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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0436800 | AES70281.2 | 64.983 | 297 | 54 | 3 | 348 | 599 | 19 | 310 | 9.98e-104 | 328 |
| Msa0436800 | AES70281.2 | 66.502 | 203 | 49 | 4 | 161 | 346 | 19 | 219 | 4.51e-71 | 243 |
| Msa0436800 | AES70281.2 | 76.136 | 176 | 25 | 2 | 1 | 159 | 44 | 219 | 2.58e-75 | 254 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0436800 | sp|Q6Z1C0|NUCL1_ORYSJ | 42.169 | 83 | 42 | 2 | 518 | 599 | 277 | 354 | 3.18e-11 | 69.7 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0436800 | G7J1Z7 | 64.983 | 297 | 54 | 3 | 348 | 599 | 19 | 310 | 4.76e-104 | 328 |
| Msa0436800 | G7J1Z7 | 66.502 | 203 | 49 | 4 | 161 | 346 | 19 | 219 | 2.15e-71 | 243 |
| Msa0436800 | G7J1Z7 | 76.136 | 176 | 25 | 2 | 1 | 159 | 44 | 219 | 1.23e-75 | 254 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0015400 | Msa0436800 | 0.802796 | 4.733188e-49 | -8.615850e-47 |
| Msa0015750 | Msa0436800 | 0.805162 | 1.524917e-49 | -8.615850e-47 |
| Msa0016570 | Msa0436800 | 0.829814 | 4.171180e-55 | -8.615850e-47 |
| Msa0016580 | Msa0436800 | 0.811911 | 5.523484e-51 | -8.615850e-47 |
| Msa0026450 | Msa0436800 | 0.801321 | 9.513688e-49 | -8.615850e-47 |
| Msa0056530 | Msa0436800 | 0.814412 | 1.561047e-51 | -8.615850e-47 |
| Msa0099210 | Msa0436800 | 0.803507 | 3.373247e-49 | -8.615850e-47 |
| Msa0102070 | Msa0436800 | 0.823627 | 1.250838e-53 | -8.615850e-47 |
| Msa0131770 | Msa0436800 | 0.814436 | 1.542332e-51 | -8.615850e-47 |
| Msa0142220 | Msa0436800 | 0.932317 | 1.021404e-94 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0436800 | MtrunA17_Chr3g0098461 | 85.345 | 116 | 17 | 0 | 1 | 116 | 44 | 159 | 2.21e-64 | 208 |
| Msa0436800 | MtrunA17_Chr3g0098461 | 70.423 | 142 | 41 | 1 | 161 | 302 | 19 | 159 | 3.05e-62 | 202 |
| Msa0436800 | MtrunA17_Chr3g0098461 | 68.293 | 123 | 38 | 1 | 348 | 470 | 19 | 140 | 5.32e-50 | 170 |
| Msa0436800 | MtrunA17_Chr3g0098471 | 84.496 | 129 | 16 | 1 | 471 | 599 | 48 | 172 | 4.35e-55 | 184 |
| Msa0436800 | MtrunA17_Chr0c05g0492161 | 75.926 | 54 | 13 | 0 | 1 | 54 | 44 | 97 | 1.32e-20 | 87.8 |
| Msa0436800 | MtrunA17_Chr0c05g0492161 | 54.545 | 77 | 35 | 0 | 161 | 237 | 19 | 95 | 2.40e-20 | 87.0 |
| Msa0436800 | MtrunA17_Chr0c05g0492161 | 54.545 | 77 | 35 | 0 | 348 | 424 | 19 | 95 | 2.57e-20 | 87.0 |
| Msa0436800 | MtrunA17_Chr4g0038111 | 67.742 | 62 | 20 | 0 | 538 | 599 | 321 | 382 | 4.80e-20 | 94.4 |
| Msa0436800 | MtrunA17_Chr3g0090311 | 37.815 | 119 | 68 | 5 | 181 | 296 | 42 | 157 | 5.77e-13 | 67.8 |
