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.gene027339.t1 | XP_013468829.1 | 91.8 | 159 | 13 | 0 | 1 | 159 | 1 | 159 | 1.80E-72 | 282 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene027339.t1 | Q9FJK3 | 46.2 | 156 | 83 | 1 | 1 | 155 | 1 | 156 | 3.0e-28 | 126.3 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene027339.t1 | A0A072VMQ1 | 91.8 | 159 | 13 | 0 | 1 | 159 | 1 | 159 | 1.3e-72 | 282.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene027339.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.gene027339.t1 | MTR_1g077320 | 91.824 | 159 | 13 | 0 | 1 | 159 | 1 | 159 | 1.32e-97 | 278 |
| MS.gene027339.t1 | MTR_7g011950 | 88.679 | 159 | 18 | 0 | 1 | 159 | 1 | 159 | 3.12e-94 | 270 |
| MS.gene027339.t1 | MTR_4g028720 | 86.792 | 159 | 21 | 0 | 1 | 159 | 1 | 159 | 3.23e-94 | 270 |
| MS.gene027339.t1 | MTR_1g077390 | 71.975 | 157 | 44 | 0 | 1 | 157 | 1 | 157 | 2.12e-79 | 232 |
| MS.gene027339.t1 | MTR_1g077300 | 74.843 | 159 | 38 | 1 | 1 | 159 | 1 | 157 | 6.73e-75 | 221 |
| MS.gene027339.t1 | MTR_5g047580 | 68.590 | 156 | 49 | 0 | 1 | 156 | 1 | 156 | 7.02e-74 | 218 |
| MS.gene027339.t1 | MTR_1g084950 | 73.077 | 156 | 42 | 0 | 1 | 156 | 1 | 156 | 8.26e-73 | 216 |
| MS.gene027339.t1 | MTR_1g090697 | 57.419 | 155 | 66 | 0 | 1 | 155 | 1 | 155 | 8.19e-59 | 180 |
| MS.gene027339.t1 | MTR_1g090710 | 55.769 | 156 | 68 | 1 | 1 | 155 | 1 | 156 | 7.41e-57 | 175 |
| MS.gene027339.t1 | MTR_5g047560 | 57.692 | 156 | 50 | 1 | 1 | 156 | 1 | 140 | 4.74e-56 | 172 |
| MS.gene027339.t1 | MTR_1g090783 | 54.902 | 153 | 69 | 0 | 3 | 155 | 2 | 154 | 2.06e-55 | 171 |
| MS.gene027339.t1 | MTR_3g065100 | 49.682 | 157 | 78 | 1 | 1 | 156 | 1 | 157 | 1.10e-38 | 132 |
| MS.gene027339.t1 | MTR_5g075380 | 39.744 | 156 | 93 | 1 | 1 | 155 | 1 | 156 | 3.42e-38 | 128 |
| MS.gene027339.t1 | MTR_3g466980 | 43.137 | 153 | 86 | 1 | 1 | 152 | 1 | 153 | 1.01e-36 | 126 |
| MS.gene027339.t1 | MTR_4g032620 | 37.419 | 155 | 95 | 2 | 1 | 153 | 1 | 155 | 3.60e-35 | 122 |
| MS.gene027339.t1 | MTR_4g063790 | 38.994 | 159 | 95 | 2 | 1 | 157 | 1 | 159 | 7.68e-34 | 117 |
| MS.gene027339.t1 | MTR_3g466830 | 42.038 | 157 | 90 | 1 | 3 | 158 | 2 | 158 | 4.27e-33 | 115 |
| MS.gene027339.t1 | MTR_4g031910 | 43.333 | 150 | 83 | 2 | 1 | 148 | 1 | 150 | 6.27e-32 | 114 |
| MS.gene027339.t1 | MTR_3g031240 | 36.478 | 159 | 99 | 2 | 1 | 157 | 1 | 159 | 3.19e-31 | 111 |
