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.gene072841.t1 | XP_003603313.1 | 86.8 | 235 | 24 | 3 | 1 | 235 | 1 | 228 | 1.30E-106 | 396 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene072841.t1 | Q39262 | 36.6 | 246 | 107 | 13 | 29 | 252 | 17 | 235 | 6.9e-19 | 95.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene072841.t1 | G7J9W4 | 86.8 | 235 | 24 | 3 | 1 | 235 | 1 | 228 | 9.6e-107 | 396.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene072841.t1 | TF | C2H2 |
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.gene072841.t1 | MTR_3g106230 | 85.532 | 235 | 27 | 3 | 1 | 235 | 1 | 228 | 2.59e-140 | 393 |
| MS.gene072841.t1 | MTR_1g013130 | 48.438 | 256 | 107 | 11 | 5 | 252 | 24 | 262 | 2.70e-60 | 191 |
| MS.gene072841.t1 | MTR_2g104900 | 38.583 | 254 | 117 | 15 | 12 | 252 | 20 | 247 | 4.17e-32 | 118 |
| MS.gene072841.t1 | MTR_4g006575 | 37.037 | 189 | 79 | 6 | 75 | 252 | 65 | 224 | 2.07e-25 | 100 |
| MS.gene072841.t1 | MTR_4g006600 | 37.037 | 189 | 79 | 6 | 75 | 252 | 65 | 224 | 2.07e-25 | 100 |
| MS.gene072841.t1 | MTR_1g033340 | 44.068 | 118 | 42 | 6 | 54 | 165 | 69 | 168 | 7.60e-19 | 83.2 |
| MS.gene072841.t1 | MTR_5g077370 | 50.538 | 93 | 26 | 3 | 76 | 167 | 86 | 159 | 4.64e-18 | 80.9 |
| MS.gene072841.t1 | MTR_3g065020 | 48.913 | 92 | 26 | 4 | 77 | 167 | 86 | 157 | 3.33e-17 | 78.6 |
| MS.gene072841.t1 | MTR_1g107055 | 41.584 | 101 | 29 | 4 | 71 | 166 | 57 | 132 | 2.34e-14 | 69.7 |
| MS.gene072841.t1 | MTR_4g128340 | 73.684 | 38 | 10 | 0 | 75 | 112 | 43 | 80 | 7.33e-14 | 67.8 |
| MS.gene072841.t1 | MTR_3g011970 | 41.837 | 98 | 48 | 4 | 69 | 166 | 90 | 178 | 1.49e-13 | 69.3 |
| MS.gene072841.t1 | MTR_8g466760 | 35.075 | 134 | 65 | 6 | 51 | 184 | 75 | 186 | 2.09e-12 | 65.9 |
| MS.gene072841.t1 | MTR_3g009410 | 35.398 | 113 | 52 | 4 | 74 | 176 | 95 | 196 | 2.88e-11 | 62.8 |
| MS.gene072841.t1 | MTR_3g011990 | 36.364 | 110 | 50 | 4 | 71 | 176 | 92 | 185 | 5.15e-11 | 62.0 |
| MS.gene072841.t1 | MTR_5g008280 | 34.454 | 119 | 62 | 4 | 77 | 195 | 46 | 148 | 5.93e-11 | 62.0 |
| MS.gene072841.t1 | MTR_7g022980 | 35.088 | 114 | 56 | 5 | 75 | 184 | 64 | 163 | 7.32e-11 | 61.2 |
| MS.gene072841.t1 | MTR_7g086860 | 61.538 | 39 | 15 | 0 | 77 | 115 | 30 | 68 | 9.94e-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.gene072841.t1 | AT5G25160 | 38.496 | 226 | 91 | 12 | 48 | 252 | 37 | 235 | 4.93e-28 | 107 |