| Msa0436800 | MtrunA17_Chr1g0163591 | 48.438 | 64 | 32 | 1 | 535 | 597 | 271 | 334 | 4.58e-12 | 68.9 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0436800 | AT3G18610.3 | 44.776 | 67 | 36 | 1 | 533 | 599 | 332 | 397 | 1.61e-11 | 67.8 |
| Msa0436800 | AT3G18610.2 | 44.776 | 67 | 36 | 1 | 533 | 599 | 302 | 367 | 1.66e-11 | 67.4 |
| Msa0436800 | AT3G18610.1 | 44.776 | 67 | 36 | 1 | 533 | 599 | 362 | 427 | 1.70e-11 | 67.8 |
Find 153 sgRNAs with CRISPR-Local
Find 785 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACGCTGAAAAGGACTTA+AGG | 0.455617 | 3_2:+90594291 | Msa0436800:CDS |
| AAACGCTGAAAAGGACTTAA+GGG | 0.449883 | 3_2:+90594292 | Msa0436800:CDS |
| AAACTTTCAAGATCCACGTC+AGG | 0.572396 | 3_2:-90589904 | None:intergenic |
| AAACTTTCAAGATCCACGTC+AGG | 0.572396 | 3_2:-90594101 | None:intergenic |
| AAAGAAGCAAAAGGTAGACG+AGG | 0.690556 | 3_2:+90587644 | Msa0436800:CDS |
| AAAGATAGGGCCAACGAAGA+GGG | 0.584375 | 3_2:-90585622 | None:intergenic |
| AAAGATAGGGTTAACGAAGA+TGG | 0.472513 | 3_2:-90594237 | None:intergenic |
| AAAGATGGGGTATGAGAAGG+AGG | 0.631960 | 3_2:+90590396 | Msa0436800:CDS |
| AAAGATGGGGTATGAGAAGG+AGG | 0.631960 | 3_2:+90594597 | Msa0436800:CDS |
| AAAGATGGGTTATGAGGAGG+AGG | 0.574952 | 3_2:+90585937 | Msa0436800:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATTACTCTTCTTCGAAAAGA+TGG | + | chr3_2:90585922-90585941 | Msa0436800:CDS | 30.0% | |
| TTACTCTTCTTCGAAAAGAT+GGG | + | chr3_2:90585923-90585942 | Msa0436800:CDS | 30.0% | |
| TGAATAATGATGTGAGTGAA+AGG | + | chr3_2:90586219-90586238 | Msa0436800:intron | 30.0% | |
| ATTTCTATGGCTACTATGAA+AGG | - | chr3_2:90586611-90586630 | None:intergenic | 30.0% | |
| TCAAATCATACAACCATTAG+AGG | - | chr3_2:90586674-90586693 | None:intergenic | 30.0% | |
| ACCAACAAACGTAAATCAAA+AGG | + | chr3_2:90586882-90586901 | Msa0436800:intron | 30.0% | |
| CCAACAAACGTAAATCAAAA+GGG | + | chr3_2:90586883-90586902 | Msa0436800:intron | 30.0% | |
| GACTAAGAAGAATGCTTTAA+GGG | - | chr3_2:90586964-90586983 | None:intergenic | 30.0% | |
| AGACTAAGAAGAATGCTTTA+AGG | - | chr3_2:90586965-90586984 | None:intergenic | 30.0% | |
| TAAAGATAAATGGCAAGAGA+TGG | - | chr3_2:90587231-90587250 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_2 | gene | 90585540 | 90596968 | 90585540 | ID=Msa0436800;Name=Msa0436800 |
| chr3_2 | mRNA | 90585540 | 90596968 | 90585540 | ID=Msa0436800-mRNA-1;Parent=Msa0436800;Name=Msa0436800-mRNA-1;_AED=0.11;_eAED=0.11;_QI=0|0|0|1|0.63|0.41|12|0|599 |
