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.gene09485.t1 | XP_024630189.1 | 88.8 | 232 | 26 | 0 | 1 | 232 | 1 | 232 | 3.40E-96 | 361.3 |
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.gene09485.t1 | A0A396J752 | 87.9 | 232 | 25 | 1 | 1 | 232 | 1 | 229 | 1.1e-93 | 352.4 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene05672 | MS.gene09485 | 0.812882 | 3.39E-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.gene09485.t1 | MTR_0232s0030 | 90.244 | 205 | 17 | 1 | 1 | 205 | 1 | 202 | 9.99e-122 | 344 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 58 sgRNAs with CRISPR-Local
Find 84 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTTATTATCCTTGTTCCATT+AGG | 0.307740 | 6.4:-24494681 | None:intergenic |
| TATTGGGATTTAGAAGTTAT+AGG | 0.310670 | 6.4:+24494508 | MS.gene09485:CDS |
| TCCGATAATGTTTGAAAGTT+GGG | 0.341280 | 6.4:+24494791 | MS.gene09485:CDS |
| AACACGTCATCTTCAGAATC+AGG | 0.347354 | 6.4:-24494445 | None:intergenic |
| TCCCAACTTTCAAACATTAT+CGG | 0.351303 | 6.4:-24494792 | None:intergenic |
| GTCACATGTGTAGGTGGTGG+AGG | 0.380295 | 6.4:-24494295 | None:intergenic |
| TGTTTCAAACATGCGTTTAG+TGG | 0.397745 | 6.4:+24494635 | MS.gene09485:CDS |
| TTCCGATAATGTTTGAAAGT+TGG | 0.402381 | 6.4:+24494790 | MS.gene09485:CDS |
| ACAAGGGATTGGGCGAGAAT+TGG | 0.404355 | 6.4:-24493612 | None:intergenic |
| AGACGATTCGACAAGGGATT+GGG | 0.404895 | 6.4:-24493622 | None:intergenic |
| TTGCACCGCGCATATTCATA+TGG | 0.410600 | 6.4:-24493546 | None:intergenic |
| TTTGCTGCCTCAAGAGCTCC+AGG | 0.415207 | 6.4:-24494235 | None:intergenic |
| GTTGTCACCTTGCTAGTTAG+TGG | 0.426365 | 6.4:-24494349 | None:intergenic |
| TCACATGTGTAGGTGGTGGA+GGG | 0.431798 | 6.4:-24494294 | None:intergenic |
| AAGACGATTCGACAAGGGAT+TGG | 0.445301 | 6.4:-24493623 | None:intergenic |
| TCTTGGACTGCTGCAGGTGG+TGG | 0.448182 | 6.4:-24494319 | None:intergenic |
| TCAGTCACCTCGACTATTGC+CGG | 0.456206 | 6.4:-24494376 | None:intergenic |
| GTAGGTGGTGGAGGGGCTTG+TGG | 0.466643 | 6.4:-24494286 | None:intergenic |
| TATGTCTCTTGGACTGCTGC+AGG | 0.469316 | 6.4:-24494325 | None:intergenic |
| GACTGAACTGCCATCTTCCC+AGG | 0.483328 | 6.4:+24494393 | MS.gene09485:CDS |
| CGTTCAAGGTTTGTACAACC+TGG | 0.487622 | 6.4:+24494217 | MS.gene09485:CDS |
| AGTCTGTGAAGGGTCGTTCA+AGG | 0.490917 | 6.4:+24494203 | MS.gene09485:intron |
| GTGTTGGTTGAATCTCCTAA+TGG | 0.491096 | 6.4:+24494666 | MS.gene09485:CDS |
| TAGTTAGTGGATATGTCTCT+TGG | 0.491210 | 6.4:-24494336 | None:intergenic |
| TTTAGTGGTGTATGATGTGT+TGG | 0.495215 | 6.4:+24494650 | MS.gene09485:CDS |
| TTCTTATGTGTTAGATGGGG+CGG | 0.497680 | 6.4:+24494608 | MS.gene09485:intron |
| TGATCTTATTTAGTCTGTGA+AGG | 0.499233 | 6.4:+24494192 | MS.gene09485:intron |
