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.gene88946.t1 | XP_003589562.1 | 91.7 | 253 | 15 | 2 | 1 | 253 | 1 | 247 | 6.20E-128 | 466.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene88946.t1 | Q9SGS5 | 31.0 | 284 | 134 | 9 | 4 | 249 | 13 | 272 | 1.4e-19 | 98.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene88946.t1 | G7I8D2 | 91.7 | 253 | 15 | 2 | 1 | 253 | 1 | 247 | 4.5e-128 | 466.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049181 | MS.gene88946 | 0.801331 | 9.47E-49 | -1.69E-46 |
| MS.gene051226 | MS.gene88946 | 0.80861 | 2.85E-50 | -1.69E-46 |
| MS.gene051959 | MS.gene88946 | 0.809755 | 1.62E-50 | -1.69E-46 |
| MS.gene051960 | MS.gene88946 | 0.809828 | 1.56E-50 | -1.69E-46 |
| MS.gene052053 | MS.gene88946 | 0.800021 | 1.75E-48 | -1.69E-46 |
| MS.gene053932 | MS.gene88946 | 0.839318 | 1.70E-57 | -1.69E-46 |
| MS.gene055150 | MS.gene88946 | 0.804547 | 2.05E-49 | -1.69E-46 |
| MS.gene055549 | MS.gene88946 | 0.838444 | 2.86E-57 | -1.69E-46 |
| MS.gene055550 | MS.gene88946 | 0.836418 | 9.47E-57 | -1.69E-46 |
| MS.gene055551 | MS.gene88946 | 0.835201 | 1.93E-56 | -1.69E-46 |
| MS.gene056530 | MS.gene88946 | 0.836824 | 7.46E-57 | -1.69E-46 |
| MS.gene057093 | MS.gene88946 | 0.849056 | 4.13E-60 | -1.69E-46 |
| MS.gene057167 | MS.gene88946 | 0.810033 | 1.41E-50 | -1.69E-46 |
| MS.gene057622 | MS.gene88946 | 0.832844 | 7.50E-56 | -1.69E-46 |
| MS.gene06023 | MS.gene88946 | 0.823052 | 1.70E-53 | -1.69E-46 |
| MS.gene060446 | MS.gene88946 | 0.808467 | 3.05E-50 | -1.69E-46 |
| MS.gene060964 | MS.gene88946 | 0.826853 | 2.16E-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.gene88946.t1 | MTR_1g026110 | 91.700 | 253 | 15 | 2 | 1 | 253 | 1 | 247 | 7.46e-163 | 451 |
| MS.gene88946.t1 | MTR_3g114750 | 48.669 | 263 | 98 | 11 | 4 | 249 | 2 | 244 | 1.12e-59 | 189 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene88946.t1 | AT1G76070 | 32.601 | 273 | 122 | 10 | 15 | 249 | 24 | 272 | 4.41e-28 | 108 |
| MS.gene88946.t1 | AT1G20310 | 33.948 | 271 | 121 | 11 | 1 | 246 | 1 | 238 | 7.07e-27 | 104 |
Find 59 sgRNAs with CRISPR-Local
Find 69 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAGAGATCTTTGTTGGGTTT+TGG | 0.236347 | 1.3:+181720 | None:intergenic |
| TCCCTTTGATCAATTTCTTC+AGG | 0.304197 | 1.3:+181477 | None:intergenic |
| TTCACCAAAGATTTCTTGTA+TGG | 0.307383 | 1.3:-181775 | MS.gene88946:CDS |
| TCACTGCCACCACCATCTTT+AGG | 0.323727 | 1.3:+181813 | None:intergenic |
| CCTAAAATAGGTGCAGAAAA+TGG | 0.326900 | 1.3:+181417 | None:intergenic |
| TTTCCACCAACACCTAAAAT+AGG | 0.335034 | 1.3:+181405 | None:intergenic |
