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.gene41504.t1 | KEH34477.1 | 85.7 | 133 | 19 | 0 | 1 | 133 | 29 | 161 | 4.10E-54 | 220.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene41504.t1 | Q9FJK3 | 44.1 | 127 | 70 | 1 | 1 | 127 | 29 | 154 | 2.1e-22 | 106.7 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene41504.t1 | A0A072UY35 | 85.7 | 133 | 19 | 0 | 1 | 133 | 29 | 161 | 2.9e-54 | 220.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene41504.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.gene41504.t1 | MTR_3g467080 | 85.714 | 133 | 19 | 0 | 1 | 133 | 29 | 161 | 1.24e-80 | 234 |
| MS.gene41504.t1 | MTR_4g063790 | 77.444 | 133 | 30 | 0 | 1 | 133 | 29 | 161 | 7.13e-73 | 215 |
| MS.gene41504.t1 | MTR_3g465410 | 76.692 | 133 | 31 | 0 | 1 | 133 | 1 | 133 | 3.85e-71 | 209 |
| MS.gene41504.t1 | MTR_3g466980 | 53.175 | 126 | 58 | 1 | 1 | 126 | 29 | 153 | 2.53e-42 | 139 |
| MS.gene41504.t1 | MTR_3g065100 | 47.154 | 123 | 64 | 1 | 4 | 126 | 32 | 153 | 1.79e-35 | 122 |
| MS.gene41504.t1 | MTR_3g031100 | 44.697 | 132 | 73 | 0 | 1 | 132 | 29 | 160 | 9.48e-35 | 120 |
| MS.gene41504.t1 | MTR_3g031240 | 47.287 | 129 | 68 | 0 | 1 | 129 | 29 | 157 | 3.95e-33 | 115 |
| MS.gene41504.t1 | MTR_4g032290 | 42.308 | 130 | 75 | 0 | 4 | 133 | 32 | 161 | 6.27e-32 | 113 |
| MS.gene41504.t1 | MTR_2g016210 | 41.667 | 132 | 77 | 0 | 1 | 132 | 29 | 160 | 2.83e-31 | 112 |
| MS.gene41504.t1 | MTR_4g032260 | 39.669 | 121 | 73 | 0 | 6 | 126 | 34 | 154 | 2.74e-30 | 107 |
| MS.gene41504.t1 | MTR_4g031910 | 41.935 | 124 | 72 | 0 | 4 | 127 | 32 | 155 | 4.77e-30 | 108 |
| MS.gene41504.t1 | MTR_4g032620 | 37.302 | 126 | 79 | 0 | 1 | 126 | 29 | 154 | 6.03e-29 | 105 |
| MS.gene41504.t1 | MTR_2g035580 | 46.400 | 125 | 66 | 1 | 2 | 126 | 30 | 153 | 6.66e-29 | 103 |
| MS.gene41504.t1 | MTR_5g075380 | 37.302 | 126 | 78 | 1 | 1 | 126 | 29 | 153 | 1.54e-27 | 100 |
| MS.gene41504.t1 | MTR_8g036130 | 40.625 | 128 | 74 | 1 | 1 | 126 | 29 | 156 | 1.26e-26 | 100 |
| MS.gene41504.t1 | MTR_2g035610 | 47.253 | 91 | 48 | 0 | 4 | 94 | 32 | 122 | 2.10e-26 | 95.9 |
| MS.gene41504.t1 | MTR_3g466830 | 40.000 | 125 | 74 | 1 | 1 | 125 | 28 | 151 | 6.94e-25 | 93.2 |
| MS.gene41504.t1 | MTR_3g466900 | 34.921 | 126 | 81 | 1 | 4 | 129 | 2 | 126 | 6.84e-22 | 84.7 |
| MS.gene41504.t1 | MTR_3g466890 | 35.156 | 128 | 82 | 1 | 2 | 129 | 29 | 155 | 4.13e-20 | 80.9 |
| MS.gene41504.t1 | MTR_3g466930 | 34.127 | 126 | 82 | 1 | 4 | 129 | 2 | 126 | 2.22e-19 | 78.2 |
| MS.gene41504.t1 | MTR_5g047580 | 35.714 | 126 | 79 | 2 | 1 | 126 | 29 | 152 | 3.29e-19 | 78.6 |
| MS.gene41504.t1 | MTR_1g077320 | 34.677 | 124 | 77 | 3 | 4 | 126 | 32 | 152 | 7.40e-19 | 77.8 |
| MS.gene41504.t1 | MTR_1g077390 | 34.921 | 126 | 80 | 2 | 1 | 126 | 29 | 152 | 1.52e-17 | 74.3 |
