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.gene004938.t1 | XP_003614286.1 | 59.8 | 102 | 41 | 0 | 1 | 102 | 1 | 102 | 2.20E-23 | 118.2 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene004938.t1 | Q9FJK3 | 39.4 | 94 | 56 | 1 | 1 | 93 | 1 | 94 | 3.7e-11 | 68.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene004938.t1 | G7JY85 | 59.8 | 102 | 41 | 0 | 1 | 102 | 1 | 102 | 1.6e-23 | 118.2 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene004938.t1 | TF | MADS-M-type |
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.gene004938.t1 | MTR_5g047580 | 65.591 | 93 | 32 | 0 | 1 | 93 | 1 | 93 | 8.87e-40 | 129 |
| MS.gene004938.t1 | MTR_1g090783 | 56.044 | 91 | 40 | 0 | 3 | 93 | 2 | 92 | 5.60e-33 | 112 |
| MS.gene004938.t1 | MTR_1g084950 | 60.215 | 93 | 37 | 0 | 1 | 93 | 1 | 93 | 3.62e-30 | 105 |
| MS.gene004938.t1 | MTR_1g077390 | 52.688 | 93 | 44 | 0 | 1 | 93 | 1 | 93 | 4.93e-30 | 105 |
| MS.gene004938.t1 | MTR_1g077320 | 54.902 | 102 | 46 | 0 | 1 | 102 | 1 | 102 | 5.74e-30 | 105 |
| MS.gene004938.t1 | MTR_7g011950 | 55.446 | 101 | 45 | 0 | 1 | 101 | 1 | 101 | 2.81e-29 | 103 |
| MS.gene004938.t1 | MTR_4g028720 | 56.436 | 101 | 44 | 0 | 1 | 101 | 1 | 101 | 9.81e-29 | 101 |
| MS.gene004938.t1 | MTR_1g077300 | 51.961 | 102 | 49 | 0 | 1 | 102 | 1 | 102 | 1.66e-28 | 101 |
| MS.gene004938.t1 | MTR_1g090710 | 49.462 | 93 | 47 | 0 | 1 | 93 | 1 | 93 | 8.10e-27 | 97.1 |
| MS.gene004938.t1 | MTR_1g090697 | 50.538 | 93 | 46 | 0 | 1 | 93 | 1 | 93 | 2.14e-26 | 95.9 |
| MS.gene004938.t1 | MTR_5g047560 | 52.688 | 93 | 28 | 2 | 1 | 93 | 1 | 77 | 3.72e-24 | 89.7 |
| MS.gene004938.t1 | MTR_4g028800 | 39.189 | 74 | 43 | 1 | 1 | 74 | 1 | 72 | 2.39e-15 | 65.1 |
| MS.gene004938.t1 | MTR_8g036130 | 35.354 | 99 | 55 | 2 | 1 | 93 | 1 | 96 | 8.17e-15 | 67.8 |
| MS.gene004938.t1 | MTR_3g065100 | 42.000 | 100 | 57 | 1 | 1 | 99 | 1 | 100 | 1.01e-14 | 67.4 |
| MS.gene004938.t1 | MTR_5g075380 | 32.632 | 95 | 63 | 1 | 1 | 94 | 1 | 95 | 2.60e-14 | 64.7 |
| MS.gene004938.t1 | MTR_3g466980 | 34.737 | 95 | 61 | 1 | 1 | 94 | 1 | 95 | 7.76e-14 | 64.7 |
| MS.gene004938.t1 | MTR_3g466830 | 36.957 | 92 | 57 | 1 | 3 | 93 | 2 | 93 | 1.60e-13 | 62.8 |
| MS.gene004938.t1 | MTR_4g063790 | 27.273 | 110 | 72 | 1 | 1 | 102 | 1 | 110 | 8.17e-13 | 61.2 |
| MS.gene004938.t1 | MTR_4g032620 | 29.787 | 94 | 65 | 1 | 1 | 93 | 1 | 94 | 8.30e-13 | 62.0 |
| MS.gene004938.t1 | MTR_3g031240 | 34.737 | 95 | 61 | 1 | 1 | 94 | 1 | 95 | 2.59e-12 | 60.1 |
| MS.gene004938.t1 | MTR_3g466890 | 33.696 | 92 | 60 | 1 | 3 | 93 | 2 | 93 | 3.30e-12 | 59.3 |
| MS.gene004938.t1 | MTR_4g031910 | 37.273 | 110 | 61 | 2 | 1 | 102 | 1 | 110 | 4.64e-12 | 60.1 |
| MS.gene004938.t1 | MTR_2g016210 | 44.068 | 59 | 33 | 0 | 1 | 59 | 1 | 59 | 5.81e-12 | 60.1 |