| CTAAATTTGTGATCTCTTCC+TGG | 0.339147 | 1.3:+181939 | None:intergenic |
| TTTACCTCCGTATCCACCTT+TGG | 0.373153 | 1.3:+181681 | None:intergenic |
| GAAAGGAAATCAGATGGTTC+TGG | 0.386986 | 1.3:-181606 | MS.gene88946:CDS |
| CAAGAAATCTTTGGTGAAGT+AGG | 0.393822 | 1.3:+181780 | None:intergenic |
| CAAGGAATGAGATTAATCTT+TGG | 0.407911 | 1.3:-181344 | MS.gene88946:CDS |
| TGAAGTGAAGAGATCTTTGT+TGG | 0.422789 | 1.3:+181713 | None:intergenic |
| TTAGGTGTTGGTGGAAATAG+TGG | 0.423953 | 1.3:-181399 | MS.gene88946:CDS |
| TGTCCCATACAAGAAATCTT+TGG | 0.426848 | 1.3:+181771 | None:intergenic |
| GCCTGAAGAAATTGATCAAA+GGG | 0.432040 | 1.3:-181478 | MS.gene88946:CDS |
| CAAAGATTAATCTCATTCCT+TGG | 0.442885 | 1.3:+181345 | None:intergenic |
| CAAAACGCTCCTTTCAGTCC+AGG | 0.469371 | 1.3:-181957 | MS.gene88946:CDS |
| AGAAAATAACACAAAGTCAT+GGG | 0.481776 | 1.3:-181913 | MS.gene88946:CDS |
| GGTTCTGGATTTGTTGATGA+AGG | 0.482613 | 1.3:-181591 | MS.gene88946:CDS |
| CAAAGGGATTGCTTTACTGA+TGG | 0.491176 | 1.3:-181462 | MS.gene88946:CDS |
| GTCCACTCCAAAGGTGGATA+CGG | 0.496075 | 1.3:-181688 | MS.gene88946:CDS |
| CACCGCCGATGGGTGATATG+AGG | 0.497283 | 1.3:-181557 | MS.gene88946:CDS |
| GGATTCAACTGAAGAGGCCT+AGG | 0.502469 | 1.3:+181300 | None:intergenic |
| ATTTATTTAGCTTTAAGCAC+AGG | 0.503675 | 1.3:+181279 | None:intergenic |
| AAAACTCATGCTACTGGTAA+GGG | 0.508213 | 1.3:-181885 | MS.gene88946:CDS |
| CTGATTTGAAGTTTAAGCCA+AGG | 0.518893 | 1.3:-181362 | MS.gene88946:CDS |
| TGATCTCTTCCTGGACTGAA+AGG | 0.521071 | 1.3:+181948 | None:intergenic |
| GAAGTGAAGAGATCTTTGTT+GGG | 0.526399 | 1.3:+181714 | None:intergenic |
| CAGAAAATAACACAAAGTCA+TGG | 0.527453 | 1.3:-181914 | MS.gene88946:CDS |
| AAGAGAAACAAAGTAAGCTA+AGG | 0.530956 | 1.3:-182013 | MS.gene88946:CDS |
| CACTTCAGTGTCCACTCCAA+AGG | 0.531319 | 1.3:-181697 | MS.gene88946:CDS |
| GCTAGAAGAAAACCTAAAGA+TGG | 0.536495 | 1.3:-181825 | MS.gene88946:CDS |
| AGCCTGAAGAAATTGATCAA+AGG | 0.541841 | 1.3:-181479 | MS.gene88946:CDS |
| TAAAGAGATCGAAGTTTCAG+AGG | 0.548970 | 1.3:-181662 | MS.gene88946:CDS |
| CTCCGTATCCACCTTTGGAG+TGG | 0.551516 | 1.3:+181686 | None:intergenic |
| AACAACAAAGCACCGCCGAT+GGG | 0.567253 | 1.3:-181567 | MS.gene88946:CDS |
| AGCACAGGATTCAACTGAAG+AGG | 0.568748 | 1.3:+181294 | None:intergenic |
| TCACCAAAGATTTCTTGTAT+GGG | 0.570550 | 1.3:-181774 | MS.gene88946:CDS |
| GTTCTGGATTTGTTGATGAA+GGG | 0.581024 | 1.3:-181590 | MS.gene88946:CDS |
| TTCAGTGTCCACTCCAAAGG+TGG | 0.587831 | 1.3:-181694 | MS.gene88946:CDS |
| TATGGAATCATAGTAACCAT+AGG | 0.589627 | 1.3:+181852 | None:intergenic |
