MS.gene050630 | MS.gene60235 | 0.803825 | 2.90E-49 | -1.69E-46 |
| MS.gene051478 | MS.gene60235 | 0.858038 | 1.08E-62 | -1.69E-46 |
| MS.gene05157 | MS.gene60235 | 0.803848 | 2.87E-49 | -1.69E-46 |
| MS.gene053144 | MS.gene60235 | 0.815367 | 9.59E-52 | -1.69E-46 |
| MS.gene053538 | MS.gene60235 | 0.800923 | 1.15E-48 | -1.69E-46 |
| MS.gene054584 | MS.gene60235 | 0.818582 | 1.82E-52 | -1.69E-46 |
| MS.gene054791 | MS.gene60235 | 0.809284 | 2.04E-50 | -1.69E-46 |
| MS.gene055537 | MS.gene60235 | 0.825681 | 4.11E-54 | -1.69E-46 |
| MS.gene055890 | MS.gene60235 | 0.807578 | 4.72E-50 | -1.69E-46 |
| MS.gene056228 | MS.gene60235 | 0.826096 | 3.27E-54 | -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.gene60235.t1 | MTR_4g011190 | 99.320 | 147 | 1 | 0 | 1 | 147 | 1 | 147 | 1.12e-104 | 295 |
| MS.gene60235.t1 | MTR_3g107610 | 60.248 | 161 | 49 | 5 | 1 | 146 | 1 | 161 | 1.91e-56 | 174 |
| MS.gene60235.t1 | MTR_3g107610 | 54.601 | 163 | 57 | 7 | 1 | 147 | 1 | 162 | 1.07e-43 | 142 |
| MS.gene60235.t1 | MTR_4g113840 | 47.552 | 143 | 60 | 3 | 5 | 145 | 6 | 135 | 4.66e-41 | 134 |
| MS.gene60235.t1 | MTR_2g054750 | 44.286 | 140 | 55 | 2 | 5 | 144 | 6 | 122 | 1.08e-35 | 120 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene60235.t1 | AT3G15680 | 62.893 | 159 | 43 | 5 | 1 | 145 | 1 | 157 | 4.92e-59 | 181 |
| MS.gene60235.t1 | AT3G15680 | 62.893 | 159 | 43 | 5 | 1 | 145 | 1 | 157 | 4.92e-59 | 181 |
| MS.gene60235.t1 | AT5G25490 | 53.374 | 163 | 58 | 4 | 1 | 145 | 1 | 163 | 7.72e-48 | 152 |
| MS.gene60235.t1 | AT5G25490 | 53.374 | 163 | 58 | 4 | 1 | 145 | 1 | 163 | 7.72e-48 | 152 |
| MS.gene60235.t1 | AT2G26695 | 47.518 | 141 | 62 | 3 | 5 | 145 | 6 | 134 | 7.04e-41 | 134 |
| MS.gene60235.t1 | AT2G26695 | 47.518 | 141 | 62 | 3 | 5 | 145 | 6 | 134 | 7.04e-41 | 134 |
| MS.gene60235.t1 | AT2G17975 | 26.147 | 218 | 85 | 7 | 1 | 147 | 46 | 258 | 1.09e-12 | 63.9 |
| MS.gene60235.t1 | AT2G17975 | 29.448 | 163 | 74 | 5 | 3 | 141 | 5 | 150 | 1.99e-12 | 63.2 |
Find 35 sgRNAs with CRISPR-Local
Find 72 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAGATGTTCGTTTAGGTGAT+TGG | 0.350670 | 4.3:+85690457 | MS.gene60235:CDS |
| GTTGATTATGGATCAGTGTT+TGG | 0.365192 | 4.3:+85690396 | MS.gene60235:CDS |
| TATGGAGACAGAGTTGATTA+TGG | 0.373749 | 4.3:+85690384 | MS.gene60235:CDS |
| AGATGCGGCGATTCAAAGTA+TGG | 0.375499 | 4.3:+85690366 | MS.gene60235:CDS |
