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.gene95202.t1 | RHN66028.1 | 82.4 | 484 | 54 | 9 | 1 | 469 | 27 | 494 | 4.20E-154 | 554.7 |
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.gene95202.t1 | A0A072UTD3 | 82.4 | 484 | 54 | 9 | 1 | 469 | 1 | 468 | 3.0e-154 | 554.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene95202.t1 | TF | C2H2 |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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.gene95202.t1 | MTR_3g023760 | 87.190 | 484 | 31 | 9 | 1 | 469 | 1 | 468 | 0.0 | 721 |
| MS.gene95202.t1 | MTR_4g109340 | 40.879 | 455 | 156 | 23 | 1 | 403 | 1 | 394 | 2.59e-69 | 229 |
| MS.gene95202.t1 | MTR_5g043930 | 32.937 | 252 | 115 | 7 | 7 | 221 | 1 | 235 | 9.89e-24 | 104 |
| MS.gene95202.t1 | MTR_4g028610 | 24.793 | 484 | 252 | 21 | 5 | 464 | 8 | 403 | 3.37e-15 | 78.2 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene95202.t1 | AT1G26610 | 40.870 | 230 | 105 | 11 | 1 | 221 | 1 | 208 | 4.50e-31 | 125 |
| MS.gene95202.t1 | AT1G26590 | 28.761 | 226 | 108 | 7 | 1 | 221 | 1 | 178 | 5.50e-15 | 76.6 |
| MS.gene95202.t1 | AT1G26590 | 28.761 | 226 | 108 | 7 | 1 | 221 | 1 | 178 | 5.50e-15 | 76.6 |
| MS.gene95202.t1 | AT1G26590 | 28.761 | 226 | 108 | 7 | 1 | 221 | 1 | 178 | 5.50e-15 | 76.6 |
| MS.gene95202.t1 | AT1G26590 | 28.761 | 226 | 108 | 7 | 1 | 221 | 19 | 196 | 7.92e-15 | 76.3 |
Find 60 sgRNAs with CRISPR-Local
Find 69 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ACTTCTTCTGTTGTGAATTT+TGG | 0.147535 | 3.2:-13450186 | MS.gene95202:CDS |
| CCTTGTTCTTAACTTTCTTT+TGG | 0.193235 | 3.2:+13450227 | None:intergenic |
| AAACCAAAGAAGTTGGATTT+TGG | 0.194247 | 3.2:-13449889 | MS.gene95202:CDS |
| ACACCAAAATCCAACTTCTT+TGG | 0.239202 | 3.2:+13449886 | None:intergenic |
| TAACAATGATGTGAATTCTT+TGG | 0.264595 | 3.2:-13450001 | MS.gene95202:CDS |
| TTGGATCTTCTCTTTCTCTT+TGG | 0.274333 | 3.2:+13450246 | None:intergenic |
| AATGATCAAAGCAGTGAAAA+TGG | 0.281007 | 3.2:-13449526 | MS.gene95202:CDS |
| TTTCCTTCTGGTAGATCATT+AGG | 0.296213 | 3.2:-13450624 | MS.gene95202:CDS |
| AAAAGATGAGAAGAAGAAAA+TGG | 0.300526 | 3.2:-13449758 | MS.gene95202:CDS |
| TGTTGTTGATTCTGAAACTA+AGG | 0.321396 | 3.2:-13449698 | MS.gene95202:CDS |
| TGATGTGAATTCTTTGGAAT+TGG | 0.357007 | 3.2:-13449995 | MS.gene95202:CDS |
| TTTCAATCTTATCAAGCTCT+TGG | 0.364632 | 3.2:-13449598 | MS.gene95202:CDS |
| AAATGGAAACAGTGCTGAAT+TGG | 0.369267 | 3.2:-13449509 | MS.gene95202:CDS |
| TGATTCTGATTTAGCATTTG+AGG | 0.378036 | 3.2:-13449725 | MS.gene95202:CDS |