| MS.gene072841.t1 | AT5G10970 | 36.652 | 221 | 97 | 10 | 48 | 252 | 79 | 272 | 4.63e-26 | 103 |
| MS.gene072841.t1 | AT1G80730 | 49.485 | 97 | 46 | 3 | 71 | 166 | 60 | 154 | 6.55e-22 | 90.9 |
| MS.gene072841.t1 | AT1G66140 | 46.739 | 92 | 37 | 3 | 77 | 161 | 83 | 169 | 6.51e-16 | 75.5 |
| MS.gene072841.t1 | AT1G24625 | 76.316 | 38 | 9 | 0 | 74 | 111 | 54 | 91 | 3.43e-15 | 72.4 |
| MS.gene072841.t1 | AT5G57520 | 65.909 | 44 | 15 | 0 | 75 | 118 | 48 | 91 | 1.84e-14 | 69.3 |
| MS.gene072841.t1 | AT5G14010 | 73.529 | 34 | 9 | 0 | 77 | 110 | 36 | 69 | 2.02e-12 | 63.9 |
| MS.gene072841.t1 | AT1G67030 | 44.944 | 89 | 44 | 3 | 44 | 132 | 7 | 90 | 6.47e-11 | 60.5 |
| MS.gene072841.t1 | AT3G58070 | 52.459 | 61 | 24 | 1 | 56 | 116 | 73 | 128 | 7.33e-11 | 61.2 |
Find 45 sgRNAs with CRISPR-Local
Find 53 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGAATTGAAAGCAATTATTA+TGG | 0.211258 | 3.2:-87726899 | MS.gene072841:CDS |
| TATGAGACCATTTGCAATTA+AGG | 0.217801 | 3.2:-87726972 | MS.gene072841:CDS |
| TCACAACCGTTATGCAAATA+TGG | 0.314680 | 3.2:-87727032 | MS.gene072841:CDS |
| TAGATTCGGAAAGGTTAAAA+AGG | 0.319744 | 3.2:-87726771 | MS.gene072841:CDS |
| GCTACTGATGCAAACTTTCC+AGG | 0.343879 | 3.2:-87726825 | MS.gene072841:CDS |
| CCTAACGATGATTGTGATCT+TGG | 0.347148 | 3.2:-87727322 | MS.gene072841:CDS |
| TTCCAGATTGTTGATTCATA+AGG | 0.348814 | 3.2:+87726855 | None:intergenic |
| TCCAGATTGTTGATTCATAA+GGG | 0.359823 | 3.2:+87726856 | None:intergenic |
| ATTGCAGAATCCACATGAAT+TGG | 0.369569 | 3.2:-87727413 | MS.gene072841:CDS |
| GAATTGAAAGCAATTATTAT+GGG | 0.373275 | 3.2:-87726898 | MS.gene072841:CDS |
| AGAATTATCTATGTCTAAAC+AGG | 0.387114 | 3.2:+87727273 | None:intergenic |
| ATGCAAACTTTCCAGGAAAC+AGG | 0.389355 | 3.2:-87726818 | MS.gene072841:CDS |
| GTGATGGTAATCCTGTTTCC+TGG | 0.396510 | 3.2:+87726807 | None:intergenic |
| TTGGATGAAAATTTATGAAA+AGG | 0.404264 | 3.2:+87726929 | None:intergenic |
| CAAAGTAGTGTTGGTAGATT+CGG | 0.411274 | 3.2:-87726785 | MS.gene072841:CDS |
| AGCAATTATTATGGGTATCA+TGG | 0.430203 | 3.2:-87726890 | MS.gene072841:CDS |
| CCCCTTATGAATCAACAATC+TGG | 0.432563 | 3.2:-87726857 | MS.gene072841:CDS |
| GACATGCTCAATTCAGGAAC+TGG | 0.435799 | 3.2:-87726749 | MS.gene072841:CDS |
| AGAACGATGTTCTCAGCAAC+AGG | 0.459446 | 3.2:-87727088 | MS.gene072841:CDS |
| TTCTTCAGTTCACAAGCACT+TGG | 0.470251 | 3.2:-87727163 | MS.gene072841:CDS |