| GAACAACAAAGCACCGCCGA+TGG | 0.591209 | 1.3:-181568 | MS.gene88946:CDS |
| GAGATTTGCAAGTGGACGTG+AGG | 0.598149 | 1.3:-181535 | MS.gene88946:CDS |
| TTTGCGGAAAGGAAATCAGA+TGG | 0.598533 | 1.3:-181612 | MS.gene88946:CDS |
| TTGCTTTACTGATGGAGAGG+AGG | 0.603818 | 1.3:-181454 | MS.gene88946:CDS |
| AGAAAACCTAAAGATGGTGG+TGG | 0.605084 | 1.3:-181819 | MS.gene88946:CDS |
| GGATTGCTTTACTGATGGAG+AGG | 0.611817 | 1.3:-181457 | MS.gene88946:CDS |
| CTAAAGCGAAATTTGCGGAA+AGG | 0.612185 | 1.3:-181623 | MS.gene88946:CDS |
| GAAGAACAATGGCTCCACCT+AGG | 0.627085 | 1.3:-181317 | MS.gene88946:CDS |
| TTCAACTGAAGAGGCCTAGG+TGG | 0.634353 | 1.3:+181303 | None:intergenic |
| AGAAGAAAACCTAAAGATGG+TGG | 0.634473 | 1.3:-181822 | MS.gene88946:CDS |
| TCTTTGGAAGAGAAGAACAA+TGG | 0.638654 | 1.3:-181328 | MS.gene88946:CDS |
| AATCTCCTCATATCACCCAT+CGG | 0.643282 | 1.3:+181552 | None:intergenic |
| GAAAATAACACAAAGTCATG+GGG | 0.645047 | 1.3:-181912 | MS.gene88946:CDS |
| CACTCCAAAGGTGGATACGG+AGG | 0.660956 | 1.3:-181685 | MS.gene88946:CDS |
| AAATAGTGGTACATCTAATG+TGG | 0.671533 | 1.3:-181385 | MS.gene88946:CDS |
| CTCCTCATATCACCCATCGG+CGG | 0.680805 | 1.3:+181555 | None:intergenic |
| GAGGTCTAAAGCGAAATTTG+CGG | 0.681767 | 1.3:-181628 | MS.gene88946:CDS |
| GATATGAGGAGATTTGCAAG+TGG | 0.723470 | 1.3:-181543 | MS.gene88946:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTTCTAAATTTGATTGGA+AGG | - | chr1.3:181790-181809 | MS.gene88946:CDS | 20.0% |
| ! | AGAAAATAACACAAAGTCAT+GGG | - | chr1.3:181388-181407 | MS.gene88946:CDS | 25.0% |
| !!! | AGGCTTTTTCTAAATTTGAT+TGG | - | chr1.3:181786-181805 | MS.gene88946:CDS | 25.0% |
| AAATAGTGGTACATCTAATG+TGG | - | chr1.3:181916-181935 | MS.gene88946:CDS | 30.0% | |
| AAGAGAAACAAAGTAAGCTA+AGG | - | chr1.3:181288-181307 | MS.gene88946:CDS | 30.0% | |
| CAAAGATTAATCTCATTCCT+TGG | + | chr1.3:181959-181978 | None:intergenic | 30.0% | |
| CAAGGAATGAGATTAATCTT+TGG | - | chr1.3:181957-181976 | MS.gene88946:CDS | 30.0% | |
| CAGAAAATAACACAAAGTCA+TGG | - | chr1.3:181387-181406 | MS.gene88946:CDS | 30.0% | |
| GAAAATAACACAAAGTCATG+GGG | - | chr1.3:181389-181408 | MS.gene88946:CDS | 30.0% | |
| TATGGAATCATAGTAACCAT+AGG | + | chr1.3:181452-181471 | None:intergenic | 30.0% | |
| TCACCAAAGATTTCTTGTAT+GGG | - | chr1.3:181527-181546 | MS.gene88946:CDS | 30.0% | |
| TTCACCAAAGATTTCTTGTA+TGG | - | chr1.3:181526-181545 | MS.gene88946:CDS | 30.0% | |
| AAAAACTCATGCTACTGGTA+AGG | - | chr1.3:181415-181434 | MS.gene88946:CDS | 35.0% | |
| AAAACTCATGCTACTGGTAA+GGG | - | chr1.3:181416-181435 | MS.gene88946:CDS | 35.0% | |
