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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1172140 | XP_003608943.1 | 95.395 | 152 | 4 | 1 | 1 | 152 | 1 | 149 | 7.47e-102 | 298 |
| 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 |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0043670 | Msa1172140 | 0.810594 | 1.066576e-50 | -8.615850e-47 |
| Msa0092740 | Msa1172140 | 0.803929 | 2.756930e-49 | -8.615850e-47 |
| Msa0137610 | Msa1172140 | 0.812968 | 3.245666e-51 | -8.615850e-47 |
| Msa1172040 | Msa1172140 | 0.983446 | 9.167874e-158 | -8.615850e-47 |
| Msa1172100 | Msa1172140 | 0.982365 | 6.629113e-155 | -8.615850e-47 |
| Msa1172140 | Msa1440260 | 0.807802 | 4.230887e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1172140 | MtrunA17_Chr4g0059251 | 95.395 | 152 | 4 | 1 | 1 | 152 | 1 | 149 | 6.87e-106 | 298 |
| Msa1172140 | MtrunA17_Chr3g0117901 | 50.407 | 123 | 32 | 5 | 22 | 135 | 20 | 122 | 3.59e-31 | 109 |
| Msa1172140 | MtrunA17_Chr6g0451141 | 42.857 | 126 | 57 | 6 | 17 | 137 | 25 | 140 | 6.72e-24 | 90.9 |
| Msa1172140 | MtrunA17_Chr2g0305131 | 46.835 | 79 | 35 | 4 | 58 | 134 | 57 | 130 | 3.28e-13 | 62.8 |
| Msa1172140 | MtrunA17_Chr4g0065221 | 28.889 | 135 | 88 | 4 | 1 | 133 | 9 | 137 | 3.84e-12 | 60.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1172140 | AT5G62865.1 | 41.447 | 152 | 66 | 7 | 3 | 139 | 1 | 144 | 9.02e-19 | 78.6 |
| Msa1172140 | AT3G01430.1 | 34.194 | 155 | 59 | 6 | 14 | 137 | 21 | 163 | 1.08e-17 | 75.9 |
| Msa1172140 | AT3G48020.1 | 37.705 | 122 | 55 | 4 | 26 | 139 | 14 | 122 | 1.99e-16 | 71.6 |
| Msa1172140 | AT5G14895.1 | 35.252 | 139 | 60 | 7 | 17 | 137 | 24 | 150 | 3.40e-16 | 71.6 |
Find 56 sgRNAs with CRISPR-Local
Find 61 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCAGGCTCGGAGTTTCTTTA+AGG | 0.198226 | 8_1:-2008169 | None:intergenic |
| CCGGAACCGGAGGGTGAAAT+TGG | 0.303837 | 8_1:+2008393 | Msa1172140:CDS |
| CGAATGAAATTCTTCCATCT+TGG | 0.312826 | 8_1:-2008210 | None:intergenic |
| CCAATTTCACCCTCCGGTTC+CGG | 0.326252 | 8_1:-2008393 | None:intergenic |
| TGGTTGTGGTGGTGGTGGGA+TGG | 0.347361 | 8_1:-2008113 | None:intergenic |
| GGCGGTGGTTGTGGTGGTGG+TGG | 0.369594 | 8_1:-2008118 | None:intergenic |
| GGTTGTGGTGGTGGTGGGAT+GGG | 0.371805 | 8_1:-2008112 | None:intergenic |
| CCATCTATCGGCGGTGGTTG+TGG | 0.375414 | 8_1:-2008127 | None:intergenic |
