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.gene014511.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.gene014511.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.gene014511.t1 | A0A396IZP4 | 98.9 | 92 | 1 | 0 | 1 | 92 | 1 | 92 | 2.0e-46 | 194.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene014511.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.gene014511.t1 | MTR_3g111920 | 98.810 | 84 | 1 | 0 | 1 | 84 | 1 | 84 | 2.04e-58 | 174 |
| MS.gene014511.t1 | MTR_1g022290 | 47.253 | 91 | 45 | 1 | 2 | 92 | 6 | 93 | 1.21e-28 | 99.0 |
| MS.gene014511.t1 | MTR_3g111880 | 43.333 | 90 | 46 | 1 | 3 | 92 | 7 | 91 | 1.10e-22 | 84.0 |
| MS.gene014511.t1 | MTR_3g116720 | 53.846 | 65 | 30 | 0 | 3 | 67 | 16 | 80 | 8.73e-22 | 81.3 |
| MS.gene014511.t1 | MTR_8g077360 | 52.632 | 76 | 31 | 2 | 1 | 76 | 3 | 73 | 3.57e-21 | 79.7 |
| MS.gene014511.t1 | MTR_8g077380 | 54.412 | 68 | 30 | 1 | 2 | 69 | 4 | 70 | 6.34e-21 | 79.0 |
| MS.gene014511.t1 | MTR_8g077390 | 54.412 | 68 | 30 | 1 | 2 | 69 | 4 | 70 | 6.34e-21 | 79.0 |
| MS.gene014511.t1 | MTR_8g077420 | 59.016 | 61 | 24 | 1 | 3 | 63 | 5 | 64 | 1.32e-20 | 78.2 |
| MS.gene014511.t1 | MTR_5g020170 | 43.750 | 80 | 41 | 1 | 1 | 76 | 17 | 96 | 1.33e-20 | 79.0 |
| MS.gene014511.t1 | MTR_7g089210 | 54.098 | 61 | 28 | 0 | 6 | 66 | 15 | 75 | 1.51e-18 | 73.2 |
| MS.gene014511.t1 | MTR_6g004250 | 46.875 | 64 | 34 | 0 | 2 | 65 | 9 | 72 | 6.41e-18 | 71.6 |
| MS.gene014511.t1 | MTR_5g020540 | 53.226 | 62 | 28 | 1 | 2 | 63 | 3 | 63 | 7.07e-18 | 70.9 |
| MS.gene014511.t1 | MTR_3g013440 | 39.130 | 92 | 46 | 2 | 2 | 92 | 9 | 91 | 4.49e-17 | 69.7 |
| MS.gene014511.t1 | MTR_1g033600 | 40.299 | 67 | 40 | 0 | 3 | 69 | 12 | 78 | 5.24e-16 | 68.2 |
| MS.gene014511.t1 | MTR_5g081860 | 40.299 | 67 | 40 | 0 | 3 | 69 | 27 | 93 | 1.04e-13 | 64.3 |
| MS.gene014511.t1 | MTR_8g063870 | 42.857 | 63 | 36 | 0 | 3 | 65 | 8 | 70 | 6.02e-13 | 62.4 |
| MS.gene014511.t1 | MTR_5g069710 | 44.444 | 63 | 35 | 0 | 3 | 65 | 29 | 91 | 2.51e-12 | 60.8 |
| MS.gene014511.t1 | MTR_8g063600 | 39.683 | 63 | 38 | 0 | 3 | 65 | 10 | 72 | 3.15e-12 | 60.5 |
| MS.gene014511.t1 | MTR_7g067080 | 46.032 | 63 | 34 | 0 | 3 | 65 | 35 | 97 | 3.36e-12 | 60.5 |
| MS.gene014511.t1 | MTR_3g462790 | 44.444 | 63 | 35 | 0 | 3 | 65 | 43 | 105 | 6.28e-12 | 60.1 |
| MS.gene014511.t1 | MTR_1g111830 | 38.028 | 71 | 42 | 2 | 3 | 72 | 24 | 93 | 2.17e-11 | 57.8 |
| MS.gene014511.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.gene014511.t1 | AT4G39250 | 47.778 | 90 | 44 | 2 | 3 | 92 | 14 | 100 | 7.55e-26 | 92.4 |
| MS.gene014511.t1 | AT1G75250 | 48.889 | 90 | 41 | 2 | 3 | 91 | 12 | 97 | 3.43e-25 | 90.5 |
| MS.gene014511.t1 | AT1G75250 | 57.812 | 64 | 27 | 0 | 3 | 66 | 12 | 75 | 5.74e-23 | 85.9 |
