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.gene42336.t1 | XP_013462127.2 | 98.9 | 92 | 1 | 0 | 1 | 92 | 1 | 92 | 2.80E-46 | 194.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene42336.t1 | F4JVB8 | 48.3 | 89 | 43 | 2 | 3 | 91 | 14 | 99 | 2.1e-18 | 92.8 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene42336.t1 | A0A396IZP4 | 98.9 | 92 | 1 | 0 | 1 | 92 | 1 | 92 | 2.0e-46 | 194.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene42336.t1 | TF | MYB-related |
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.gene42336.t1 | MTR_3g111920 | 98.810 | 84 | 1 | 0 | 1 | 84 | 1 | 84 | 2.04e-58 | 174 |
| MS.gene42336.t1 | MTR_1g022290 | 47.253 | 91 | 45 | 1 | 2 | 92 | 6 | 93 | 1.21e-28 | 99.0 |
| MS.gene42336.t1 | MTR_3g111880 | 43.333 | 90 | 46 | 1 | 3 | 92 | 7 | 91 | 1.10e-22 | 84.0 |
| MS.gene42336.t1 | MTR_3g116720 | 53.846 | 65 | 30 | 0 | 3 | 67 | 16 | 80 | 8.73e-22 | 81.3 |
| MS.gene42336.t1 | MTR_8g077360 | 52.632 | 76 | 31 | 2 | 1 | 76 | 3 | 73 | 3.57e-21 | 79.7 |
| MS.gene42336.t1 | MTR_8g077380 | 54.412 | 68 | 30 | 1 | 2 | 69 | 4 | 70 | 6.34e-21 | 79.0 |
| MS.gene42336.t1 | MTR_8g077390 | 54.412 | 68 | 30 | 1 | 2 | 69 | 4 | 70 | 6.34e-21 | 79.0 |
| MS.gene42336.t1 | MTR_8g077420 | 59.016 | 61 | 24 | 1 | 3 | 63 | 5 | 64 | 1.32e-20 | 78.2 |
| MS.gene42336.t1 | MTR_5g020170 | 43.750 | 80 | 41 | 1 | 1 | 76 | 17 | 96 | 1.33e-20 | 79.0 |
| MS.gene42336.t1 | MTR_7g089210 | 54.098 | 61 | 28 | 0 | 6 | 66 | 15 | 75 | 1.51e-18 | 73.2 |
| MS.gene42336.t1 | MTR_6g004250 | 46.875 | 64 | 34 | 0 | 2 | 65 | 9 | 72 | 6.41e-18 | 71.6 |
| MS.gene42336.t1 | MTR_5g020540 | 53.226 | 62 | 28 | 1 | 2 | 63 | 3 | 63 | 7.07e-18 | 70.9 |
| MS.gene42336.t1 | MTR_3g013440 | 39.130 | 92 | 46 | 2 | 2 | 92 | 9 | 91 | 4.49e-17 | 69.7 |
| MS.gene42336.t1 | MTR_1g033600 | 40.299 | 67 | 40 | 0 | 3 | 69 | 12 | 78 | 5.24e-16 | 68.2 |
| MS.gene42336.t1 | MTR_5g081860 | 40.299 | 67 | 40 | 0 | 3 | 69 | 27 | 93 | 1.04e-13 | 64.3 |
| MS.gene42336.t1 | MTR_8g063870 | 42.857 | 63 | 36 | 0 | 3 | 65 | 8 | 70 | 6.02e-13 | 62.4 |
| MS.gene42336.t1 | MTR_5g069710 | 44.444 | 63 | 35 | 0 | 3 | 65 | 29 | 91 | 2.51e-12 | 60.8 |
| MS.gene42336.t1 | MTR_8g063600 | 39.683 | 63 | 38 | 0 | 3 | 65 | 10 | 72 | 3.15e-12 | 60.5 |
| MS.gene42336.t1 | MTR_7g067080 | 46.032 | 63 | 34 | 0 | 3 | 65 | 35 | 97 | 3.36e-12 | 60.5 |