| TAAGTCTGTTGCGCCGGAAC+CGG | 0.391391 | 8_1:+2008380 | Msa1172140:CDS |
| CACGCCGCCGTTCCGTTTGG+TGG | 0.400297 | 8_1:+2008058 | Msa1172140:CDS |
| CCACAACCACCGCCGATAGA+TGG | 0.401522 | 8_1:+2008127 | Msa1172140:CDS |
| GTCTGTTGCGCCGGAACCGG+AGG | 0.417562 | 8_1:+2008383 | Msa1172140:CDS |
| ATCGGCGGTGGTTGTGGTGG+TGG | 0.420574 | 8_1:-2008121 | None:intergenic |
| CCTCACGCCGCCGTTCCGTT+TGG | 0.424502 | 8_1:+2008055 | Msa1172140:CDS |
| GCCTGGTCGGAGATCGTCGC+TGG | 0.451987 | 8_1:+2008186 | Msa1172140:CDS |
| CGCAACAGACTTAATATTAA+CGG | 0.461558 | 8_1:-2008370 | None:intergenic |
| CCTTAAAGAAACTCCGAGCC+TGG | 0.463778 | 8_1:+2008169 | Msa1172140:CDS |
| TTGTCATACGCTTCGATCGA+TGG | 0.470318 | 8_1:-2008245 | None:intergenic |
| ACGGCGGCGTGAGGCGAAGC+AGG | 0.472114 | 8_1:-2008046 | None:intergenic |
| ATGAAGATAGCCACGACGAC+GGG | 0.475007 | 8_1:+2008319 | Msa1172140:CDS |
| CAAGATGGAAGAATTTCATT+CGG | 0.477769 | 8_1:+2008211 | Msa1172140:CDS |
| GCGGTGGTTGTGGTGGTGGT+GGG | 0.485464 | 8_1:-2008117 | None:intergenic |
| GAAGCAGGTGGGGAAACATA+AGG | 0.500761 | 8_1:-2008031 | None:intergenic |
| AACCCGCCAATTTCACCCTC+CGG | 0.509850 | 8_1:-2008399 | None:intergenic |
| GGTGGGATGGGATTGAGAAA+AGG | 0.511993 | 8_1:-2008100 | None:intergenic |
| AACCGGAGGGTGAAATTGGC+GGG | 0.518811 | 8_1:+2008397 | Msa1172140:CDS |
| GAACCGGAGGGTGAAATTGG+CGG | 0.518878 | 8_1:+2008396 | Msa1172140:CDS |
| GGCGTGAGGCGAAGCAGGTG+GGG | 0.526513 | 8_1:-2008041 | None:intergenic |
| GCGGCGTGAGGCGAAGCAGG+TGG | 0.527709 | 8_1:-2008043 | None:intergenic |
| CGACGATCTCCGACCAGGCT+CGG | 0.535045 | 8_1:-2008182 | None:intergenic |
| ACGCCGCCGTTCCGTTTGGT+GGG | 0.538378 | 8_1:+2008059 | Msa1172140:CDS |
| TAATATTAAGTCTGTTGCGC+CGG | 0.541424 | 8_1:+2008374 | Msa1172140:CDS |
| ACCAGCGACGATCTCCGACC+AGG | 0.547492 | 8_1:-2008187 | None:intergenic |
| GCGAACACGTTCCCACCAAA+CGG | 0.551665 | 8_1:-2008070 | None:intergenic |
| AGATCGTCGCTGGTCCAAGA+TGG | 0.560579 | 8_1:+2008196 | Msa1172140:CDS |
| GCCGCGAGACCACCATCTAT+CGG | 0.563498 | 8_1:-2008139 | None:intergenic |
| CACGTTCCCACCAAACGGAA+CGG | 0.587139 | 8_1:-2008065 | None:intergenic |
| AGACCACCATCTATCGGCGG+TGG | 0.590655 | 8_1:-2008133 | None:intergenic |
| CCAAACGGAACGGCGGCGTG+AGG | 0.591562 | 8_1:-2008055 | None:intergenic |
| TCTATCGGCGGTGGTTGTGG+TGG | 0.591878 | 8_1:-2008124 | None:intergenic |