| AAACCAGCTGCTTCTCCCAC+TGG | 0.499632 | 6.4:-24494723 | None:intergenic |
| AATGATTGTGTGATGTGGCC+TGG | 0.503686 | 6.4:-24494411 | None:intergenic |
| TGTGATGTGGCCTGGGAAGA+TGG | 0.505496 | 6.4:-24494403 | None:intergenic |
| CAACCAGTGGGAGAAGCAGC+TGG | 0.515336 | 6.4:+24494720 | MS.gene09485:CDS |
| TCTTATGTGTTAGATGGGGC+GGG | 0.533369 | 6.4:+24494609 | MS.gene09485:intron |
| TGTACAACCTGGAGCTCTTG+AGG | 0.535574 | 6.4:+24494228 | MS.gene09485:CDS |
| GGTGTCACATGTGTAGGTGG+TGG | 0.536586 | 6.4:-24494298 | None:intergenic |
| CACATGTGTAGGTGGTGGAG+GGG | 0.539391 | 6.4:-24494293 | None:intergenic |
| AAGGATAATAACAAGATGGA+AGG | 0.540049 | 6.4:+24494692 | MS.gene09485:CDS |
| ATGATTGTGTGATGTGGCCT+GGG | 0.558678 | 6.4:-24494410 | None:intergenic |
| GGTGGTGGTGTCACATGTGT+AGG | 0.560053 | 6.4:-24494304 | None:intergenic |
| GATCTTATTTAGTCTGTGAA+GGG | 0.562754 | 6.4:+24494193 | MS.gene09485:intron |
| GGTGGTGTCACATGTGTAGG+TGG | 0.564919 | 6.4:-24494301 | None:intergenic |
| GAACAAGGATAATAACAAGA+TGG | 0.579654 | 6.4:+24494688 | MS.gene09485:CDS |
| GTCTCTTGGACTGCTGCAGG+TGG | 0.592620 | 6.4:-24494322 | None:intergenic |
| TCATCTTCAGAATCAGGGAA+TGG | 0.601803 | 6.4:-24494439 | None:intergenic |
| ACACGTCATCTTCAGAATCA+GGG | 0.608104 | 6.4:-24494444 | None:intergenic |
| TGGCAGAAGACGATTCGACA+AGG | 0.613484 | 6.4:-24493629 | None:intergenic |
| GACATATCCACTAACTAGCA+AGG | 0.624395 | 6.4:+24494342 | MS.gene09485:CDS |
| ATGGAAGGGTCGTCAACCAG+TGG | 0.625282 | 6.4:+24494707 | MS.gene09485:CDS |
| AGGATAATAACAAGATGGAA+GGG | 0.640878 | 6.4:+24494693 | MS.gene09485:CDS |
| TTGAATCTCCTAATGGAACA+AGG | 0.642993 | 6.4:+24494673 | MS.gene09485:CDS |
| AGTCTCTATACATTCTAGCA+AGG | 0.643092 | 6.4:-24494767 | None:intergenic |
| TGGAAGGGTCGTCAACCAGT+GGG | 0.644048 | 6.4:+24494708 | MS.gene09485:CDS |
| GGCAGAAGACGATTCGACAA+GGG | 0.647309 | 6.4:-24493628 | None:intergenic |
| GTGGTAAGTCATGCGAACGA+AGG | 0.655649 | 6.4:-24494267 | None:intergenic |
| TAGCAAGGTGACAACACCGC+CGG | 0.658057 | 6.4:+24494357 | MS.gene09485:CDS |
| AACACCGCCGGCAATAGTCG+AGG | 0.661998 | 6.4:+24494369 | MS.gene09485:CDS |
| AACAGAATGATTGTGTGATG+TGG | 0.672443 | 6.4:-24494416 | None:intergenic |
| TGACACCATATGAATATGCG+CGG | 0.695349 | 6.4:+24493541 | MS.gene09485:CDS |
| GTCACCTCGACTATTGCCGG+CGG | 0.727014 | 6.4:-24494373 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATTTATGATGAAAAAATAA+AGG | + | chr6.4:24494842-24494861 | MS.gene09485:CDS | 10.0% |
| !! | AAAAAAAGACATCTAAATAT+TGG | + | chr6.4:24494491-24494510 | MS.gene09485:CDS | 15.0% |
| !! | AAAAAAGACATCTAAATATT+GGG | + | chr6.4:24494492-24494511 | MS.gene09485:CDS | 15.0% |
| !! | TCAGAAATCAATAAAAAAAA+AGG | - | chr6.4:24493702-24493721 | None:intergenic | 15.0% |