| chr3_2 | exon | 90585540 | 90585701 | 90585540 | ID=Msa0436800-mRNA-1:exon:26959;Parent=Msa0436800-mRNA-1 |
| chr3_2 | exon | 90585872 | 90586055 | 90585872 | ID=Msa0436800-mRNA-1:exon:26960;Parent=Msa0436800-mRNA-1 |
| chr3_2 | exon | 90587604 | 90587737 | 90587604 | ID=Msa0436800-mRNA-1:exon:26961;Parent=Msa0436800-mRNA-1 |
| chr3_2 | exon | 90589883 | 90590122 | 90589883 | ID=Msa0436800-mRNA-1:exon:26962;Parent=Msa0436800-mRNA-1 |
| chr3_2 | exon | 90590331 | 90590514 | 90590331 | ID=Msa0436800-mRNA-1:exon:26963;Parent=Msa0436800-mRNA-1 |
| chr3_2 | exon | 90592743 | 90592879 | 90592743 | ID=Msa0436800-mRNA-1:exon:26964;Parent=Msa0436800-mRNA-1 |
| chr3_2 | exon | 90594080 | 90594319 | 90594080 | ID=Msa0436800-mRNA-1:exon:26965;Parent=Msa0436800-mRNA-1 |
| chr3_2 | exon | 90594532 | 90594660 | 90594532 | ID=Msa0436800-mRNA-1:exon:26966;Parent=Msa0436800-mRNA-1 |
| chr3_2 | exon | 90596133 | 90596246 | 90596133 | ID=Msa0436800-mRNA-1:exon:26967;Parent=Msa0436800-mRNA-1 |
| chr3_2 | exon | 90596365 | 90596466 | 90596365 | ID=Msa0436800-mRNA-1:exon:26968;Parent=Msa0436800-mRNA-1 |
| chr3_2 | exon | 90596722 | 90596810 | 90596722 | ID=Msa0436800-mRNA-1:exon:26969;Parent=Msa0436800-mRNA-1 |
| chr3_2 | exon | 90596887 | 90596968 | 90596887 | ID=Msa0436800-mRNA-1:exon:26970;Parent=Msa0436800-mRNA-1 |
| chr3_2 | CDS | 90585540 | 90585701 | 90585540 | ID=Msa0436800-mRNA-1:cds;Parent=Msa0436800-mRNA-1 |
| chr3_2 | CDS | 90585872 | 90586055 | 90585872 | ID=Msa0436800-mRNA-1:cds;Parent=Msa0436800-mRNA-1 |
| chr3_2 | CDS | 90587604 | 90587737 | 90587604 | ID=Msa0436800-mRNA-1:cds;Parent=Msa0436800-mRNA-1 |
| chr3_2 | CDS | 90589883 | 90590122 | 90589883 | ID=Msa0436800-mRNA-1:cds;Parent=Msa0436800-mRNA-1 |
| chr3_2 | CDS | 90590331 | 90590514 | 90590331 | ID=Msa0436800-mRNA-1:cds;Parent=Msa0436800-mRNA-1 |
| chr3_2 | CDS | 90592743 | 90592879 | 90592743 | ID=Msa0436800-mRNA-1:cds;Parent=Msa0436800-mRNA-1 |
| chr3_2 | CDS | 90594080 | 90594319 | 90594080 | ID=Msa0436800-mRNA-1:cds;Parent=Msa0436800-mRNA-1 |
| chr3_2 | CDS | 90594532 | 90594660 | 90594532 | ID=Msa0436800-mRNA-1:cds;Parent=Msa0436800-mRNA-1 |
| chr3_2 | CDS | 90596133 | 90596246 | 90596133 | ID=Msa0436800-mRNA-1:cds;Parent=Msa0436800-mRNA-1 |
| chr3_2 | CDS | 90596365 | 90596466 | 90596365 | ID=Msa0436800-mRNA-1:cds;Parent=Msa0436800-mRNA-1 |
| chr3_2 | CDS | 90596722 | 90596810 | 90596722 | ID=Msa0436800-mRNA-1:cds;Parent=Msa0436800-mRNA-1 |
| chr3_2 | CDS | 90596887 | 90596968 | 90596887 | ID=Msa0436800-mRNA-1:cds;Parent=Msa0436800-mRNA-1 |