| TGGATAATCTCATTTCTAGT+AGG | 0.375928 | 4.3:-85691602 | None:intergenic |
| AGTGGTTCAGATGTTCGTTT+AGG | 0.376339 | 4.3:+85690450 | MS.gene60235:CDS |
| TCAGTGTTTGGAGGAATTAG+AGG | 0.379547 | 4.3:+85690408 | MS.gene60235:CDS |
| ATTAGAGGAGGATCTTCATT+TGG | 0.405594 | 4.3:+85690423 | MS.gene60235:CDS |
| ACTAGACCTGGATGGAAATC+TGG | 0.411392 | 4.3:+85690621 | MS.gene60235:CDS |
| CATTTCTAGTAGGTGTCTCT+TGG | 0.424094 | 4.3:-85691592 | None:intergenic |
| GGTGATTGGTATTGTGGTGC+TGG | 0.443291 | 4.3:+85690471 | MS.gene60235:CDS |
| GGATCTTCATTTGGTTTAAG+TGG | 0.449514 | 4.3:+85690432 | MS.gene60235:CDS |
| TTTGAAACATTCCATTCTGC+TGG | 0.460615 | 4.3:-85691560 | None:intergenic |
| ACATGAGTAGGCCAGGAGAT+TGG | 0.464767 | 4.3:+85690292 | None:intergenic |
| CTGGTGACTGGATATGCAAC+AGG | 0.467053 | 4.3:+85690640 | MS.gene60235:CDS |
| GACCTGCAGTTCCAATCTCC+TGG | 0.472667 | 4.3:-85690303 | None:intergenic |
| GGAGTAAACATGAGTAGGCC+AGG | 0.482081 | 4.3:+85690285 | None:intergenic |
| GCCTTTGAAAGTTCATGTGC+TGG | 0.482420 | 4.3:-85690329 | None:intergenic |
| CAGTCACCAGATTTCCATCC+AGG | 0.488766 | 4.3:-85690627 | None:intergenic |
| GCTTTCAAAGATGACTTAGC+TGG | 0.496901 | 4.3:+85690546 | MS.gene60235:CDS |
| CGTTTAGGTGATTGGTATTG+TGG | 0.513265 | 4.3:+85690465 | MS.gene60235:CDS |
| GGCCAGGAGATTGGAACTGC+AGG | 0.518043 | 4.3:+85690301 | MS.gene60235:CDS |
| AAAGATGACTTAGCTGGAGG+AGG | 0.518213 | 4.3:+85690552 | MS.gene60235:CDS |
| CTGGATGGAAATCTGGTGAC+TGG | 0.527330 | 4.3:+85690628 | MS.gene60235:CDS |
| GCCAGCACATGAACTTTCAA+AGG | 0.538078 | 4.3:+85690328 | MS.gene60235:CDS |
| TATTGTGGTGCTGGTAATTG+TGG | 0.545221 | 4.3:+85690480 | MS.gene60235:CDS |
| GATTATGGATCAGTGTTTGG+AGG | 0.553466 | 4.3:+85690399 | MS.gene60235:CDS |
| GCACAACTTTGCCAGCAGAA+TGG | 0.557933 | 4.3:+85691549 | MS.gene60235:CDS |
| CGTTTAAGTTGCTTCAAATG+TGG | 0.570358 | 4.3:+85690522 | MS.gene60235:CDS |
| CCAAAGGAGTAAACATGAGT+AGG | 0.578304 | 4.3:+85690280 | None:intergenic |
| TTTGGTGGAAGTACTAGACC+TGG | 0.615938 | 4.3:+85690609 | MS.gene60235:CDS |
| TTCAAAGATGACTTAGCTGG+AGG | 0.616807 | 4.3:+85690549 | MS.gene60235:CDS |
| CGCGAATCATGTCAAAGATG+CGG | 0.623391 | 4.3:+85690351 | MS.gene60235:CDS |
| GTGTTTGGAGGAATTAGAGG+AGG | 0.633226 | 4.3:+85690411 | MS.gene60235:CDS |
| GTGGAAGTACTAGACCTGGA+TGG | 0.644858 | 4.3:+85690613 | MS.gene60235:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ACTTTTATCTATTTTTAATA+TGG | + | chr4.3:85691446-85691465 | MS.gene60235:intron | 10.0% |