| TTAGAAACTAAATGAGTTAA+CGG | 0.378612 | 3.2:+13449967 | None:intergenic |
| AGAGTTTCTGTTGTGGAGAA+TGG | 0.387316 | 3.2:-13449781 | MS.gene95202:CDS |
| TTACATCAGAAGGTGAATTC+AGG | 0.392222 | 3.2:-13449675 | MS.gene95202:CDS |
| CAATCTATGAAAGCTTTGTT+TGG | 0.400642 | 3.2:-13450354 | MS.gene95202:CDS |
| TGTGTAAAGAATGTGGTAAA+GGG | 0.417853 | 3.2:-13450380 | MS.gene95202:CDS |
| AAACAGTGCTGAATTGGAAT+TGG | 0.422103 | 3.2:-13449503 | MS.gene95202:CDS |
| ATGAAGAAGAAAGAAGGTTA+TGG | 0.434835 | 3.2:-13450498 | MS.gene95202:CDS |
| CATTTAGTTTCTAAGATTGA+AGG | 0.437125 | 3.2:-13449958 | MS.gene95202:CDS |
| TTCTGATAATAATGATGAAA+AGG | 0.437329 | 3.2:-13450133 | MS.gene95202:CDS |
| TCTTGAAGCAGAAAACCCTT+TGG | 0.461476 | 3.2:+13449549 | None:intergenic |
| TTGTGTAAAGAATGTGGTAA+AGG | 0.465384 | 3.2:-13450381 | MS.gene95202:CDS |
| TTATCCAAAACAACATCAAA+AGG | 0.478081 | 3.2:+13450405 | None:intergenic |
| TACAAACCATGGTGGTTAGT+TGG | 0.485401 | 3.2:-13449337 | MS.gene95202:CDS |
| CAATCTTATCAAGCTCTTGG+AGG | 0.486800 | 3.2:-13449595 | MS.gene95202:CDS |
| TGTAAATGCTGAGGGAAGAA+TGG | 0.491075 | 3.2:-13449461 | MS.gene95202:CDS |
| GTGAAAGAGTTGCTGAAATG+AGG | 0.492259 | 3.2:-13449432 | MS.gene95202:CDS |
| AGAAGAATGAAGAAGAAAGA+AGG | 0.493856 | 3.2:-13450504 | MS.gene95202:CDS |
| TCATCATCAATACTTGCAGC+AGG | 0.511776 | 3.2:+13449382 | None:intergenic |
| TGAAAGAGTTGCTGAAATGA+GGG | 0.515667 | 3.2:-13449431 | MS.gene95202:CDS |
| GCTAGTCATAAGAGAACCAA+AGG | 0.515740 | 3.2:-13449565 | MS.gene95202:CDS |
| AGTATTGATGATGAAAGAAA+TGG | 0.523984 | 3.2:-13449373 | MS.gene95202:CDS |
| AGAGATGTAAGACCTTGGTT+TGG | 0.525051 | 3.2:-13450072 | MS.gene95202:CDS |
| AAGAGAAAATATCAGAAAAG+AGG | 0.527607 | 3.2:-13449652 | MS.gene95202:CDS |
| ATTTAGTTTCTAAGATTGAA+GGG | 0.534547 | 3.2:-13449957 | MS.gene95202:CDS |
| GAGAGTGAAGGAAATGATGA+TGG | 0.545086 | 3.2:-13449826 | MS.gene95202:CDS |
| ATCAAGCAAGAGGCAATGAT+AGG | 0.560531 | 3.2:-13449307 | MS.gene95202:CDS |
| CCTTCTGGTAGATCATTAGG+TGG | 0.567747 | 3.2:-13450621 | MS.gene95202:CDS |
| GATAAATTGTGTAAAGAATG+TGG | 0.571592 | 3.2:-13450387 | MS.gene95202:CDS |
| GAAACTAAGGTTACATCAGA+AGG | 0.573783 | 3.2:-13449685 | MS.gene95202:CDS |
| TGATGAAAAGGAACAAGAAG+AGG | 0.575044 | 3.2:-13450121 | MS.gene95202:CDS |
| TATGATCATGATGATGATGA+TGG | 0.588201 | 3.2:-13450552 | MS.gene95202:CDS |
| TTAGTAGAGATGTAAGACCT+TGG | 0.592699 | 3.2:-13450077 | MS.gene95202:CDS |
| GAGAGAATCCAAAGAAAACA+TGG | 0.594959 | 3.2:-13450470 | MS.gene95202:CDS |
| AGCTACTAGAGTTTCTGTTG+TGG | 0.601319 | 3.2:-13449788 | MS.gene95202:CDS |