| MS.gene42336.t1 | MTR_3g462790 | 44.444 | 63 | 35 | 0 | 3 | 65 | 43 | 105 | 6.28e-12 | 60.1 |
| MS.gene42336.t1 | MTR_1g111830 | 38.028 | 71 | 42 | 2 | 3 | 72 | 24 | 93 | 2.17e-11 | 57.8 |
| MS.gene42336.t1 | MTR_1g086180 | 53.571 | 56 | 25 | 1 | 2 | 56 | 10 | 65 | 4.44e-11 | 54.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene42336.t1 | AT4G39250 | 47.778 | 90 | 44 | 2 | 3 | 92 | 14 | 100 | 7.55e-26 | 92.4 |
| MS.gene42336.t1 | AT1G75250 | 48.889 | 90 | 41 | 2 | 3 | 91 | 12 | 97 | 3.43e-25 | 90.5 |
| MS.gene42336.t1 | AT1G75250 | 57.812 | 64 | 27 | 0 | 3 | 66 | 12 | 75 | 5.74e-23 | 85.9 |
| MS.gene42336.t1 | AT1G19510 | 59.016 | 61 | 25 | 0 | 6 | 66 | 15 | 75 | 1.21e-21 | 81.6 |
| MS.gene42336.t1 | AT2G21650 | 43.333 | 90 | 49 | 2 | 3 | 92 | 14 | 101 | 3.91e-21 | 80.5 |
| MS.gene42336.t1 | AT5G05790 | 50.000 | 64 | 32 | 0 | 3 | 66 | 31 | 94 | 2.39e-16 | 71.6 |
| MS.gene42336.t1 | AT5G05790 | 50.000 | 64 | 32 | 0 | 3 | 66 | 31 | 94 | 2.39e-16 | 71.6 |
| MS.gene42336.t1 | AT2G18328 | 51.667 | 60 | 29 | 0 | 7 | 66 | 15 | 74 | 5.67e-16 | 66.6 |
| MS.gene42336.t1 | AT3G11280 | 41.176 | 68 | 40 | 0 | 3 | 70 | 33 | 100 | 3.73e-15 | 68.6 |
| MS.gene42336.t1 | AT3G11280 | 41.176 | 68 | 40 | 0 | 3 | 70 | 33 | 100 | 3.73e-15 | 68.6 |
| MS.gene42336.t1 | AT5G08520 | 40.244 | 82 | 49 | 0 | 3 | 84 | 12 | 93 | 6.09e-15 | 68.2 |
| MS.gene42336.t1 | AT2G38090 | 46.032 | 63 | 34 | 0 | 3 | 65 | 29 | 91 | 9.95e-14 | 64.7 |
| MS.gene42336.t1 | AT4G36570 | 61.364 | 44 | 17 | 0 | 3 | 46 | 12 | 55 | 1.17e-13 | 60.1 |
| MS.gene42336.t1 | AT5G58900 | 46.032 | 63 | 34 | 0 | 3 | 65 | 34 | 96 | 1.27e-12 | 61.6 |
| MS.gene42336.t1 | AT1G49010 | 38.667 | 75 | 43 | 1 | 3 | 74 | 8 | 82 | 1.80e-12 | 61.6 |
| MS.gene42336.t1 | AT5G01200 | 39.506 | 81 | 48 | 1 | 3 | 82 | 30 | 110 | 7.80e-12 | 59.3 |
| MS.gene42336.t1 | AT5G04760 | 39.683 | 63 | 37 | 1 | 3 | 65 | 6 | 67 | 8.44e-11 | 56.2 |
Find 24 sgRNAs with CRISPR-Local
Find 78 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATCAACAATGGAAGGCAATT+TGG | 0.250643 | 3.2:-89336483 | MS.gene42336:CDS |
| TGCCACCGATTTGGATCTTC+TGG | 0.260812 | 3.2:+89336642 | None:intergenic |
| AAATCCCACTGCCAACTTAC+AGG | 0.308746 | 3.2:-89336524 | MS.gene42336:CDS |
| GCCACATGTTGCCACCGATT+TGG | 0.310871 | 3.2:+89336633 | None:intergenic |
