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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1288780 | XP_013445764.1 | 97.092 | 447 | 13 | 0 | 1 | 447 | 1 | 447 | 0.0 | 890 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1288780 | sp|Q9M9S4|Y1143_ARATH | 48.073 | 441 | 196 | 9 | 24 | 441 | 25 | 455 | 5.85e-105 | 344 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1288780 | A0A072U1Y6 | 97.092 | 447 | 13 | 0 | 1 | 447 | 1 | 447 | 0.0 | 890 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0268110 | Msa1288780 | 0.808304 | 3.307571e-50 | -8.615850e-47 |
| Msa0378350 | Msa1288780 | 0.803305 | 3.714507e-49 | -8.615850e-47 |
| Msa0842750 | Msa1288780 | 0.806268 | 8.932163e-50 | -8.615850e-47 |
| Msa1156720 | Msa1288780 | 0.802691 | 4.973994e-49 | -8.615850e-47 |
| Msa1192120 | Msa1288780 | 0.848233 | 6.984582e-60 | -8.615850e-47 |
| Msa1196640 | Msa1288780 | 0.818430 | 1.968590e-52 | -8.615850e-47 |
| Msa1219830 | Msa1288780 | 0.821785 | 3.357385e-53 | -8.615850e-47 |
| Msa1247510 | Msa1288780 | 0.885209 | 9.903488e-72 | -8.615850e-47 |
| Msa1288780 | Msa1401510 | 0.806994 | 6.278341e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1288780 | MtrunA17_Chr8g0362301 | 97.092 | 447 | 13 | 0 | 1 | 447 | 1 | 447 | 0.0 | 890 |
| Msa1288780 | MtrunA17_Chr5g0416151 | 50.216 | 462 | 160 | 12 | 1 | 447 | 1 | 407 | 2.32e-112 | 356 |
| Msa1288780 | MtrunA17_Chr1g0193801 | 95.906 | 171 | 5 | 2 | 668 | 836 | 30 | 200 | 4.28e-107 | 336 |
| Msa1288780 | MtrunA17_Chr6g0460961 | 37.952 | 498 | 240 | 7 | 11 | 447 | 5 | 494 | 1.68e-96 | 320 |
| Msa1288780 | MtrunA17_Chr7g0253951 | 38.134 | 493 | 235 | 8 | 11 | 447 | 4 | 482 | 1.71e-87 | 296 |
| Msa1288780 | MtrunA17_Chr7g0270891 | 70.652 | 184 | 50 | 3 | 668 | 847 | 30 | 213 | 1.33e-79 | 262 |
| Msa1288780 | MtrunA17_Chr3g0116231 | 35.060 | 502 | 252 | 10 | 8 | 447 | 6 | 495 | 3.49e-74 | 258 |
| Msa1288780 | MtrunA17_Chr7g0226051 | 33.529 | 510 | 261 | 9 | 6 | 447 | 1 | 500 | 3.49e-71 | 250 |
| Msa1288780 | MtrunA17_Chr6g0459201 | 35.491 | 479 | 244 | 8 | 27 | 447 | 30 | 501 | 5.58e-71 | 250 |
| Msa1288780 | MtrunA17_Chr8g0355271 | 38.227 | 361 | 165 | 3 | 36 | 346 | 35 | 387 | 4.14e-66 | 237 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1288780 | AT1G14390.1 | 48.073 | 441 | 196 | 9 | 24 | 441 | 25 | 455 | 5.94e-106 | 344 |
| Msa1288780 | AT2G02780.2 | 45.740 | 446 | 200 | 10 | 26 | 441 | 27 | 460 | 3.12e-91 | 302 |