| AGAAGAAAACCTAAAGATGG+TGG | - | chr1.3:181479-181498 | MS.gene88946:CDS | 35.0% | |
| AGCCTGAAGAAATTGATCAA+AGG | - | chr1.3:181822-181841 | MS.gene88946:CDS | 35.0% | |
| CAAGAAATCTTTGGTGAAGT+AGG | + | chr1.3:181524-181543 | None:intergenic | 35.0% | |
| CCTAAAATAGGTGCAGAAAA+TGG | + | chr1.3:181887-181906 | None:intergenic | 35.0% | |
| CTAAATTTGTGATCTCTTCC+TGG | + | chr1.3:181365-181384 | None:intergenic | 35.0% | |
| GAAGTGAAGAGATCTTTGTT+GGG | + | chr1.3:181590-181609 | None:intergenic | 35.0% | |
| GCCTGAAGAAATTGATCAAA+GGG | - | chr1.3:181823-181842 | MS.gene88946:CDS | 35.0% | |
| GCTAGAAGAAAACCTAAAGA+TGG | - | chr1.3:181476-181495 | MS.gene88946:CDS | 35.0% | |
| TAAAGAGATCGAAGTTTCAG+AGG | - | chr1.3:181639-181658 | MS.gene88946:CDS | 35.0% | |
| TCCCTTTGATCAATTTCTTC+AGG | + | chr1.3:181827-181846 | None:intergenic | 35.0% | |
| TGAAGTGAAGAGATCTTTGT+TGG | + | chr1.3:181591-181610 | None:intergenic | 35.0% | |
| TGTCCCATACAAGAAATCTT+TGG | + | chr1.3:181533-181552 | None:intergenic | 35.0% | |
| TTTCCACCAACACCTAAAAT+AGG | + | chr1.3:181899-181918 | None:intergenic | 35.0% | |
| ! | AAGAGATCTTTGTTGGGTTT+TGG | + | chr1.3:181584-181603 | None:intergenic | 35.0% |
| ! | CCATTTTCTGCACCTATTTT+AGG | - | chr1.3:181884-181903 | MS.gene88946:CDS | 35.0% |
| ! | CTGATTTGAAGTTTAAGCCA+AGG | - | chr1.3:181939-181958 | MS.gene88946:CDS | 35.0% |
| ! | TCTTTGGAAGAGAAGAACAA+TGG | - | chr1.3:181973-181992 | MS.gene88946:CDS | 35.0% |
| !! | GTTCTGGATTTGTTGATGAA+GGG | - | chr1.3:181711-181730 | MS.gene88946:CDS | 35.0% |
| !!! | GGTTTTCTTCTAGCTTCATA+TGG | + | chr1.3:181470-181489 | None:intergenic | 35.0% |
| AATCTCCTCATATCACCCAT+CGG | + | chr1.3:181752-181771 | None:intergenic | 40.0% | |
| CAAAGGGATTGCTTTACTGA+TGG | - | chr1.3:181839-181858 | MS.gene88946:CDS | 40.0% | |
| CTAAAGCGAAATTTGCGGAA+AGG | - | chr1.3:181678-181697 | MS.gene88946:CDS | 40.0% | |
| GAAAGGAAATCAGATGGTTC+TGG | - | chr1.3:181695-181714 | MS.gene88946:CDS | 40.0% | |
| GATATGAGGAGATTTGCAAG+TGG | - | chr1.3:181758-181777 | MS.gene88946:CDS | 40.0% | |
| TTTGCGGAAAGGAAATCAGA+TGG | - | chr1.3:181689-181708 | MS.gene88946:CDS | 40.0% | |
| ! | AGAAAACCTAAAGATGGTGG+TGG | - | chr1.3:181482-181501 | MS.gene88946:CDS | 40.0% |
| ! | GAGGTCTAAAGCGAAATTTG+CGG | - | chr1.3:181673-181692 | MS.gene88946:CDS | 40.0% |
| ! | TAAGGGATTTTCTGGACCTA+TGG | - | chr1.3:181433-181452 | MS.gene88946:CDS | 40.0% |
| !! | GGTTCTGGATTTGTTGATGA+AGG | - | chr1.3:181710-181729 | MS.gene88946:CDS | 40.0% |
| !! | TCTGCACCTATTTTAGGTGT+TGG | - | chr1.3:181890-181909 | MS.gene88946:CDS | 40.0% |