| MS.gene014511.t1 | AT1G19510 | 59.016 | 61 | 25 | 0 | 6 | 66 | 15 | 75 | 1.21e-21 | 81.6 |
| MS.gene014511.t1 | AT2G21650 | 43.333 | 90 | 49 | 2 | 3 | 92 | 14 | 101 | 3.91e-21 | 80.5 |
| MS.gene014511.t1 | AT5G05790 | 50.000 | 64 | 32 | 0 | 3 | 66 | 31 | 94 | 2.39e-16 | 71.6 |
| MS.gene014511.t1 | AT5G05790 | 50.000 | 64 | 32 | 0 | 3 | 66 | 31 | 94 | 2.39e-16 | 71.6 |
| MS.gene014511.t1 | AT2G18328 | 51.667 | 60 | 29 | 0 | 7 | 66 | 15 | 74 | 5.67e-16 | 66.6 |
| MS.gene014511.t1 | AT3G11280 | 41.176 | 68 | 40 | 0 | 3 | 70 | 33 | 100 | 3.73e-15 | 68.6 |
| MS.gene014511.t1 | AT3G11280 | 41.176 | 68 | 40 | 0 | 3 | 70 | 33 | 100 | 3.73e-15 | 68.6 |
| MS.gene014511.t1 | AT5G08520 | 40.244 | 82 | 49 | 0 | 3 | 84 | 12 | 93 | 6.09e-15 | 68.2 |
| MS.gene014511.t1 | AT2G38090 | 46.032 | 63 | 34 | 0 | 3 | 65 | 29 | 91 | 9.95e-14 | 64.7 |
| MS.gene014511.t1 | AT4G36570 | 61.364 | 44 | 17 | 0 | 3 | 46 | 12 | 55 | 1.17e-13 | 60.1 |
| MS.gene014511.t1 | AT5G58900 | 46.032 | 63 | 34 | 0 | 3 | 65 | 34 | 96 | 1.27e-12 | 61.6 |
| MS.gene014511.t1 | AT1G49010 | 38.667 | 75 | 43 | 1 | 3 | 74 | 8 | 82 | 1.80e-12 | 61.6 |
| MS.gene014511.t1 | AT5G01200 | 39.506 | 81 | 48 | 1 | 3 | 82 | 30 | 110 | 7.80e-12 | 59.3 |
| MS.gene014511.t1 | AT5G04760 | 39.683 | 63 | 37 | 1 | 3 | 65 | 6 | 67 | 8.44e-11 | 56.2 |
Find 24 sgRNAs with CRISPR-Local
Find 77 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATCAACAATGGAAGGCAATT+TGG | 0.250643 | 3.1:-89339736 | MS.gene014511:CDS |
| TGCCACCGATTTGGATCTTC+TGG | 0.260812 | 3.1:+89339895 | None:intergenic |
| AAATCCCACTGCCAACTTAC+AGG | 0.308746 | 3.1:-89339777 | MS.gene014511:CDS |
| GCCACATGTTGCCACCGATT+TGG | 0.310871 | 3.1:+89339886 | None:intergenic |
| TTCGAATGAGATCTTCCTTT+AGG | 0.339675 | 3.1:+89339812 | None:intergenic |
| GAGGATGCACTTGCAGTATA+TGG | 0.363746 | 3.1:-89339919 | MS.gene014511:CDS |
| GACAAATTAGCAGCATGGGT+TGG | 0.508959 | 3.1:-89339966 | None:intergenic |
| AATCCCACTGCCAACTTACA+GGG | 0.517510 | 3.1:-89339776 | MS.gene014511:CDS |
| CCAACTTACAGGGGAGGTGC+TGG | 0.534339 | 3.1:-89339766 | MS.gene014511:CDS |
| CTCCCCTGTAAGTTGGCAGT+GGG | 0.537457 | 3.1:+89339773 | None:intergenic |
| CCAGCACCTCCCCTGTAAGT+TGG | 0.540006 | 3.1:+89339766 | None:intergenic |
| CAACATGTGGCTAATGCTGT+TGG | 0.541304 | 3.1:-89339874 | MS.gene014511:CDS |
| GGCAATTTGGCAATGAGCAA+AGG | 0.543201 | 3.1:-89339723 | MS.gene014511:intron |
| CCTCCCCTGTAAGTTGGCAG+TGG | 0.556127 | 3.1:+89339772 | None:intergenic |
| ATGGTCCAGAAGATCCAAAT+CGG | 0.560223 | 3.1:-89339900 | MS.gene014511:CDS |
| CATGTGGCTAATGCTGTTGG+TGG | 0.579036 | 3.1:-89339871 | MS.gene014511:CDS |
| TCCAAATCGGTGGCAACATG+TGG | 0.582584 | 3.1:-89339887 | MS.gene014511:CDS |
| AATGCATTACGAGATCCTAA+AGG | 0.590523 | 3.1:-89339827 | MS.gene014511:CDS |
