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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0347310 | XP_003598248.1 | 81.595 | 489 | 10 | 4 | 159 | 567 | 1 | 489 | 0.0 | 798 |
| Msa0347310 | XP_003598248.1 | 91.579 | 95 | 8 | 0 | 51 | 145 | 1 | 95 | 6.01e-49 | 187 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0347310 | sp|B0XN12|EXGA_ASPFC | 23.121 | 346 | 156 | 14 | 324 | 563 | 59 | 400 | 2.26e-12 | 72.8 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0347310 | Msa0489360 | 0.802523 | 5.389158e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0347310 | MtrunA17_Chr3g0079431 | 81.595 | 489 | 10 | 4 | 159 | 567 | 1 | 489 | 0.0 | 798 |
| Msa0347310 | MtrunA17_Chr3g0079431 | 91.579 | 95 | 8 | 0 | 51 | 145 | 1 | 95 | 5.52e-53 | 187 |
| Msa0347310 | MtrunA17_Chr3g0079441 | 74.338 | 491 | 44 | 5 | 159 | 567 | 1 | 491 | 0.0 | 709 |
| Msa0347310 | MtrunA17_Chr3g0079441 | 95.789 | 95 | 4 | 0 | 51 | 145 | 1 | 95 | 7.31e-56 | 196 |
| Msa0347310 | MtrunA17_Chr3g0079461 | 66.265 | 498 | 78 | 9 | 159 | 567 | 1 | 497 | 0.0 | 608 |
| Msa0347310 | MtrunA17_Chr3g0079461 | 75.510 | 98 | 20 | 1 | 51 | 144 | 1 | 98 | 3.47e-33 | 132 |
| Msa0347310 | MtrunA17_Chr3g0079451 | 65.598 | 468 | 77 | 6 | 184 | 567 | 6 | 473 | 0.0 | 593 |
| Msa0347310 | MtrunA17_Chr8g0382641 | 50.199 | 502 | 151 | 10 | 164 | 567 | 6 | 506 | 2.75e-165 | 479 |
| Msa0347310 | MtrunA17_Chr8g0382641 | 57.143 | 98 | 34 | 1 | 56 | 145 | 6 | 103 | 1.94e-27 | 115 |
| Msa0347310 | MtrunA17_Chr5g0425401 | 44.625 | 493 | 181 | 10 | 166 | 567 | 14 | 505 | 3.09e-139 | 413 |
Find 129 sgRNAs with CRISPR-Local
Find 1044 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATGGATTAGATGCTGTG+AGG | 0.731300 | 3_1:-8286787 | Msa0347310:CDS |
| AAATTTGTGGGGCAAGGAGA+AGG | 0.537779 | 3_1:-8287876 | Msa0347310:CDS |
| AACAAGAAATTTGTGGGGCA+AGG | 0.463143 | 3_1:-8287882 | Msa0347310:CDS |
| AACATTTGGATGGGCTTATT+GGG | 0.329301 | 3_1:-8276948 | Msa0347310:CDS |
| AAGATATATCCAAGCACAAA+TGG | 0.473949 | 3_1:-8276987 | Msa0347310:CDS |
| AAGCATCAAATGGTCTATTT+TGG | 0.202544 | 3_1:-8287761 | Msa0347310:CDS |
| AAGCTGTGAATTTAGGAAAC+TGG | 0.354101 | 3_1:-8289120 | Msa0347310:CDS |
| AAGCTGTGAATTTAGGAAAC+TGG | 0.354101 | 3_1:-8290703 | Msa0347310:CDS |
| AATACACATCCATTTGTGCT+TGG | 0.514294 | 3_1:+8276978 | None:intergenic |
| AATATCGAAACTATTATTTG+AGG | 0.487500 | 3_1:-8289195 | Msa0347310:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ACTCAGGATCATTCAAAAAA+TGG | - | chr3_1:8277229-8277248 | Msa0347310:CDS | 30.0% | |
| AATTGTCAACAAAGATCTCT+TGG | - | chr3_1:8277391-8277410 | Msa0347310:CDS | 30.0% | |
| GCTCGTAGTAAAAAATCAAT+TGG | + | chr3_1:8277812-8277831 | None:intergenic | 30.0% | |