| TATGCGTTAAACTTTGATGA+GGG | 0.593416 | 8_1:+2008291 | Msa1172140:CDS |
| GGGATGGGATTGAGAAAAGG+AGG | 0.601763 | 8_1:-2008097 | None:intergenic |
| TTATGCGTTAAACTTTGATG+AGG | 0.610573 | 8_1:+2008290 | Msa1172140:CDS |
| GCCGATAGATGGTGGTCTCG+CGG | 0.626739 | 8_1:+2008138 | Msa1172140:CDS |
| TCTGTTGCGCCGGAACCGGA+GGG | 0.629319 | 8_1:+2008384 | Msa1172140:CDS |
| AATGAAGATAGCCACGACGA+CGG | 0.629695 | 8_1:+2008318 | Msa1172140:CDS |
| AATTCCGAAACCCGTCGTCG+TGG | 0.629946 | 8_1:-2008329 | None:intergenic |
| ATGGGATTGAGAAAAGGAGG+CGG | 0.635403 | 8_1:-2008094 | None:intergenic |
| AAAGAAACTCCGAGCCTGGT+CGG | 0.644913 | 8_1:+2008173 | Msa1172140:CDS |
| TGATTCAAGCTCTAGCTCAA+CGG | 0.647004 | 8_1:-2007974 | None:intergenic |
| AAGTTTAACGCATAACTCAA+CGG | 0.651799 | 8_1:-2008282 | None:intergenic |
| GGAGTTTCTTTAAGGCGTTG+AGG | 0.656051 | 8_1:-2008161 | None:intergenic |
| CAACCACCGCCGATAGATGG+TGG | 0.659317 | 8_1:+2008130 | Msa1172140:CDS |
| GTTCCCACCAAACGGAACGG+CGG | 0.663196 | 8_1:-2008062 | None:intergenic |
| AACAGACTTAATATTAACGG+CGG | 0.721385 | 8_1:-2008367 | None:intergenic |
| GCGAGACCACCATCTATCGG+CGG | 0.723063 | 8_1:-2008136 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| CAAGATGGAAGAATTTCATT+CGG | + | chr8_1:2008211-2008230 | Msa1172140:CDS | 30.0% | |
| AAGTTTAACGCATAACTCAA+CGG | - | chr8_1:2008285-2008304 | None:intergenic | 30.0% | |
| TTATGCGTTAAACTTTGATG+AGG | + | chr8_1:2008290-2008309 | Msa1172140:CDS | 30.0% | |
| TATGCGTTAAACTTTGATGA+GGG | + | chr8_1:2008291-2008310 | Msa1172140:CDS | 30.0% | |
| AACAGACTTAATATTAACGG+CGG | - | chr8_1:2008370-2008389 | None:intergenic | 30.0% | |
| CGCAACAGACTTAATATTAA+CGG | - | chr8_1:2008373-2008392 | None:intergenic | 30.0% | |
| CGAATGAAATTCTTCCATCT+TGG | - | chr8_1:2008213-2008232 | None:intergenic | 35.0% | |
| TAATATTAAGTCTGTTGCGC+CGG | + | chr8_1:2008374-2008393 | Msa1172140:CDS | 35.0% | |
| ! | TGATTCAAGCTCTAGCTCAA+CGG | - | chr8_1:2007977-2007996 | None:intergenic | 40.0% |
| ! | TCTCTTTTGTTGGAGATGAG+CGG | - | chr8_1:2008004-2008023 | None:intergenic | 40.0% |
| ! | TTTTGTTGGAGATGAGCGGT+TGG | - | chr8_1:2008000-2008019 | None:intergenic | 45.0% |
| ! | AGGCGCTTGATCTCTTTTGT+TGG | - | chr8_1:2008014-2008033 | None:intergenic | 45.0% |
| ATGGGATTGAGAAAAGGAGG+CGG | - | chr8_1:2008097-2008116 | None:intergenic | 45.0% | |