| Msa1288780 | AT2G02780.3 | 45.759 | 448 | 201 | 10 | 24 | 441 | 25 | 460 | 5.59e-91 | 303 |
| Msa1288780 | AT2G02780.1 | 45.759 | 448 | 201 | 10 | 24 | 441 | 25 | 460 | 1.21e-90 | 304 |
| Msa1288780 | AT3G03770.2 | 38.095 | 462 | 214 | 9 | 45 | 447 | 43 | 491 | 6.89e-83 | 284 |
| Msa1288780 | AT3G03770.3 | 38.095 | 462 | 214 | 9 | 45 | 447 | 43 | 491 | 6.89e-83 | 284 |
| Msa1288780 | AT3G03770.1 | 38.095 | 462 | 214 | 9 | 45 | 447 | 43 | 491 | 6.89e-83 | 284 |
| Msa1288780 | AT5G14210.1 | 32.064 | 499 | 250 | 10 | 24 | 447 | 20 | 504 | 5.43e-66 | 236 |
| Msa1288780 | AT5G14210.2 | 32.064 | 499 | 250 | 10 | 24 | 447 | 20 | 504 | 9.21e-66 | 236 |
| Msa1288780 | AT5G14210.3 | 32.064 | 499 | 250 | 10 | 24 | 447 | 20 | 504 | 9.51e-66 | 236 |
Find 167 sgRNAs with CRISPR-Local
Find 548 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACTTCTAGAATATCCAC+CGG | 0.662194 | 8_3:-41951208 | Msa1288780:CDS |
| AAAAGCATATGCAATGGAAA+TGG | 0.406668 | 8_3:-41942974 | Msa1288780:CDS |
| AAAGATGTGGTAAGAGCTGC+AGG | 0.517924 | 8_3:-41943530 | Msa1288780:CDS |
| AACAATATTTATTCTGCAGG+TGG | 0.566902 | 8_3:+41943717 | None:intergenic |
| AAGAAGAGACTGAGGCAAAA+AGG | 0.381753 | 8_3:-41943180 | Msa1288780:CDS |
| AAGAATTAACTTAGTGATGT+TGG | 0.406624 | 8_3:+41951596 | None:intergenic |
| AAGAGGAACATTCTCACAAG+AGG | 0.608650 | 8_3:-41943472 | Msa1288780:CDS |
| AAGGAATCAAGTATGAAATT+AGG | 0.321319 | 8_3:-41950304 | Msa1288780:CDS |
| AAGGGTAAAGTATTGTATTC+CGG | 0.378157 | 8_3:-41950418 | Msa1288780:CDS |
| AAGTGAATGTAGAGAGAATA+TGG | 0.311669 | 8_3:+41950576 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GGAATTAAGTTTGCAAAAAG+TGG | + | chr8_3:41942135-41942154 | None:intergenic | 30.0% | |
| TATGGTCTAATAATTAGGAG+AGG | + | chr8_3:41942299-41942318 | None:intergenic | 30.0% | |
| AGAAACACAAGAATGATTGT+TGG | + | chr8_3:41942488-41942507 | None:intergenic | 30.0% | |
| TACTTCAAGAATGGAACAAT+TGG | - | chr8_3:41942591-41942610 | Msa1288780:intron | 30.0% | |
| GTAACCGAATTAACTATCAT+TGG | - | chr8_3:41942674-41942693 | Msa1288780:intron | 30.0% | |
| GACAAAGCTTTCAAATTTGA+AGG | - | chr8_3:41942784-41942803 | Msa1288780:intron | 30.0% | |
| TTGGTTTCATTAGGTTTATG+GGG | - | chr8_3:41942815-41942834 | Msa1288780:intron | 30.0% | |
| GAAGTTAAACTCTTAAGATC+TGG | + | chr8_3:41942992-41943011 | None:intergenic | 30.0% | |
| TTTCCAATTGAAGGAAATTG+TGG | + | chr8_3:41943052-41943071 | None:intergenic | 30.0% | |