| GTAATGCTTGATAAAATTGG+TGG | - | chr3_1:8278040-8278059 | Msa0347310:intron | 30.0% | |
| CATAAAATATGCAAGGTTTG+GGG | + | chr3_1:8278115-8278134 | None:intergenic | 30.0% | |
| GCATAAAATATGCAAGGTTT+GGG | + | chr3_1:8278116-8278135 | None:intergenic | 30.0% | |
| TGCATAAAATATGCAAGGTT+TGG | + | chr3_1:8278117-8278136 | None:intergenic | 30.0% | |
| GACAATGCATAAAATATGCA+AGG | + | chr3_1:8278122-8278141 | None:intergenic | 30.0% | |
| AATCTTGTCTTGATTACACT+TGG | - | chr3_1:8278701-8278720 | Msa0347310:intron | 30.0% | |
| AATTGTCAACAAAGATCTCT+TGG | - | chr3_1:8277391-8277410 | Msa0347310:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_1 | gene | 8276880 | 8291172 | 8276880 | ID=Msa0347310;Name=Msa0347310 |
| chr3_1 | mRNA | 8276880 | 8291172 | 8276880 | ID=Msa0347310-mRNA-1;Parent=Msa0347310;Name=Msa0347310-mRNA-1;_AED=0.25;_eAED=0.25;_QI=0|0|0|1|0.6|0.54|11|0|567 |
| chr3_1 | exon | 8291083 | 8291172 | 8291083 | ID=Msa0347310-mRNA-1:exon:2404;Parent=Msa0347310-mRNA-1 |
| chr3_1 | exon | 8290640 | 8290864 | 8290640 | ID=Msa0347310-mRNA-1:exon:2403;Parent=Msa0347310-mRNA-1 |
| chr3_1 | exon | 8289383 | 8289502 | 8289383 | ID=Msa0347310-mRNA-1:exon:2402;Parent=Msa0347310-mRNA-1 |
| chr3_1 | exon | 8289057 | 8289260 | 8289057 | ID=Msa0347310-mRNA-1:exon:2401;Parent=Msa0347310-mRNA-1 |
| chr3_1 | exon | 8288057 | 8288137 | 8288057 | ID=Msa0347310-mRNA-1:exon:2400;Parent=Msa0347310-mRNA-1 |
| chr3_1 | exon | 8287758 | 8287946 | 8287758 | ID=Msa0347310-mRNA-1:exon:2399;Parent=Msa0347310-mRNA-1 |
| chr3_1 | exon | 8286946 | 8287098 | 8286946 | ID=Msa0347310-mRNA-1:exon:2398;Parent=Msa0347310-mRNA-1 |
| chr3_1 | exon | 8286689 | 8286858 | 8286689 | ID=Msa0347310-mRNA-1:exon:2397;Parent=Msa0347310-mRNA-1 |
| chr3_1 | exon | 8277459 | 8277505 | 8277459 | ID=Msa0347310-mRNA-1:exon:2396;Parent=Msa0347310-mRNA-1 |
| chr3_1 | exon | 8277204 | 8277446 | 8277204 | ID=Msa0347310-mRNA-1:exon:2395;Parent=Msa0347310-mRNA-1 |
| chr3_1 | exon | 8276880 | 8277061 | 8276880 | ID=Msa0347310-mRNA-1:exon:2394;Parent=Msa0347310-mRNA-1 |
| chr3_1 | CDS | 8291083 | 8291172 | 8291083 | ID=Msa0347310-mRNA-1:cds;Parent=Msa0347310-mRNA-1 |
| chr3_1 | CDS | 8290640 | 8290864 | 8290640 | ID=Msa0347310-mRNA-1:cds;Parent=Msa0347310-mRNA-1 |
| chr3_1 | CDS | 8289383 | 8289502 | 8289383 | ID=Msa0347310-mRNA-1:cds;Parent=Msa0347310-mRNA-1 |
| chr3_1 | CDS | 8289057 | 8289260 | 8289057 | ID=Msa0347310-mRNA-1:cds;Parent=Msa0347310-mRNA-1 |
| chr3_1 | CDS | 8288057 | 8288137 | 8288057 | ID=Msa0347310-mRNA-1:cds;Parent=Msa0347310-mRNA-1 |
| chr3_1 | CDS | 8287758 | 8287946 | 8287758 | ID=Msa0347310-mRNA-1:cds;Parent=Msa0347310-mRNA-1 |
| chr3_1 | CDS | 8286946 | 8287098 | 8286946 | ID=Msa0347310-mRNA-1:cds;Parent=Msa0347310-mRNA-1 |
