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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0180004388.01.T01 | XP_024637299.1 | 97.917 | 144 | 3 | 0 | 9 | 152 | 76 | 219 | 3.54E-97 | 290 |
| MsG0180004388.01.T02 | XP_024637299.1 | 97.917 | 144 | 3 | 0 | 9 | 152 | 76 | 219 | 3.54E-97 | 290 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0180004388.01.T01 | A0A072VMV1 | 97.917 | 144 | 3 | 0 | 9 | 152 | 76 | 219 | 1.69e-97 | 290 |
| MsG0180004388.01.T02 | A0A072VMV1 | 97.917 | 144 | 3 | 0 | 9 | 152 | 76 | 219 | 1.69e-97 | 290 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MsG0080047814.01 | MsG0180004388.01 | 0.849221 | 3.715421e-60 | 6.995484e-57 |
| MsG0080047825.01 | MsG0180004388.01 | 0.857904 | 1.187540e-62 | 2.977247e-59 |
| MsG0080047869.01 | MsG0180004388.01 | 0.848079 | 7.702872e-60 | 1.397055e-56 |
| MsG0080047912.01 | MsG0180004388.01 | 0.835203 | 1.923467e-56 | 2.335700e-53 |
| MsG0080047971.01 | MsG0180004388.01 | 0.804092 | 2.549568e-49 | 1.302963e-46 |
| MsG0080048035.01 | MsG0180004388.01 | 0.850005 | 2.245802e-60 | 4.337220e-57 |
| MsG0080048058.01 | MsG0180004388.01 | 0.824862 | 6.412357e-54 | 5.749989e-51 |
| MsG0080048177.01 | MsG0180004388.01 | 0.814548 | 1.457002e-51 | 9.805567e-49 |
| MsG0080048178.01 | MsG0180004388.01 | 0.809344 | 1.982121e-50 | 1.160891e-47 |
| MsG0080048461.01 | MsG0180004388.01 | 0.809837 | 1.552966e-50 | 9.215211e-48 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0180004388.01.T01 | MTR_1g078200 | 97.917 | 144 | 3 | 0 | 9 | 152 | 76 | 219 | 4.29e-101 | 290 |
| MsG0180004388.01.T01 | MTR_7g405790 | 61.594 | 138 | 49 | 1 | 9 | 142 | 77 | 214 | 1.54e-54 | 172 |
| MsG0180004388.01.T01 | MTR_7g051940 | 66.667 | 117 | 39 | 0 | 9 | 125 | 75 | 191 | 1.05e-49 | 160 |
| MsG0180004388.01.T01 | MTR_8g089985 | 56.923 | 130 | 56 | 0 | 9 | 138 | 79 | 208 | 5.41e-49 | 158 |
| MsG0180004388.01.T01 | MTR_3g086980 | 54.615 | 130 | 59 | 0 | 9 | 138 | 78 | 207 | 2.91e-47 | 154 |
| MsG0180004388.01.T01 | MTR_4g064897 | 59.292 | 113 | 46 | 0 | 9 | 121 | 74 | 186 | 2.92e-46 | 151 |
| MsG0180004388.01.T01 | MTR_2g005510 | 51.538 | 130 | 62 | 1 | 9 | 138 | 77 | 205 | 3.77e-42 | 140 |
| MsG0180004388.01.T01 | MTR_1g052475 | 53.982 | 113 | 52 | 0 | 9 | 121 | 77 | 189 | 6.25e-42 | 140 |
| MsG0180004388.01.T01 | MTR_2g083860 | 57.798 | 109 | 46 | 0 | 9 | 117 | 75 | 183 | 6.26e-42 | 140 |