| TTCGAATGAGATCTTCCTTT+AGG | 0.339675 | 3.2:+89336559 | None:intergenic |
| GAGGATGCACTTGCAGTATA+TGG | 0.363746 | 3.2:-89336666 | MS.gene42336:CDS |
| GACAAATTAGCAGCATGGGT+TGG | 0.508959 | 3.2:-89336713 | None:intergenic |
| AATCCCACTGCCAACTTACA+GGG | 0.517510 | 3.2:-89336523 | MS.gene42336:CDS |
| CCAACTTACAGGGGAGGTGC+TGG | 0.534339 | 3.2:-89336513 | MS.gene42336:CDS |
| CTCCCCTGTAAGTTGGCAGT+GGG | 0.537457 | 3.2:+89336520 | None:intergenic |
| CCAGCACCTCCCCTGTAAGT+TGG | 0.540006 | 3.2:+89336513 | None:intergenic |
| CAACATGTGGCTAATGCTGT+TGG | 0.541304 | 3.2:-89336621 | MS.gene42336:CDS |
| GGCAATTTGGCAATGAGCAA+AGG | 0.543201 | 3.2:-89336470 | MS.gene42336:intron |
| CCTCCCCTGTAAGTTGGCAG+TGG | 0.556127 | 3.2:+89336519 | None:intergenic |
| ATGGTCCAGAAGATCCAAAT+CGG | 0.560223 | 3.2:-89336647 | MS.gene42336:CDS |
| CATGTGGCTAATGCTGTTGG+TGG | 0.579036 | 3.2:-89336618 | MS.gene42336:CDS |
| TCCAAATCGGTGGCAACATG+TGG | 0.582584 | 3.2:-89336634 | MS.gene42336:CDS |
| AATGCATTACGAGATCCTAA+AGG | 0.590523 | 3.2:-89336574 | MS.gene42336:CDS |
| GCTGGTATCAATATCAACAA+TGG | 0.592424 | 3.2:-89336495 | MS.gene42336:CDS |
| GTATCAATATCAACAATGGA+AGG | 0.611037 | 3.2:-89336491 | MS.gene42336:CDS |
| TGGTGGAAAATCCATACAAG+AGG | 0.660309 | 3.2:-89336601 | MS.gene42336:CDS |
| ATCCCACTGCCAACTTACAG+GGG | 0.669431 | 3.2:-89336522 | MS.gene42336:CDS |
| CCACTGCCAACTTACAGGGG+AGG | 0.671704 | 3.2:-89336519 | MS.gene42336:CDS |
| GTCCAGAAGATCCAAATCGG+TGG | 0.678303 | 3.2:-89336644 | MS.gene42336:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATTATATATATATGCATTA+CGG | + | chr3.2:89336435-89336454 | None:intergenic | 10.0% |
| !! | GTTAATTATATATAATTAAG+TGG | + | chr3.2:89336606-89336625 | None:intergenic | 10.0% |
| !! | TATTAAGTATTAAAATTGTT+TGG | - | chr3.2:89336288-89336307 | MS.gene42336:intron | 10.0% |
| !! | ACACAATAATAAGAATTAAT+AGG | + | chr3.2:89336658-89336677 | None:intergenic | 15.0% |
| !! | ATTATATATAATTAACTCTC+AGG | - | chr3.2:89336610-89336629 | MS.gene42336:CDS | 15.0% |
| !! | CACAATAATAAGAATTAATA+GGG | + | chr3.2:89336657-89336676 | None:intergenic | 15.0% |
| !!! | AATTTTACTTATTTTTTGAC+CGG | - | chr3.2:89335942-89335961 | MS.gene42336:intron | 15.0% |
| !!! | GAAGGTATATAAAAAATTTA+CGG | - | chr3.2:89336228-89336247 | MS.gene42336:intron | 15.0% |
| !!! | TAAGTAATATTAACTTTTCT+TGG | + | chr3.2:89335743-89335762 | None:intergenic | 15.0% |