| TGGAAGCAGTATCAAGCAAG+AGG | 0.613537 | 3.2:-13449317 | MS.gene95202:CDS |
| CTAGTCATAAGAGAACCAAA+GGG | 0.617065 | 3.2:-13449564 | MS.gene95202:CDS |
| ATTGGAATTGGAAGTAGATG+TGG | 0.620151 | 3.2:-13449491 | MS.gene95202:CDS |
| GATCATTAGGTGGTCACATG+AGG | 0.626071 | 3.2:-13450611 | MS.gene95202:CDS |
| ATGCTGAGATTTACAAACCA+TGG | 0.628225 | 3.2:-13449348 | MS.gene95202:CDS |
| CCAAAAGAAAGTTAAGAACA+AGG | 0.628452 | 3.2:-13450227 | MS.gene95202:CDS |
| CCACCTAATGATCTACCAGA+AGG | 0.655089 | 3.2:+13450621 | None:intergenic |
| GAGATCAATGTAAATGCTGA+GGG | 0.662113 | 3.2:-13449469 | MS.gene95202:CDS |
| GGAGATCAATGTAAATGCTG+AGG | 0.676945 | 3.2:-13449470 | MS.gene95202:CDS |
| CTGCTTCCAACTAACCACCA+TGG | 0.679286 | 3.2:+13449331 | None:intergenic |
| CTGAGATTTACAAACCATGG+TGG | 0.688746 | 3.2:-13449345 | MS.gene95202:CDS |
| ATAGAATTGATACCAAACCA+AGG | 0.704170 | 3.2:+13450060 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTAGAAACTAAATGAGTTAA+CGG | + | chr3.2:13450005-13450024 | None:intergenic | 20.0% |
| !! | TTCTGATAATAATGATGAAA+AGG | - | chr3.2:13449836-13449855 | MS.gene95202:CDS | 20.0% |
| !!! | ATTTAGTTTCTAAGATTGAA+GGG | - | chr3.2:13450012-13450031 | MS.gene95202:CDS | 20.0% |
| ! | AAAAGATGAGAAGAAGAAAA+TGG | - | chr3.2:13450211-13450230 | MS.gene95202:CDS | 25.0% |
| ! | AAGAGAAAATATCAGAAAAG+AGG | - | chr3.2:13450317-13450336 | MS.gene95202:CDS | 25.0% |
| ! | GATAAATTGTGTAAAGAATG+TGG | - | chr3.2:13449582-13449601 | MS.gene95202:CDS | 25.0% |
| ! | TAACAATGATGTGAATTCTT+TGG | - | chr3.2:13449968-13449987 | MS.gene95202:CDS | 25.0% |
| ! | TTATCCAAAACAACATCAAA+AGG | + | chr3.2:13449567-13449586 | None:intergenic | 25.0% |
| !!! | AGTATTGATGATGAAAGAAA+TGG | - | chr3.2:13450596-13450615 | MS.gene95202:CDS | 25.0% |
| !!! | CATTTAGTTTCTAAGATTGA+AGG | - | chr3.2:13450011-13450030 | MS.gene95202:CDS | 25.0% |
| !!! | GAAGAATAAGAGTTTTGAAT+TGG | - | chr3.2:13449656-13449675 | MS.gene95202:CDS | 25.0% |
| AATGATCAAAGCAGTGAAAA+TGG | - | chr3.2:13450443-13450462 | MS.gene95202:CDS | 30.0% | |
| AGAAGAATGAAGAAGAAAGA+AGG | - | chr3.2:13449465-13449484 | MS.gene95202:CDS | 30.0% | |
| ATAGAATTGATACCAAACCA+AGG | + | chr3.2:13449912-13449931 | None:intergenic | 30.0% | |
| ATGAAGAAGAAAGAAGGTTA+TGG | - | chr3.2:13449471-13449490 | MS.gene95202:CDS | 30.0% | |
| CCAAAAGAAAGTTAAGAACA+AGG | - | chr3.2:13449742-13449761 | MS.gene95202:CDS | 30.0% | |
| GAACAAAAAACCAAAGAAGT+TGG | - | chr3.2:13450073-13450092 | MS.gene95202:CDS | 30.0% | |
