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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1434400 | AFJ53055.1 | 99.674 | 307 | 1 | 0 | 1 | 307 | 1 | 307 | 0.0 | 635 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1434400 | sp|A0A2R6PN00|MY123_ACTCC | 50.558 | 269 | 112 | 6 | 1 | 259 | 1 | 258 | 3.01e-79 | 244 |
Co-expression Network
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1434400 | MtrunA17_Chr4g0070611 | 95.114 | 307 | 15 | 0 | 1 | 307 | 1 | 307 | 0.0 | 605 |
| Msa1434400 | MtrunA17_Chr4g0070641 | 95.031 | 161 | 8 | 0 | 1 | 161 | 1 | 161 | 7.95e-113 | 323 |
| Msa1434400 | MtrunA17_Chr7g0275911 | 74.380 | 121 | 31 | 0 | 1 | 121 | 1 | 121 | 1.30e-67 | 211 |
| Msa1434400 | MtrunA17_Chr8g0346561 | 75.207 | 121 | 30 | 0 | 1 | 121 | 1 | 121 | 2.14e-65 | 207 |
| Msa1434400 | MtrunA17_Chr3g0121241 | 75.893 | 112 | 27 | 0 | 5 | 116 | 35 | 146 | 3.57e-62 | 199 |
| Msa1434400 | MtrunA17_Chr4g0068061 | 65.891 | 129 | 44 | 0 | 1 | 129 | 1 | 129 | 3.28e-60 | 195 |
| Msa1434400 | MtrunA17_Chr3g0131121 | 73.276 | 116 | 31 | 0 | 1 | 116 | 1 | 116 | 9.41e-60 | 192 |
| Msa1434400 | MtrunA17_Chr4g0037141 | 70.690 | 116 | 34 | 0 | 1 | 116 | 1 | 116 | 1.84e-58 | 189 |
| Msa1434400 | MtrunA17_Chr5g0435101 | 70.175 | 114 | 34 | 0 | 3 | 116 | 2 | 115 | 4.63e-58 | 186 |
| Msa1434400 | MtrunA17_Chr1g0203411 | 57.931 | 145 | 52 | 1 | 1 | 136 | 1 | 145 | 1.53e-57 | 187 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1434400 | AT5G35550.1 | 48.837 | 258 | 102 | 5 | 9 | 261 | 11 | 243 | 2.38e-68 | 214 |
| Msa1434400 | AT3G13540.1 | 74.336 | 113 | 29 | 0 | 4 | 116 | 15 | 127 | 1.76e-60 | 193 |
| Msa1434400 | AT1G22640.1 | 70.690 | 116 | 34 | 0 | 1 | 116 | 1 | 116 | 2.10e-60 | 193 |
| Msa1434400 | AT4G09460.1 | 46.725 | 229 | 98 | 5 | 1 | 229 | 1 | 205 | 2.48e-60 | 192 |
| Msa1434400 | AT2G47460.1 | 56.863 | 153 | 66 | 0 | 1 | 153 | 1 | 153 | 9.11e-60 | 195 |
| Msa1434400 | AT2G16720.1 | 71.552 | 116 | 33 | 0 | 1 | 116 | 1 | 116 | 1.64e-59 | 191 |
| Msa1434400 | AT5G49330.1 | 71.552 | 116 | 33 | 0 | 1 | 116 | 1 | 116 | 2.07e-59 | 193 |
| Msa1434400 | AT4G38620.1 | 61.111 | 144 | 53 | 1 | 1 | 144 | 1 | 141 | 5.38e-59 | 191 |
| Msa1434400 | AT1G35515.1 | 56.954 | 151 | 62 | 1 | 1 | 148 | 1 | 151 | 2.34e-58 | 186 |
| Msa1434400 | AT3G23250.1 | 58.741 | 143 | 51 | 1 | 1 | 143 | 1 | 135 | 1.35e-57 | 187 |
Find 52 sgRNAs with CRISPR-Local
Find 144 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATCAACCAGCAAATCTG+TGG | 0.611405 | tig0027530:+48285 | None:intergenic |
| AAAGGCTATCAAGTGCTCTA+AGG | 0.425345 | tig0027530:-48491 | Msa1434400:CDS |
| AAGCCACCAATGCATGTTGA+TGG | 0.544750 | tig0027530:-48391 | Msa1434400:CDS |
| AAGCCCTCCTTTGCACAACA+AGG | 0.570948 | tig0027530:+49239 | None:intergenic |
| AAGTCCTTGTTGTGCAAAGG+AGG | 0.543543 | tig0027530:-49243 | Msa1434400:CDS |
| AATTAATGAACCTGCTCTTT+TGG | 0.204304 | tig0027530:+49130 | None:intergenic |
| AATTATTGGAACACGAATTT+AGG | 0.118711 | tig0027530:-48634 | Msa1434400:CDS |
| ACAATGAAATCAAGAATTAT+TGG | 0.309694 | tig0027530:-48648 | Msa1434400:CDS |
| ACAGAACAATCCTAAACCAA+CGG | 0.658801 | tig0027530:-48539 | Msa1434400:CDS |