| MS.gene004938.t1 | MTR_3g467080 | 27.273 | 110 | 72 | 1 | 1 | 102 | 1 | 110 | 9.23e-12 | 58.2 |
| MS.gene004938.t1 | MTR_4g019670 | 32.174 | 115 | 62 | 4 | 1 | 100 | 1 | 114 | 5.97e-11 | 57.8 |
| MS.gene004938.t1 | MTR_2g035610 | 32.979 | 94 | 62 | 1 | 1 | 93 | 1 | 94 | 6.93e-11 | 55.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene004938.t1 | AT3G05860 | 43.056 | 72 | 41 | 0 | 1 | 72 | 1 | 72 | 6.97e-17 | 72.4 |
| MS.gene004938.t1 | AT3G05860 | 43.056 | 72 | 41 | 0 | 1 | 72 | 1 | 72 | 1.07e-16 | 72.8 |
| MS.gene004938.t1 | AT3G05860 | 43.056 | 72 | 41 | 0 | 1 | 72 | 1 | 72 | 1.19e-16 | 72.8 |
| MS.gene004938.t1 | AT1G65330 | 37.895 | 95 | 58 | 1 | 3 | 96 | 2 | 96 | 2.24e-16 | 72.4 |
| MS.gene004938.t1 | AT5G26630 | 41.489 | 94 | 54 | 1 | 1 | 93 | 1 | 94 | 1.02e-15 | 69.7 |
| MS.gene004938.t1 | AT1G65300 | 34.694 | 98 | 63 | 1 | 3 | 99 | 2 | 99 | 1.75e-15 | 69.7 |
| MS.gene004938.t1 | AT5G26650 | 34.694 | 98 | 63 | 1 | 5 | 101 | 3 | 100 | 1.13e-14 | 68.2 |
| MS.gene004938.t1 | AT5G27960 | 37.778 | 90 | 55 | 1 | 5 | 93 | 3 | 92 | 1.25e-14 | 67.8 |
| MS.gene004938.t1 | AT1G31630 | 33.684 | 95 | 61 | 2 | 3 | 96 | 2 | 95 | 4.39e-13 | 63.5 |
| MS.gene004938.t1 | AT5G48670 | 39.362 | 94 | 56 | 1 | 1 | 93 | 1 | 94 | 4.99e-13 | 63.5 |
| MS.gene004938.t1 | AT1G22590 | 30.108 | 93 | 65 | 0 | 1 | 93 | 1 | 93 | 4.83e-11 | 56.2 |
| MS.gene004938.t1 | AT2G28700 | 32.258 | 93 | 56 | 2 | 1 | 89 | 1 | 90 | 8.86e-11 | 57.4 |
Find 21 sgRNAs with CRISPR-Local
Find 21 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAGCTATCATAGACGAATTT+TGG | 0.195643 | 1.4:+63351790 | None:intergenic |
| AGCTTTCCTTGCTAAATATT+TGG | 0.216107 | 1.4:+63351968 | None:intergenic |
| TGCTAAATATTTGGAGATAA+AGG | 0.240702 | 1.4:+63351977 | None:intergenic |
| ATCTGGCCACACCTCTGTTT+TGG | 0.280469 | 1.4:+63351845 | None:intergenic |
| GTAGCTCTTAAGACCTTGTT+TGG | 0.358470 | 1.4:+63351812 | None:intergenic |
| GCAGAAGATTAAACCTGAAA+AGG | 0.398242 | 1.4:-63351733 | MS.gene004938:CDS |
| TGTTTGGCACCCTCTAGATC+TGG | 0.457133 | 1.4:+63351828 | None:intergenic |
| TGCCTTCATGCGGAGAAAGA+AGG | 0.504023 | 1.4:-63351946 | MS.gene004938:CDS |
| GCAAGGCCATGGCTAGGAGT+AGG | 0.521343 | 1.4:-63352010 | None:intergenic |
| AGAGAACTCACTATTCTTTG+TGG | 0.526508 | 1.4:-63351906 | MS.gene004938:CDS |
| CAAGGCCATGGCTAGGAGTA+GGG | 0.537523 | 1.4:-63352009 | None:intergenic |
| TTATCTCCAAATATTTAGCA+AGG | 0.539762 | 1.4:-63351974 | MS.gene004938:CDS |
| AGCCTTCTTTCTCCGCATGA+AGG | 0.564830 | 1.4:+63351944 | None:intergenic |
| GATCTAGAGGGTGCCAAACA+AGG | 0.565612 | 1.4:-63351825 | MS.gene004938:CDS |
| AGAGGTGTGGCCAGATCTAG+AGG | 0.570284 | 1.4:-63351838 | MS.gene004938:CDS |
| TGCATTGCAAGGCCATGGCT+AGG | 0.571000 | 1.4:-63352016 | None:intergenic |