| GCTGGTATCAATATCAACAA+TGG | 0.592424 | 3.1:-89339748 | MS.gene014511:CDS |
| GTATCAATATCAACAATGGA+AGG | 0.611037 | 3.1:-89339744 | MS.gene014511:CDS |
| TGGTGGAAAATCCATACAAG+AGG | 0.660309 | 3.1:-89339854 | MS.gene014511:CDS |
| ATCCCACTGCCAACTTACAG+GGG | 0.669431 | 3.1:-89339775 | MS.gene014511:CDS |
| CCACTGCCAACTTACAGGGG+AGG | 0.671704 | 3.1:-89339772 | MS.gene014511:CDS |
| GTCCAGAAGATCCAAATCGG+TGG | 0.678303 | 3.1:-89339897 | MS.gene014511:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GTTAATTATATATAATTAAG+TGG | + | chr3.1:89339859-89339878 | None:intergenic | 10.0% |
| !! | TATAAGGTATAAAAAATTTA+CGG | - | chr3.1:89339483-89339502 | MS.gene014511:intron | 10.0% |
| !! | TTAATTATATATATGCATTA+CGG | + | chr3.1:89339690-89339709 | None:intergenic | 10.0% |
| !! | ACACAATAATAAGAATTAAT+AGG | + | chr3.1:89339911-89339930 | None:intergenic | 15.0% |
| !! | ATTATATATAATTAACTCTC+AGG | - | chr3.1:89339863-89339882 | MS.gene014511:CDS | 15.0% |
| !! | CACAATAATAAGAATTAATA+GGG | + | chr3.1:89339910-89339929 | None:intergenic | 15.0% |
| !!! | AACAACTTTTGTAAAATATA+AGG | - | chr3.1:89339467-89339486 | MS.gene014511:intron | 15.0% |
| !!! | AATTTTACTTATTTTTTGAC+CGG | - | chr3.1:89339207-89339226 | MS.gene014511:intron | 15.0% |
| !!! | TAAGTAATATTAACTTTTCT+TGG | + | chr3.1:89339008-89339027 | None:intergenic | 15.0% |
| !! | AGGATAAAAGTCTAATAATT+CGG | + | chr3.1:89339236-89339255 | None:intergenic | 20.0% |
| !! | ATAATTTGAAAGAAATCGAA+AGG | + | chr3.1:89339164-89339183 | None:intergenic | 20.0% |
| !! | TAAAATTAGTTACTTGACAA+TGG | + | chr3.1:89339194-89339213 | None:intergenic | 20.0% |
| !! | TCTATAAAGAGAAAGAAATA+TGG | - | chr3.1:89339595-89339614 | MS.gene014511:intron | 20.0% |
| !! | TTGAAAATATCAAAAGACAT+TGG | + | chr3.1:89339355-89339374 | None:intergenic | 20.0% |
| !!! | TTGGGTCTAATTAAATTTTT+TGG | - | chr3.1:89339820-89339839 | MS.gene014511:CDS | 20.0% |
| ! | ATTATATATATGCATTACGG+TGG | + | chr3.1:89339687-89339706 | None:intergenic | 25.0% |
| ! | TTACTTACCAGATAAAAAGA+TGG | - | chr3.1:89339021-89339040 | MS.gene014511:intron | 25.0% |
| !! | ATGAAAACCATCTTTTTATC+TGG | + | chr3.1:89339031-89339050 | None:intergenic | 25.0% |
| !! | ATTTTTCTTTCGTAATCCTT+TGG | + | chr3.1:89339264-89339283 | None:intergenic | 25.0% |
| !! | GAATACCTTCTTTCTATTTT+TGG | - | chr3.1:89339098-89339117 | MS.gene014511:intron | 25.0% |
| AATAAACTTGGCAATGTACA+AGG | + | chr3.1:89339128-89339147 | None:intergenic | 30.0% | |
| AATCCATCATCAAACTTATC+TGG | - | chr3.1:89339632-89339651 | MS.gene014511:intron | 30.0% | |
| GCTTTCCAAAAATAGAAAGA+AGG | + | chr3.1:89339106-89339125 | None:intergenic | 30.0% | |
| GTATCAATATCAACAATGGA+AGG | - | chr3.1:89338796-89338815 | MS.gene014511:intron | 30.0% | |