| ACATGTGAGTTTGGCACCGT+TGG | 0.530375 | tig0027530:+48523 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GAAAAAGTTGTAGACTTAGA+TGG | - | tig0027530:48351-48370 | Msa1434400:CDS | 30.0% | |
| ACCATCTACCAAAAAATTCA+AGG | + | tig0027530:48598-48617 | None:intergenic | 30.0% | |
| TTCAATGAGTAACAACCAAA+TGG | - | tig0027530:48943-48962 | Msa1434400:CDS | 30.0% | |
| ATTCATTACCATTCTCCATT+TGG | + | tig0027530:48961-48980 | None:intergenic | 30.0% | |
| GTGAAATAATGAAGGTTGTT+AGG | + | tig0027530:49214-49233 | None:intergenic | 30.0% | |
| GAAAAAGTTGTAGACTTAGA+TGG | - | tig0027530:48351-48370 | Msa1434400:CDS | 30.0% | |
| ACCATCTACCAAAAAATTCA+AGG | + | tig0027530:48598-48617 | None:intergenic | 30.0% | |
| TTCAATGAGTAACAACCAAA+TGG | - | tig0027530:48943-48962 | Msa1434400:CDS | 30.0% | |
| ATTCATTACCATTCTCCATT+TGG | + | tig0027530:48961-48980 | None:intergenic | 30.0% | |
| GTGAAATAATGAAGGTTGTT+AGG | + | tig0027530:49214-49233 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| tig0027530 | gene | 48048 | 49273 | 48048 | ID=Msa1434400;Name=Msa1434400 |
| tig0027530 | mRNA | 48048 | 49273 | 48048 | ID=Msa1434400-mRNA-1;Parent=Msa1434400;Name=Msa1434400-mRNA-1;_AED=0.11;_eAED=0.11;_QI=0|0.5|0|1|1|1|3|0|307 |
| tig0027530 | exon | 49141 | 49273 | 49141 | ID=Msa1434400-mRNA-1:exon:9200;Parent=Msa1434400-mRNA-1 |
| tig0027530 | exon | 48856 | 48985 | 48856 | ID=Msa1434400-mRNA-1:exon:9199;Parent=Msa1434400-mRNA-1 |
| tig0027530 | exon | 48048 | 48708 | 48048 | ID=Msa1434400-mRNA-1:exon:9198;Parent=Msa1434400-mRNA-1 |
| tig0027530 | CDS | 49141 | 49273 | 49141 | ID=Msa1434400-mRNA-1:cds;Parent=Msa1434400-mRNA-1 |
| tig0027530 | CDS | 48856 | 48985 | 48856 | ID=Msa1434400-mRNA-1:cds;Parent=Msa1434400-mRNA-1 |
| tig0027530 | CDS | 48048 | 48708 | 48048 | ID=Msa1434400-mRNA-1:cds;Parent=Msa1434400-mRNA-1 |
| Gene Sequence |
>Msa1434400 ATGGGGAGAAGTCCTTGTTGTGCAAAGGAGGGCTTGAATAGAGGTGCTTGGACAGCTCATGAAGACAAAATTCTCTCAGATTACGTTAAGCTCCATGGTGAAGGAAAATGGAGAAACCTTCCCAAAAGAGCAGGTTTAAGAAGATGTGGAAAAAGTTGTAGACTTAGATGGTTAAATTATCTAAGACCAGATATTAAGAGAGGCAACATATCCTCAGATGAAGAAGATCTTATCATCCGACTTCACAAACTACTTGGAAACAGATGGTCTCTAATAGCTGGAAGACTACCAGGGCGAACAGACAATGAAATCAAGAATTATTGGAACACGAATTTAGGGAAAAAGGTTAAAGATCTCCAACAACAAAACACTAACAGTTCTTCTCCAAAAAATGCAAAGATCACACAGAAACAGAACAATCCTAAACCAACGGTGCCAAACTCACATGTTGTTCGTACAAAGGCTATCAAGTGCTCTAAGGTATTATTCATGAACTCACTCCCTAACTCATCAACAATGCAGAATTTGCAGAACAAAGTTGAGACAGAGACAAAAACAAAGCCACCAATGCATGTTGATGGTGGTGATAGTGATTCAATGAGTAACAACCAAATGGAGAATGGTAATGAATTTTTGTCATTTTCGGATGCGAAAAAAGAACTATCCACAGATTTGCTGGTTGATTTTAACATGAGGGATCATGATATTAGCTTATCTGAACTTCTCAACTCAGATTTTTCAACTGCATGCAATTTTGATTACAATGAGCTATTGTCACCTTGTTCTGACCAGACTCCCATGTTTTCGGATGAGATTCTCAAGAATTGGACACAATGTAGCTTTGCTGATGAGAAAAATGTACCTAACAACCTTCATTATTTCACTTCTTTTCTCGAATCCAGTGAGGATGTACTAGGAGAATGA |
| Protein sequence |
>Msa1434400 MGRSPCCAKEGLNRGAWTAHEDKILSDYVKLHGEGKWRNLPKRAGLRRCGKSCRLRWLNYLRPDIKRGNISSDEEDLIIRLHKLLGNRWSLIAGRLPGRTDNEIKNYWNTNLGKKVKDLQQQNTNSSSPKNAKITQKQNNPKPTVPNSHVVRTKAIKCSKVLFMNSLPNSSTMQNLQNKVETETKTKPPMHVDGGDSDSMSNNQMENGNEFLSFSDAKKELSTDLLVDFNMRDHDISLSELLNSDFSTACNFDYNELLSPCSDQTPMFSDEILKNWTQCSFADEKNVPNNLHYFTSFLESSEDVLGE* |
