Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1460390 | KEH44316.1 | 96.324 | 136 | 5 | 0 | 1 | 136 | 116 | 251 | 4.45e-92 | 276 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1460390 | A0A072VRL9 | 96.324 | 136 | 5 | 0 | 1 | 136 | 116 | 251 | 2.13e-92 | 276 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0017510 | Msa1460390 | 0.821759 | 3.404362e-53 | -8.615850e-47 |
| Msa0036960 | Msa1460390 | 0.808320 | 3.281575e-50 | -8.615850e-47 |
| Msa0044110 | Msa1460390 | 0.821926 | 3.113218e-53 | -8.615850e-47 |
| Msa0069330 | Msa1460390 | 0.806244 | 9.036571e-50 | -8.615850e-47 |
| Msa0072370 | Msa1460390 | 0.818491 | 1.906934e-52 | -8.615850e-47 |
| Msa0081520 | Msa1460390 | 0.815071 | 1.115646e-51 | -8.615850e-47 |
| Msa0094850 | Msa1460390 | 0.808260 | 3.380514e-50 | -8.615850e-47 |
| Msa0095540 | Msa1460390 | 0.816371 | 5.725517e-52 | -8.615850e-47 |
| Msa0118570 | Msa1460390 | 0.815135 | 1.079644e-51 | -8.615850e-47 |
| Msa1353060 | Msa1460390 | 0.801184 | 1.015059e-48 | -8.615850e-47 |
| Msa1369710 | Msa1460390 | 0.843806 | 1.116881e-58 | -8.615850e-47 |
| Msa1370090 | Msa1460390 | 0.803618 | 3.199578e-49 | -8.615850e-47 |
| Msa1397250 | Msa1460390 | 0.816472 | 5.432908e-52 | -8.615850e-47 |
| Msa1401150 | Msa1460390 | 0.839633 | 1.410060e-57 | -8.615850e-47 |
| Msa1430240 | Msa1460390 | 0.820259 | 7.540739e-53 | -8.615850e-47 |
| Msa1445190 | Msa1460390 | 0.803847 | 2.867855e-49 | -8.615850e-47 |
| Msa1460390 | Msa1462140 | 0.808282 | 3.344390e-50 | -8.615850e-47 |
| Msa1460390 | Msa1465010 | 0.861596 | 9.180155e-64 | -8.615850e-47 |
| Msa0609430 | Msa1460390 | 0.831225 | 1.883074e-55 | -8.615850e-47 |
| Msa0631120 | Msa1460390 | 0.806349 | 8.587491e-50 | -8.615850e-47 |
| Msa0644980 | Msa1460390 | 0.816227 | 6.165548e-52 | -8.615850e-47 |
| Msa0647980 | Msa1460390 | 0.806846 | 6.746289e-50 | -8.615850e-47 |
| Msa0650070 | Msa1460390 | 0.824837 | 6.499762e-54 | -8.615850e-47 |
| Msa0662500 | Msa1460390 | 0.804280 | 2.330712e-49 | -8.615850e-47 |
| Msa0669340 | Msa1460390 | 0.800874 | 1.174480e-48 | -8.615850e-47 |
| Msa0684500 | Msa1460390 | 0.832553 | 8.849960e-56 | -8.615850e-47 |
| Msa0692060 | Msa1460390 | 0.831755 | 1.394701e-55 | -8.615850e-47 |
| Msa0727710 | Msa1460390 | 0.805875 | 1.080704e-49 | -8.615850e-47 |
| Msa0741240 | Msa1460390 | 0.804348 | 2.255710e-49 | -8.615850e-47 |
| Msa0742740 | Msa1460390 | 0.806059 | 9.888095e-50 | -8.615850e-47 |
| Msa0744160 | Msa1460390 | 0.800761 | 1.238246e-48 | -8.615850e-47 |
| Msa0750880 | Msa1460390 | 0.804293 | 2.315541e-49 | -8.615850e-47 |