| TTAAGGTGTACTATCATAGA+AGG | + | chr8_3:41943124-41943143 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_3 | gene | 41942090 | 41951708 | 41942090 | ID=Msa1288780;Name=Msa1288780 |
| chr8_3 | mRNA | 41942090 | 41951708 | 41942090 | ID=Msa1288780-mRNA-1;Parent=Msa1288780;Name=Msa1288780-mRNA-1;_AED=0.28;_eAED=0.29;_QI=359|0.5|0.66|1|1|1|15|0|905 |
| chr8_3 | exon | 41942090 | 41942168 | 41942090 | ID=Msa1288780-mRNA-1:exon:11562;Parent=Msa1288780-mRNA-1 |
| chr8_3 | exon | 41942321 | 41942409 | 41942321 | ID=Msa1288780-mRNA-1:exon:11561;Parent=Msa1288780-mRNA-1 |
| chr8_3 | exon | 41942477 | 41942516 | 41942477 | ID=Msa1288780-mRNA-1:exon:11560;Parent=Msa1288780-mRNA-1 |
| chr8_3 | exon | 41942940 | 41943272 | 41942940 | ID=Msa1288780-mRNA-1:exon:11559;Parent=Msa1288780-mRNA-1 |
| chr8_3 | exon | 41943429 | 41943558 | 41943429 | ID=Msa1288780-mRNA-1:exon:11558;Parent=Msa1288780-mRNA-1 |
| chr8_3 | exon | 41943662 | 41943740 | 41943662 | ID=Msa1288780-mRNA-1:exon:11557;Parent=Msa1288780-mRNA-1 |
| chr8_3 | exon | 41943833 | 41943913 | 41943833 | ID=Msa1288780-mRNA-1:exon:11556;Parent=Msa1288780-mRNA-1 |
| chr8_3 | exon | 41944125 | 41944177 | 41944125 | ID=Msa1288780-mRNA-1:exon:11555;Parent=Msa1288780-mRNA-1 |
| chr8_3 | exon | 41944277 | 41944401 | 41944277 | ID=Msa1288780-mRNA-1:exon:11554;Parent=Msa1288780-mRNA-1 |
| chr8_3 | exon | 41944804 | 41944924 | 41944804 | ID=Msa1288780-mRNA-1:exon:11553;Parent=Msa1288780-mRNA-1 |
| chr8_3 | exon | 41945229 | 41945306 | 41945229 | ID=Msa1288780-mRNA-1:exon:11552;Parent=Msa1288780-mRNA-1 |
| chr8_3 | exon | 41945996 | 41946126 | 41945996 | ID=Msa1288780-mRNA-1:exon:11551;Parent=Msa1288780-mRNA-1 |
| chr8_3 | exon | 41946214 | 41946254 | 41946214 | ID=Msa1288780-mRNA-1:exon:11550;Parent=Msa1288780-mRNA-1 |
| chr8_3 | exon | 41949259 | 41949392 | 41949259 | ID=Msa1288780-mRNA-1:exon:11549;Parent=Msa1288780-mRNA-1 |
| chr8_3 | exon | 41950146 | 41951708 | 41950146 | ID=Msa1288780-mRNA-1:exon:11548;Parent=Msa1288780-mRNA-1 |
| chr8_3 | five_prime_UTR | 41951350 | 41951708 | 41951350 | ID=Msa1288780-mRNA-1:five_prime_utr;Parent=Msa1288780-mRNA-1 |
| chr8_3 | CDS | 41950146 | 41951349 | 41950146 | ID=Msa1288780-mRNA-1:cds;Parent=Msa1288780-mRNA-1 |
| chr8_3 | CDS | 41949259 | 41949392 | 41949259 | ID=Msa1288780-mRNA-1:cds;Parent=Msa1288780-mRNA-1 |
| chr8_3 | CDS | 41946214 | 41946254 | 41946214 | ID=Msa1288780-mRNA-1:cds;Parent=Msa1288780-mRNA-1 |
