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.gene51812.t1 | RHN66028.1 | 86.1 | 474 | 52 | 5 | 1 | 466 | 27 | 494 | 6.00E-169 | 604 |
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.gene51812.t1 | A0A072UTD3 | 86.1 | 474 | 52 | 5 | 1 | 466 | 1 | 468 | 4.3e-169 | 604.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene51812.t1 | TF | C2H2 |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049825 | MS.gene51812 | 0.802089 | 6.62E-49 | -1.69E-46 |
| MS.gene050559 | MS.gene51812 | 0.804467 | 2.13E-49 | -1.69E-46 |
| MS.gene050561 | MS.gene51812 | 0.800111 | 1.68E-48 | -1.69E-46 |
| MS.gene057921 | MS.gene51812 | 0.821163 | 4.67E-53 | -1.69E-46 |
| MS.gene058625 | MS.gene51812 | 0.802489 | 5.48E-49 | -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.gene51812.t1 | MTR_3g023760 | 90.737 | 475 | 28 | 6 | 1 | 466 | 1 | 468 | 0.0 | 765 |
| MS.gene51812.t1 | MTR_4g109340 | 39.780 | 455 | 192 | 19 | 1 | 416 | 1 | 412 | 1.15e-75 | 246 |
| MS.gene51812.t1 | MTR_4g109340 | 34.911 | 169 | 67 | 6 | 305 | 462 | 380 | 516 | 7.36e-16 | 80.1 |
| MS.gene51812.t1 | MTR_5g043930 | 32.400 | 250 | 117 | 8 | 7 | 219 | 1 | 235 | 6.57e-22 | 99.0 |
| MS.gene51812.t1 | MTR_4g028610 | 25.364 | 481 | 250 | 20 | 5 | 461 | 8 | 403 | 1.94e-14 | 75.9 |
| MS.gene51812.t1 | MTR_4g082980 | 38.235 | 136 | 64 | 5 | 1 | 123 | 1 | 129 | 2.17e-14 | 75.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene51812.t1 | AT1G26610 | 38.258 | 264 | 127 | 13 | 1 | 254 | 1 | 238 | 2.43e-29 | 120 |
Find 61 sgRNAs with CRISPR-Local
Find 67 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCTTCTTCTGTTGTGAATTT+TGG | 0.094506 | 3.4:-16107371 | MS.gene51812:CDS |
| AAACCAAAGAAGTTGGATTT+TGG | 0.178546 | 3.4:-16107095 | MS.gene51812:CDS |
| CCTTGTTCTTAGCTTTCTTT+TGG | 0.202572 | 3.4:+16107415 | None:intergenic |
| AATGATCAAATTAGTGAAAA+TGG | 0.220075 | 3.4:-16106714 | MS.gene51812:CDS |
| TTAGAAACTAAATGAGTTAA+TGG | 0.244636 | 3.4:+16107173 | None:intergenic |
| TTGCCAAAATCCAACTTCTT+TGG | 0.270716 | 3.4:+16107092 | None:intergenic |
| TTGGATCTTCTCTTTCTCTT+TGG | 0.274333 | 3.4:+16107434 | None:intergenic |
| AAAAGATGAGAAGAAGAAAA+TGG | 0.300526 | 3.4:-16106946 | MS.gene51812:CDS |
| TTTGCTTCTGGTAGATCATT+AGG | 0.302227 | 3.4:-16107803 | MS.gene51812:CDS |
| TGTTGTTGATTCTGAAACTA+AGG | 0.321396 | 3.4:-16106886 | MS.gene51812:CDS |
| TAATAATGATGATGATTCTT+TGG | 0.335313 | 3.4:-16107207 | MS.gene51812:CDS |
| TGATGATGATTCTTTGGAAT+TGG | 0.360523 | 3.4:-16107201 | MS.gene51812:CDS |