| chr3_1 | CDS | 8286689 | 8286858 | 8286689 | ID=Msa0347310-mRNA-1:cds;Parent=Msa0347310-mRNA-1 |
| chr3_1 | CDS | 8277459 | 8277505 | 8277459 | ID=Msa0347310-mRNA-1:cds;Parent=Msa0347310-mRNA-1 |
| chr3_1 | CDS | 8277204 | 8277446 | 8277204 | ID=Msa0347310-mRNA-1:cds;Parent=Msa0347310-mRNA-1 |
| chr3_1 | CDS | 8276880 | 8277061 | 8276880 | ID=Msa0347310-mRNA-1:cds;Parent=Msa0347310-mRNA-1 |
| Gene Sequence |
>Msa0347310 ATGGCAACACATCATGAACACAAAAACAAAGATGAGAAAAGTCTATTCTTGATTCCTCAATGTGCGTATTCGAATATCTTTGAGAAGATTCTTCATCAGAGGCTATATATAGTGCCCTTGGTGATAGGGGCACTCAGGATCATTCAAAAAATGGAATATCGAAACTATTATTTGAGCTTCTTATTGGCTTTATGTCTTTCATGTCCTCACTCTCTTTCGTTTGCTTACAAAGCTGTGAATTTAGGAAACTGGCTTGTTGCTGAAGGATGGATGGAGCCTTCTCGCTTTGACGGAATTGTCAACAAAGATCTCTTGGATGGAACTCAAGTACAATTCATGTCAAGAAAGTTCCAGACATATCTTTGCTCTGAAAATGGGGGAGGAACTACTATTGTAGCCGACCGTAGTTCACCTTCTGGTTGGGAAACATTTAGGGGTGCCCTTGGTGATAGCCAACGCAGGATCATTCGAAAAATGGAATATCGAAACTATTATTTGAGGTTCTTATTGGCTTTATGTCTTTCATGTCCTCACTCTCTTTCGTTTGCTTACAAAGCTGTGAATTTAGGAAACTGGCTTGTTGCTGAAGGATGGATGGAACCTTCTCGCTTTGACGGAATTGTCAACAAAGATCTCTTGACATATCTTTCCGCTGAAGATGGGGGAGGAACTACTATTGTAGCCAACCGTGGTTCTGCTTCTGGTTGGGAAACATTCAGGCTTTGGAGGGTCAGTGACTCATCCTTCAATTTTAGAGTGTTTAACAAGAAATTTGTGGGGCAAGGAGAAGGACACCAAATTGTAGCAAATTCAAATTCACCTAGCAACCATGAAACATTTCAGATTATAAGGAATAAAAATGAACCCCTCAAAATTCGAATCAAAGCATCAAATGGTCTATTTTGGCGGGTTCAATCGAAGACATCAGTGACTGCAGATTATCAAGGCACAAATTGGGATGACAATGATCCATCGGTTTTTCATATTACAATTGTAAACACATTACAAGGAGAGTACCAACTTACTAATGGTTATGGCAATAGAGCTCCTCAAGTTATGCGAGACCATTGGAATTCATACATAACTGAAGATGATTTCAGATTTATGTCACAAAATGGATTAGATGCTGTGAGGATACCTGTTGGATGGTGGATAGCCCAAGATCCAAACCCACCTAAACCTTTTGTTGGGGGATCTTTGGCAGCACTTGACAATGCTTTCACATGGGCATATCATAGAAAAAGTTTAGGAGGAATAGAGCTGATGAATGAGCCACTAGATAGCCTGAAGAACTATTACAGGGAAGCTTATGATGTTGTGAGGAAATACATCCCAAATACTTATGTGATCATGTCAAATCCATTGGCCACAGATTCTAAACTTCTTCTCTCATTTGTCAAAGGCTTTGATAAAGTAGTCCTTGATGTGCATTACTACAATATGTATTCGGATAAATTCAATGGCATGAATGTTCAACAAAATATTGACTACATAAGAAATGACAGAGCCTGGGATCTTAGTGGGGAATGGACTGCTGAATGGAACATACAAGGTGCGCCTATGCAAGACTACCAAAGATATATCCAAGCACAAATGGATGTGTATTCTCATGCAACATTTGGATGGGCTTATTGGGCATACAAATGTCAGTATAACCATTGGAGTCTCAAGTGGTTGATCGAGAATGGTTACATAAAGCTCTAG |
| Protein sequence |
>Msa0347310 MATHHEHKNKDEKSLFLIPQCAYSNIFEKILHQRLYIVPLVIGALRIIQKMEYRNYYLSFLLALCLSCPHSLSFAYKAVNLGNWLVAEGWMEPSRFDGIVNKDLLDGTQVQFMSRKFQTYLCSENGGGTTIVADRSSPSGWETFRGALGDSQRRIIRKMEYRNYYLRFLLALCLSCPHSLSFAYKAVNLGNWLVAEGWMEPSRFDGIVNKDLLTYLSAEDGGGTTIVANRGSASGWETFRLWRVSDSSFNFRVFNKKFVGQGEGHQIVANSNSPSNHETFQIIRNKNEPLKIRIKASNGLFWRVQSKTSVTADYQGTNWDDNDPSVFHITIVNTLQGEYQLTNGYGNRAPQVMRDHWNSYITEDDFRFMSQNGLDAVRIPVGWWIAQDPNPPKPFVGGSLAALDNAFTWAYHRKSLGGIELMNEPLDSLKNYYREAYDVVRKYIPNTYVIMSNPLATDSKLLLSFVKGFDKVVLDVHYYNMYSDKFNGMNVQQNIDYIRNDRAWDLSGEWTAEWNIQGAPMQDYQRYIQAQMDVYSHATFGWAYWAYKCQYNHWSLKWLIENGYIKL* |