| MsG0180004388.01.T01 | MTR_3g069510 | 56.637 | 113 | 49 | 0 | 9 | 121 | 74 | 186 | 1.17e-41 | 139 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MsG0180004388.01.T01 | AT5G47520 | 81.944 | 144 | 22 | 1 | 9 | 152 | 76 | 215 | 4.52e-79 | 234 |
| MsG0180004388.01.T01 | AT2G31680 | 65.812 | 117 | 40 | 0 | 9 | 125 | 74 | 190 | 6.88e-50 | 160 |
| MsG0180004388.01.T01 | AT2G43130 | 62.393 | 117 | 44 | 0 | 9 | 125 | 74 | 190 | 7.32e-49 | 157 |
| MsG0180004388.01.T01 | AT1G05810 | 64.103 | 117 | 42 | 0 | 9 | 125 | 74 | 190 | 4.02e-48 | 156 |
| MsG0180004388.01.T01 | AT5G65270 | 61.947 | 113 | 43 | 0 | 9 | 121 | 79 | 191 | 4.59e-48 | 156 |
| MsG0180004388.01.T01 | AT1G05810 | 57.246 | 138 | 55 | 1 | 9 | 142 | 120 | 257 | 1.30e-47 | 156 |
| MsG0180004388.01.T01 | AT3G07410 | 57.246 | 138 | 56 | 1 | 9 | 146 | 74 | 208 | 2.47e-47 | 154 |
| MsG0180004388.01.T01 | AT5G47960 | 52.113 | 142 | 66 | 1 | 9 | 148 | 77 | 218 | 6.92e-47 | 153 |
| MsG0180004388.01.T01 | AT4G39990 | 51.493 | 134 | 63 | 1 | 9 | 142 | 79 | 210 | 3.31e-45 | 149 |
| MsG0180004388.01.T01 | AT1G07410 | 57.522 | 113 | 48 | 0 | 9 | 121 | 74 | 186 | 5.33e-45 | 148 |
Find 21 sgRNAs with CRISPR-Local
Find 401 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAATAAATCACATACTAGAA+CGG | 0.614465 | 1:-77339042 | MsG0180004388.01.T01:five_prime_UTR |
| AAATCAAATGAGAGAGAGAA+GGG | 0.541690 | 1:+77339011 | None:intergenic |
| AAGGAGGAAAGGGATTGATT+GGG | 0.465825 | 1:+77338965 | None:intergenic |
| AAGTGTAAGTTGGAGTTCAA+AGG | 0.529244 | 1:-77337679 | MsG0180004388.01.T01:five_prime_UTR |
| ACAAGGAGAGAAGTTGTTTG+AGG | 0.493218 | 1:-77337645 | MsG0180004388.01.T01:intron |
| AGCATCATCATTTCATATCA+CGG | 0.559041 | 1:-77338930 | MsG0180004388.01.T01:intron |
| AGTTGGAGTTCAAAGGACTG+AGG | 0.676669 | 1:-77337672 | MsG0180004388.01.T01:five_prime_UTR |
| ATATGCGATTGAAGGAGGAA+AGG | 0.587575 | 1:+77338954 | None:intergenic |
| ATTGATTGGGTTTGGAAAAT+TGG | 0.154373 | 1:+77338978 | None:intergenic |
| CAAAGGACTGAGGGGAAACA+AGG | 0.556341 | 1:-77337662 | MsG0180004388.01.T01:five_prime_UTR |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AAACATGTACTCGCATATAT+TGG | - | Chr1:77338273-77338292 | MsG0180004388.01.T01:intron | 30.0% | |
| AAATCAAATGAGAGAGAGAA+GGG | + | Chr1:77333530-77333549 | None:intergenic | 30.0% | |