| !!! | GTATCATATTATATTTTATA+TGG | + | chr4.3:85691356-85691375 | MS.gene60235:intron | 10.0% |
| !! | TAATTGTAATATTGTAGTAT+GGG | + | chr4.3:85690663-85690682 | MS.gene60235:intron | 15.0% |
| !! | TAGTAAGTAATATTATAAAG+TGG | + | chr4.3:85690883-85690902 | MS.gene60235:intron | 15.0% |
| !!! | ATACTCTTTTTATATATAGA+TGG | - | chr4.3:85690737-85690756 | None:intergenic | 15.0% |
| !!! | ATAGACCTTTTTTTTTAAAT+AGG | - | chr4.3:85691219-85691238 | None:intergenic | 15.0% |
| !! | AATATTATAAAGTGGTCAAT+TGG | + | chr4.3:85690891-85690910 | MS.gene60235:intron | 20.0% |
| !! | GTAATTGTAATATTGTAGTA+TGG | + | chr4.3:85690662-85690681 | MS.gene60235:intron | 20.0% |
| !! | TGGTACCTATTTAAAAAAAA+AGG | + | chr4.3:85691211-85691230 | MS.gene60235:intron | 20.0% |
| !!! | ACAAAATTGATTTGTAAAGA+GGG | + | chr4.3:85691284-85691303 | MS.gene60235:intron | 20.0% |
| !!! | ATCTACTATCTTTTGATTAT+TGG | + | chr4.3:85690993-85691012 | MS.gene60235:intron | 20.0% |
| !!! | TACAAAATTGATTTGTAAAG+AGG | + | chr4.3:85691283-85691302 | MS.gene60235:intron | 20.0% |
| ! | ACGAAATGAGACTTATAATA+AGG | + | chr4.3:85690822-85690841 | MS.gene60235:intron | 25.0% |
| ! | CGAAATGAGACTTATAATAA+GGG | + | chr4.3:85690823-85690842 | MS.gene60235:intron | 25.0% |
| ! | CTTTGAATATTGCTATACTT+TGG | + | chr4.3:85691191-85691210 | MS.gene60235:intron | 25.0% |
| !!! | GTTTTAATCATGACAAGTAT+TGG | - | chr4.3:85691487-85691506 | None:intergenic | 25.0% |
| !!! | TTCTTTGTTTTGAACAGATT+AGG | + | chr4.3:85691517-85691536 | MS.gene60235:intron | 25.0% |
| CTAAAAGAAGTCAAAGAAAG+AGG | - | chr4.3:85691161-85691180 | None:intergenic | 30.0% | |
| GGAAACATCACTCTTTAATA+CGG | + | chr4.3:85691305-85691324 | MS.gene60235:intron | 30.0% | |
| ! | AACTTCAAGTTCAAACTCAA+AGG | - | chr4.3:85691061-85691080 | None:intergenic | 30.0% |
| ! | ACTTCAAGTTCAAACTCAAA+GGG | - | chr4.3:85691060-85691079 | None:intergenic | 30.0% |
| ! | ATTTTGCTTTCAAGAGGTTT+TGG | + | chr4.3:85690591-85690610 | MS.gene60235:CDS | 30.0% |
| !! | CTCTTTCTTTGACTTCTTTT+AGG | + | chr4.3:85691159-85691178 | MS.gene60235:intron | 30.0% |
| !! | TGATTATTGGTTCCAAATGA+GGG | + | chr4.3:85691006-85691025 | MS.gene60235:intron | 30.0% |
| !! | TTGATTATTGGTTCCAAATG+AGG | + | chr4.3:85691005-85691024 | MS.gene60235:intron | 30.0% |
| AACATCACTCTTTAATACGG+TGG | + | chr4.3:85691308-85691327 | MS.gene60235:intron | 35.0% | |