| MS.gene027339.t1 | MTR_4g032260 | 43.125 | 160 | 89 | 2 | 1 | 158 | 1 | 160 | 2.81e-30 | 107 |
| MS.gene027339.t1 | MTR_3g466890 | 40.260 | 154 | 91 | 1 | 3 | 155 | 2 | 155 | 2.88e-30 | 107 |
| MS.gene027339.t1 | MTR_2g016210 | 39.623 | 159 | 94 | 2 | 1 | 157 | 1 | 159 | 1.71e-29 | 108 |
| MS.gene027339.t1 | MTR_8g036130 | 37.107 | 159 | 96 | 2 | 1 | 155 | 1 | 159 | 4.94e-29 | 107 |
| MS.gene027339.t1 | MTR_3g031100 | 36.709 | 158 | 96 | 3 | 1 | 155 | 1 | 157 | 1.48e-27 | 103 |
| MS.gene027339.t1 | MTR_4g032290 | 43.333 | 150 | 83 | 2 | 1 | 148 | 1 | 150 | 6.65e-27 | 101 |
| MS.gene027339.t1 | MTR_3g467080 | 33.333 | 159 | 104 | 2 | 1 | 157 | 1 | 159 | 1.18e-26 | 98.6 |
| MS.gene027339.t1 | MTR_2g035610 | 41.880 | 117 | 67 | 1 | 1 | 116 | 1 | 117 | 1.64e-24 | 92.0 |
| MS.gene027339.t1 | MTR_2g035580 | 32.903 | 155 | 103 | 1 | 1 | 154 | 1 | 155 | 3.33e-22 | 87.0 |
| MS.gene027339.t1 | MTR_3g465410 | 35.115 | 131 | 83 | 2 | 29 | 157 | 1 | 131 | 1.49e-21 | 85.1 |
| MS.gene027339.t1 | MTR_4g028800 | 46.575 | 73 | 37 | 1 | 1 | 73 | 1 | 71 | 2.76e-19 | 77.4 |
| MS.gene027339.t1 | MTR_3g466930 | 36.000 | 125 | 79 | 1 | 32 | 155 | 2 | 126 | 1.28e-18 | 77.4 |
| MS.gene027339.t1 | MTR_4g019670 | 33.553 | 152 | 94 | 3 | 1 | 148 | 1 | 149 | 2.77e-18 | 80.9 |
| MS.gene027339.t1 | MTR_3g466900 | 37.302 | 126 | 76 | 2 | 32 | 155 | 2 | 126 | 6.01e-18 | 75.5 |
| MS.gene027339.t1 | MTR_7g106510 | 36.111 | 108 | 68 | 1 | 3 | 109 | 6 | 113 | 5.12e-17 | 77.4 |
| MS.gene027339.t1 | MTR_7g055800 | 32.456 | 114 | 50 | 2 | 1 | 114 | 1 | 87 | 1.49e-13 | 63.2 |
| MS.gene027339.t1 | MTR_3g093900 | 27.632 | 152 | 105 | 2 | 3 | 151 | 6 | 155 | 5.85e-13 | 65.9 |
| MS.gene027339.t1 | MTR_7g055790 | 37.037 | 108 | 51 | 2 | 1 | 108 | 59 | 149 | 8.45e-12 | 60.1 |
| MS.gene027339.t1 | MTR_1g033370 | 40.426 | 94 | 55 | 1 | 64 | 156 | 28 | 121 | 1.18e-11 | 58.9 |
| MS.gene027339.t1 | MTR_1g033930 | 37.500 | 96 | 59 | 1 | 64 | 158 | 22 | 117 | 1.43e-11 | 58.5 |
| MS.gene027339.t1 | MTR_7g055940 | 33.333 | 105 | 43 | 3 | 1 | 105 | 1 | 78 | 2.31e-11 | 57.0 |
| MS.gene027339.t1 | MTR_6g005450 | 29.464 | 112 | 73 | 3 | 1 | 106 | 1 | 112 | 5.14e-11 | 60.1 |
| MS.gene027339.t1 | MTR_1g033790 | 38.542 | 96 | 58 | 1 | 64 | 158 | 22 | 117 | 5.80e-11 | 57.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene027339.t1 | AT5G48670 | 46.154 | 156 | 83 | 1 | 1 | 155 | 1 | 156 | 5.31e-34 | 122 |
