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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1266280 | AFJ53055.1 | 99.023 | 307 | 3 | 0 | 1 | 307 | 1 | 307 | 0.0 | 632 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1266280 | sp|A0A2R6PN00|MY123_ACTCC | 50.558 | 269 | 112 | 6 | 1 | 259 | 1 | 258 | 3.28e-79 | 244 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1220050 | Msa1266280 | 0.914817 | 1.228038e-84 | -8.615850e-47 |
| Msa1266280 | Msa1334420 | 0.955492 | 2.677983e-113 | -8.615850e-47 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1266280 | MtrunA17_Chr4g0070611 | 95.114 | 307 | 15 | 0 | 1 | 307 | 1 | 307 | 0.0 | 605 |
| Msa1266280 | MtrunA17_Chr4g0070641 | 95.031 | 161 | 8 | 0 | 1 | 161 | 1 | 161 | 8.40e-113 | 323 |
| Msa1266280 | MtrunA17_Chr7g0275911 | 74.380 | 121 | 31 | 0 | 1 | 121 | 1 | 121 | 1.30e-67 | 211 |
| Msa1266280 | MtrunA17_Chr8g0346561 | 75.207 | 121 | 30 | 0 | 1 | 121 | 1 | 121 | 2.09e-65 | 207 |
| Msa1266280 | MtrunA17_Chr3g0121241 | 75.893 | 112 | 27 | 0 | 5 | 116 | 35 | 146 | 3.93e-62 | 199 |
| Msa1266280 | MtrunA17_Chr4g0068061 | 65.891 | 129 | 44 | 0 | 1 | 129 | 1 | 129 | 3.17e-60 | 195 |
| Msa1266280 | MtrunA17_Chr3g0131121 | 73.276 | 116 | 31 | 0 | 1 | 116 | 1 | 116 | 1.07e-59 | 192 |
| Msa1266280 | MtrunA17_Chr4g0037141 | 70.690 | 116 | 34 | 0 | 1 | 116 | 1 | 116 | 2.19e-58 | 189 |
| Msa1266280 | MtrunA17_Chr5g0435101 | 70.175 | 114 | 34 | 0 | 3 | 116 | 2 | 115 | 5.50e-58 | 185 |
| Msa1266280 | MtrunA17_Chr1g0203411 | 57.931 | 145 | 52 | 1 | 1 | 136 | 1 | 145 | 1.59e-57 | 187 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1266280 | AT5G35550.1 | 48.837 | 258 | 102 | 5 | 9 | 261 | 11 | 243 | 3.19e-68 | 213 |
| Msa1266280 | AT3G13540.1 | 74.336 | 113 | 29 | 0 | 4 | 116 | 15 | 127 | 1.90e-60 | 193 |
| Msa1266280 | AT1G22640.1 | 70.690 | 116 | 34 | 0 | 1 | 116 | 1 | 116 | 2.61e-60 | 193 |
| Msa1266280 | AT4G09460.1 | 46.725 | 229 | 98 | 5 | 1 | 229 | 1 | 205 | 2.82e-60 | 192 |
| Msa1266280 | AT2G47460.1 | 56.863 | 153 | 66 | 0 | 1 | 153 | 1 | 153 | 1.01e-59 | 195 |
| Msa1266280 | AT2G16720.1 | 71.552 | 116 | 33 | 0 | 1 | 116 | 1 | 116 | 1.69e-59 | 191 |
| Msa1266280 | AT5G49330.1 | 71.552 | 116 | 33 | 0 | 1 | 116 | 1 | 116 | 2.51e-59 | 193 |
| Msa1266280 | AT4G38620.1 | 61.111 | 144 | 53 | 1 | 1 | 144 | 1 | 141 | 5.93e-59 | 191 |
| Msa1266280 | AT1G35515.1 | 56.954 | 151 | 62 | 1 | 1 | 148 | 1 | 151 | 2.69e-58 | 186 |
| Msa1266280 | AT3G23250.1 | 58.741 | 143 | 51 | 1 | 1 | 143 | 1 | 135 | 1.33e-57 | 187 |
Find 50 sgRNAs with CRISPR-Local
Find 142 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATCAACCAGCAAATCTG+TGG | 0.611405 | 8_2:-71064486 | None:intergenic |
| AAAGGCTATCAAGTGCTCTA+AGG | 0.425345 | 8_2:+71064280 | Msa1266280:CDS |
| AAGCCACCAATGCATGTTGA+TGG | 0.544750 | 8_2:+71064380 | Msa1266280:CDS |
| AAGCCCTCCTTTGCACAACA+AGG | 0.570948 | 8_2:-71063532 | None:intergenic |
| AAGTCCTTGTTGTGCAAAGG+AGG | 0.543543 | 8_2:+71063528 | Msa1266280:CDS |
| AATTAATGAACCTGCTCTTT+TGG | 0.204304 | 8_2:-71063641 | None:intergenic |
| AATTATTGGAACACGAATTT+AGG | 0.196974 | 8_2:+71064137 | Msa1266280:CDS |
| ACAAAACAATCCTAAACCAA+CGG | 0.655150 | 8_2:+71064232 | Msa1266280:CDS |
| ACAATGAAATCAAGAATTAT+TGG | 0.309694 | 8_2:+71064123 | Msa1266280:CDS |