| !! | AGGATAAAAGTCTAATAATT+CGG | + | chr3.2:89335971-89335990 | None:intergenic | 20.0% |
| !! | ATAATTTGAAAGAAATCGAA+AGG | + | chr3.2:89335899-89335918 | None:intergenic | 20.0% |
| !! | CGTAAAATATATTCTATTGA+AGG | - | chr3.2:89336210-89336229 | MS.gene42336:intron | 20.0% |
| !! | TAAAATTAGTTACTTGACAA+TGG | + | chr3.2:89335929-89335948 | None:intergenic | 20.0% |
| !! | TCTATAAAGAGAAAGAAATA+TGG | - | chr3.2:89336340-89336359 | MS.gene42336:intron | 20.0% |
| !! | TTGAAAATATCAAAAGACAT+TGG | + | chr3.2:89336089-89336108 | None:intergenic | 20.0% |
| !!! | TTGGGTCTAATTAAATTTTT+TGG | - | chr3.2:89336567-89336586 | MS.gene42336:CDS | 20.0% |
| ! | TATATATATATGCATTACGG+TGG | + | chr3.2:89336432-89336451 | None:intergenic | 25.0% |
| ! | TTACTTACCAGATAAAAAGA+TGG | - | chr3.2:89335756-89335775 | MS.gene42336:intron | 25.0% |
| !! | ATGAAAACCATCTTTTTATC+TGG | + | chr3.2:89335766-89335785 | None:intergenic | 25.0% |
| !! | ATTTTTCTTTCGTAATCCTT+TGG | + | chr3.2:89335999-89336018 | None:intergenic | 25.0% |
| !! | GAATACCTTCTTTCTATTTT+TGG | - | chr3.2:89335833-89335852 | MS.gene42336:intron | 25.0% |
| AATAAACTTGGCAATGTACA+AGG | + | chr3.2:89335863-89335882 | None:intergenic | 30.0% | |
| AATCCATCATCAAACTTATC+TGG | - | chr3.2:89336377-89336396 | MS.gene42336:intron | 30.0% | |
| GCTTTCCAAAAATAGAAAGA+AGG | + | chr3.2:89335841-89335860 | None:intergenic | 30.0% | |
| GTATCAATATCAACAATGGA+AGG | - | chr3.2:89335531-89335550 | MS.gene42336:intron | 30.0% | |
| TAACTCTCAGGTTTCTTAAA+AGG | - | chr3.2:89336622-89336641 | MS.gene42336:CDS | 30.0% | |
| TGATTTAAAAATAGGACCCT+GGG | + | chr3.2:89336532-89336551 | None:intergenic | 30.0% | |
| TTGATTTAAAAATAGGACCC+TGG | + | chr3.2:89336533-89336552 | None:intergenic | 30.0% | |
| ! | ACTTTTATCCTTGTAACCAA+AGG | - | chr3.2:89335980-89335999 | MS.gene42336:intron | 30.0% |
| ! | GCTGAGGTTGATTTAAAAAT+AGG | + | chr3.2:89336540-89336559 | None:intergenic | 30.0% |
| !! | CAGAAAACGTTGATAATCAT+TGG | - | chr3.2:89336476-89336495 | MS.gene42336:CDS | 30.0% |
| AACCAACATTATGTACTGCA+TGG | + | chr3.2:89335625-89335644 | None:intergenic | 35.0% | |
| AAGTCTAATAATTCGGAGTC+CGG | + | chr3.2:89335964-89335983 | None:intergenic | 35.0% | |
| AATGCATTACGAGATCCTAA+AGG | - | chr3.2:89335448-89335467 | MS.gene42336:intron | 35.0% | |
