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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1123420 | XP_013461666.1 | 94.286 | 35 | 2 | 0 | 1 | 35 | 1 | 35 | 1.14e-12 | 70.9 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1123420 | A0A072V1Y3 | 94.286 | 35 | 2 | 0 | 1 | 35 | 1 | 35 | 5.44e-13 | 70.9 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0604350 | Msa1123420 | 0.825337 | 4.952775e-54 | -8.615850e-47 |
| Msa0636170 | Msa1123420 | 0.837257 | 5.784037e-57 | -8.615850e-47 |
| Msa0726140 | Msa1123420 | 0.817017 | 4.101545e-52 | -8.615850e-47 |
| Msa0733290 | Msa1123420 | 0.803832 | 2.887947e-49 | -8.615850e-47 |
| Msa0745060 | Msa1123420 | 0.836712 | 7.966440e-57 | -8.615850e-47 |
| Msa0783160 | Msa1123420 | 0.802406 | 5.695925e-49 | -8.615850e-47 |
| Msa0825860 | Msa1123420 | 0.844186 | 8.837322e-59 | -8.615850e-47 |
| Msa0145750 | Msa1123420 | 0.802602 | 5.189073e-49 | -8.615850e-47 |
| Msa0153910 | Msa1123420 | 0.818952 | 1.498304e-52 | -8.615850e-47 |
| Msa0366580 | Msa1123420 | 0.800077 | 1.706940e-48 | -8.615850e-47 |
| Msa0406120 | Msa1123420 | 0.825424 | 4.723738e-54 | -8.615850e-47 |
| Msa0417100 | Msa1123420 | 0.820755 | 5.798981e-53 | -8.615850e-47 |
| Msa0452900 | Msa1123420 | 0.814002 | 1.923004e-51 | -8.615850e-47 |
| Msa0482620 | Msa1123420 | 0.801515 | 8.684627e-49 | -8.615850e-47 |
| Msa0981370 | Msa1123420 | 0.806709 | 7.212392e-50 | -8.615850e-47 |
| Msa1016280 | Msa1123420 | 0.827951 | 1.177996e-54 | -8.615850e-47 |
| Msa1024240 | Msa1123420 | 0.846417 | 2.201488e-59 | -8.615850e-47 |
| Msa1025360 | Msa1123420 | 0.810669 | 1.027431e-50 | -8.615850e-47 |
| Msa1025370 | Msa1123420 | 0.813076 | 3.073485e-51 | -8.615850e-47 |
| Msa1044830 | Msa1123420 | 0.813455 | 2.537016e-51 | -8.615850e-47 |
| Msa1044840 | Msa1123420 | 0.805938 | 1.048252e-49 | -8.615850e-47 |
| Msa1092990 | Msa1123420 | 0.812759 | 3.607449e-51 | -8.615850e-47 |
| Msa1100980 | Msa1123420 | 0.821488 | 3.931898e-53 | -8.615850e-47 |
| Msa0267000 | Msa1123420 | 0.806014 | 1.010183e-49 | -8.615850e-47 |
| Msa0342240 | Msa1123420 | 0.802850 | 4.612414e-49 | -8.615850e-47 |
| Msa1109440 | Msa1123420 | 0.825842 | 3.759737e-54 | -8.615850e-47 |
| Msa1121200 | Msa1123420 | 0.807339 | 5.304201e-50 | -8.615850e-47 |
| Msa1123420 | Msa1123430 | 0.871312 | 7.520583e-67 | -8.615850e-47 |
| Msa1123420 | Msa1135740 | 0.811130 | 8.164092e-51 | -8.615850e-47 |
| Msa1123420 | Msa1136090 | 0.831905 | 1.280404e-55 | -8.615850e-47 |
| Msa1123420 | Msa1146110 | 0.808926 | 2.435588e-50 | -8.615850e-47 |
| Msa1123420 | Msa1173920 | 0.802254 | 6.121213e-49 | -8.615850e-47 |
| Msa1123420 | Msa1187940 | 0.812477 | 4.157896e-51 | -8.615850e-47 |
| Msa1123420 | Msa1230430 | 0.807204 | 5.666244e-50 | -8.615850e-47 |
| Msa1123420 | Msa1269670 | 0.831824 | 1.340855e-55 | -8.615850e-47 |
| Msa1123420 | Msa1270270 | 0.822200 | 2.690507e-53 | -8.615850e-47 |
| Msa1123420 | Msa1283330 | 0.800783 | 1.225708e-48 | -8.615850e-47 |
| Msa1123420 | Msa1285930 | 0.814271 | 1.677351e-51 | -8.615850e-47 |
| Msa1123420 | Msa1287810 | 0.808021 | 3.799899e-50 | -8.615850e-47 |
| Msa1123420 | Msa1297210 | 0.813639 | 2.312294e-51 | -8.615850e-47 |
| Msa1123420 | Msa1340590 | 0.802430 | 5.630795e-49 | -8.615850e-47 |