| !! | GGAGTTTCTTTAAGGCGTTG+AGG | - | chr8_1:2008164-2008183 | None:intergenic | 45.0% |
| TTGTCATACGCTTCGATCGA+TGG | - | chr8_1:2008248-2008267 | None:intergenic | 45.0% | |
| AATGAAGATAGCCACGACGA+CGG | + | chr8_1:2008318-2008337 | Msa1172140:CDS | 45.0% | |
| GAAGCAGGTGGGGAAACATA+AGG | - | chr8_1:2008034-2008053 | None:intergenic | 50.0% | |
| GGGATGGGATTGAGAAAAGG+AGG | - | chr8_1:2008100-2008119 | None:intergenic | 50.0% | |
| GGTGGGATGGGATTGAGAAA+AGG | - | chr8_1:2008103-2008122 | None:intergenic | 50.0% | |
| CCAGGCTCGGAGTTTCTTTA+AGG | - | chr8_1:2008172-2008191 | None:intergenic | 50.0% | |
| CCTTAAAGAAACTCCGAGCC+TGG | + | chr8_1:2008169-2008188 | Msa1172140:CDS | 50.0% | |
| AAAGAAACTCCGAGCCTGGT+CGG | + | chr8_1:2008173-2008192 | Msa1172140:CDS | 50.0% | |
| ATGAAGATAGCCACGACGAC+GGG | + | chr8_1:2008319-2008338 | Msa1172140:CDS | 50.0% | |
| CACGTTCCCACCAAACGGAA+CGG | - | chr8_1:2008068-2008087 | None:intergenic | 55.0% | |
| GCGAACACGTTCCCACCAAA+CGG | - | chr8_1:2008073-2008092 | None:intergenic | 55.0% | |
| AGATCGTCGCTGGTCCAAGA+TGG | + | chr8_1:2008196-2008215 | Msa1172140:CDS | 55.0% | |
| ! | ATAGCCACGACGACGGGTTT+CGG | + | chr8_1:2008325-2008344 | Msa1172140:CDS | 55.0% |
| AATTCCGAAACCCGTCGTCG+TGG | - | chr8_1:2008332-2008351 | None:intergenic | 55.0% | |
| TAAGTCTGTTGCGCCGGAAC+CGG | + | chr8_1:2008380-2008399 | Msa1172140:CDS | 55.0% | |
| CCAATTTCACCCTCCGGTTC+CGG | - | chr8_1:2008396-2008415 | None:intergenic | 55.0% | |
| GAACCGGAGGGTGAAATTGG+CGG | + | chr8_1:2008396-2008415 | Msa1172140:CDS | 55.0% | |
| AACCGGAGGGTGAAATTGGC+GGG | + | chr8_1:2008397-2008416 | Msa1172140:CDS | 55.0% | |
| AACCCGCCAATTTCACCCTC+CGG | - | chr8_1:2008402-2008421 | None:intergenic | 55.0% | |
| GTTCCCACCAAACGGAACGG+CGG | - | chr8_1:2008065-2008084 | None:intergenic | 60.0% | |
| !! | GGTTGTGGTGGTGGTGGGAT+GGG | - | chr8_1:2008115-2008134 | None:intergenic | 60.0% |
| !! | TGGTTGTGGTGGTGGTGGGA+TGG | - | chr8_1:2008116-2008135 | None:intergenic | 60.0% |
| TCTATCGGCGGTGGTTGTGG+TGG | - | chr8_1:2008127-2008146 | None:intergenic | 60.0% | |
| CCATCTATCGGCGGTGGTTG+TGG | - | chr8_1:2008130-2008149 | None:intergenic | 60.0% | |
| CCACAACCACCGCCGATAGA+TGG | + | chr8_1:2008127-2008146 | Msa1172140:CDS | 60.0% | |
| CAACCACCGCCGATAGATGG+TGG | + | chr8_1:2008130-2008149 | Msa1172140:CDS | 60.0% | |