| MS.gene027339.t1 | AT3G05860 | 39.597 | 149 | 89 | 1 | 1 | 148 | 1 | 149 | 3.28e-31 | 111 |
| MS.gene027339.t1 | AT3G05860 | 39.597 | 149 | 89 | 1 | 1 | 148 | 1 | 149 | 1.89e-30 | 110 |
| MS.gene027339.t1 | AT3G05860 | 39.597 | 149 | 89 | 1 | 1 | 148 | 1 | 149 | 2.40e-30 | 110 |
| MS.gene027339.t1 | AT5G26630 | 39.375 | 160 | 96 | 1 | 1 | 159 | 1 | 160 | 1.07e-29 | 108 |
| MS.gene027339.t1 | AT1G65300 | 36.735 | 147 | 92 | 1 | 3 | 148 | 2 | 148 | 6.42e-28 | 105 |
| MS.gene027339.t1 | AT1G65330 | 37.415 | 147 | 91 | 1 | 3 | 148 | 2 | 148 | 2.17e-27 | 103 |
| MS.gene027339.t1 | AT5G26650 | 35.948 | 153 | 97 | 1 | 4 | 155 | 2 | 154 | 8.08e-25 | 98.2 |
| MS.gene027339.t1 | AT5G27960 | 44.860 | 107 | 58 | 1 | 4 | 109 | 2 | 108 | 2.90e-24 | 96.3 |
| MS.gene027339.t1 | AT1G22590 | 29.630 | 162 | 98 | 3 | 1 | 155 | 1 | 153 | 2.19e-21 | 85.1 |
| MS.gene027339.t1 | AT5G27810 | 43.750 | 96 | 53 | 1 | 29 | 123 | 1 | 96 | 2.36e-20 | 81.3 |
| MS.gene027339.t1 | AT1G31630 | 29.032 | 155 | 108 | 2 | 3 | 156 | 2 | 155 | 1.37e-19 | 84.0 |
| MS.gene027339.t1 | AT2G28700 | 34.532 | 139 | 88 | 2 | 1 | 138 | 1 | 137 | 6.46e-19 | 82.0 |
| MS.gene027339.t1 | AT1G31640 | 39.640 | 111 | 65 | 2 | 3 | 112 | 2 | 111 | 1.53e-18 | 81.6 |
| MS.gene027339.t1 | AT5G26580 | 37.615 | 109 | 55 | 1 | 1 | 109 | 1 | 96 | 1.17e-16 | 75.9 |
| MS.gene027339.t1 | AT2G40210 | 38.835 | 103 | 58 | 2 | 1 | 100 | 1 | 101 | 2.24e-13 | 66.6 |
| MS.gene027339.t1 | AT5G58890 | 34.234 | 111 | 65 | 3 | 1 | 104 | 1 | 110 | 4.82e-13 | 65.5 |
| MS.gene027339.t1 | AT5G06500 | 36.792 | 106 | 63 | 2 | 1 | 102 | 1 | 106 | 1.58e-12 | 63.5 |
Find 27 sgRNAs with CRISPR-Local
Find 32 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTTGCAAAAGGAAACTTTCT+TGG | 0.253590 | 7.4:-49914757 | None:intergenic |
| AACAGAGGTGTGGCCAAATC+TGG | 0.333286 | 7.4:+49914667 | MS.gene027339:CDS |
| TGTTGAATCATTGGAGATAA+AGG | 0.341938 | 7.4:-49914531 | None:intergenic |
| CTTGTCTTTGCTTTCTCAGT+TGG | 0.347479 | 7.4:-49914799 | None:intergenic |
| AGCCTTTCTTGTTGAATCAT+TGG | 0.353862 | 7.4:-49914540 | None:intergenic |
| CTCCAATGATTCAACAAGAA+AGG | 0.407412 | 7.4:+49914538 | MS.gene027339:CDS |
| AAATCTGGAGGAAGCAAAAC+AGG | 0.418438 | 7.4:+49914682 | MS.gene027339:CDS |
| CTTTAGTAATCTGTTGCAAA+AGG | 0.444882 | 7.4:-49914769 | None:intergenic |
| TCTTTCTGATTTGAAAGACT+TGG | 0.461416 | 7.4:+49914895 | MS.gene027339:CDS |