| MS.gene41504.t1 | MTR_1g077300 | 30.769 | 130 | 86 | 2 | 4 | 133 | 32 | 157 | 2.54e-17 | 73.6 |
| MS.gene41504.t1 | MTR_4g028720 | 31.746 | 126 | 84 | 2 | 4 | 129 | 32 | 155 | 3.46e-17 | 73.2 |
| MS.gene41504.t1 | MTR_7g055800 | 42.857 | 84 | 33 | 1 | 3 | 86 | 18 | 86 | 5.12e-17 | 71.2 |
| MS.gene41504.t1 | MTR_7g011950 | 30.952 | 126 | 85 | 2 | 4 | 129 | 32 | 155 | 6.79e-17 | 72.8 |
| MS.gene41504.t1 | MTR_1g084950 | 32.258 | 124 | 80 | 3 | 4 | 126 | 32 | 152 | 2.66e-16 | 70.9 |
| MS.gene41504.t1 | MTR_1g090783 | 30.952 | 126 | 85 | 2 | 1 | 126 | 28 | 151 | 6.33e-16 | 70.1 |
| MS.gene41504.t1 | MTR_7g055940 | 42.105 | 76 | 29 | 1 | 3 | 78 | 18 | 78 | 1.50e-14 | 64.3 |
| MS.gene41504.t1 | MTR_1g090697 | 29.134 | 127 | 86 | 3 | 1 | 126 | 29 | 152 | 1.28e-13 | 63.9 |
| MS.gene41504.t1 | MTR_4g084780 | 55.556 | 54 | 24 | 0 | 46 | 99 | 1 | 54 | 1.91e-12 | 60.8 |
| MS.gene41504.t1 | MTR_4g028800 | 48.889 | 45 | 23 | 0 | 1 | 45 | 27 | 71 | 5.64e-12 | 57.8 |
| MS.gene41504.t1 | MTR_1g090710 | 27.344 | 128 | 88 | 3 | 1 | 126 | 29 | 153 | 1.41e-11 | 58.5 |
| MS.gene41504.t1 | MTR_4g019670 | 35.227 | 88 | 57 | 0 | 3 | 90 | 34 | 121 | 6.01e-11 | 58.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene41504.t1 | AT5G48670 | 44.000 | 125 | 67 | 2 | 4 | 127 | 32 | 154 | 5.65e-29 | 107 |
| MS.gene41504.t1 | AT5G27810 | 52.809 | 89 | 42 | 0 | 1 | 89 | 1 | 89 | 4.11e-28 | 100 |
| MS.gene41504.t1 | AT1G65300 | 39.394 | 132 | 78 | 2 | 2 | 133 | 29 | 158 | 9.37e-25 | 95.9 |
| MS.gene41504.t1 | AT1G65330 | 37.705 | 122 | 75 | 1 | 1 | 122 | 28 | 148 | 2.34e-20 | 84.3 |
| MS.gene41504.t1 | AT3G05860 | 39.062 | 128 | 65 | 3 | 1 | 122 | 29 | 149 | 4.22e-20 | 82.0 |
| MS.gene41504.t1 | AT3G05860 | 39.062 | 128 | 65 | 3 | 1 | 122 | 29 | 149 | 1.46e-19 | 81.6 |
| MS.gene41504.t1 | AT3G05860 | 39.062 | 128 | 65 | 3 | 1 | 122 | 29 | 149 | 1.57e-19 | 81.6 |
| MS.gene41504.t1 | AT5G26630 | 32.231 | 121 | 81 | 1 | 6 | 126 | 34 | 153 | 5.39e-18 | 76.6 |
| MS.gene41504.t1 | AT5G26650 | 31.783 | 129 | 87 | 1 | 1 | 129 | 27 | 154 | 1.00e-16 | 75.1 |
| MS.gene41504.t1 | AT1G31640 | 36.496 | 137 | 72 | 5 | 2 | 132 | 29 | 156 | 1.67e-16 | 74.7 |
| MS.gene41504.t1 | AT5G27960 | 40.741 | 81 | 48 | 0 | 2 | 82 | 28 | 108 | 9.01e-15 | 69.3 |
| MS.gene41504.t1 | AT2G28700 | 33.333 | 126 | 75 | 3 | 1 | 122 | 29 | 149 | 1.25e-13 | 66.2 |
| MS.gene41504.t1 | AT1G31630 | 32.374 | 139 | 74 | 6 | 3 | 133 | 30 | 156 | 9.18e-13 | 63.9 |
| MS.gene41504.t1 | AT1G22590 | 35.802 | 81 | 52 | 0 | 1 | 81 | 29 | 109 | 7.77e-12 | 59.7 |
Find 28 sgRNAs with CRISPR-Local
Find 33 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTGGTCATTTCCTCCTTTC+TGG | 0.057843 | 3.1:+51442638 | None:intergenic |