| TAACTCTCAGGTTTCTTAAA+AGG | - | chr3.1:89339875-89339894 | MS.gene014511:CDS | 30.0% | |
| TGATTTAAAAATAGGACCCT+GGG | + | chr3.1:89339785-89339804 | None:intergenic | 30.0% | |
| TTGATTTAAAAATAGGACCC+TGG | + | chr3.1:89339786-89339805 | None:intergenic | 30.0% | |
| ! | ACTTTTATCCTTGTAACCAA+AGG | - | chr3.1:89339245-89339264 | MS.gene014511:intron | 30.0% |
| ! | GCTGAGGTTGATTTAAAAAT+AGG | + | chr3.1:89339793-89339812 | None:intergenic | 30.0% |
| !! | CAGAAAACGTTGATAATCAT+TGG | - | chr3.1:89339729-89339748 | MS.gene014511:CDS | 30.0% |
| AACCAACATTATGTACTGCA+TGG | + | chr3.1:89338890-89338909 | None:intergenic | 35.0% | |
| AAGTCTAATAATTCGGAGTC+CGG | + | chr3.1:89339229-89339248 | None:intergenic | 35.0% | |
| AATGCATTACGAGATCCTAA+AGG | - | chr3.1:89338713-89338732 | MS.gene014511:intron | 35.0% | |
| AGATATATGTATTGTCTCCC+AGG | - | chr3.1:89339765-89339784 | MS.gene014511:CDS | 35.0% | |
| ATCAACAATGGAAGGCAATT+TGG | - | chr3.1:89338804-89338823 | MS.gene014511:intron | 35.0% | |
| ATCCATGCAGTACATAATGT+TGG | - | chr3.1:89338885-89338904 | MS.gene014511:intron | 35.0% | |
| CAGGAGTAGCATAATAAACT+TGG | + | chr3.1:89339140-89339159 | None:intergenic | 35.0% | |
| GATATATGTATTGTCTCCCA+GGG | - | chr3.1:89339766-89339785 | MS.gene014511:CDS | 35.0% | |
| GCTGGTATCAATATCAACAA+TGG | - | chr3.1:89338792-89338811 | MS.gene014511:intron | 35.0% | |
| GTGCACATGATCTATTACTT+TGG | - | chr3.1:89339654-89339673 | MS.gene014511:intron | 35.0% | |
| TTCGAATGAGATCTTCCTTT+AGG | + | chr3.1:89338731-89338750 | None:intergenic | 35.0% | |
| TTCGTAATCCTTTGGTTACA+AGG | + | chr3.1:89339256-89339275 | None:intergenic | 35.0% | |
| TTGAAAGAAATCGAAAGGTC+AGG | + | chr3.1:89339159-89339178 | None:intergenic | 35.0% | |
| ! | ATGCATTTTCACCTCTTGTA+TGG | + | chr3.1:89338700-89338719 | None:intergenic | 35.0% |
| ! | GGTTTTCATTGCAAGTACAA+AGG | - | chr3.1:89339042-89339061 | MS.gene014511:intron | 35.0% |
| ! | TTGTGTCTTATCCGATTTTC+AGG | - | chr3.1:89339925-89339944 | MS.gene014511:CDS | 35.0% |
| !! | TTTGAAAGCACCTCCTATAT+GGG | + | chr3.1:89339069-89339088 | None:intergenic | 35.0% |
| !!! | ATGATGGATTGATTTTCACG+TGG | + | chr3.1:89339622-89339641 | None:intergenic | 35.0% |
| !!! | TTTTGAAAGCACCTCCTATA+TGG | + | chr3.1:89339070-89339089 | None:intergenic | 35.0% |
| ATGGTCCAGAAGATCCAAAT+CGG | - | chr3.1:89338640-89338659 | MS.gene014511:intron | 40.0% | |
| GCACCAGATAAGTTTGATGA+TGG | + | chr3.1:89339638-89339657 | None:intergenic | 40.0% | |
| TGGTGGAAAATCCATACAAG+AGG | - | chr3.1:89338686-89338705 | MS.gene014511:intron | 40.0% | |
| TTCCTCATTCGCCTGAAAAT+CGG | + | chr3.1:89339939-89339958 | None:intergenic | 40.0% | |
| ! | AGAAGAGAACAGACGTTTTG+AGG | - | chr3.1:89338602-89338621 | MS.gene014511:intron | 40.0% |