| GAAGAAAAGTATCATAAAGA+AGG | 0.475254 | 7.4:+49914577 | MS.gene027339:CDS |
| TCAGAAAGAGTGATATCATC+TGG | 0.482942 | 7.4:-49914881 | None:intergenic |
| TTTCACCTTCTTCCTAGTCA+TGG | 0.490416 | 7.4:-49914504 | None:intergenic |
| CAGAACTCATATATGAAAGA+TGG | 0.506115 | 7.4:+49914719 | MS.gene027339:CDS |
| AGCTGAACATTCGTATGAGC+TGG | 0.525005 | 7.4:+49914837 | MS.gene027339:CDS |
| AGAGAACTCACTATTCTTTG+TGG | 0.526508 | 7.4:+49914602 | MS.gene027339:CDS |
| TGCAACAGATTACTAAAGCT+AGG | 0.531119 | 7.4:+49914774 | MS.gene027339:CDS |
| GCAACAGATTACTAAAGCTA+GGG | 0.532673 | 7.4:+49914775 | MS.gene027339:CDS |
| GAAGGAAATTGATGACAAGA+TGG | 0.550366 | 7.4:+49914940 | MS.gene027339:CDS |
| CGAAGCCATGACTAGGAAGA+AGG | 0.551367 | 7.4:+49914499 | None:intergenic |
| AGGATCGGAAATTATAGCAC+AGG | 0.559456 | 7.4:-49914633 | None:intergenic |
| GAAAGGCTTCCTACAAGAAG+AGG | 0.563850 | 7.4:+49914555 | MS.gene027339:CDS |
| TCGGAAATTATAGCACAGGC+TGG | 0.570119 | 7.4:-49914629 | None:intergenic |
| TACATTGCGAAGCCATGACT+AGG | 0.618148 | 7.4:+49914492 | None:intergenic |
| TTGATTCTAAAACAGAGGTG+TGG | 0.633348 | 7.4:+49914657 | MS.gene027339:CDS |
| AAGCAAAACAGGTGATTGAG+AGG | 0.635256 | 7.4:+49914693 | MS.gene027339:CDS |
| AGAGGTGTGGCCAAATCTGG+AGG | 0.647190 | 7.4:+49914670 | MS.gene027339:CDS |
| CTGGTACCTGCAAAACAACA+CGG | 0.672567 | 7.4:+49914856 | MS.gene027339:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GTTAATTGCAAAAAGTATGA+AGG | + | chr7.4:49914922-49914941 | MS.gene027339:CDS | 25.0% |
| !!! | GAAGAAAAGTATCATAAAGA+AGG | + | chr7.4:49914577-49914596 | MS.gene027339:CDS | 25.0% |
| !!! | TGTTTTAGAATCAAAAGGAT+CGG | - | chr7.4:49914651-49914670 | None:intergenic | 25.0% |
| CAGAACTCATATATGAAAGA+TGG | + | chr7.4:49914719-49914738 | MS.gene027339:CDS | 30.0% | |
| CTTTAGTAATCTGTTGCAAA+AGG | - | chr7.4:49914772-49914791 | None:intergenic | 30.0% | |
| TGTTGAATCATTGGAGATAA+AGG | - | chr7.4:49914534-49914553 | None:intergenic | 30.0% | |
| ! | TCTTTCTGATTTGAAAGACT+TGG | + | chr7.4:49914895-49914914 | MS.gene027339:CDS | 30.0% |
| !!! | ACCTCTGTTTTAGAATCAAA+AGG | - | chr7.4:49914656-49914675 | None:intergenic | 30.0% |
| !!! | TCCTTTTGATTCTAAAACAG+AGG | + | chr7.4:49914652-49914671 | MS.gene027339:CDS | 30.0% |
| AGAGAACTCACTATTCTTTG+TGG | + | chr7.4:49914602-49914621 | MS.gene027339:CDS | 35.0% | |