| Msa0761940 | Msa1460390 | 0.804402 | 2.198025e-49 | -8.615850e-47 |
| Msa0779870 | Msa1460390 | 0.803921 | 2.767166e-49 | -8.615850e-47 |
| Msa0780740 | Msa1460390 | 0.821908 | 3.143026e-53 | -8.615850e-47 |
| Msa0788060 | Msa1460390 | 0.806800 | 6.899894e-50 | -8.615850e-47 |
| Msa0823820 | Msa1460390 | 0.808315 | 3.289389e-50 | -8.615850e-47 |
| Msa0825230 | Msa1460390 | 0.804430 | 2.168963e-49 | -8.615850e-47 |
| Msa0140300 | Msa1460390 | 0.806175 | 9.347197e-50 | -8.615850e-47 |
| Msa0140820 | Msa1460390 | 0.803319 | 3.690316e-49 | -8.615850e-47 |
| Msa0157290 | Msa1460390 | 0.822066 | 2.889047e-53 | -8.615850e-47 |
| Msa0173890 | Msa1460390 | 0.810842 | 9.424938e-51 | -8.615850e-47 |
| Msa0183740 | Msa1460390 | 0.844356 | 7.952041e-59 | -8.615850e-47 |
| Msa0197930 | Msa1460390 | 0.818989 | 1.469595e-52 | -8.615850e-47 |
| Msa0206840 | Msa1460390 | 0.808700 | 2.722579e-50 | -8.615850e-47 |
| Msa0225600 | Msa1460390 | 0.824116 | 9.609750e-54 | -8.615850e-47 |
| Msa1251160 | Msa1460390 | 0.812395 | 4.332574e-51 | -8.615850e-47 |
| Msa1303250 | Msa1460390 | 0.815924 | 7.206099e-52 | -8.615850e-47 |
| Msa0388770 | Msa1460390 | 0.819990 | 8.689277e-53 | -8.615850e-47 |
| Msa0410650 | Msa1460390 | 0.806524 | 7.887841e-50 | -8.615850e-47 |
| Msa1013400 | Msa1460390 | 0.840653 | 7.638374e-58 | -8.615850e-47 |
| Msa1020630 | Msa1460390 | 0.817184 | 3.761467e-52 | -8.615850e-47 |
| Msa1031930 | Msa1460390 | 0.820459 | 6.784414e-53 | -8.615850e-47 |
| Msa1040400 | Msa1460390 | 0.815695 | 8.101951e-52 | -8.615850e-47 |
| Msa1066490 | Msa1460390 | 0.801896 | 7.252252e-49 | -8.615850e-47 |
| Msa1085200 | Msa1460390 | 0.810359 | 1.198706e-50 | -8.615850e-47 |
| Msa1093530 | Msa1460390 | 0.835640 | 1.491508e-56 | -8.615850e-47 |
| Msa1093840 | Msa1460390 | 0.810270 | 1.252726e-50 | -8.615850e-47 |
| Msa0243600 | Msa1460390 | 0.809090 | 2.246933e-50 | -8.615850e-47 |
| Msa0266450 | Msa1460390 | 0.827367 | 1.627328e-54 | -8.615850e-47 |
| Msa0296740 | Msa1460390 | 0.800058 | 1.722072e-48 | -8.615850e-47 |
| Msa0297790 | Msa1460390 | 0.808303 | 3.309149e-50 | -8.615850e-47 |
| Msa0300180 | Msa1460390 | 0.804843 | 1.777733e-49 | -8.615850e-47 |
| Msa0317280 | Msa1460390 | 0.818163 | 2.261857e-52 | -8.615850e-47 |
| Msa0317340 | Msa1460390 | 0.807500 | 4.904246e-50 | -8.615850e-47 |
| Msa0334040 | Msa1460390 | 0.803418 | 3.519435e-49 | -8.615850e-47 |
| Msa0335800 | Msa1460390 | 0.808729 | 2.684105e-50 | -8.615850e-47 |
| Msa0337540 | Msa1460390 | 0.848363 | 6.429718e-60 | -8.615850e-47 |
| Msa0359030 | Msa1460390 | 0.805511 | 1.288342e-49 | -8.615850e-47 |