| AATTCTACATTGTCCCATAT+GGG | + | Chr1:77334010-77334029 | None:intergenic | 30.0% | |
| AGACCTGTATATATAACCAA+AGG | + | Chr1:77334733-77334752 | None:intergenic | 30.0% | |
| AGAGTTCCAAACTCAAAAAA+TGG | - | Chr1:77337328-77337347 | MsG0180004388.01.T01:intron | 30.0% | |
| AGCATCATCATTTCATATCA+CGG | - | Chr1:77333608-77333627 | MsG0180004388.01.T01:three_prime_UTR | 30.0% | |
| AGGACCATATAAGTACTATA+AGG | + | Chr1:77337699-77337718 | None:intergenic | 30.0% | |
| AGTAACTGCCTAATAATAGT+AGG | - | Chr1:77336323-77336342 | MsG0180004388.01.T01:intron | 30.0% | |
| ATACTAAAACTGATGCTTTC+AGG | - | Chr1:77336845-77336864 | MsG0180004388.01.T01:intron | 30.0% | |
| ATAGACTTCAAAATCCCATA+TGG | - | Chr1:77333993-77334012 | MsG0180004388.01.T01:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| Chr1 | gene | 77333440 | 77339120 | 77333440 | ID=MsG0180004388.01;Name=MsG0180004388.01 |
| Chr1 | mRNA | 77333440 | 77339120 | 77333440 | ID=MsG0180004388.01.T01;Parent=MsG0180004388.01;Name=MsG0180004388.01.T01;_AED=0.17;_eAED=0.17;_QI=658|1|1|1|0.25|0.2|5|376|177 |
| Chr1 | exon | 77337646 | 77337723 | 77337646 | ID=MsG0180004388.01.T01:exon:14907;Parent=MsG0180004388.01.T01 |
| Chr1 | exon | 77338931 | 77339120 | 77338931 | ID=MsG0180004388.01.T01:exon:14906;Parent=MsG0180004388.01.T01 |
| Chr1 | five_prime_UTR | 77338931 | 77339120 | 77338931 | ID=MsG0180004388.01.T01:five_prime_utr;Parent=MsG0180004388.01.T01 |
| Chr1 | five_prime_UTR | 77337646 | 77337723 | 77337646 | ID=MsG0180004388.01.T01:five_prime_utr;Parent=MsG0180004388.01.T01 |
| Chr1 | five_prime_UTR | 77335601 | 77335693 | 77335601 | ID=MsG0180004388.01.T01:five_prime_utr;Parent=MsG0180004388.01.T01 |
| Chr1 | five_prime_UTR | 77335179 | 77335475 | 77335179 | ID=MsG0180004388.01.T01:five_prime_utr;Parent=MsG0180004388.01.T01 |
| Chr1 | CDS | 77335040 | 77335178 | 77335040 | ID=MsG0180004388.01.T01:cds;Parent=MsG0180004388.01.T01 |
| Chr1 | CDS | 77333816 | 77334210 | 77333816 | ID=MsG0180004388.01.T01:cds;Parent=MsG0180004388.01.T01 |
| Chr1 | three_prime_UTR | 77333440 | 77333815 | 77333440 | ID=MsG0180004388.01.T01:three_prime_utr;Parent=MsG0180004388.01.T01 |
| Chr1 | mRNA | 77333440 | 77337732 | 77333440 | ID=MsG0180004388.01.T02;Parent=MsG0180004388.01;Name=MsG0180004388.01.T02;_AED=0.21;_eAED=0.21;_QI=477|1|1|1|0.33|0.25|4|376|177 |