| CTAACGATGATTGTGATCTT+GGG | 0.483992 | 3.2:-87727321 | MS.gene072841:CDS |
| GCTTTCAATTCCAAAGCCAT+TGG | 0.496119 | 3.2:+87726910 | None:intergenic |
| TCTTCAGTTCACAAGCACTT+GGG | 0.508835 | 3.2:-87727162 | MS.gene072841:CDS |
| CTTCAGTTCACAAGCACTTG+GGG | 0.514360 | 3.2:-87727161 | MS.gene072841:CDS |
| GAGTGTGCCTTAATTGCAAA+TGG | 0.520506 | 3.2:+87726965 | None:intergenic |
| TGCAATTAAGGCACACTCGA+TGG | 0.523345 | 3.2:-87726960 | MS.gene072841:CDS |
| CCAAGATCACAATCATCGTT+AGG | 0.527605 | 3.2:+87727322 | None:intergenic |
| GGAAGAAGAAAAGGAAGCAA+AGG | 0.530366 | 3.2:-87727371 | MS.gene072841:CDS |
| ATGAATCAACAATCTGGAAG+AGG | 0.552126 | 3.2:-87726851 | MS.gene072841:CDS |
| ATGATATTTATGAAGAAATG+AGG | 0.554191 | 3.2:+87727057 | None:intergenic |
| GAGATGCCATATTTGCATAA+CGG | 0.557005 | 3.2:+87727026 | None:intergenic |
| ATTATTATGGGTATCATGGA+TGG | 0.573211 | 3.2:-87726886 | MS.gene072841:CDS |
| TTATGTTTCTCCAATTCATG+TGG | 0.577273 | 3.2:+87727403 | None:intergenic |
| CCAGATTGTTGATTCATAAG+GGG | 0.580761 | 3.2:+87726857 | None:intergenic |
| TAGTGTTGGTAGATTCGGAA+AGG | 0.588233 | 3.2:-87726780 | MS.gene072841:CDS |
| CTCGAAGAGTAATCAACAAG+AGG | 0.595525 | 3.2:-87726720 | MS.gene072841:CDS |
| CTACCAACACTACTTTGTGA+TGG | 0.596720 | 3.2:+87726791 | None:intergenic |
| TTACCATCACAAAGTAGTGT+TGG | 0.606864 | 3.2:-87726794 | MS.gene072841:CDS |
| TCATCAGAAAACTTCACTTG+TGG | 0.611490 | 3.2:-87727241 | MS.gene072841:CDS |
| AGAGCTTTAACGATAAGTCA+AGG | 0.617739 | 3.2:+87726690 | None:intergenic |
| AAAATGCTCACAAGAGAGAG+AGG | 0.643637 | 3.2:-87727132 | MS.gene072841:CDS |
| TTCAGTTCACAAGCACTTGG+GGG | 0.644584 | 3.2:-87727160 | MS.gene072841:CDS |
| ATATTTATGAAGAAATGAGG+TGG | 0.662714 | 3.2:+87727060 | None:intergenic |
| TTACTATTAGCACAGAAGAG+TGG | 0.684083 | 3.2:+87726998 | None:intergenic |
| ACGATGTTCTCAGCAACAGG+AGG | 0.689396 | 3.2:-87727085 | MS.gene072841:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATGATATTTATGAAGAAATG+AGG | + | chr3.2:87727058-87727077 | None:intergenic | 20.0% |
| !! | GAATTGAAAGCAATTATTAT+GGG | - | chr3.2:87727214-87727233 | MS.gene072841:CDS | 20.0% |
| !! | TTGGATGAAAATTTATGAAA+AGG | + | chr3.2:87727186-87727205 | None:intergenic | 20.0% |
| !!! | TTTCATAAATTTTCATCCAA+TGG | - | chr3.2:87727186-87727205 | MS.gene072841:CDS | 20.0% |
| ! | AGAATTATCTATGTCTAAAC+AGG | + | chr3.2:87726842-87726861 | None:intergenic | 25.0% |