| TTTCAATCTTATCAAGCTCT+TGG | 0.364632 | 3.4:-16106786 | MS.gene51812:CDS |
| TGATTCTGATTTAGCATTTG+AGG | 0.378036 | 3.4:-16106913 | MS.gene51812:CDS |
| AGAGTTTCTGTTGTTGAGAA+TGG | 0.378659 | 3.4:-16106969 | MS.gene51812:CDS |
| AAATGGAAACAGTACTGAAT+TGG | 0.379398 | 3.4:-16106697 | MS.gene51812:CDS |
| TTACATCAGAAGGTGAATTC+AGG | 0.392222 | 3.4:-16106863 | MS.gene51812:CDS |
| AAACAGTACTGAATTGGAAT+TGG | 0.395453 | 3.4:-16106691 | MS.gene51812:CDS |
| CAATCTATGAAAGCTTTGTT+TGG | 0.400642 | 3.4:-16107539 | MS.gene51812:CDS |
| TGTGTAAAGAATGTGGTAAA+GGG | 0.417853 | 3.4:-16107565 | MS.gene51812:CDS |
| ATGAAGAAGAAAGAAGGTTA+TGG | 0.434835 | 3.4:-16107683 | MS.gene51812:CDS |
| CATTTAGTTTCTAAGATTGA+AGG | 0.437125 | 3.4:-16107164 | MS.gene51812:CDS |
| TTCTGATAATAATGATGAAA+AGG | 0.437329 | 3.4:-16107318 | MS.gene51812:CDS |
| AGTAGATGCTGAGGGAAGAA+TGG | 0.451227 | 3.4:-16106667 | MS.gene51812:CDS |
| TTGTGTAAAGAATGTGGTAA+AGG | 0.465384 | 3.4:-16107566 | MS.gene51812:CDS |
| TTATCCAAAACAACATCAAA+AGG | 0.478081 | 3.4:+16107590 | None:intergenic |
| TCTTGAAGCAGAAAACCCTT+TGG | 0.484015 | 3.4:+16106737 | None:intergenic |
| TACAAACCATGGTGGTTAGT+TGG | 0.485401 | 3.4:-16106525 | MS.gene51812:CDS |
| CAATCTTATCAAGCTCTTGG+AGG | 0.486800 | 3.4:-16106783 | MS.gene51812:CDS |
| GTTCAGATGTTAAGTCCAAA+GGG | 0.490833 | 3.4:-16107061 | MS.gene51812:CDS |
| AGAAGAATGAAGAAGAAAGA+AGG | 0.493856 | 3.4:-16107689 | MS.gene51812:CDS |
| GACATAGAGCTAGTCATAAG+AGG | 0.494451 | 3.4:-16106761 | MS.gene51812:CDS |
| ATGAAGAAGTTACTGAAATG+AGG | 0.496740 | 3.4:-16106620 | MS.gene51812:CDS |
| TGAAGAAGTTACTGAAATGA+GGG | 0.509561 | 3.4:-16106619 | MS.gene51812:CDS |
| TCATCATCAATACTTGCAGC+AGG | 0.511776 | 3.4:+16106570 | None:intergenic |
| TGTTCAGATGTTAAGTCCAA+AGG | 0.512057 | 3.4:-16107062 | MS.gene51812:CDS |
| AGTATTGATGATGAAAGAAA+TGG | 0.523984 | 3.4:-16106561 | MS.gene51812:CDS |
| GCTAGTCATAAGAGGACCAA+AGG | 0.524798 | 3.4:-16106753 | MS.gene51812:CDS |
| AGAGATGTAAGACCTTGGTT+TGG | 0.525051 | 3.4:-16107257 | MS.gene51812:CDS |
| AAGAGAAAATATCAGAAAAG+AGG | 0.527607 | 3.4:-16106840 | MS.gene51812:CDS |
| ATTTAGTTTCTAAGATTGAA+GGG | 0.534547 | 3.4:-16107163 | MS.gene51812:CDS |
| CATGAAGTGTCATAAGAAGA+AGG | 0.537969 | 3.4:-16107513 | MS.gene51812:CDS |
| CTAGTCATAAGAGGACCAAA+GGG | 0.538026 | 3.4:-16106752 | MS.gene51812:CDS |
| GAGAGTGAAGGAAATGATGA+TGG | 0.545086 | 3.4:-16107014 | MS.gene51812:CDS |
| ATCAAGCAAGAGGCAATGAT+AGG | 0.560531 | 3.4:-16106495 | MS.gene51812:CDS |
| GATAAATTGTGTAAAGAATG+TGG | 0.571592 | 3.4:-16107572 | MS.gene51812:CDS |