| AGACCACCATCTATCGGCGG+TGG | - | chr8_1:2008136-2008155 | None:intergenic | 60.0% | |
| GCGAGACCACCATCTATCGG+CGG | - | chr8_1:2008139-2008158 | None:intergenic | 60.0% | |
| ! | GCCGATAGATGGTGGTCTCG+CGG | + | chr8_1:2008138-2008157 | Msa1172140:CDS | 60.0% |
| GCCGCGAGACCACCATCTAT+CGG | - | chr8_1:2008142-2008161 | None:intergenic | 60.0% | |
| CCGGAACCGGAGGGTGAAAT+TGG | + | chr8_1:2008393-2008412 | Msa1172140:CDS | 60.0% | |
| ACGCCGCCGTTCCGTTTGGT+GGG | + | chr8_1:2008059-2008078 | Msa1172140:CDS | 65.0% | |
| !! | GCGGTGGTTGTGGTGGTGGT+GGG | - | chr8_1:2008120-2008139 | None:intergenic | 65.0% |
| ATCGGCGGTGGTTGTGGTGG+TGG | - | chr8_1:2008124-2008143 | None:intergenic | 65.0% | |
| CGACGATCTCCGACCAGGCT+CGG | - | chr8_1:2008185-2008204 | None:intergenic | 65.0% | |
| ACCAGCGACGATCTCCGACC+AGG | - | chr8_1:2008190-2008209 | None:intergenic | 65.0% | |
| TCTGTTGCGCCGGAACCGGA+GGG | + | chr8_1:2008384-2008403 | Msa1172140:CDS | 65.0% | |
| GGCGTGAGGCGAAGCAGGTG+GGG | - | chr8_1:2008044-2008063 | None:intergenic | 70.0% | |
| CGGCGTGAGGCGAAGCAGGT+GGG | - | chr8_1:2008045-2008064 | None:intergenic | 70.0% | |
| CCAAACGGAACGGCGGCGTG+AGG | - | chr8_1:2008058-2008077 | None:intergenic | 70.0% | |
| CCTCACGCCGCCGTTCCGTT+TGG | + | chr8_1:2008055-2008074 | Msa1172140:CDS | 70.0% | |
| CACGCCGCCGTTCCGTTTGG+TGG | + | chr8_1:2008058-2008077 | Msa1172140:CDS | 70.0% | |
| !! | GGCGGTGGTTGTGGTGGTGG+TGG | - | chr8_1:2008121-2008140 | None:intergenic | 70.0% |
| GCCTGGTCGGAGATCGTCGC+TGG | + | chr8_1:2008186-2008205 | Msa1172140:CDS | 70.0% | |
| GTCTGTTGCGCCGGAACCGG+AGG | + | chr8_1:2008383-2008402 | Msa1172140:CDS | 70.0% | |
| GCGGCGTGAGGCGAAGCAGG+TGG | - | chr8_1:2008046-2008065 | None:intergenic | 75.0% | |
| ACGGCGGCGTGAGGCGAAGC+AGG | - | chr8_1:2008049-2008068 | None:intergenic | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_1 | gene | 2007970 | 2008428 | 2007970 | ID=Msa1172140;Name=Msa1172140 |
| chr8_1 | mRNA | 2007970 | 2008428 | 2007970 | ID=Msa1172140-mRNA-1;Parent=Msa1172140;Name=Msa1172140-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|152 |
| chr8_1 | exon | 2007970 | 2008428 | 2007970 | ID=Msa1172140-mRNA-1:exon:753;Parent=Msa1172140-mRNA-1 |
| chr8_1 | CDS | 2007970 | 2008428 | 2007970 | ID=Msa1172140-mRNA-1:cds;Parent=Msa1172140-mRNA-1 |
| Gene Sequence |
| Protein sequence |