| ! | ATATTTATGAAGAAATGAGG+TGG | + | chr3.2:87727055-87727074 | None:intergenic | 25.0% |
| ! | GGAATTGAAAGCAATTATTA+TGG | - | chr3.2:87727213-87727232 | MS.gene072841:CDS | 25.0% |
| AGCAATTATTATGGGTATCA+TGG | - | chr3.2:87727222-87727241 | MS.gene072841:CDS | 30.0% | |
| ATTATTATGGGTATCATGGA+TGG | - | chr3.2:87727226-87727245 | MS.gene072841:CDS | 30.0% | |
| TAGATTCGGAAAGGTTAAAA+AGG | - | chr3.2:87727341-87727360 | MS.gene072841:CDS | 30.0% | |
| TATGAGACCATTTGCAATTA+AGG | - | chr3.2:87727140-87727159 | MS.gene072841:CDS | 30.0% | |
| TTATGTTTCTCCAATTCATG+TGG | + | chr3.2:87726712-87726731 | None:intergenic | 30.0% | |
| ! | AAATTTTCATCCAATGGCTT+TGG | - | chr3.2:87727192-87727211 | MS.gene072841:CDS | 30.0% |
| ! | GGAGAAACATAAAACTTTTG+AGG | - | chr3.2:87726720-87726739 | MS.gene072841:CDS | 30.0% |
| !! | AACTTTTGAGGAAGAAGAAA+AGG | - | chr3.2:87726732-87726751 | MS.gene072841:CDS | 30.0% |
| !! | TCCAGATTGTTGATTCATAA+GGG | + | chr3.2:87727259-87727278 | None:intergenic | 30.0% |
| !! | TTCCAGATTGTTGATTCATA+AGG | + | chr3.2:87727260-87727279 | None:intergenic | 30.0% |
| AAAAAGGACATGCTCAATTC+AGG | - | chr3.2:87727357-87727376 | MS.gene072841:CDS | 35.0% | |
| ATGAATCAACAATCTGGAAG+AGG | - | chr3.2:87727261-87727280 | MS.gene072841:CDS | 35.0% | |
| ATTGCAGAATCCACATGAAT+TGG | - | chr3.2:87726699-87726718 | MS.gene072841:CDS | 35.0% | |
| CTAACGATGATTGTGATCTT+GGG | - | chr3.2:87726791-87726810 | MS.gene072841:CDS | 35.0% | |
| GAGATGCCATATTTGCATAA+CGG | + | chr3.2:87727089-87727108 | None:intergenic | 35.0% | |
| TAGTTGCAAGTGAAAAATCG+TGG | + | chr3.2:87726916-87726935 | None:intergenic | 35.0% | |
| TCACAACCGTTATGCAAATA+TGG | - | chr3.2:87727080-87727099 | MS.gene072841:CDS | 35.0% | |
| TCATCAGAAAACTTCACTTG+TGG | - | chr3.2:87726871-87726890 | MS.gene072841:CDS | 35.0% | |
| TTACCATCACAAAGTAGTGT+TGG | - | chr3.2:87727318-87727337 | MS.gene072841:CDS | 35.0% | |
| TTACTATTAGCACAGAAGAG+TGG | + | chr3.2:87727117-87727136 | None:intergenic | 35.0% | |
| ! | AGAGCTTTAACGATAAGTCA+AGG | + | chr3.2:87727425-87727444 | None:intergenic | 35.0% |
| !! | CAAAGTAGTGTTGGTAGATT+CGG | - | chr3.2:87727327-87727346 | MS.gene072841:CDS | 35.0% |
| !! | CCAGATTGTTGATTCATAAG+GGG | + | chr3.2:87727258-87727277 | None:intergenic | 35.0% |
| AAAATGCTCACAAGAGAGAG+AGG | - | chr3.2:87726980-87726999 | MS.gene072841:CDS | 40.0% | |