| GAAACTAAGGTTACATCAGA+AGG | 0.573783 | 3.4:-16106873 | MS.gene51812:CDS |
| TGATGAAAAGGAACAAGAAG+AGG | 0.575044 | 3.4:-16107306 | MS.gene51812:CDS |
| GGAATTGGAAGTAGATGCTG+AGG | 0.586355 | 3.4:-16106676 | MS.gene51812:CDS |
| GCTTCTGGTAGATCATTAGG+TGG | 0.586857 | 3.4:-16107800 | MS.gene51812:CDS |
| TATGATCATGATGATGATGA+TGG | 0.588201 | 3.4:-16107737 | MS.gene51812:CDS |
| TTAGTAGAGATGTAAGACCT+TGG | 0.592699 | 3.4:-16107262 | MS.gene51812:CDS |
| GAGAGAATCCAAAGAAAACA+TGG | 0.594959 | 3.4:-16107655 | MS.gene51812:CDS |
| TGGAAGCAGTATCAAGCAAG+AGG | 0.613537 | 3.4:-16106505 | MS.gene51812:CDS |
| GATCATTAGGTGGTCACATG+AGG | 0.626071 | 3.4:-16107790 | MS.gene51812:CDS |
| ATGCTGAGATTTACAAACCA+TGG | 0.628225 | 3.4:-16106536 | MS.gene51812:CDS |
| CCAAAAGAAAGCTAAGAACA+AGG | 0.641234 | 3.4:-16107415 | MS.gene51812:CDS |
| GAATTGGAAGTAGATGCTGA+GGG | 0.674106 | 3.4:-16106675 | MS.gene51812:CDS |
| CTGCTTCCAACTAACCACCA+TGG | 0.679286 | 3.4:+16106519 | None:intergenic |
| CTGAGATTTACAAACCATGG+TGG | 0.688746 | 3.4:-16106533 | MS.gene51812:CDS |
| ATAGAATTGATACCAAACCA+AGG | 0.704170 | 3.4:+16107245 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATGATCAAATTAGTGAAAA+TGG | - | chr3.4:16107622-16107641 | MS.gene51812:CDS | 20.0% |
| !! | TTAGAAACTAAATGAGTTAA+TGG | + | chr3.4:16107166-16107185 | None:intergenic | 20.0% |
| !! | TTCTGATAATAATGATGAAA+AGG | - | chr3.4:16107018-16107037 | MS.gene51812:CDS | 20.0% |
| !!! | ATTTAGTTTCTAAGATTGAA+GGG | - | chr3.4:16107173-16107192 | MS.gene51812:CDS | 20.0% |
| !!! | TAATAATGATGATGATTCTT+TGG | - | chr3.4:16107129-16107148 | MS.gene51812:CDS | 20.0% |
| ! | AAAAGATGAGAAGAAGAAAA+TGG | - | chr3.4:16107390-16107409 | MS.gene51812:CDS | 25.0% |
| ! | AAGAGAAAATATCAGAAAAG+AGG | - | chr3.4:16107496-16107515 | MS.gene51812:CDS | 25.0% |
| ! | GATAAATTGTGTAAAGAATG+TGG | - | chr3.4:16106764-16106783 | MS.gene51812:CDS | 25.0% |
| ! | TTATCCAAAACAACATCAAA+AGG | + | chr3.4:16106749-16106768 | None:intergenic | 25.0% |
| !!! | AGTATTGATGATGAAAGAAA+TGG | - | chr3.4:16107775-16107794 | MS.gene51812:CDS | 25.0% |
| !!! | CATTTAGTTTCTAAGATTGA+AGG | - | chr3.4:16107172-16107191 | MS.gene51812:CDS | 25.0% |
| AGAAGAATGAAGAAGAAAGA+AGG | - | chr3.4:16106647-16106666 | MS.gene51812:CDS | 30.0% | |
| ATAGAATTGATACCAAACCA+AGG | + | chr3.4:16107094-16107113 | None:intergenic | 30.0% | |
| ATGAAGAAGAAAGAAGGTTA+TGG | - | chr3.4:16106653-16106672 | MS.gene51812:CDS | 30.0% | |
| ATGAAGAAGTTACTGAAATG+AGG | - | chr3.4:16107716-16107735 | MS.gene51812:CDS | 30.0% | |