| AATTTGACCACAAGATGACA+AGG | - | chr4.3:85690862-85690881 | None:intergenic | 35.0% | |
| AGCAAGAAAGCAAAAAGCAA+AGG | - | chr4.3:85691037-85691056 | None:intergenic | 35.0% | |
| ATTAGAGGAGGATCTTCATT+TGG | + | chr4.3:85690423-85690442 | MS.gene60235:CDS | 35.0% | |
| GTTGATTATGGATCAGTGTT+TGG | + | chr4.3:85690396-85690415 | MS.gene60235:CDS | 35.0% | |
| TGACATATGACACAAACCAA+AGG | + | chr4.3:85691090-85691109 | MS.gene60235:intron | 35.0% | |
| TTTATCACCTTGTCATCTTG+TGG | + | chr4.3:85690852-85690871 | MS.gene60235:intron | 35.0% | |
| ! | AGTGACATTTTGCTTTCAAG+AGG | + | chr4.3:85690585-85690604 | MS.gene60235:CDS | 35.0% |
| ! | GGATCTTCATTTGGTTTAAG+TGG | + | chr4.3:85690432-85690451 | MS.gene60235:CDS | 35.0% |
| ! | TATGGAGACAGAGTTGATTA+TGG | + | chr4.3:85690384-85690403 | MS.gene60235:CDS | 35.0% |
| ! | TTTGAAACATTCCATTCTGC+TGG | - | chr4.3:85691563-85691582 | None:intergenic | 35.0% |
| !! | CGTTTAAGTTGCTTCAAATG+TGG | + | chr4.3:85690522-85690541 | MS.gene60235:CDS | 35.0% |
| !! | GATTATTGGTTCCAAATGAG+GGG | + | chr4.3:85691007-85691026 | MS.gene60235:intron | 35.0% |
| ACAAACCAAAGGCAATGATG+GGG | + | chr4.3:85691101-85691120 | MS.gene60235:intron | 40.0% | |
| ACACAAACCAAAGGCAATGA+TGG | + | chr4.3:85691099-85691118 | MS.gene60235:intron | 40.0% | |
| AGTGGTTCAGATGTTCGTTT+AGG | + | chr4.3:85690450-85690469 | MS.gene60235:CDS | 40.0% | |
| CACAAACCAAAGGCAATGAT+GGG | + | chr4.3:85691100-85691119 | MS.gene60235:intron | 40.0% | |
| CAGATGTTCGTTTAGGTGAT+TGG | + | chr4.3:85690457-85690476 | MS.gene60235:CDS | 40.0% | |
| CGTTTAGGTGATTGGTATTG+TGG | + | chr4.3:85690465-85690484 | MS.gene60235:CDS | 40.0% | |
| GATTATGGATCAGTGTTTGG+AGG | + | chr4.3:85690399-85690418 | MS.gene60235:CDS | 40.0% | |
| GCTTTCAAAGATGACTTAGC+TGG | + | chr4.3:85690546-85690565 | MS.gene60235:CDS | 40.0% | |
| TCACTCTTTAATACGGTGGA+TGG | + | chr4.3:85691312-85691331 | MS.gene60235:intron | 40.0% | |
| TCAGTGTTTGGAGGAATTAG+AGG | + | chr4.3:85690408-85690427 | MS.gene60235:CDS | 40.0% | |
| TTCAAAGATGACTTAGCTGG+AGG | + | chr4.3:85690549-85690568 | MS.gene60235:CDS | 40.0% | |
| !! | TATTGTGGTGCTGGTAATTG+TGG | + | chr4.3:85690480-85690499 | MS.gene60235:CDS | 40.0% |
| !! | TTGCTTTCAAGAGGTTTTGG+TGG | + | chr4.3:85690594-85690613 | MS.gene60235:CDS | 40.0% |
| AAAGATGACTTAGCTGGAGG+AGG | + | chr4.3:85690552-85690571 | MS.gene60235:CDS | 45.0% | |