| ACATGTGAGTTTGGCACCGT+TGG | 0.530375 | 8_2:-71064248 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GAAAAAGTTGTAGACTTAGA+TGG | + | chr8_2:71063823-71063842 | Msa1266280:CDS | 30.0% | |
| ACCATCTACCAAAAAATTCA+AGG | - | chr8_2:71064070-71064089 | None:intergenic | 30.0% | |
| GAACACGAATTTAGGAAAAA+AGG | + | chr8_2:71064145-71064164 | Msa1266280:CDS | 30.0% | |
| ACAAAACAATCCTAAACCAA+CGG | + | chr8_2:71064232-71064251 | Msa1266280:CDS | 30.0% | |
| TTCAATGAGTAACAACCAAA+TGG | + | chr8_2:71064415-71064434 | Msa1266280:CDS | 30.0% | |
| ATTCATTACCATTCTCCATT+TGG | - | chr8_2:71064433-71064452 | None:intergenic | 30.0% | |
| GTGAAATAATGAAGGTTGTT+AGG | - | chr8_2:71064686-71064705 | None:intergenic | 30.0% | |
| GAAAAAGTTGTAGACTTAGA+TGG | + | chr8_2:71063823-71063842 | Msa1266280:CDS | 30.0% | |
| ACCATCTACCAAAAAATTCA+AGG | - | chr8_2:71064070-71064089 | None:intergenic | 30.0% | |
| GAACACGAATTTAGGAAAAA+AGG | + | chr8_2:71064145-71064164 | Msa1266280:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_2 | gene | 71063520 | 71064745 | 71063520 | ID=Msa1266280;Name=Msa1266280 |
| chr8_2 | mRNA | 71063520 | 71064745 | 71063520 | ID=Msa1266280-mRNA-1;Parent=Msa1266280;Name=Msa1266280-mRNA-1;_AED=0.11;_eAED=0.11;_QI=0|0.5|0|1|1|1|3|0|307 |
| chr8_2 | exon | 71063520 | 71063652 | 71063520 | ID=Msa1266280-mRNA-1:exon:23665;Parent=Msa1266280-mRNA-1 |
| chr8_2 | exon | 71063808 | 71063937 | 71063808 | ID=Msa1266280-mRNA-1:exon:23666;Parent=Msa1266280-mRNA-1 |
| chr8_2 | exon | 71064085 | 71064745 | 71064085 | ID=Msa1266280-mRNA-1:exon:23667;Parent=Msa1266280-mRNA-1 |
| chr8_2 | CDS | 71063520 | 71063652 | 71063520 | ID=Msa1266280-mRNA-1:cds;Parent=Msa1266280-mRNA-1 |
| chr8_2 | CDS | 71063808 | 71063937 | 71063808 | ID=Msa1266280-mRNA-1:cds;Parent=Msa1266280-mRNA-1 |
| chr8_2 | CDS | 71064085 | 71064745 | 71064085 | ID=Msa1266280-mRNA-1:cds;Parent=Msa1266280-mRNA-1 |
| Gene Sequence |
>Msa1266280 ATGGGGAGAAGTCCTTGTTGTGCAAAGGAGGGCTTGAATAGAGGTGCTTGGACAGCTCATGAAGACAAAATTCTCTCAGATTACGTTAAGCTCCATGGTGAAGGAAAATGGAGAAACCTTCCCAAAAGAGCAGGTTTAAGAAGATGTGGAAAAAGTTGTAGACTTAGATGGTTAAATTATCTAAGACCAGATATTAAGAGAGGCAACATATCCTCAGATGAAGAAGATCTTATCATCCGACTTCACAAACTACTTGGAAACAGATGGTCTCTAATAGCCGGAAGACTACCAGGGCGAACAGACAATGAAATCAAGAATTATTGGAACACGAATTTAGGAAAAAAGGTTAAAGATCTCCAACAACAAAACACTAACAGTTCTTCTCCAAAAAATGCAAAGATCACACAGAAACAAAACAATCCTAAACCAACGGTGCCAAACTCACATGTTGTTCGTACAAAGGCTATCAAGTGCTCTAAGGTATTATTCATAAACTCACTCCCTAACTCATCAACAATGCAGAATTTGCAGAACAAAGTTGAGACAGAGACAAAAACAAAGCCACCAATGCATGTTGATGGTGGTGATAGTGATTCAATGAGTAACAACCAAATGGAGAATGGTAATGAATTTTTGTCATTTTCGGATGCGAAAAAAGAACTATCCACAGATTTGCTGGTTGATTTTAACATGAGGGATCATGATATTAGCTTATCTGAACTTCTCAACTCAGATTTTTCAACTGCATGCAATTTTGATTACAATGAGCTATTGTCACCTTGTTCTGACCAGACTCCTATGTTTTCGGATGAGATTCTCAAGAATTGGACAGAATGTAGCTTTGCTGATGAGAAAAATGTACCTAACAACCTTCATTATTTCACTTCTTTTCTCGAATCCAGTGAGGATGTACTAGGAGAATGA |
| Protein sequence |
>Msa1266280 MGRSPCCAKEGLNRGAWTAHEDKILSDYVKLHGEGKWRNLPKRAGLRRCGKSCRLRWLNYLRPDIKRGNISSDEEDLIIRLHKLLGNRWSLIAGRLPGRTDNEIKNYWNTNLGKKVKDLQQQNTNSSSPKNAKITQKQNNPKPTVPNSHVVRTKAIKCSKVLFINSLPNSSTMQNLQNKVETETKTKPPMHVDGGDSDSMSNNQMENGNEFLSFSDAKKELSTDLLVDFNMRDHDISLSELLNSDFSTACNFDYNELLSPCSDQTPMFSDEILKNWTECSFADEKNVPNNLHYFTSFLESSEDVLGE* |