| Msa1113800 | Msa1460390 | 0.820351 | 7.181979e-53 | -8.615850e-47 |
| Msa1123380 | Msa1460390 | 0.800790 | 1.221673e-48 | -8.615850e-47 |
| Msa1160500 | Msa1460390 | 0.807306 | 5.391573e-50 | -8.615850e-47 |
| Msa1165940 | Msa1460390 | 0.802686 | 4.987532e-49 | -8.615850e-47 |
| Msa1172450 | Msa1460390 | 0.812715 | 3.687152e-51 | -8.615850e-47 |
| Msa1184330 | Msa1460390 | 0.802818 | 4.683895e-49 | -8.615850e-47 |
| Msa1193290 | Msa1460390 | 0.819885 | 9.181735e-53 | -8.615850e-47 |
| Msa1205960 | Msa1460390 | 0.824923 | 6.204420e-54 | -8.615850e-47 |
| Msa1218600 | Msa1460390 | 0.831469 | 1.640637e-55 | -8.615850e-47 |
| Msa0527550 | Msa1460390 | 0.820222 | 7.689205e-53 | -8.615850e-47 |
| Msa0534590 | Msa1460390 | 0.819955 | 8.848983e-53 | -8.615850e-47 |
| Msa0548620 | Msa1460390 | 0.815192 | 1.048421e-51 | -8.615850e-47 |
| Msa0548660 | Msa1460390 | 0.814676 | 1.364784e-51 | -8.615850e-47 |
| Msa0861870 | Msa1460390 | 0.818366 | 2.034692e-52 | -8.615850e-47 |
| Msa0863010 | Msa1460390 | 0.808240 | 3.413339e-50 | -8.615850e-47 |
| Msa0880140 | Msa1460390 | 0.819828 | 9.460719e-53 | -8.615850e-47 |
| Msa0902760 | Msa1460390 | 0.833536 | 5.039835e-56 | -8.615850e-47 |
| Msa0934890 | Msa1460390 | 0.804457 | 2.140399e-49 | -8.615850e-47 |
| Msa0957110 | Msa1460390 | 0.803727 | 3.035971e-49 | -8.615850e-47 |
| Msa0974060 | Msa1460390 | 0.803722 | 3.043731e-49 | -8.615850e-47 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1460390 | MtrunA17_Chr1g0210731 | 96.324 | 136 | 5 | 0 | 1 | 136 | 170 | 305 | 4.56e-95 | 276 |
| Msa1460390 | MtrunA17_Chr1g0210721 | 68.939 | 132 | 39 | 2 | 1 | 131 | 165 | 295 | 5.15e-61 | 189 |
| Msa1460390 | MtrunA17_Chr2g0287431 | 56.618 | 136 | 53 | 5 | 3 | 134 | 168 | 301 | 3.72e-39 | 134 |
| Msa1460390 | MtrunA17_Chr4g0033971 | 41.176 | 85 | 45 | 1 | 5 | 84 | 169 | 253 | 4.22e-15 | 70.1 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1460390 | AT1G55230.1 | 52.033 | 123 | 58 | 1 | 1 | 123 | 170 | 291 | 5.50e-40 | 135 |
| Msa1460390 | AT1G55240.1 | 52.033 | 123 | 59 | 0 | 1 | 123 | 170 | 292 | 1.19e-39 | 135 |
| Msa1460390 | AT5G19870.1 | 53.704 | 108 | 50 | 0 | 1 | 108 | 169 | 276 | 1.35e-39 | 134 |
Find 28 sgRNAs with CRISPR-Local
Find 30 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GCTTGCCTGTGGTGATCTTT+TGG | 0.244017 | tig0040873:-15175 | Msa1460390:intergenic |
| AGGTTTGTGGCTTATGTTCA+TGG | 0.293266 | tig0040873:+14866 | Msa1460390:CDS |
| CAATTCAGCTGGTTCTTGAT+TGG | 0.309654 | tig0040873:+15014 | Msa1460390:CDS |
| CTTACAACCCTTATGGGAAT+TGG | 0.312435 | tig0040873:+14789 | None:intergenic |