| !! | AACAAAGAAAAAATAACTGT+AGG | - | chr6.4:24494140-24494159 | None:intergenic | 20.0% |
| !! | AACTTAGATTTGATGTTTAA+AGG | + | chr6.4:24493885-24493904 | MS.gene09485:intron | 20.0% |
| !! | ATAAGAAAGTAAGTGAAATA+TGG | - | chr6.4:24494595-24494614 | None:intergenic | 20.0% |
| !!! | GTCTTTTTTTCAGTAATATT+CGG | - | chr6.4:24494481-24494500 | None:intergenic | 20.0% |
| !!! | TACAGTTATTTTTTCTTTGT+TGG | + | chr6.4:24494139-24494158 | MS.gene09485:intron | 20.0% |
| ! | TAAGATCACAGTCATAAATA+TGG | - | chr6.4:24494180-24494199 | None:intergenic | 25.0% |
| ! | TACTTTCTTATGTGTTAGAT+GGG | + | chr6.4:24494604-24494623 | MS.gene09485:intron | 25.0% |
| ! | TATTGGGATTTAGAAGTTAT+AGG | + | chr6.4:24494508-24494527 | MS.gene09485:CDS | 25.0% |
| ! | TTACTTTCTTATGTGTTAGA+TGG | + | chr6.4:24494603-24494622 | MS.gene09485:intron | 25.0% |
| ! | TTTCTGATTCATCAGTTTAA+AGG | + | chr6.4:24493715-24493734 | MS.gene09485:intron | 25.0% |
| !!! | TTGCTTAATTTTGATCTCAT+CGG | + | chr6.4:24493790-24493809 | MS.gene09485:intron | 25.0% |
| AAGGATAATAACAAGATGGA+AGG | + | chr6.4:24494692-24494711 | MS.gene09485:CDS | 30.0% | |
| ACTTTCTTATGTGTTAGATG+GGG | + | chr6.4:24494605-24494624 | MS.gene09485:intron | 30.0% | |
| AGGATAATAACAAGATGGAA+GGG | + | chr6.4:24494693-24494712 | MS.gene09485:CDS | 30.0% | |
| ATCACAGTCATAAATATGGA+GGG | - | chr6.4:24494176-24494195 | None:intergenic | 30.0% | |
| CTCACTACAAAGTTAAATTC+AGG | - | chr6.4:24494007-24494026 | None:intergenic | 30.0% | |
| GAACAAGGATAATAACAAGA+TGG | + | chr6.4:24494688-24494707 | MS.gene09485:CDS | 30.0% | |
| GTTATTATCCTTGTTCCATT+AGG | - | chr6.4:24494684-24494703 | None:intergenic | 30.0% | |
| TCCCAACTTTCAAACATTAT+CGG | - | chr6.4:24494795-24494814 | None:intergenic | 30.0% | |
| TCCGATAATGTTTGAAAGTT+GGG | + | chr6.4:24494791-24494810 | MS.gene09485:CDS | 30.0% | |
| TGCCACTAAAAAACATTCAT+CGG | + | chr6.4:24493647-24493666 | MS.gene09485:CDS | 30.0% | |
| TTCCGATAATGTTTGAAAGT+TGG | + | chr6.4:24494790-24494809 | MS.gene09485:CDS | 30.0% | |
| ! | GATCTTATTTAGTCTGTGAA+GGG | + | chr6.4:24494193-24494212 | MS.gene09485:intron | 30.0% |
| ! | TGATCTTATTTAGTCTGTGA+AGG | + | chr6.4:24494192-24494211 | MS.gene09485:intron | 30.0% |
| ! | TTGATGTCAGATGTTGTTTA+TGG | + | chr6.4:24494064-24494083 | MS.gene09485:intron | 30.0% |
| !!! | GGTTTTTTAGCGAGTTTTTT+GGG | + | chr6.4:24494741-24494760 | MS.gene09485:CDS | 30.0% |
| !!! | TACCGATGAATGTTTTTTAG+TGG | - | chr6.4:24493652-24493671 | None:intergenic | 30.0% |
| !!! | TGGTTTTTTAGCGAGTTTTT+TGG | + | chr6.4:24494740-24494759 | MS.gene09485:CDS | 30.0% |
| AACAGAATGATTGTGTGATG+TGG | - | chr6.4:24494419-24494438 | None:intergenic | 35.0% | |