| Chr1 | exon | 77337646 | 77337732 | 77337646 | ID=MsG0180004388.01.T02:exon:14911;Parent=MsG0180004388.01.T02 |
| Chr1 | five_prime_UTR | 77337646 | 77337732 | 77337646 | ID=MsG0180004388.01.T02:five_prime_utr;Parent=MsG0180004388.01.T02 |
| Chr1 | five_prime_UTR | 77335601 | 77335693 | 77335601 | ID=MsG0180004388.01.T02:five_prime_utr;Parent=MsG0180004388.01.T02 |
| Chr1 | five_prime_UTR | 77335179 | 77335475 | 77335179 | ID=MsG0180004388.01.T02:five_prime_utr;Parent=MsG0180004388.01.T02 |
| Chr1 | CDS | 77335040 | 77335178 | 77335040 | ID=MsG0180004388.01.T02:cds;Parent=MsG0180004388.01.T02 |
| Chr1 | CDS | 77333816 | 77334210 | 77333816 | ID=MsG0180004388.01.T02:cds;Parent=MsG0180004388.01.T02 |
| Chr1 | three_prime_UTR | 77333440 | 77333815 | 77333440 | ID=MsG0180004388.01.T02:three_prime_utr;Parent=MsG0180004388.01.T02 |
| Gene Sequence |
>MsG0180004388.01.T01 ATGGGACACAGCTGGGCAAGAGGGTTCAGAGCTGTTACTTCTGCATATTATAGGGGTGCAGTTGGAGCACTTCTGGTATATGACATCAGCAGGCGTCAAACGTTTGATAGCATTGGTCGATGGCTTAACGAACTTCACACTCACTCTGATATGAACGTTGTCACAATACTTGTTGGGAACAAGTCAGATCTTAAGGATGCGAGAGAGGTACCTACGACGGAAGGCAAGGCGTTAGCTGAGGCACAAGGTTTGTTCTTTATGGAGACATCAGCACTTGATTCATCAAATGTAGTTGCTGCTTTTCAAACAGTTGTAAAAGAAATCTACAACATATTAAGCCGGAAGGTTATGATGTCTCAAGAGCTCAAGAAAGATGATGCTTCCTGGATTGAAAATGGAAAGACTGTTGTTCTACAACAAGAAGGGGATCGATCAGCAGAAGGGGAGACAAAAAGGGTTGTTGTTCGAAATAGGTTTGATACTATAGTGACTCCAAAACTATGTTCTTATTATAAGTTATTCAACCAAACCTGA >MsG0180004388.01.T02 ATGGGACACAGCTGGGCAAGAGGGTTCAGAGCTGTTACTTCTGCATATTATAGGGGTGCAGTTGGAGCACTTCTGGTATATGACATCAGCAGGCGTCAAACGTTTGATAGCATTGGTCGATGGCTTAACGAACTTCACACTCACTCTGATATGAACGTTGTCACAATACTTGTTGGGAACAAGTCAGATCTTAAGGATGCGAGAGAGGTACCTACGACGGAAGGCAAGGCGTTAGCTGAGGCACAAGGTTTGTTCTTTATGGAGACATCAGCACTTGATTCATCAAATGTAGTTGCTGCTTTTCAAACAGTTGTAAAAGAAATCTACAACATATTAAGCCGGAAGGTTATGATGTCTCAAGAGCTCAAGAAAGATGATGCTTCCTGGATTGAAAATGGAAAGACTGTTGTTCTACAACAAGAAGGGGATCGATCAGCAGAAGGGGAGACAAAAAGGGTTGTTGTTCGAAATAGGTTTGATACTATAGTGACTCCAAAACTATGTTCTTATTATAAGTTATTCAACCAAACCTGA |
| Protein sequence |
>MsG0180004388.01.T01 MGHSWARGFRAVTSAYYRGAVGALLVYDISRRQTFDSIGRWLNELHTHSDMNVVTILVGNKSDLKDAREVPTTEGKALAEAQGLFFMETSALDSSNVVAAFQTVVKEIYNILSRKVMMSQELKKDDASWIENGKTVVLQQEGDRSAEGETKRVVVRNRFDTIVTPKLCSYYKLFNQT* >MsG0180004388.01.T02 MGHSWARGFRAVTSAYYRGAVGALLVYDISRRQTFDSIGRWLNELHTHSDMNVVTILVGNKSDLKDAREVPTTEGKALAEAQGLFFMETSALDSSNVVAAFQTVVKEIYNILSRKVMMSQELKKDDASWIENGKTVVLQQEGDRSAEGETKRVVVRNRFDTIVTPKLCSYYKLFNQT* |