| ! | ATCAACCTCAGCTGCAATTT+TGG | - | chr3.1:89339801-89339820 | MS.gene014511:CDS | 40.0% |
| ! | TCAACCTCAGCTGCAATTTT+GGG | - | chr3.1:89339802-89339821 | MS.gene014511:CDS | 40.0% |
| !! | TTGAAAGCACCTCCTATATG+GGG | + | chr3.1:89339068-89339087 | None:intergenic | 40.0% |
| AAATCCCACTGCCAACTTAC+AGG | - | chr3.1:89338763-89338782 | MS.gene014511:intron | 45.0% | |
| AATCCCACTGCCAACTTACA+GGG | - | chr3.1:89338764-89338783 | MS.gene014511:intron | 45.0% | |
| CAACATGTGGCTAATGCTGT+TGG | - | chr3.1:89338666-89338685 | MS.gene014511:intron | 45.0% | |
| CAAGTACAAAGGCCCCATAT+AGG | - | chr3.1:89339053-89339072 | MS.gene014511:intron | 45.0% | |
| GAGGATGCACTTGCAGTATA+TGG | - | chr3.1:89338621-89338640 | MS.gene014511:intron | 45.0% | |
| GGCAATTTGGCAATGAGCAA+AGG | - | chr3.1:89338817-89338836 | MS.gene014511:intron | 45.0% | |
| TAGACCCAAAATTGCAGCTG+AGG | + | chr3.1:89339809-89339828 | None:intergenic | 45.0% | |
| !! | ATCCGATTTTCAGGCGAATG+AGG | - | chr3.1:89339934-89339953 | MS.gene014511:CDS | 45.0% |
| ATCCCACTGCCAACTTACAG+GGG | - | chr3.1:89338765-89338784 | MS.gene014511:intron | 50.0% | |
| CATGTGGCTAATGCTGTTGG+TGG | - | chr3.1:89338669-89338688 | MS.gene014511:intron | 50.0% | |
| GTACAAAGGCCCCATATAGG+AGG | - | chr3.1:89339056-89339075 | MS.gene014511:intron | 50.0% | |
| GTCCAGAAGATCCAAATCGG+TGG | - | chr3.1:89338643-89338662 | MS.gene014511:intron | 50.0% | |
| TCCAAATCGGTGGCAACATG+TGG | - | chr3.1:89338653-89338672 | MS.gene014511:intron | 50.0% | |
| !! | TGCCACCGATTTGGATCTTC+TGG | + | chr3.1:89338648-89338667 | None:intergenic | 50.0% |
| ! | CTCCCCTGTAAGTTGGCAGT+GGG | + | chr3.1:89338770-89338789 | None:intergenic | 55.0% |
| ! | GCCACATGTTGCCACCGATT+TGG | + | chr3.1:89338657-89338676 | None:intergenic | 55.0% |
| CCACTGCCAACTTACAGGGG+AGG | - | chr3.1:89338768-89338787 | MS.gene014511:intron | 60.0% | |
| CCAGCACCTCCCCTGTAAGT+TGG | + | chr3.1:89338777-89338796 | None:intergenic | 60.0% | |
| ! | CCAACTTACAGGGGAGGTGC+TGG | - | chr3.1:89338774-89338793 | MS.gene014511:intron | 60.0% |
| ! | CCTCCCCTGTAAGTTGGCAG+TGG | + | chr3.1:89338771-89338790 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.1 | gene | 89338588 | 89339974 | 89338588 | ID=MS.gene014511 |
| chr3.1 | mRNA | 89338588 | 89339974 | 89338588 | ID=MS.gene014511.t1;Parent=MS.gene014511 |
| chr3.1 | exon | 89339724 | 89339974 | 89339724 | ID=MS.gene014511.t1.exon1;Parent=MS.gene014511.t1 |
| chr3.1 | CDS | 89339724 | 89339974 | 89339724 | ID=cds.MS.gene014511.t1;Parent=MS.gene014511.t1 |
| chr3.1 | exon | 89338588 | 89338615 | 89338588 | ID=MS.gene014511.t1.exon2;Parent=MS.gene014511.t1 |
| chr3.1 | CDS | 89338588 | 89338615 | 89338588 | ID=cds.MS.gene014511.t1;Parent=MS.gene014511.t1 |
| Gene Sequence |
| Protein sequence |