| ATGCAAACTTTCCAGGAAAC+AGG | - | chr3.2:87727294-87727313 | MS.gene072841:CDS | 40.0% | |
| CCAAGATCACAATCATCGTT+AGG | + | chr3.2:87726793-87726812 | None:intergenic | 40.0% | |
| CCCCTTATGAATCAACAATC+TGG | - | chr3.2:87727255-87727274 | MS.gene072841:CDS | 40.0% | |
| CCTAACGATGATTGTGATCT+TGG | - | chr3.2:87726790-87726809 | MS.gene072841:CDS | 40.0% | |
| CTACCAACACTACTTTGTGA+TGG | + | chr3.2:87727324-87727343 | None:intergenic | 40.0% | |
| CTCGAAGAGTAATCAACAAG+AGG | - | chr3.2:87727392-87727411 | MS.gene072841:CDS | 40.0% | |
| GAGAGGTCAATTGCAAAAAG+AGG | - | chr3.2:87726997-87727016 | MS.gene072841:CDS | 40.0% | |
| GAGTGTGCCTTAATTGCAAA+TGG | + | chr3.2:87727150-87727169 | None:intergenic | 40.0% | |
| GCTTTCAATTCCAAAGCCAT+TGG | + | chr3.2:87727205-87727224 | None:intergenic | 40.0% | |
| GGAAGAAGAAAAGGAAGCAA+AGG | - | chr3.2:87726741-87726760 | MS.gene072841:CDS | 40.0% | |
| GGTCAATTGCAAAAAGAGGA+CGG | - | chr3.2:87727001-87727020 | MS.gene072841:CDS | 40.0% | |
| TCTTCAGTTCACAAGCACTT+GGG | - | chr3.2:87726950-87726969 | MS.gene072841:CDS | 40.0% | |
| TTCTTCAGTTCACAAGCACT+TGG | - | chr3.2:87726949-87726968 | MS.gene072841:CDS | 40.0% | |
| !! | TAGTGTTGGTAGATTCGGAA+AGG | - | chr3.2:87727332-87727351 | MS.gene072841:CDS | 40.0% |
| AGAACGATGTTCTCAGCAAC+AGG | - | chr3.2:87727024-87727043 | MS.gene072841:CDS | 45.0% | |
| CTTCAGTTCACAAGCACTTG+GGG | - | chr3.2:87726951-87726970 | MS.gene072841:CDS | 45.0% | |
| GACATGCTCAATTCAGGAAC+TGG | - | chr3.2:87727363-87727382 | MS.gene072841:CDS | 45.0% | |
| GCTACTGATGCAAACTTTCC+AGG | - | chr3.2:87727287-87727306 | MS.gene072841:CDS | 45.0% | |
| GTGATGGTAATCCTGTTTCC+TGG | + | chr3.2:87727308-87727327 | None:intergenic | 45.0% | |
| TGCAATTAAGGCACACTCGA+TGG | - | chr3.2:87727152-87727171 | MS.gene072841:CDS | 45.0% | |
| TTCAGTTCACAAGCACTTGG+GGG | - | chr3.2:87726952-87726971 | MS.gene072841:CDS | 45.0% | |
| ACGATGTTCTCAGCAACAGG+AGG | - | chr3.2:87727027-87727046 | MS.gene072841:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.2 | gene | 87726688 | 87727446 | 87726688 | ID=MS.gene072841 |
| chr3.2 | mRNA | 87726688 | 87727446 | 87726688 | ID=MS.gene072841.t1;Parent=MS.gene072841 |
| chr3.2 | exon | 87726688 | 87727446 | 87726688 | ID=MS.gene072841.t1.exon1;Parent=MS.gene072841.t1 |
| chr3.2 | CDS | 87726688 | 87727446 | 87726688 | ID=cds.MS.gene072841.t1;Parent=MS.gene072841.t1 |
| Gene Sequence |
| Protein sequence |