| TGTGTCCTTCTACTTGATTA+TGG | 0.364513 | tig0040873:+15052 | Msa1460390:CDS |
| TGGTTATCCAATGAGCTTCT+TGG | 0.366591 | tig0040873:+14809 | Msa1460390:CDS |
| TTGATTATGGCTGTAAGTTA+TGG | 0.394009 | tig0040873:+15065 | Msa1460390:CDS |
| CAAGTTATTCAGATTTGCTC+TGG | 0.427300 | tig0040873:-15197 | Msa1460390:intergenic |
| GCATAACCTTCCAAGGTTTG+TGG | 0.438782 | tig0040873:+14853 | Msa1460390:CDS |
| TACAGCCATAATCAAGTAGA+AGG | 0.441076 | tig0040873:-15057 | Msa1460390:intergenic |
| GGTTTGTGGCTTATGTTCAT+GGG | 0.442596 | tig0040873:+14867 | Msa1460390:CDS |
| AAACTCACCAAGAAGCTCAT+TGG | 0.454952 | tig0040873:-14816 | Msa1460390:intergenic |
| TGGTGAATCTTCAATTCAGC+TGG | 0.455765 | tig0040873:+15003 | Msa1460390:CDS |
| CAACCTTTCGGTTCAAAACC+AGG | 0.497142 | tig0040873:-14906 | Msa1460390:intergenic |
| AGTTTCGTAAAGCAACCTTT+CGG | 0.505192 | tig0040873:-14918 | Msa1460390:intergenic |
| TGAACATAAGCCACAAACCT+TGG | 0.521512 | tig0040873:-14863 | Msa1460390:intergenic |
| TCTGTTAGCATAACCTTCCA+AGG | 0.527914 | tig0040873:+14846 | Msa1460390:CDS |
| GAGGAACATTATCGTGAAGA+TGG | 0.535159 | tig0040873:+15122 | Msa1460390:CDS |
| TGTTAAGTGCAGTGATGAAA+AGG | 0.547706 | tig0040873:+14959 | Msa1460390:CDS |
| CATAAGCCACAAACCTTGGA+AGG | 0.549282 | tig0040873:-14859 | Msa1460390:intergenic |
| TCTTCATCGTGCTGTAGCGT+TGG | 0.552622 | tig0040873:+14983 | Msa1460390:CDS |
| GTTTGTGGCTTATGTTCATG+GGG | 0.570855 | tig0040873:+14868 | Msa1460390:CDS |
| GATTTGCTCTGGCTTGCCTG+TGG | 0.582887 | tig0040873:-15186 | Msa1460390:intergenic |
| GTATGTTTCACTGATGATGA+AGG | 0.586326 | tig0040873:+15100 | Msa1460390:CDS |
| CAATGCCAAAAGATCACCAC+AGG | 0.593405 | tig0040873:+15170 | Msa1460390:CDS |
| GGTTGCTTTACGAAACTAGA+GGG | 0.605869 | tig0040873:+14924 | Msa1460390:CDS |
| TGTTTCACTGATGATGAAGG+AGG | 0.670252 | tig0040873:+15103 | Msa1460390:CDS |
| AGGTTGCTTTACGAAACTAG+AGG | 0.685393 | tig0040873:+14923 | Msa1460390:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TTGATTATGGCTGTAAGTTA+TGG | + | tig0040873:15065-15084 | Msa1460390:CDS | 30.0% | |
| AGTTTCGTAAAGCAACCTTT+CGG | - | tig0040873:14921-14940 | Msa1460390:intergenic | 35.0% | |
| TGTTAAGTGCAGTGATGAAA+AGG | + | tig0040873:14959-14978 | Msa1460390:CDS | 35.0% | |
| TGTGTCCTTCTACTTGATTA+TGG | + | tig0040873:15052-15071 | Msa1460390:CDS | 35.0% | |
| TACAGCCATAATCAAGTAGA+AGG | - | tig0040873:15060-15079 | Msa1460390:intergenic | 35.0% | |
| ! | GTATGTTTCACTGATGATGA+AGG | + | tig0040873:15100-15119 | Msa1460390:CDS | 35.0% |
| TGGTTATCCAATGAGCTTCT+TGG | + | tig0040873:14809-14828 | Msa1460390:CDS | 40.0% | |