| Msa1123420 | Msa1433120 | 0.812492 | 4.126246e-51 | -8.615850e-47 |
| Msa0564890 | Msa1123420 | 0.808397 | 3.160606e-50 | -8.615850e-47 |
| Msa0846330 | Msa1123420 | 0.816936 | 4.276543e-52 | -8.615850e-47 |
| Msa0846350 | Msa1123420 | 0.811459 | 6.928466e-51 | -8.615850e-47 |
| Msa0865320 | Msa1123420 | 0.826493 | 2.632777e-54 | -8.615850e-47 |
| Msa0885280 | Msa1123420 | 0.819849 | 9.355522e-53 | -8.615850e-47 |
| Msa0885290 | Msa1123420 | 0.812927 | 3.314443e-51 | -8.615850e-47 |
| Msa0888370 | Msa1123420 | 0.804374 | 2.227245e-49 | -8.615850e-47 |
| Msa0907260 | Msa1123420 | 0.805931 | 1.051668e-49 | -8.615850e-47 |
| Msa0954910 | Msa1123420 | 0.803439 | 3.483486e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1123420 | MtrunA17_Chr3g0131781 | 94.286 | 35 | 2 | 0 | 1 | 35 | 1 | 35 | 1.05e-16 | 70.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 26 sgRNAs with CRISPR-Local
Find 31 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCGTTGCTCCGCCGTTTATT+TGG | 0.233205 | 7_3:-74273046 | None:intergenic |
| AAATCATGGCGATTCGGCTT+CGG | 0.384660 | 7_3:+74273185 | Msa1123420:CDS |
| CCGCCGTTTATTTGGACCTC+CGG | 0.440203 | 7_3:-74273038 | None:intergenic |
| TTCGGCTTCGGCAACGTCTC+AGG | 0.441191 | 7_3:+74273197 | Msa1123420:CDS |
| CCACCGGAGGTCCAAATAAA+CGG | 0.460030 | 7_3:+74273035 | Msa1123420:CDS |
| TTCGATCCGTGAGGTTCTGA+AGG | 0.475990 | 7_3:-74273086 | None:intergenic |
| AGTTCAAAATCATGGCGATT+CGG | 0.480998 | 7_3:+74273179 | Msa1123420:CDS |
| GCGGCGAGGGTGGGAATCAG+AGG | 0.498456 | 7_3:-74273156 | None:intergenic |
| CTCGCCGCAGTTCAAAATCA+TGG | 0.500043 | 7_3:+74273171 | Msa1123420:CDS |
| TTTATTTGGACCTCCGGTGG+CGG | 0.518429 | 7_3:-74273032 | None:intergenic |
| AATGGAAGAGGTTCCGCCAC+CGG | 0.544579 | 7_3:+74273019 | None:intergenic |
| TCGATCCGTGAGGTTCTGAA+GGG | 0.559702 | 7_3:-74273085 | None:intergenic |
| GTCAAAGGACGAGTCTTCGA+GGG | 0.574010 | 7_3:-74273224 | None:intergenic |
| CCGTTTATTTGGACCTCCGG+TGG | 0.575464 | 7_3:-74273035 | None:intergenic |
| CGCCTAATCAGACGATGGGT+CGG | 0.588009 | 7_3:-74273118 | None:intergenic |
| CGGCGAGGGTGGGAATCAGA+GGG | 0.591797 | 7_3:-74273155 | None:intergenic |
| GAGGGTGGGAATCAGAGGGT+TGG | 0.602586 | 7_3:-74273151 | None:intergenic |
| GAAACGGAAGAAAATGGAAG+AGG | 0.606203 | 7_3:+74273007 | None:intergenic |
| AGTCAAAGGACGAGTCTTCG+AGG | 0.613303 | 7_3:-74273225 | None:intergenic |
| GGAAGAGGTTCCGCCACCGG+AGG | 0.617458 | 7_3:+74273022 | Msa1123420:CDS |
| CGATCCGTGAGGTTCTGAAG+GGG | 0.626502 | 7_3:-74273084 | None:intergenic |
| ATCGTCTGATTAGGCGACAT+CGG | 0.628418 | 7_3:+74273125 | Msa1123420:intron |
| GATCCGTGAGGTTCTGAAGG+GGG | 0.654909 | 7_3:-74273083 | None:intergenic |
| CAGAACCTCACGGATCGAAG+CGG | 0.686667 | 7_3:+74273090 | Msa1123420:CDS |
| TGTTGCCGCTTCGATCCGTG+AGG | 0.714492 | 7_3:-74273095 | None:intergenic |
| CCGGAGGTCCAAATAAACGG+CGG | 0.738172 | 7_3:+74273038 | Msa1123420:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AGTTCAAAATCATGGCGATT+CGG | + | chr7_3:74273179-74273198 | Msa1123420:CDS | 35.0% | |
| ! | ATCGCCATGATTTTGAACTG+CGG | - | chr7_3:74273178-74273197 | None:intergenic | 40.0% |
| ATGTCGCCTAATCAGACGAT+GGG | - | chr7_3:74273125-74273144 | None:intergenic | 45.0% | |