| GAACAAAAAACCAAAGAAGT+TGG | - | chr3.4:16107234-16107253 | MS.gene51812:CDS | 30.0% | |
| TGAAGAAGTTACTGAAATGA+GGG | - | chr3.4:16107717-16107736 | MS.gene51812:CDS | 30.0% | |
| TGATTCTGATTTAGCATTTG+AGG | - | chr3.4:16107423-16107442 | MS.gene51812:CDS | 30.0% | |
| TGTGTAAAGAATGTGGTAAA+GGG | - | chr3.4:16106771-16106790 | MS.gene51812:CDS | 30.0% | |
| TTGTGTAAAGAATGTGGTAA+AGG | - | chr3.4:16106770-16106789 | MS.gene51812:CDS | 30.0% | |
| TTTCAATCTTATCAAGCTCT+TGG | - | chr3.4:16107550-16107569 | MS.gene51812:CDS | 30.0% | |
| ! | AAACAGTACTGAATTGGAAT+TGG | - | chr3.4:16107645-16107664 | MS.gene51812:CDS | 30.0% |
| ! | AAACCAAAGAAGTTGGATTT+TGG | - | chr3.4:16107241-16107260 | MS.gene51812:CDS | 30.0% |
| ! | AAATGGAAACAGTACTGAAT+TGG | - | chr3.4:16107639-16107658 | MS.gene51812:CDS | 30.0% |
| ! | AACTTCTAAACTTTTCCCTT+TGG | + | chr3.4:16107293-16107312 | None:intergenic | 30.0% |
| ! | TATGATCATGATGATGATGA+TGG | - | chr3.4:16106599-16106618 | MS.gene51812:CDS | 30.0% |
| ! | TCTTCTTCTGTTGTGAATTT+TGG | - | chr3.4:16106965-16106984 | MS.gene51812:CDS | 30.0% |
| !! | AGATCCTTTTGATGTTGTTT+TGG | - | chr3.4:16106742-16106761 | MS.gene51812:CDS | 30.0% |
| !! | CAATCTATGAAAGCTTTGTT+TGG | - | chr3.4:16106797-16106816 | MS.gene51812:CDS | 30.0% |
| !! | TGATGATGATTCTTTGGAAT+TGG | - | chr3.4:16107135-16107154 | MS.gene51812:CDS | 30.0% |
| !! | TGTTGTTGATTCTGAAACTA+AGG | - | chr3.4:16107450-16107469 | MS.gene51812:CDS | 30.0% |
| !!! | GTTTTTGATAATGAGAGTGA+AGG | - | chr3.4:16107310-16107329 | MS.gene51812:CDS | 30.0% |
| AGAGTTTCTGTTGTTGAGAA+TGG | - | chr3.4:16107367-16107386 | MS.gene51812:CDS | 35.0% | |
| ATGCTGAGATTTACAAACCA+TGG | - | chr3.4:16107800-16107819 | MS.gene51812:CDS | 35.0% | |
| CCAAAAGAAAGCTAAGAACA+AGG | - | chr3.4:16106921-16106940 | MS.gene51812:CDS | 35.0% | |
| GAAACTAAGGTTACATCAGA+AGG | - | chr3.4:16107463-16107482 | MS.gene51812:CDS | 35.0% | |
| GAGAGAATCCAAAGAAAACA+TGG | - | chr3.4:16106681-16106700 | MS.gene51812:CDS | 35.0% | |
| GTTCAGATGTTAAGTCCAAA+GGG | - | chr3.4:16107275-16107294 | MS.gene51812:CDS | 35.0% | |
| TGATGAAAAGGAACAAGAAG+AGG | - | chr3.4:16107030-16107049 | MS.gene51812:CDS | 35.0% | |
| TGTTCAGATGTTAAGTCCAA+AGG | - | chr3.4:16107274-16107293 | MS.gene51812:CDS | 35.0% | |
| TTACATCAGAAGGTGAATTC+AGG | - | chr3.4:16107473-16107492 | MS.gene51812:CDS | 35.0% | |
| TTAGTAGAGATGTAAGACCT+TGG | - | chr3.4:16107074-16107093 | MS.gene51812:CDS | 35.0% | |
| TTGCCAAAATCCAACTTCTT+TGG | + | chr3.4:16107247-16107266 | None:intergenic | 35.0% | |