| AAAGAAGGCTCTCTTTGAGA+AGG | 0.588827 | 1.4:-63351931 | MS.gene004938:CDS |
| CAAGGAAAGCTGCCTTCATG+CGG | 0.617357 | 1.4:-63351956 | MS.gene004938:CDS |
| TTTCACCCTACTCCTAGCCA+TGG | 0.617946 | 1.4:+63352004 | None:intergenic |
| TTAATTCCAAAACAGAGGTG+TGG | 0.619134 | 1.4:-63351851 | MS.gene004938:CDS |
| GAGGTGTGGCCAGATCTAGA+GGG | 0.694385 | 1.4:-63351837 | MS.gene004938:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TGCTAAATATTTGGAGATAA+AGG | + | chr1.4:63351741-63351760 | None:intergenic | 25.0% |
| ! | TTATCTCCAAATATTTAGCA+AGG | - | chr1.4:63351741-63351760 | MS.gene004938:CDS | 25.0% |
| !!! | TGTTTTGGAATTAAAAGGAT+TGG | + | chr1.4:63351858-63351877 | None:intergenic | 25.0% |
| AGCTTTCCTTGCTAAATATT+TGG | + | chr1.4:63351750-63351769 | None:intergenic | 30.0% | |
| !! | TCCTTTTAATTCCAAAACAG+AGG | - | chr1.4:63351859-63351878 | MS.gene004938:CDS | 30.0% |
| !!! | ACCTCTGTTTTGGAATTAAA+AGG | + | chr1.4:63351863-63351882 | None:intergenic | 30.0% |
| AGAGAACTCACTATTCTTTG+TGG | - | chr1.4:63351809-63351828 | MS.gene004938:CDS | 35.0% | |
| GCAGAAGATTAAACCTGAAA+AGG | - | chr1.4:63351982-63352001 | MS.gene004938:CDS | 35.0% | |
| TTAATTCCAAAACAGAGGTG+TGG | - | chr1.4:63351864-63351883 | MS.gene004938:CDS | 35.0% | |
| ! | CAGCTATCATAGACGAATTT+TGG | + | chr1.4:63351928-63351947 | None:intergenic | 35.0% |
| GTAGCTCTTAAGACCTTGTT+TGG | + | chr1.4:63351906-63351925 | None:intergenic | 40.0% | |
| ! | AAAGAAGGCTCTCTTTGAGA+AGG | - | chr1.4:63351784-63351803 | MS.gene004938:CDS | 40.0% |
| !!! | TGTCTTGTTTCAGCCTTTTC+AGG | + | chr1.4:63351998-63352017 | None:intergenic | 40.0% |
| AGCCTTCTTTCTCCGCATGA+AGG | + | chr1.4:63351774-63351793 | None:intergenic | 50.0% | |
| CAAGGAAAGCTGCCTTCATG+CGG | - | chr1.4:63351759-63351778 | MS.gene004938:CDS | 50.0% | |
| TGCCTTCATGCGGAGAAAGA+AGG | - | chr1.4:63351769-63351788 | MS.gene004938:CDS | 50.0% | |
| TGTTTGGCACCCTCTAGATC+TGG | + | chr1.4:63351890-63351909 | None:intergenic | 50.0% | |
| ! | ATCTGGCCACACCTCTGTTT+TGG | + | chr1.4:63351873-63351892 | None:intergenic | 50.0% |
| !! | GATCTAGAGGGTGCCAAACA+AGG | - | chr1.4:63351890-63351909 | MS.gene004938:CDS | 50.0% |
| GAGGTGTGGCCAGATCTAGA+GGG | - | chr1.4:63351878-63351897 | MS.gene004938:CDS | 55.0% | |
| ! | AGAGGTGTGGCCAGATCTAG+AGG | - | chr1.4:63351877-63351896 | MS.gene004938:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.4 | gene | 63351713 | 63352024 | 63351713 | ID=MS.gene004938 |
| chr1.4 | mRNA | 63351713 | 63352024 | 63351713 | ID=MS.gene004938.t1;Parent=MS.gene004938 |
| chr1.4 | exon | 63351713 | 63352024 | 63351713 | ID=MS.gene004938.t1.exon1;Parent=MS.gene004938.t1 |
| chr1.4 | CDS | 63351713 | 63352024 | 63351713 | ID=cds.MS.gene004938.t1;Parent=MS.gene004938.t1 |
| Gene Sequence |
| Protein sequence |