| ATTCATACCACAGAATTTAA+TGG | 0.196701 | 3.1:-51442600 | MS.gene41504:CDS |
| CAGGTTTGGCCATCAGATTC+AGG | 0.224706 | 3.1:-51442795 | MS.gene41504:CDS |
| TATTCTTGAGGCAAAGTATT+GGG | 0.351669 | 3.1:-51442698 | MS.gene41504:CDS |
| GTTCAAGAGTTTGCATGAAC+TGG | 0.380322 | 3.1:-51442751 | MS.gene41504:CDS |
| GATGAAATTAGCACTCTTTG+TGG | 0.382102 | 3.1:-51442864 | MS.gene41504:CDS |
| CTGAATCTGATGGCCAAACC+TGG | 0.394792 | 3.1:+51442796 | None:intergenic |
| TTTGTTTCATCAACTGCTCA+TGG | 0.410143 | 3.1:+51442670 | None:intergenic |
| AATGAAATGATGAATGATAT+TGG | 0.442815 | 3.1:+51442620 | None:intergenic |
| AGGTTTGGCCATCAGATTCA+GGG | 0.444978 | 3.1:-51442794 | MS.gene41504:CDS |
| ACAATCCTCAAGCCCAGGTT+TGG | 0.451431 | 3.1:-51442809 | MS.gene41504:CDS |
| GGGTTAGAAGTGTGATATCC+AGG | 0.506627 | 3.1:-51442773 | MS.gene41504:CDS |
| GTATTCTTGAGGCAAAGTAT+TGG | 0.524622 | 3.1:-51442699 | MS.gene41504:CDS |
| ACTCTTTGTGGAATAGAAGC+TGG | 0.543874 | 3.1:-51442852 | MS.gene41504:CDS |
| TAAATATCCATTAAATTCTG+TGG | 0.554522 | 3.1:+51442593 | None:intergenic |
| GATGGCCAAACCTGGGCTTG+AGG | 0.558655 | 3.1:+51442804 | None:intergenic |
| GCAAAACAATCCTCAAGCCC+AGG | 0.573782 | 3.1:-51442814 | MS.gene41504:CDS |
| ACAAAGGAAGGAAACCAGAA+AGG | 0.579534 | 3.1:-51442652 | MS.gene41504:CDS |
| TTCATGCAAACTCTTGAACC+TGG | 0.581655 | 3.1:+51442755 | None:intergenic |
| CAAATTCTCATCAATAAAAG+CGG | 0.585206 | 3.1:+51442542 | None:intergenic |
| TGAATCTGATGGCCAAACCT+GGG | 0.592740 | 3.1:+51442797 | None:intergenic |
| CTTCTAACCCCTGAATCTGA+TGG | 0.608216 | 3.1:+51442786 | None:intergenic |
| AAGGAAGGAAACCAGAAAGG+AGG | 0.615022 | 3.1:-51442649 | MS.gene41504:CDS |
| ATGAGCAGTTGATGAAACAA+AGG | 0.621497 | 3.1:-51442668 | MS.gene41504:CDS |
| GGTTTGGCCATCAGATTCAG+GGG | 0.621539 | 3.1:-51442793 | MS.gene41504:CDS |
| GCAGTTGATGAAACAAAGGA+AGG | 0.627441 | 3.1:-51442664 | MS.gene41504:CDS |
| TATTGATGAGAATTTGAGGG+AGG | 0.643852 | 3.1:-51442535 | MS.gene41504:CDS |
| TGGATCAAGAGGTATTCTTG+AGG | 0.709854 | 3.1:-51442710 | MS.gene41504:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATGAAATGATGAATGATAT+TGG | + | chr3.1:51442756-51442775 | None:intergenic | 20.0% |
| !! | TAAATATCCATTAAATTCTG+TGG | + | chr3.1:51442783-51442802 | None:intergenic | 20.0% |
| !!! | TTTTATTGATGAGAATTTGA+GGG | - | chr3.1:51442835-51442854 | MS.gene41504:CDS | 20.0% |
| ! | ATTCATACCACAGAATTTAA+TGG | - | chr3.1:51442773-51442792 | MS.gene41504:CDS | 25.0% |
| ! | CAAATTCTCATCAATAAAAG+CGG | + | chr3.1:51442834-51442853 | None:intergenic | 25.0% |
| !! | CTTTTATTGATGAGAATTTG+AGG | - | chr3.1:51442834-51442853 | MS.gene41504:CDS | 25.0% |
| ACTGGAACAAAGTAAAAAGA+TGG | - | chr3.1:51442640-51442659 | MS.gene41504:CDS | 30.0% | |