| ACTAGACCTGGATGGAAATC+TGG | + | chr4.3:85690621-85690640 | MS.gene60235:CDS | 45.0% | |
| AGATGCGGCGATTCAAAGTA+TGG | + | chr4.3:85690366-85690385 | MS.gene60235:CDS | 45.0% | |
| CAAACCAAAGGCAATGATGG+GGG | + | chr4.3:85691102-85691121 | MS.gene60235:intron | 45.0% | |
| CGCGAATCATGTCAAAGATG+CGG | + | chr4.3:85690351-85690370 | MS.gene60235:CDS | 45.0% | |
| GCCAGCACATGAACTTTCAA+AGG | + | chr4.3:85690328-85690347 | MS.gene60235:CDS | 45.0% | |
| GTGTTTGGAGGAATTAGAGG+AGG | + | chr4.3:85690411-85690430 | MS.gene60235:CDS | 45.0% | |
| ! | GCCTTTGAAAGTTCATGTGC+TGG | - | chr4.3:85690332-85690351 | None:intergenic | 45.0% |
| !! | TTTGGTGGAAGTACTAGACC+TGG | + | chr4.3:85690609-85690628 | MS.gene60235:CDS | 45.0% |
| !!! | TCTATAAATATATTTAATTT+TGG | + | chr4.3:85690704-85690723 | MS.gene60235:intron | 5.0% |
| ACAACCCCCATCATTGCCTT+TGG | - | chr4.3:85691109-85691128 | None:intergenic | 50.0% | |
| CAGTCACCAGATTTCCATCC+AGG | - | chr4.3:85690630-85690649 | None:intergenic | 50.0% | |
| CTGGATGGAAATCTGGTGAC+TGG | + | chr4.3:85690628-85690647 | MS.gene60235:CDS | 50.0% | |
| CTGGTGACTGGATATGCAAC+AGG | + | chr4.3:85690640-85690659 | MS.gene60235:CDS | 50.0% | |
| GCAAAGGTTGTCCCCTCATT+TGG | - | chr4.3:85691021-85691040 | None:intergenic | 50.0% | |
| GCACAACTTTGCCAGCAGAA+TGG | + | chr4.3:85691549-85691568 | MS.gene60235:CDS | 50.0% | |
| GGTGATTGGTATTGTGGTGC+TGG | + | chr4.3:85690471-85690490 | MS.gene60235:CDS | 50.0% | |
| ! | AAGGCAATGATGGGGGTTGT+AGG | + | chr4.3:85691109-85691128 | MS.gene60235:intron | 50.0% |
| !! | GTGGAAGTACTAGACCTGGA+TGG | + | chr4.3:85690613-85690632 | MS.gene60235:CDS | 50.0% |
| GACCTGCAGTTCCAATCTCC+TGG | - | chr4.3:85690306-85690325 | None:intergenic | 55.0% | |
| GGCCAGGAGATTGGAACTGC+AGG | + | chr4.3:85690301-85690320 | MS.gene60235:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.3 | gene | 85690294 | 85691609 | 85690294 | ID=MS.gene60235 |
| chr4.3 | mRNA | 85690294 | 85691609 | 85690294 | ID=MS.gene60235.t1;Parent=MS.gene60235 |
| chr4.3 | exon | 85690294 | 85690661 | 85690294 | ID=MS.gene60235.t1.exon1;Parent=MS.gene60235.t1 |
| chr4.3 | CDS | 85690294 | 85690661 | 85690294 | ID=cds.MS.gene60235.t1;Parent=MS.gene60235.t1 |
| chr4.3 | exon | 85691534 | 85691609 | 85691534 | ID=MS.gene60235.t1.exon2;Parent=MS.gene60235.t1 |
| chr4.3 | CDS | 85691534 | 85691609 | 85691534 | ID=cds.MS.gene60235.t1;Parent=MS.gene60235.t1 |
| Gene Sequence |
| Protein sequence |