| AAACTCACCAAGAAGCTCAT+TGG | - | tig0040873:14819-14838 | Msa1460390:intergenic | 40.0% | |
| TCTGTTAGCATAACCTTCCA+AGG | + | tig0040873:14846-14865 | Msa1460390:CDS | 40.0% | |
| TGAACATAAGCCACAAACCT+TGG | - | tig0040873:14866-14885 | Msa1460390:intergenic | 40.0% | |
| AGGTTTGTGGCTTATGTTCA+TGG | + | tig0040873:14866-14885 | Msa1460390:CDS | 40.0% | |
| GGTTTGTGGCTTATGTTCAT+GGG | + | tig0040873:14867-14886 | Msa1460390:CDS | 40.0% | |
| GTTTGTGGCTTATGTTCATG+GGG | + | tig0040873:14868-14887 | Msa1460390:CDS | 40.0% | |
| ! | AGGTTGCTTTACGAAACTAG+AGG | + | tig0040873:14923-14942 | Msa1460390:CDS | 40.0% |
| ! | GGTTGCTTTACGAAACTAGA+GGG | + | tig0040873:14924-14943 | Msa1460390:CDS | 40.0% |
| TGGTGAATCTTCAATTCAGC+TGG | + | tig0040873:15003-15022 | Msa1460390:CDS | 40.0% | |
| ! | CAATTCAGCTGGTTCTTGAT+TGG | + | tig0040873:15014-15033 | Msa1460390:CDS | 40.0% |
| ! | TGTTTCACTGATGATGAAGG+AGG | + | tig0040873:15103-15122 | Msa1460390:CDS | 40.0% |
| GAGGAACATTATCGTGAAGA+TGG | + | tig0040873:15122-15141 | Msa1460390:CDS | 40.0% | |
| ! | TGTGGTGATCTTTTGGCATT+GGG | - | tig0040873:15171-15190 | Msa1460390:intergenic | 40.0% |
| GCATAACCTTCCAAGGTTTG+TGG | + | tig0040873:14853-14872 | Msa1460390:CDS | 45.0% | |
| CATAAGCCACAAACCTTGGA+AGG | - | tig0040873:14862-14881 | Msa1460390:intergenic | 45.0% | |
| !!! | ACACCTGGTTTTGAACCGAA+AGG | + | tig0040873:14903-14922 | Msa1460390:CDS | 45.0% |
| CAACCTTTCGGTTCAAAACC+AGG | - | tig0040873:14909-14928 | Msa1460390:intergenic | 45.0% | |
| ! | CTGTGGTGATCTTTTGGCAT+TGG | - | tig0040873:15172-15191 | Msa1460390:intergenic | 45.0% |
| CAATGCCAAAAGATCACCAC+AGG | + | tig0040873:15170-15189 | Msa1460390:CDS | 45.0% | |
| !! | GGGCTCATGCTTTTTACACC+TGG | + | tig0040873:14888-14907 | Msa1460390:CDS | 50.0% |
| TCTTCATCGTGCTGTAGCGT+TGG | + | tig0040873:14983-15002 | Msa1460390:CDS | 50.0% | |
| ! | GCTTGCCTGTGGTGATCTTT+TGG | - | tig0040873:15178-15197 | Msa1460390:intergenic | 50.0% |
| ! | GATTTGCTCTGGCTTGCCTG+TGG | - | tig0040873:15189-15208 | Msa1460390:intergenic | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0040873 | gene | 14801 | 15211 | 14801 | ID=Msa1460390;Name=Msa1460390 |
| tig0040873 | mRNA | 14801 | 15211 | 14801 | ID=Msa1460390-mRNA-1;Parent=Msa1460390;Name=Msa1460390-mRNA-1;_AED=0.39;_eAED=0.39;_QI=0|-1|0|1|-1|1|1|0|136 |
| tig0040873 | exon | 14801 | 15211 | 14801 | ID=Msa1460390-mRNA-1:exon:22693;Parent=Msa1460390-mRNA-1 |
| tig0040873 | CDS | 14801 | 15211 | 14801 | ID=Msa1460390-mRNA-1:cds;Parent=Msa1460390-mRNA-1 |
| Gene Sequence |
| Protein sequence |