| ! | TATTCTTGAGGCAAAGTATT+GGG | - | chr3.1:51442675-51442694 | MS.gene41504:CDS | 30.0% |
| GATGAAATTAGCACTCTTTG+TGG | - | chr3.1:51442509-51442528 | MS.gene41504:CDS | 35.0% | |
| GGAACAAAGTAAAAAGATGG+TGG | - | chr3.1:51442643-51442662 | MS.gene41504:CDS | 35.0% | |
| GTATTCTTGAGGCAAAGTAT+TGG | - | chr3.1:51442674-51442693 | MS.gene41504:CDS | 35.0% | |
| TATTGATGAGAATTTGAGGG+AGG | - | chr3.1:51442838-51442857 | MS.gene41504:CDS | 35.0% | |
| TTTGTTTCATCAACTGCTCA+TGG | + | chr3.1:51442706-51442725 | None:intergenic | 35.0% | |
| !! | ATGAGCAGTTGATGAAACAA+AGG | - | chr3.1:51442705-51442724 | MS.gene41504:CDS | 35.0% |
| !! | TAAAAAGATGGTGGATCAAG+AGG | - | chr3.1:51442652-51442671 | MS.gene41504:CDS | 35.0% |
| ACAAAGGAAGGAAACCAGAA+AGG | - | chr3.1:51442721-51442740 | MS.gene41504:CDS | 40.0% | |
| ACTCTTTGTGGAATAGAAGC+TGG | - | chr3.1:51442521-51442540 | MS.gene41504:CDS | 40.0% | |
| ATTGGTCATTTCCTCCTTTC+TGG | + | chr3.1:51442738-51442757 | None:intergenic | 40.0% | |
| GTTCAAGAGTTTGCATGAAC+TGG | - | chr3.1:51442622-51442641 | MS.gene41504:CDS | 40.0% | |
| TTCATGCAAACTCTTGAACC+TGG | + | chr3.1:51442621-51442640 | None:intergenic | 40.0% | |
| !! | GCAGTTGATGAAACAAAGGA+AGG | - | chr3.1:51442709-51442728 | MS.gene41504:CDS | 40.0% |
| !! | TGGATCAAGAGGTATTCTTG+AGG | - | chr3.1:51442663-51442682 | MS.gene41504:CDS | 40.0% |
| AAGGAAGGAAACCAGAAAGG+AGG | - | chr3.1:51442724-51442743 | MS.gene41504:CDS | 45.0% | |
| AGGTTTGGCCATCAGATTCA+GGG | - | chr3.1:51442579-51442598 | MS.gene41504:CDS | 45.0% | |
| CTTCTAACCCCTGAATCTGA+TGG | + | chr3.1:51442590-51442609 | None:intergenic | 45.0% | |
| TGAATCTGATGGCCAAACCT+GGG | + | chr3.1:51442579-51442598 | None:intergenic | 45.0% | |
| ! | GGGTTAGAAGTGTGATATCC+AGG | - | chr3.1:51442600-51442619 | MS.gene41504:CDS | 45.0% |
| ACAATCCTCAAGCCCAGGTT+TGG | - | chr3.1:51442564-51442583 | MS.gene41504:CDS | 50.0% | |
| CAGGTTTGGCCATCAGATTC+AGG | - | chr3.1:51442578-51442597 | MS.gene41504:CDS | 50.0% | |
| CTGAATCTGATGGCCAAACC+TGG | + | chr3.1:51442580-51442599 | None:intergenic | 50.0% | |
| GCAAAACAATCCTCAAGCCC+AGG | - | chr3.1:51442559-51442578 | MS.gene41504:CDS | 50.0% | |
| GGTTTGGCCATCAGATTCAG+GGG | - | chr3.1:51442580-51442599 | MS.gene41504:CDS | 50.0% | |
| GATGGCCAAACCTGGGCTTG+AGG | + | chr3.1:51442572-51442591 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.1 | gene | 51442497 | 51442898 | 51442497 | ID=MS.gene41504 |
| chr3.1 | mRNA | 51442497 | 51442898 | 51442497 | ID=MS.gene41504.t1;Parent=MS.gene41504 |
| chr3.1 | exon | 51442497 | 51442898 | 51442497 | ID=MS.gene41504.t1.exon1;Parent=MS.gene41504.t1 |
| chr3.1 | CDS | 51442497 | 51442898 | 51442497 | ID=cds.MS.gene41504.t1;Parent=MS.gene41504.t1 |
| Gene Sequence |
| Protein sequence |