| AGCCTTTCTTGTTGAATCAT+TGG | - | chr7.4:49914543-49914562 | None:intergenic | 35.0% | |
| CTCCAATGATTCAACAAGAA+AGG | + | chr7.4:49914538-49914557 | MS.gene027339:CDS | 35.0% | |
| GAAAGATGGCAGAAAAAATG+TGG | + | chr7.4:49914733-49914752 | MS.gene027339:CDS | 35.0% | |
| GCAACAGATTACTAAAGCTA+GGG | + | chr7.4:49914775-49914794 | MS.gene027339:CDS | 35.0% | |
| GTTGCAAAAGGAAACTTTCT+TGG | - | chr7.4:49914760-49914779 | None:intergenic | 35.0% | |
| TCAGAAAGAGTGATATCATC+TGG | - | chr7.4:49914884-49914903 | None:intergenic | 35.0% | |
| TGCAACAGATTACTAAAGCT+AGG | + | chr7.4:49914774-49914793 | MS.gene027339:CDS | 35.0% | |
| ! | ACTTTTCTTCCTCTTCTTGT+AGG | - | chr7.4:49914567-49914586 | None:intergenic | 35.0% |
| ! | GAAGGAAATTGATGACAAGA+TGG | + | chr7.4:49914940-49914959 | MS.gene027339:CDS | 35.0% |
| !! | TTGATTCTAAAACAGAGGTG+TGG | + | chr7.4:49914657-49914676 | MS.gene027339:CDS | 35.0% |
| AAATCTGGAGGAAGCAAAAC+AGG | + | chr7.4:49914682-49914701 | MS.gene027339:CDS | 40.0% | |
| AAGCAAAACAGGTGATTGAG+AGG | + | chr7.4:49914693-49914712 | MS.gene027339:CDS | 40.0% | |
| AGGATCGGAAATTATAGCAC+AGG | - | chr7.4:49914636-49914655 | None:intergenic | 40.0% | |
| CTTGTCTTTGCTTTCTCAGT+TGG | - | chr7.4:49914802-49914821 | None:intergenic | 40.0% | |
| ! | TGTTTTGCTTCCTCCAGATT+TGG | - | chr7.4:49914683-49914702 | None:intergenic | 40.0% |
| AGCTGAACATTCGTATGAGC+TGG | + | chr7.4:49914837-49914856 | MS.gene027339:CDS | 45.0% | |
| CTGGTACCTGCAAAACAACA+CGG | + | chr7.4:49914856-49914875 | MS.gene027339:CDS | 45.0% | |
| GAAAGGCTTCCTACAAGAAG+AGG | + | chr7.4:49914555-49914574 | MS.gene027339:CDS | 45.0% | |
| TCGGAAATTATAGCACAGGC+TGG | - | chr7.4:49914632-49914651 | None:intergenic | 45.0% | |
| ! | AACAGAGGTGTGGCCAAATC+TGG | + | chr7.4:49914667-49914686 | MS.gene027339:CDS | 50.0% |
| ! | AGAGGTGTGGCCAAATCTGG+AGG | + | chr7.4:49914670-49914689 | MS.gene027339:CDS | 55.0% |
| !!! | CTGGCACCGTGTTGTTTTGC+AGG | - | chr7.4:49914865-49914884 | None:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7.4 | gene | 49914506 | 49914985 | 49914506 | ID=MS.gene027339 |
| chr7.4 | mRNA | 49914506 | 49914985 | 49914506 | ID=MS.gene027339.t1;Parent=MS.gene027339 |
| chr7.4 | exon | 49914506 | 49914985 | 49914506 | ID=MS.gene027339.t1.exon1;Parent=MS.gene027339.t1 |
| chr7.4 | CDS | 49914506 | 49914985 | 49914506 | ID=cds.MS.gene027339.t1;Parent=MS.gene027339.t1 |
| Gene Sequence |
| Protein sequence |