| !! | TTAGGTGTTGGTGGAAATAG+TGG | - | chr1.3:181902-181921 | MS.gene88946:CDS | 40.0% |
| !!! | TTCAGAGGATTTTTTCGCAG+AGG | - | chr1.3:181654-181673 | MS.gene88946:CDS | 40.0% |
| AGCACAGGATTCAACTGAAG+AGG | + | chr1.3:182010-182029 | None:intergenic | 45.0% | |
| GGATTGCTTTACTGATGGAG+AGG | - | chr1.3:181844-181863 | MS.gene88946:CDS | 45.0% | |
| GGTGCAAAAACTCATGCTAC+TGG | - | chr1.3:181410-181429 | MS.gene88946:CDS | 45.0% | |
| TGATCTCTTCCTGGACTGAA+AGG | + | chr1.3:181356-181375 | None:intergenic | 45.0% | |
| TTGCTTTACTGATGGAGAGG+AGG | - | chr1.3:181847-181866 | MS.gene88946:CDS | 45.0% | |
| TTTACCTCCGTATCCACCTT+TGG | + | chr1.3:181623-181642 | None:intergenic | 45.0% | |
| ! | GCTACTGGTAAGGGATTTTC+TGG | - | chr1.3:181425-181444 | MS.gene88946:CDS | 45.0% |
| !!! | GCACCTATTTTAGGTGTTGG+TGG | - | chr1.3:181893-181912 | MS.gene88946:CDS | 45.0% |
| CAAAACGCTCCTTTCAGTCC+AGG | - | chr1.3:181344-181363 | MS.gene88946:CDS | 50.0% | |
| CACTTCAGTGTCCACTCCAA+AGG | - | chr1.3:181604-181623 | MS.gene88946:CDS | 50.0% | |
| GAAGAACAATGGCTCCACCT+AGG | - | chr1.3:181984-182003 | MS.gene88946:CDS | 50.0% | |
| GAGATTTGCAAGTGGACGTG+AGG | - | chr1.3:181766-181785 | MS.gene88946:CDS | 50.0% | |
| GGATTCAACTGAAGAGGCCT+AGG | + | chr1.3:182004-182023 | None:intergenic | 50.0% | |
| GTCCACTCCAAAGGTGGATA+CGG | - | chr1.3:181613-181632 | MS.gene88946:CDS | 50.0% | |
| TCACTGCCACCACCATCTTT+AGG | + | chr1.3:181491-181510 | None:intergenic | 50.0% | |
| TTCAACTGAAGAGGCCTAGG+TGG | + | chr1.3:182001-182020 | None:intergenic | 50.0% | |
| TTCAGTGTCCACTCCAAAGG+TGG | - | chr1.3:181607-181626 | MS.gene88946:CDS | 50.0% | |
| !! | AACAACAAAGCACCGCCGAT+GGG | - | chr1.3:181734-181753 | MS.gene88946:CDS | 50.0% |
| CACTCCAAAGGTGGATACGG+AGG | - | chr1.3:181616-181635 | MS.gene88946:CDS | 55.0% | |
| CTCCTCATATCACCCATCGG+CGG | + | chr1.3:181749-181768 | None:intergenic | 55.0% | |
| ! | CTCCGTATCCACCTTTGGAG+TGG | + | chr1.3:181618-181637 | None:intergenic | 55.0% |
| !! | GAACAACAAAGCACCGCCGA+TGG | - | chr1.3:181733-181752 | MS.gene88946:CDS | 55.0% |
| CACCGCCGATGGGTGATATG+AGG | - | chr1.3:181744-181763 | MS.gene88946:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.3 | gene | 181281 | 182042 | 181281 | ID=MS.gene88946 |
| chr1.3 | mRNA | 181281 | 182042 | 181281 | ID=MS.gene88946.t1;Parent=MS.gene88946 |
| chr1.3 | exon | 181281 | 182042 | 181281 | ID=MS.gene88946.t1.exon1;Parent=MS.gene88946.t1 |
| chr1.3 | CDS | 181281 | 182042 | 181281 | ID=cds.MS.gene88946.t1;Parent=MS.gene88946.t1 |
| Gene Sequence |
| Protein sequence |