| TGATTCTGATTTAGCATTTG+AGG | - | chr3.2:13450244-13450263 | MS.gene95202:CDS | 30.0% | |
| TGTGTAAAGAATGTGGTAAA+GGG | - | chr3.2:13449589-13449608 | MS.gene95202:CDS | 30.0% | |
| TTGTGTAAAGAATGTGGTAA+AGG | - | chr3.2:13449588-13449607 | MS.gene95202:CDS | 30.0% | |
| TTTCAATCTTATCAAGCTCT+TGG | - | chr3.2:13450371-13450390 | MS.gene95202:CDS | 30.0% | |
| ! | AAACCAAAGAAGTTGGATTT+TGG | - | chr3.2:13450080-13450099 | MS.gene95202:CDS | 30.0% |
| ! | AACTTCTAAACTTTTCCCTT+TGG | + | chr3.2:13450114-13450133 | None:intergenic | 30.0% |
| ! | ACTTCTTCTGTTGTGAATTT+TGG | - | chr3.2:13449783-13449802 | MS.gene95202:CDS | 30.0% |
| ! | CCTTGTTCTTAACTTTCTTT+TGG | + | chr3.2:13449745-13449764 | None:intergenic | 30.0% |
| ! | TATGATCATGATGATGATGA+TGG | - | chr3.2:13449417-13449436 | MS.gene95202:CDS | 30.0% |
| !! | AGATCCTTTTGATGTTGTTT+TGG | - | chr3.2:13449560-13449579 | MS.gene95202:CDS | 30.0% |
| !! | CAATCTATGAAAGCTTTGTT+TGG | - | chr3.2:13449615-13449634 | MS.gene95202:CDS | 30.0% |
| !! | TGATGTGAATTCTTTGGAAT+TGG | - | chr3.2:13449974-13449993 | MS.gene95202:CDS | 30.0% |
| !! | TGTTGTTGATTCTGAAACTA+AGG | - | chr3.2:13450271-13450290 | MS.gene95202:CDS | 30.0% |
| !!! | GTTTTTGATAATGAGAGTGA+AGG | - | chr3.2:13450131-13450150 | MS.gene95202:CDS | 30.0% |
| ACACCAAAATCCAACTTCTT+TGG | + | chr3.2:13450086-13450105 | None:intergenic | 35.0% | |
| ATGCTGAGATTTACAAACCA+TGG | - | chr3.2:13450621-13450640 | MS.gene95202:CDS | 35.0% | |
| ATTGGAATTGGAAGTAGATG+TGG | - | chr3.2:13450478-13450497 | MS.gene95202:CDS | 35.0% | |
| CTAGTCATAAGAGAACCAAA+GGG | - | chr3.2:13450405-13450424 | MS.gene95202:CDS | 35.0% | |
| GAAACTAAGGTTACATCAGA+AGG | - | chr3.2:13450284-13450303 | MS.gene95202:CDS | 35.0% | |
| GAGAGAATCCAAAGAAAACA+TGG | - | chr3.2:13449499-13449518 | MS.gene95202:CDS | 35.0% | |
| GAGATCAATGTAAATGCTGA+GGG | - | chr3.2:13450500-13450519 | MS.gene95202:CDS | 35.0% | |
| TGAAAGAGTTGCTGAAATGA+GGG | - | chr3.2:13450538-13450557 | MS.gene95202:CDS | 35.0% | |
| TGATGAAAAGGAACAAGAAG+AGG | - | chr3.2:13449848-13449867 | MS.gene95202:CDS | 35.0% | |
| TTACATCAGAAGGTGAATTC+AGG | - | chr3.2:13450294-13450313 | MS.gene95202:CDS | 35.0% | |
| TTAGTAGAGATGTAAGACCT+TGG | - | chr3.2:13449892-13449911 | MS.gene95202:CDS | 35.0% | |
| TTGGATCTTCTCTTTCTCTT+TGG | + | chr3.2:13449726-13449745 | None:intergenic | 35.0% | |
| TTTCCTTCTGGTAGATCATT+AGG | - | chr3.2:13449345-13449364 | MS.gene95202:CDS | 35.0% | |
| ! | AAACAGTGCTGAATTGGAAT+TGG | - | chr3.2:13450466-13450485 | MS.gene95202:CDS | 35.0% |