| AGTCTCTATACATTCTAGCA+AGG | - | chr6.4:24494770-24494789 | None:intergenic | 35.0% | |
| GATCACAGTCATAAATATGG+AGG | - | chr6.4:24494177-24494196 | None:intergenic | 35.0% | |
| GTCATAAATATGGAGGGATT+TGG | - | chr6.4:24494170-24494189 | None:intergenic | 35.0% | |
| TGTTTCAAACATGCGTTTAG+TGG | + | chr6.4:24494635-24494654 | MS.gene09485:CDS | 35.0% | |
| TTGAATCTCCTAATGGAACA+AGG | + | chr6.4:24494673-24494692 | MS.gene09485:CDS | 35.0% | |
| TTTAGTGGTGTATGATGTGT+TGG | + | chr6.4:24494650-24494669 | MS.gene09485:CDS | 35.0% | |
| ! | TAAATATGGAGGGATTTGGT+TGG | - | chr6.4:24494166-24494185 | None:intergenic | 35.0% |
| ! | TAGTTAGTGGATATGTCTCT+TGG | - | chr6.4:24494339-24494358 | None:intergenic | 35.0% |
| AACACGTCATCTTCAGAATC+AGG | - | chr6.4:24494448-24494467 | None:intergenic | 40.0% | |
| ACACGTCATCTTCAGAATCA+GGG | - | chr6.4:24494447-24494466 | None:intergenic | 40.0% | |
| GACATATCCACTAACTAGCA+AGG | + | chr6.4:24494342-24494361 | MS.gene09485:CDS | 40.0% | |
| TCATCTTCAGAATCAGGGAA+TGG | - | chr6.4:24494442-24494461 | None:intergenic | 40.0% | |
| TGACACCATATGAATATGCG+CGG | + | chr6.4:24493541-24493560 | MS.gene09485:CDS | 40.0% | |
| TTCTTATGTGTTAGATGGGG+CGG | + | chr6.4:24494608-24494627 | MS.gene09485:intron | 40.0% | |
| !! | GTGTTGGTTGAATCTCCTAA+TGG | + | chr6.4:24494666-24494685 | MS.gene09485:CDS | 40.0% |
| AAGACGATTCGACAAGGGAT+TGG | - | chr6.4:24493626-24493645 | None:intergenic | 45.0% | |
| AATGATTGTGTGATGTGGCC+TGG | - | chr6.4:24494414-24494433 | None:intergenic | 45.0% | |
| AGACGATTCGACAAGGGATT+GGG | - | chr6.4:24493625-24493644 | None:intergenic | 45.0% | |
| ATGATTGTGTGATGTGGCCT+GGG | - | chr6.4:24494413-24494432 | None:intergenic | 45.0% | |
| CGTTCAAGGTTTGTACAACC+TGG | + | chr6.4:24494217-24494236 | MS.gene09485:CDS | 45.0% | |
| GTTGTCACCTTGCTAGTTAG+TGG | - | chr6.4:24494352-24494371 | None:intergenic | 45.0% | |
| TCTTATGTGTTAGATGGGGC+GGG | + | chr6.4:24494609-24494628 | MS.gene09485:intron | 45.0% | |
| TTGCACCGCGCATATTCATA+TGG | - | chr6.4:24493549-24493568 | None:intergenic | 45.0% | |
| !! | TAAATTATTTAAAGATAATT+TGG | - | chr6.4:24494548-24494567 | None:intergenic | 5.0% |
| ACAAGGGATTGGGCGAGAAT+TGG | - | chr6.4:24493615-24493634 | None:intergenic | 50.0% | |
| AGTCTGTGAAGGGTCGTTCA+AGG | + | chr6.4:24494203-24494222 | MS.gene09485:intron | 50.0% | |
| GGCAGAAGACGATTCGACAA+GGG | - | chr6.4:24493631-24493650 | None:intergenic | 50.0% | |
| GTGGTAAGTCATGCGAACGA+AGG | - | chr6.4:24494270-24494289 | None:intergenic | 50.0% | |
| TATGTCTCTTGGACTGCTGC+AGG | - | chr6.4:24494328-24494347 | None:intergenic | 50.0% | |
| TCAGTCACCTCGACTATTGC+CGG | - | chr6.4:24494379-24494398 | None:intergenic | 50.0% | |