| ATCGTCTGATTAGGCGACAT+CGG | + | chr7_3:74273125-74273144 | Msa1123420:intron | 45.0% | |
| ! | ATGATTTTGAACTGCGGCGA+GGG | - | chr7_3:74273172-74273191 | None:intergenic | 45.0% |
| ! | AAATCATGGCGATTCGGCTT+CGG | + | chr7_3:74273185-74273204 | Msa1123420:CDS | 45.0% |
| TTTATTTGGACCTCCGGTGG+CGG | - | chr7_3:74273035-74273054 | None:intergenic | 50.0% | |
| CCACCGGAGGTCCAAATAAA+CGG | + | chr7_3:74273035-74273054 | Msa1123420:CDS | 50.0% | |
| TCGTTGCTCCGCCGTTTATT+TGG | - | chr7_3:74273049-74273068 | None:intergenic | 50.0% | |
| !! | TCGATCCGTGAGGTTCTGAA+GGG | - | chr7_3:74273088-74273107 | None:intergenic | 50.0% |
| ! | TTCGATCCGTGAGGTTCTGA+AGG | - | chr7_3:74273089-74273108 | None:intergenic | 50.0% |
| GATGTCGCCTAATCAGACGA+TGG | - | chr7_3:74273126-74273145 | None:intergenic | 50.0% | |
| ! | CATGATTTTGAACTGCGGCG+AGG | - | chr7_3:74273173-74273192 | None:intergenic | 50.0% |
| CTCGCCGCAGTTCAAAATCA+TGG | + | chr7_3:74273171-74273190 | Msa1123420:CDS | 50.0% | |
| CCGTTTATTTGGACCTCCGG+TGG | - | chr7_3:74273038-74273057 | None:intergenic | 55.0% | |
| CCGCCGTTTATTTGGACCTC+CGG | - | chr7_3:74273041-74273060 | None:intergenic | 55.0% | |
| CCGGAGGTCCAAATAAACGG+CGG | + | chr7_3:74273038-74273057 | Msa1123420:CDS | 55.0% | |
| CTACCCCCTTCAGAACCTCA+CGG | + | chr7_3:74273080-74273099 | Msa1123420:CDS | 55.0% | |
| !! | GATCCGTGAGGTTCTGAAGG+GGG | - | chr7_3:74273086-74273105 | None:intergenic | 55.0% |
| !! | CGATCCGTGAGGTTCTGAAG+GGG | - | chr7_3:74273087-74273106 | None:intergenic | 55.0% |
| CAGAACCTCACGGATCGAAG+CGG | + | chr7_3:74273090-74273109 | Msa1123420:CDS | 55.0% | |
| CACCGACCCATCGTCTGATT+AGG | + | chr7_3:74273116-74273135 | Msa1123420:intron | 55.0% | |
| CGCCTAATCAGACGATGGGT+CGG | - | chr7_3:74273121-74273140 | None:intergenic | 55.0% | |
| ! | TTTTGAACTGCGGCGAGGGT+GGG | - | chr7_3:74273168-74273187 | None:intergenic | 55.0% |
| ! | ATTTTGAACTGCGGCGAGGG+TGG | - | chr7_3:74273169-74273188 | None:intergenic | 55.0% |
| ! | TGTTGCCGCTTCGATCCGTG+AGG | - | chr7_3:74273098-74273117 | None:intergenic | 60.0% |
| GAGGGTGGGAATCAGAGGGT+TGG | - | chr7_3:74273154-74273173 | None:intergenic | 60.0% | |
| TTCGGCTTCGGCAACGTCTC+AGG | + | chr7_3:74273197-74273216 | Msa1123420:CDS | 60.0% | |
| CGGCGAGGGTGGGAATCAGA+GGG | - | chr7_3:74273158-74273177 | None:intergenic | 65.0% | |
| GGAAGAGGTTCCGCCACCGG+AGG | + | chr7_3:74273022-74273041 | Msa1123420:CDS | 70.0% | |
| GCGGCGAGGGTGGGAATCAG+AGG | - | chr7_3:74273159-74273178 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_3 | gene | 74273020 | 74273245 | 74273020 | ID=Msa1123420;Name=Msa1123420 |
| chr7_3 | mRNA | 74273020 | 74273245 | 74273020 | ID=Msa1123420-mRNA-1;Parent=Msa1123420;Name=Msa1123420-mRNA-1;_AED=0.25;_eAED=0.62;_QI=0|0|0|1|0|0|2|0|71 |
| chr7_3 | exon | 74273020 | 74273127 | 74273020 | ID=Msa1123420-mRNA-1:exon:19764;Parent=Msa1123420-mRNA-1 |
| chr7_3 | exon | 74273138 | 74273245 | 74273138 | ID=Msa1123420-mRNA-1:exon:19765;Parent=Msa1123420-mRNA-1 |
| chr7_3 | CDS | 74273020 | 74273127 | 74273020 | ID=Msa1123420-mRNA-1:cds;Parent=Msa1123420-mRNA-1 |
| chr7_3 | CDS | 74273138 | 74273245 | 74273138 | ID=Msa1123420-mRNA-1:cds;Parent=Msa1123420-mRNA-1 |
| Gene Sequence |
| Protein sequence |