| ! | AAATGGAAACAGTGCTGAAT+TGG | - | chr3.2:13450460-13450479 | MS.gene95202:CDS | 35.0% |
| ! | AGTACTCTCCATGTTTTCTT+TGG | + | chr3.2:13449510-13449529 | None:intergenic | 35.0% |
| ! | TGCAGAAAGAATTTTCCTTC+TGG | - | chr3.2:13449333-13449352 | MS.gene95202:CDS | 35.0% |
| !!! | ATTTTGGTGTTGAGTCCAAA+GGG | - | chr3.2:13450096-13450115 | MS.gene95202:CDS | 35.0% |
| AGAGATGTAAGACCTTGGTT+TGG | - | chr3.2:13449897-13449916 | MS.gene95202:CDS | 40.0% | |
| AGAGTTTCTGTTGTGGAGAA+TGG | - | chr3.2:13450188-13450207 | MS.gene95202:CDS | 40.0% | |
| AGCTACTAGAGTTTCTGTTG+TGG | - | chr3.2:13450181-13450200 | MS.gene95202:CDS | 40.0% | |
| ATCAAGCAAGAGGCAATGAT+AGG | - | chr3.2:13450662-13450681 | MS.gene95202:CDS | 40.0% | |
| CAATCTTATCAAGCTCTTGG+AGG | - | chr3.2:13450374-13450393 | MS.gene95202:CDS | 40.0% | |
| CTGAGATTTACAAACCATGG+TGG | - | chr3.2:13450624-13450643 | MS.gene95202:CDS | 40.0% | |
| GAGAGTGAAGGAAATGATGA+TGG | - | chr3.2:13450143-13450162 | MS.gene95202:CDS | 40.0% | |
| GCTAGTCATAAGAGAACCAA+AGG | - | chr3.2:13450404-13450423 | MS.gene95202:CDS | 40.0% | |
| GGAGATCAATGTAAATGCTG+AGG | - | chr3.2:13450499-13450518 | MS.gene95202:CDS | 40.0% | |
| GTGAAAGAGTTGCTGAAATG+AGG | - | chr3.2:13450537-13450556 | MS.gene95202:CDS | 40.0% | |
| TACAAACCATGGTGGTTAGT+TGG | - | chr3.2:13450632-13450651 | MS.gene95202:CDS | 40.0% | |
| TCATCATCAATACTTGCAGC+AGG | + | chr3.2:13450590-13450609 | None:intergenic | 40.0% | |
| TCTTGAAGCAGAAAACCCTT+TGG | + | chr3.2:13450423-13450442 | None:intergenic | 40.0% | |
| TGTAAATGCTGAGGGAAGAA+TGG | - | chr3.2:13450508-13450527 | MS.gene95202:CDS | 40.0% | |
| !!! | GATTTTGGTGTTGAGTCCAA+AGG | - | chr3.2:13450095-13450114 | MS.gene95202:CDS | 40.0% |
| CCACCTAATGATCTACCAGA+AGG | + | chr3.2:13449351-13449370 | None:intergenic | 45.0% | |
| CCTTCTGGTAGATCATTAGG+TGG | - | chr3.2:13449348-13449367 | MS.gene95202:CDS | 45.0% | |
| GATCATTAGGTGGTCACATG+AGG | - | chr3.2:13449358-13449377 | MS.gene95202:CDS | 45.0% | |
| TGGAAGCAGTATCAAGCAAG+AGG | - | chr3.2:13450652-13450671 | MS.gene95202:CDS | 45.0% | |
| CTGCTTCCAACTAACCACCA+TGG | + | chr3.2:13450641-13450660 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.2 | gene | 13449291 | 13450700 | 13449291 | ID=MS.gene95202 |
| chr3.2 | mRNA | 13449291 | 13450700 | 13449291 | ID=MS.gene95202.t1;Parent=MS.gene95202 |
| chr3.2 | exon | 13449291 | 13450700 | 13449291 | ID=MS.gene95202.t1.exon1;Parent=MS.gene95202.t1 |
| chr3.2 | CDS | 13449291 | 13450700 | 13449291 | ID=cds.MS.gene95202.t1;Parent=MS.gene95202.t1 |
| Gene Sequence |
| Protein sequence |