| chr8_3 | CDS | 41945996 | 41946126 | 41945996 | ID=Msa1288780-mRNA-1:cds;Parent=Msa1288780-mRNA-1 |
| chr8_3 | CDS | 41945229 | 41945306 | 41945229 | ID=Msa1288780-mRNA-1:cds;Parent=Msa1288780-mRNA-1 |
| chr8_3 | CDS | 41944804 | 41944924 | 41944804 | ID=Msa1288780-mRNA-1:cds;Parent=Msa1288780-mRNA-1 |
| chr8_3 | CDS | 41944277 | 41944401 | 41944277 | ID=Msa1288780-mRNA-1:cds;Parent=Msa1288780-mRNA-1 |
| chr8_3 | CDS | 41944125 | 41944177 | 41944125 | ID=Msa1288780-mRNA-1:cds;Parent=Msa1288780-mRNA-1 |
| chr8_3 | CDS | 41943833 | 41943913 | 41943833 | ID=Msa1288780-mRNA-1:cds;Parent=Msa1288780-mRNA-1 |
| chr8_3 | CDS | 41943662 | 41943740 | 41943662 | ID=Msa1288780-mRNA-1:cds;Parent=Msa1288780-mRNA-1 |
| chr8_3 | CDS | 41943429 | 41943558 | 41943429 | ID=Msa1288780-mRNA-1:cds;Parent=Msa1288780-mRNA-1 |
| chr8_3 | CDS | 41942940 | 41943272 | 41942940 | ID=Msa1288780-mRNA-1:cds;Parent=Msa1288780-mRNA-1 |
| chr8_3 | CDS | 41942477 | 41942516 | 41942477 | ID=Msa1288780-mRNA-1:cds;Parent=Msa1288780-mRNA-1 |
| chr8_3 | CDS | 41942321 | 41942409 | 41942321 | ID=Msa1288780-mRNA-1:cds;Parent=Msa1288780-mRNA-1 |
| chr8_3 | CDS | 41942090 | 41942168 | 41942090 | ID=Msa1288780-mRNA-1:cds;Parent=Msa1288780-mRNA-1 |
| Gene Sequence |
>Msa1288780 ATGAAGAAATTGTGTCTTAAACTTTGTTATTTGTTTCCAACAATCATTCTTGTGTTTCTTATTCCAACTTCACTTGCACAATTAGCACAAACAGAAACTAGAATTCTTTTCCAAGTTCAAAAACTTCTAGAATATCCACCGGTACTTCAAGAATGGAACAATTGGACAAACTTTTGTTTCCTCCCTCCTTCACCTTCACTCAAAATAGTTTGTTCGAACGGTCGCGTAACCGAATTAACTATCATTGGAAACAAAACCTCTCCATCTTCACATATCAACAAACCTTTTCAAGCACTTTCAGGAACTTTTTCAACTGATTCATTTTTCACTGTTTTGACAAAGCTTTCAAATTTGAAGGTTTTGTCATTGGTTTCATTAGGTTTATGGGGTCCATTACCTGCAAAGATCAACAGGTTTTGGTCACTTGAAATACTCAACATTAGTTCAAATTTCATTTCTGGTGAAATTCCTTCTTCAATTTCTTCAATGAAGAATCTGAAGAGTATTGTTTTGGCTGATAATCTTTTCAATGGAAATATTCCAGATCTTAAGAGTTTAACTTCTCTTGAAGAGGTTAATTTTGATGGAAATAAGTTAGGTCCACAATTTCCTTCAATTGGAAAAAATCTTGTGAAAATTATTTTGAGAGAAAATTCTATAAGATCACAAATTCCTTCTATGATAGTACACCTTAATAAACTTCAAGTATTTGATATTTCTTCCAATAACTTTTTTGGAAAAATTCCATTTTCCATATTCTCTCTACATTCACTTCATTACCTAAATTTGTCTTCAAACAAATTTAGTGGTAACCTCTCAATGAATTCACCATGTGGTTCATCATTGAAATATGTTGATATTTCACATAATTTTCTAGTTGGAAAATTACCATCATGCATTATGAATTCAAAGGGTAAAGTATTGTATTCCGGAAATTGTTTATCAACAAGAAATCAACATGCATCTTCATATTGTAAAAAAGATGCAGCTTTAGCTGTTAAGCCTCCTAAAAGAAAAGTGAAGAAGGAATCAAGTATGAAATTAGGACTTGTGCTTGTTATTGTTGGAGGTGTTGTTGGAGTTGCATGTGTTTTGGCTCTTCTTATTGTGTTCATCTTGTGGAAATCAAAACCAGAAAGATTGAATCATAATATGGATAGATCTTCTGCTCATAAGTTTTCAGATAAATCAAATTTGAATGCAAGACATGTTCCTCAAACCATGAGGCTAGCTACACATGGACAGCCACCATACAATATTTTCACAGAAGAAGAAATTGAAGATGCAACCAATAACTTTGACCAATCAAATCTAATAGGAGAAGGATCACAAGGACAGTTGATATTCTCAGAAGATTTTGGTACTGAAGGACGTGGCAGGTACTTTGACAATTATGGTATAATTAGACATATTATGCAGAATCATCTACTTCAAATACTAGCCCTCTTTGCAATGGAAACCCCTGTTAGTTTGGATGTAGAAGACATTAGAAATGAAAAGGTCTCATATGTAATTGATATTACAAGGATGGTAGTTCTTCACCCAAACGGGGCTATTGCACTTCAGAAGCATTTTGAATCTGAAAAAGAAAAGATAGTTGCATCTCAACCTGCCTTCTCCGGTGAAGGTGATTCCTGGACAACAAATGGACTTTTGGAGCAGCTCAGTCAGACTTGGGATAAGTCAGATTATTTGTGTTACATGACAGAAAATTTATACGTGCAGATCTTTGATCTATTTGATGTCAAGAGAAAGGGTGTTGTTGATTTTGATGACTTCGTTAGATCTCTCAATGTCTTCCACCCGAACGCAGCGCTAGAAGACAATATAGAATTCTCATTTAGGCTCAATGATTTGCACATTACTGGCTTTATAGAGCGTCCAGAGGTCAAGCAAATGTTAATTGCACTTCTTTTCGAGTTTGAAATGAAGTTGGCGGATGATGTGATAGAAACAATTCTAGACAAGTCCACCTGCAGAATAAATATTGTTGCTGATAGAACAACGTATGGTCATGGATGTTGGAGTTCAGTACCTAAGCAAGCAGGTTTGCAAAGATGTGGTAAGAGCTGCAGGCTTAGGTGGATCAATTACTTAAGACCTGATTTAAAAAGAGGAACATTCTCACAAGAGGAAGAAAATCACATTGTTGAACTTCATGCAGTACTAGGAAATAGATGGTCTCAAATTGCGGCGCAATTGCCGGGAAGGACAGACAATGAAATGAATCTATGGAACTCATGTTTGAAGAAGAGACTGAGGCAAAAAGGTATAGATCCTGTGACTCATAAACCATTGTCTGAGGTTGAGAATAATGGAGAGGAAAATGCTAATAAGAGTCAAGAGAAAGCACCGGAGATATTATTATCCAATGAATTGAACCTTTTGAAATCAGAGAGTTCAAAATCAGATGCAGCTTCTAGCTATGAGCAAAGAACATCTTCAATTTCACCAAAAGCATATGCAATGGAAATGGAAGGTTCTTGCAACAAAGAGTTTTTCATAGATAGTGCAATGGGCATAGGATATTCAGATAGTGAAATGTTTATGTTGAAGTCTCCTTCAGTTTCAAGGAAACCATTGAAACCTGATAACAAGAAACATTTTAACGAGGACGATTCATGTTCAGTTGCTTCTGGGGTGACTGTTGCTTCTGCTCCAAGCTTTTGGTCAGCTGAACGTGCACAAAGAAGAAAGGAGGTAAAATTTGTTGATTAA |
| Protein sequence |
>Msa1288780 MKKLCLKLCYLFPTIILVFLIPTSLAQLAQTETRILFQVQKLLEYPPVLQEWNNWTNFCFLPPSPSLKIVCSNGRVTELTIIGNKTSPSSHINKPFQALSGTFSTDSFFTVLTKLSNLKVLSLVSLGLWGPLPAKINRFWSLEILNISSNFISGEIPSSISSMKNLKSIVLADNLFNGNIPDLKSLTSLEEVNFDGNKLGPQFPSIGKNLVKIILRENSIRSQIPSMIVHLNKLQVFDISSNNFFGKIPFSIFSLHSLHYLNLSSNKFSGNLSMNSPCGSSLKYVDISHNFLVGKLPSCIMNSKGKVLYSGNCLSTRNQHASSYCKKDAALAVKPPKRKVKKESSMKLGLVLVIVGGVVGVACVLALLIVFILWKSKPERLNHNMDRSSAHKFSDKSNLNARHVPQTMRLATHGQPPYNIFTEEEIEDATNNFDQSNLIGEGSQGQLIFSEDFGTEGRGRYFDNYGIIRHIMQNHLLQILALFAMETPVSLDVEDIRNEKVSYVIDITRMVVLHPNGAIALQKHFESEKEKIVASQPAFSGEGDSWTTNGLLEQLSQTWDKSDYLCYMTENLYVQIFDLFDVKRKGVVDFDDFVRSLNVFHPNAALEDNIEFSFRLNDLHITGFIERPEVKQMLIALLFEFEMKLADDVIETILDKSTCRINIVADRTTYGHGCWSSVPKQAGLQRCGKSCRLRWINYLRPDLKRGTFSQEEENHIVELHAVLGNRWSQIAAQLPGRTDNEMNLWNSCLKKRLRQKGIDPVTHKPLSEVENNGEENANKSQEKAPEILLSNELNLLKSESSKSDAASSYEQRTSSISPKAYAMEMEGSCNKEFFIDSAMGIGYSDSEMFMLKSPSVSRKPLKPDNKKHFNEDDSCSVASGVTVASAPSFWSAERAQRRKEVKFVD* |