| Gene Sequence |
>Msa0436800 GATGATCTCCCAGGCATTATCTTCGGTTACATCGTCTTTGATGTTGGTGAACTGAAGCGTACTAGTTACGGTCATATCACTTCCCTCTTCGTTGGCCCTATCTTTCGGAGAAAAGGACACGCTACTCGACTTGTGACCATGGCTGAAATGGACTTGGAAAAGCAAGGTGCTGCTTACGTCTCGGTGCCCATCCCAAAGACCAACACTGACGCATTACTCTTCTTCGAAAAGATGGGTTATGAGGAGGAGGCGGTGAAGAGCAATAGTATTGATGGGAATGTTGATGCTAATGTAATCATGACGAAGAAGCTCAAGGGGAAGCAGATGCGTTCTGCGGAGACCGAAGGCAAGAGGCAAGCTGAGGAAGAAGTCAAGGCAGTGACTTCAAAGAAGCAAAAGGTAGACGAGGTTGCTGCCAAACAAAAGGTATTGAAGGTAGTCGAAATTAGTTCCGAGGAATCCTTTGATGAATCTGAGGACATTCTCGTGGATTATCTCTTACCTGACGTGGATCTTGAAAGTTTGGAGAATGGTAAGATTCTTCAAGTCATCGCGGATGATCGCCTAGACGCTATCCTCGGTTACGTCATCTTTGATGTTGTTGAACCGAAGAGTAATGGTTGTGGTCATATCACTTCCCTCTTCGTTAACCCTATCTATCGGAGAGAAGGAGTCGCTTCTAAACTTGTGGAAAGCGCTGAAAAGGACTTAAGGGATAAGCAAGGTGCTGCTTACGTCTCAGTGCCCGTCCCGAAGACCAACTCTGATGGATTACTCTTCTTCGAAAAGATGGGGTATGAGAAGGAGGCGGTGAAGAGCAATTATATTGATGGGAAGGATGATGCTAATGTCATCATGACGAAGAAGTTCGAGGGGAAGCAGATGCATTATGCGGAGACCGAAGGCAAGAGGCAAGCTGAGGAAGAAGTTAAGGAAGTGACTTCAAAGAAGCAAAAGGTAGATGATGAGGTTGCTGCTAAACAAAAGGTATTGAAAGTAGTCAAAATTAGTTCGGAGGAATCCTTTCATGAATCTGAGGATATTCTCGTGGATTATCTCTTACCTGACGTGGATCTTGAAAGTTTGGAGAATGGTAAGATTCTTCAAGTCATCGCGGATGATCGCCAAGACGCTATCCTCGGTTACGTCATCTTTGATGTCGTTGAACCGAAGAGTAATGGTTGTGGTCATATCACTTCCATCTTCGTTAACCCTATCTTTCGGAGAGAAGGAGTCGCTTCTAAACTTGTGGAAAACGCTGAAAAGGACTTAAGGGATAAGCAAGGTGCTGCTTACGTCTCAGTGCCCGTTCCGAAGACCAACTCTGATGGATTACTCTTCTTCGAAAAGATGGGGTATGAGAAGGAGGCAGTGAAGAGCAATTATATTGATGGGAAGGATGATGCTAATAACCCTGCAACAAAAGTTGTTCCATCCAAAAATGGGAGTGCACCTGTAAAGAAAGACGATCTTTATTATTCATCTTCTGAAGAATCTTCTGGTGAATCTTCTGATGAAGATGAGAAACCTGCAGCAGAAGTTGTTCCTTCCAAAATAGGAAGTGCACCCGCAAAGAAGGCTGATAGTTCTGACCAAGAATCTGACGAATCTTCTGGTGAAGATGAGCCTAATACTCCAGCTACACAAAATGTGAACAGTCGTGTGAAGACATTATATGTTGGGAACTTATCCTTCGGTGTGCAAAAATCTGACATAGAAAAATTCTTCCAAGATTGTGGAAAAGTTATTGATGTACGTCTTGCTTCTCATAAGGATGGAAAGCTTAAAGGCTTTGGA |
| Protein sequence |
>Msa0436800 DDLPGIIFGYIVFDVGELKRTSYGHITSLFVGPIFRRKGHATRLVTMAEMDLEKQGAAYVSVPIPKTNTDALLFFEKMGYEEEAVKSNSIDGNVDANVIMTKKLKGKQMRSAETEGKRQAEEEVKAVTSKKQKVDEVAAKQKVLKVVEISSEESFDESEDILVDYLLPDVDLESLENGKILQVIADDRLDAILGYVIFDVVEPKSNGCGHITSLFVNPIYRREGVASKLVESAEKDLRDKQGAAYVSVPVPKTNSDGLLFFEKMGYEKEAVKSNYIDGKDDANVIMTKKFEGKQMHYAETEGKRQAEEEVKEVTSKKQKVDDEVAAKQKVLKVVKISSEESFHESEDILVDYLLPDVDLESLENGKILQVIADDRQDAILGYVIFDVVEPKSNGCGHITSIFVNPIFRREGVASKLVENAEKDLRDKQGAAYVSVPVPKTNSDGLLFFEKMGYEKEAVKSNYIDGKDDANNPATKVVPSKNGSAPVKKDDLYYSSSEESSGESSDEDEKPAAEVVPSKIGSAPAKKADSSDQESDESSGEDEPNTPATQNVNSRVKTLYVGNLSFGVQKSDIEKFFQDCGKVIDVRLASHKDGKLKGFG |