| AGATATATGTATTGTCTCCC+AGG | - | chr3.2:89336512-89336531 | MS.gene42336:CDS | 35.0% | |
| ATCAACAATGGAAGGCAATT+TGG | - | chr3.2:89335539-89335558 | MS.gene42336:intron | 35.0% | |
| ATCCATGCAGTACATAATGT+TGG | - | chr3.2:89335620-89335639 | MS.gene42336:intron | 35.0% | |
| CAGGAGTAGCATAATAAACT+TGG | + | chr3.2:89335875-89335894 | None:intergenic | 35.0% | |
| GATATATGTATTGTCTCCCA+GGG | - | chr3.2:89336513-89336532 | MS.gene42336:CDS | 35.0% | |
| GCTGGTATCAATATCAACAA+TGG | - | chr3.2:89335527-89335546 | MS.gene42336:intron | 35.0% | |
| GTGCACATGATCTATTACTT+TGG | - | chr3.2:89336399-89336418 | MS.gene42336:intron | 35.0% | |
| TTCGAATGAGATCTTCCTTT+AGG | + | chr3.2:89335466-89335485 | None:intergenic | 35.0% | |
| TTCGTAATCCTTTGGTTACA+AGG | + | chr3.2:89335991-89336010 | None:intergenic | 35.0% | |
| TTGAAAGAAATCGAAAGGTC+AGG | + | chr3.2:89335894-89335913 | None:intergenic | 35.0% | |
| ! | ATGCATTTTCACCTCTTGTA+TGG | + | chr3.2:89335435-89335454 | None:intergenic | 35.0% |
| ! | GGTTTTCATTGCAAGTACAA+AGG | - | chr3.2:89335777-89335796 | MS.gene42336:intron | 35.0% |
| ! | TTGTGTCTTATCCGATTTTC+AGG | - | chr3.2:89336672-89336691 | MS.gene42336:CDS | 35.0% |
| !! | TTTGAAAGCACCTCCTATAT+GGG | + | chr3.2:89335804-89335823 | None:intergenic | 35.0% |
| !!! | ATGATGGATTGATTTTCACG+TGG | + | chr3.2:89336367-89336386 | None:intergenic | 35.0% |
| !!! | TTTTGAAAGCACCTCCTATA+TGG | + | chr3.2:89335805-89335824 | None:intergenic | 35.0% |
| ATGGTCCAGAAGATCCAAAT+CGG | - | chr3.2:89335375-89335394 | MS.gene42336:intron | 40.0% | |
| GCACCAGATAAGTTTGATGA+TGG | + | chr3.2:89336383-89336402 | None:intergenic | 40.0% | |
| TGGTGGAAAATCCATACAAG+AGG | - | chr3.2:89335421-89335440 | MS.gene42336:intron | 40.0% | |
| TTCCTCATTCGCCTGAAAAT+CGG | + | chr3.2:89336686-89336705 | None:intergenic | 40.0% | |
| ! | AGAAGAGAACAGACGTTTTG+AGG | - | chr3.2:89335337-89335356 | MS.gene42336:intron | 40.0% |
| ! | ATCAACCTCAGCTGCAATTT+TGG | - | chr3.2:89336548-89336567 | MS.gene42336:CDS | 40.0% |
| ! | TCAACCTCAGCTGCAATTTT+GGG | - | chr3.2:89336549-89336568 | MS.gene42336:CDS | 40.0% |
| !! | TTGAAAGCACCTCCTATATG+GGG | + | chr3.2:89335803-89335822 | None:intergenic | 40.0% |
| AAATCCCACTGCCAACTTAC+AGG | - | chr3.2:89335498-89335517 | MS.gene42336:intron | 45.0% | |