| TTGGATCTTCTCTTTCTCTT+TGG | + | chr3.4:16106905-16106924 | None:intergenic | 35.0% | |
| TTTGCTTCTGGTAGATCATT+AGG | - | chr3.4:16106533-16106552 | MS.gene51812:CDS | 35.0% | |
| ! | AGTACTCTCCATGTTTTCTT+TGG | + | chr3.4:16106692-16106711 | None:intergenic | 35.0% |
| ! | CATGAAGTGTCATAAGAAGA+AGG | - | chr3.4:16106823-16106842 | MS.gene51812:CDS | 35.0% |
| ! | TGCAGAAAAAGTTTTGCTTC+TGG | - | chr3.4:16106521-16106540 | MS.gene51812:CDS | 35.0% |
| !! | CCTTGTTCTTAGCTTTCTTT+TGG | + | chr3.4:16106924-16106943 | None:intergenic | 35.0% |
| AGAGATGTAAGACCTTGGTT+TGG | - | chr3.4:16107079-16107098 | MS.gene51812:CDS | 40.0% | |
| ATCAAGCAAGAGGCAATGAT+AGG | - | chr3.4:16107841-16107860 | MS.gene51812:CDS | 40.0% | |
| CAATCTTATCAAGCTCTTGG+AGG | - | chr3.4:16107553-16107572 | MS.gene51812:CDS | 40.0% | |
| CTAGTCATAAGAGGACCAAA+GGG | - | chr3.4:16107584-16107603 | MS.gene51812:CDS | 40.0% | |
| CTGAGATTTACAAACCATGG+TGG | - | chr3.4:16107803-16107822 | MS.gene51812:CDS | 40.0% | |
| GAATTGGAAGTAGATGCTGA+GGG | - | chr3.4:16107661-16107680 | MS.gene51812:CDS | 40.0% | |
| GACATAGAGCTAGTCATAAG+AGG | - | chr3.4:16107575-16107594 | MS.gene51812:CDS | 40.0% | |
| GAGAGTGAAGGAAATGATGA+TGG | - | chr3.4:16107322-16107341 | MS.gene51812:CDS | 40.0% | |
| TACAAACCATGGTGGTTAGT+TGG | - | chr3.4:16107811-16107830 | MS.gene51812:CDS | 40.0% | |
| TCATCATCAATACTTGCAGC+AGG | + | chr3.4:16107769-16107788 | None:intergenic | 40.0% | |
| TCTTGAAGCAGAAAACCCTT+TGG | + | chr3.4:16107602-16107621 | None:intergenic | 40.0% | |
| AGTAGATGCTGAGGGAAGAA+TGG | - | chr3.4:16107669-16107688 | MS.gene51812:CDS | 45.0% | |
| GATCATTAGGTGGTCACATG+AGG | - | chr3.4:16106546-16106565 | MS.gene51812:CDS | 45.0% | |
| GCTAGTCATAAGAGGACCAA+AGG | - | chr3.4:16107583-16107602 | MS.gene51812:CDS | 45.0% | |
| GCTTCTGGTAGATCATTAGG+TGG | - | chr3.4:16106536-16106555 | MS.gene51812:CDS | 45.0% | |
| GGAATTGGAAGTAGATGCTG+AGG | - | chr3.4:16107660-16107679 | MS.gene51812:CDS | 45.0% | |
| TGGAAGCAGTATCAAGCAAG+AGG | - | chr3.4:16107831-16107850 | MS.gene51812:CDS | 45.0% | |
| CTGCTTCCAACTAACCACCA+TGG | + | chr3.4:16107820-16107839 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 16106479 | 16107879 | 16106479 | ID=MS.gene51812 |
| chr3.4 | mRNA | 16106479 | 16107879 | 16106479 | ID=MS.gene51812.t1;Parent=MS.gene51812 |
| chr3.4 | exon | 16106479 | 16107879 | 16106479 | ID=MS.gene51812.t1.exon1;Parent=MS.gene51812.t1 |
| chr3.4 | CDS | 16106479 | 16107879 | 16106479 | ID=cds.MS.gene51812.t1;Parent=MS.gene51812.t1 |
| Gene Sequence |
| Protein sequence |