| TGGCAGAAGACGATTCGACA+AGG | - | chr6.4:24493632-24493651 | None:intergenic | 50.0% | |
| TGTACAACCTGGAGCTCTTG+AGG | + | chr6.4:24494228-24494247 | MS.gene09485:CDS | 50.0% | |
| !! | TCACATGTGTAGGTGGTGGA+GGG | - | chr6.4:24494297-24494316 | None:intergenic | 50.0% |
| AAACCAGCTGCTTCTCCCAC+TGG | - | chr6.4:24494726-24494745 | None:intergenic | 55.0% | |
| ATGGAAGGGTCGTCAACCAG+TGG | + | chr6.4:24494707-24494726 | MS.gene09485:CDS | 55.0% | |
| GACTGAACTGCCATCTTCCC+AGG | + | chr6.4:24494393-24494412 | MS.gene09485:CDS | 55.0% | |
| TAGCAAGGTGACAACACCGC+CGG | + | chr6.4:24494357-24494376 | MS.gene09485:CDS | 55.0% | |
| TGGAAGGGTCGTCAACCAGT+GGG | + | chr6.4:24494708-24494727 | MS.gene09485:CDS | 55.0% | |
| TGTGATGTGGCCTGGGAAGA+TGG | - | chr6.4:24494406-24494425 | None:intergenic | 55.0% | |
| TTTGCTGCCTCAAGAGCTCC+AGG | - | chr6.4:24494238-24494257 | None:intergenic | 55.0% | |
| ! | GGTGTCACATGTGTAGGTGG+TGG | - | chr6.4:24494301-24494320 | None:intergenic | 55.0% |
| ! | GTCACATGTGTAGGTGGTGG+AGG | - | chr6.4:24494298-24494317 | None:intergenic | 55.0% |
| !! | CACATGTGTAGGTGGTGGAG+GGG | - | chr6.4:24494296-24494315 | None:intergenic | 55.0% |
| !! | GGTGGTGGTGTCACATGTGT+AGG | - | chr6.4:24494307-24494326 | None:intergenic | 55.0% |
| !! | GGTGGTGTCACATGTGTAGG+TGG | - | chr6.4:24494304-24494323 | None:intergenic | 55.0% |
| AACACCGCCGGCAATAGTCG+AGG | + | chr6.4:24494369-24494388 | MS.gene09485:CDS | 60.0% | |
| CAACCAGTGGGAGAAGCAGC+TGG | + | chr6.4:24494720-24494739 | MS.gene09485:CDS | 60.0% | |
| GTCACCTCGACTATTGCCGG+CGG | - | chr6.4:24494376-24494395 | None:intergenic | 60.0% | |
| GTCTCTTGGACTGCTGCAGG+TGG | - | chr6.4:24494325-24494344 | None:intergenic | 60.0% | |
| TCTTGGACTGCTGCAGGTGG+TGG | - | chr6.4:24494322-24494341 | None:intergenic | 60.0% | |
| !! | GTAGGTGGTGGAGGGGCTTG+TGG | - | chr6.4:24494289-24494308 | None:intergenic | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6.4 | gene | 24493540 | 24494878 | 24493540 | ID=MS.gene09485 |
| chr6.4 | mRNA | 24493540 | 24494878 | 24493540 | ID=MS.gene09485.t1;Parent=MS.gene09485 |
| chr6.4 | exon | 24493540 | 24493668 | 24493540 | ID=MS.gene09485.t1.exon1;Parent=MS.gene09485.t1 |
| chr6.4 | CDS | 24493540 | 24493668 | 24493540 | ID=cds.MS.gene09485.t1;Parent=MS.gene09485.t1 |
| chr6.4 | exon | 24494205 | 24494529 | 24494205 | ID=MS.gene09485.t1.exon2;Parent=MS.gene09485.t1 |
| chr6.4 | CDS | 24494205 | 24494529 | 24494205 | ID=cds.MS.gene09485.t1;Parent=MS.gene09485.t1 |
| chr6.4 | exon | 24494622 | 24494878 | 24494622 | ID=MS.gene09485.t1.exon3;Parent=MS.gene09485.t1 |
| chr6.4 | CDS | 24494622 | 24494878 | 24494622 | ID=cds.MS.gene09485.t1;Parent=MS.gene09485.t1 |
| Gene Sequence |
| Protein sequence |