| AATCCCACTGCCAACTTACA+GGG | - | chr3.2:89335499-89335518 | MS.gene42336:intron | 45.0% | |
| CAACATGTGGCTAATGCTGT+TGG | - | chr3.2:89335401-89335420 | MS.gene42336:intron | 45.0% | |
| CAAGTACAAAGGCCCCATAT+AGG | - | chr3.2:89335788-89335807 | MS.gene42336:intron | 45.0% | |
| GAGGATGCACTTGCAGTATA+TGG | - | chr3.2:89335356-89335375 | MS.gene42336:intron | 45.0% | |
| GGCAATTTGGCAATGAGCAA+AGG | - | chr3.2:89335552-89335571 | MS.gene42336:intron | 45.0% | |
| TAGACCCAAAATTGCAGCTG+AGG | + | chr3.2:89336556-89336575 | None:intergenic | 45.0% | |
| !! | ATCCGATTTTCAGGCGAATG+AGG | - | chr3.2:89336681-89336700 | MS.gene42336:CDS | 45.0% |
| ATCCCACTGCCAACTTACAG+GGG | - | chr3.2:89335500-89335519 | MS.gene42336:intron | 50.0% | |
| CATGTGGCTAATGCTGTTGG+TGG | - | chr3.2:89335404-89335423 | MS.gene42336:intron | 50.0% | |
| GTACAAAGGCCCCATATAGG+AGG | - | chr3.2:89335791-89335810 | MS.gene42336:intron | 50.0% | |
| GTCCAGAAGATCCAAATCGG+TGG | - | chr3.2:89335378-89335397 | MS.gene42336:intron | 50.0% | |
| TCCAAATCGGTGGCAACATG+TGG | - | chr3.2:89335388-89335407 | MS.gene42336:intron | 50.0% | |
| !! | TGCCACCGATTTGGATCTTC+TGG | + | chr3.2:89335383-89335402 | None:intergenic | 50.0% |
| ! | CTCCCCTGTAAGTTGGCAGT+GGG | + | chr3.2:89335505-89335524 | None:intergenic | 55.0% |
| ! | GCCACATGTTGCCACCGATT+TGG | + | chr3.2:89335392-89335411 | None:intergenic | 55.0% |
| CCACTGCCAACTTACAGGGG+AGG | - | chr3.2:89335503-89335522 | MS.gene42336:intron | 60.0% | |
| CCAGCACCTCCCCTGTAAGT+TGG | + | chr3.2:89335512-89335531 | None:intergenic | 60.0% | |
| ! | CCAACTTACAGGGGAGGTGC+TGG | - | chr3.2:89335509-89335528 | MS.gene42336:intron | 60.0% |
| ! | CCTCCCCTGTAAGTTGGCAG+TGG | + | chr3.2:89335506-89335525 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.2 | gene | 89335323 | 89336721 | 89335323 | ID=MS.gene42336 |
| chr3.2 | mRNA | 89335323 | 89336721 | 89335323 | ID=MS.gene42336.t1;Parent=MS.gene42336 |
| chr3.2 | exon | 89336471 | 89336721 | 89336471 | ID=MS.gene42336.t1.exon1;Parent=MS.gene42336.t1 |
| chr3.2 | CDS | 89336471 | 89336721 | 89336471 | ID=cds.MS.gene42336.t1;Parent=MS.gene42336.t1 |
| chr3.2 | exon | 89335323 | 89335350 | 89335323 | ID=MS.gene42336.t1.exon2;Parent=MS.gene42336.t1 |
| chr3.2 | CDS | 89335323 | 89335350 | 89335323 | ID=cds.MS.gene42336.t1;Parent=MS.gene42336.t1 |
| Gene Sequence |
| Protein sequence |
