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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1229670 | XP_013443961.1 | 98.750 | 400 | 3 | 2 | 1 | 399 | 1 | 399 | 0.0 | 806 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1229670 | sp|O64888|KPRS5_ARATH | 80.769 | 390 | 65 | 3 | 17 | 399 | 8 | 394 | 0.0 | 638 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1229670 | A0A072TMC4 | 98.750 | 400 | 3 | 2 | 1 | 399 | 1 | 399 | 0.0 | 806 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0001420 | Msa1229670 | 0.812126 | 4.960440e-51 | -8.615850e-47 |
| Msa0001510 | Msa1229670 | 0.814859 | 1.243291e-51 | -8.615850e-47 |
| Msa0001550 | Msa1229670 | 0.807404 | 5.139623e-50 | -8.615850e-47 |
| Msa0002110 | Msa1229670 | 0.815388 | 9.486591e-52 | -8.615850e-47 |
| Msa0002690 | Msa1229670 | 0.818956 | 1.495589e-52 | -8.615850e-47 |
| Msa0002700 | Msa1229670 | 0.812183 | 4.818184e-51 | -8.615850e-47 |
| Msa0004180 | Msa1229670 | 0.829301 | 5.556196e-55 | -8.615850e-47 |
| Msa0007570 | Msa1229670 | 0.802944 | 4.410968e-49 | -8.615850e-47 |
| Msa0021240 | Msa1229670 | 0.833771 | 4.404817e-56 | -8.615850e-47 |
| Msa0021570 | Msa1229670 | 0.811603 | 6.446570e-51 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1229670 | MtrunA17_Chr8g0337211 | 98.750 | 400 | 3 | 2 | 1 | 399 | 1 | 399 | 0.0 | 806 |
| Msa1229670 | MtrunA17_Chr4g0054901 | 81.461 | 356 | 57 | 3 | 32 | 387 | 52 | 398 | 0.0 | 592 |
| Msa1229670 | MtrunA17_Chr5g0412911 | 25.574 | 305 | 201 | 12 | 75 | 361 | 83 | 379 | 5.72e-17 | 82.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1229670 | AT2G44530.1 | 80.769 | 390 | 65 | 3 | 17 | 399 | 8 | 394 | 0.0 | 638 |
| Msa1229670 | AT2G44530.2 | 81.026 | 390 | 63 | 4 | 17 | 399 | 8 | 393 | 0.0 | 636 |
| Msa1229670 | AT2G35390.2 | 79.245 | 371 | 66 | 5 | 20 | 387 | 35 | 397 | 0.0 | 591 |
| Msa1229670 | AT1G32380.1 | 85.106 | 329 | 45 | 2 | 61 | 387 | 68 | 394 | 0.0 | 588 |
| Msa1229670 | AT2G35390.4 | 81.766 | 351 | 55 | 3 | 39 | 387 | 3 | 346 | 0.0 | 586 |
| Msa1229670 | AT2G35390.1 | 81.766 | 351 | 55 | 3 | 39 | 387 | 3 | 346 | 0.0 | 586 |
| Msa1229670 | AT1G32380.2 | 90.909 | 286 | 26 | 0 | 102 | 387 | 1 | 286 | 0.0 | 550 |
| Msa1229670 | AT2G35390.3 | 77.918 | 317 | 59 | 5 | 20 | 333 | 35 | 343 | 7.16e-174 | 489 |
| Msa1229670 | AT1G10700.1 | 25.786 | 318 | 209 | 13 | 42 | 341 | 54 | 362 | 5.08e-17 | 82.8 |
| Msa1229670 | AT2G42910.1 | 27.329 | 322 | 205 | 15 | 78 | 379 | 23 | 335 | 1.38e-14 | 74.7 |
Find 104 sgRNAs with CRISPR-Local
Find 332 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGGAAAGGTAGCAGTGA+TGG | 0.532343 | 8_2:-5531542 | Msa1229670:CDS |
| AAAATTATACTCATCAAGCG+GGG | 0.700775 | 8_2:+5529156 | None:intergenic |
| AAACACACTGTAGGTATATT+TGG | 0.192321 | 8_2:-5529207 | Msa1229670:three_prime_UTR |
| AACAAATAGTCTTGCTGGCA+AGG | 0.449627 | 8_2:+5531859 | None:intergenic |
| AACTACTGTTTCAGACTCAA+GGG | 0.616461 | 8_2:-5532450 | Msa1229670:intron |
| AACTGCAAGAGAGTGTCAGG+GGG | 0.717564 | 8_2:-5533466 | Msa1229670:CDS |
| AAGAGCTGCTCCTTTGGCGA+TGG | 0.573536 | 8_2:+5530402 | None:intergenic |
| AAGTAGTTCTTCTCTGCTAG+TGG | 0.549029 | 8_2:+5529871 | None:intergenic |
| AATTGAACCTTATTCCAGTT+TGG | 0.332024 | 8_2:-5529391 | Msa1229670:CDS |
| AATTGCATGTTATATGGGCC+TGG | 0.517043 | 8_2:-5533540 | Msa1229670:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATAGCTGAATGTGAATTTCT+TGG | - | chr8_2:5529203-5529222 | Msa1229670:three_prime_UTR | 30.0% | |
| TCAACTGAATATTCAGTTAC+CGG | - | chr8_2:5529287-5529306 | Msa1229670:three_prime_UTR | 30.0% | |
| TCTTTCCGAATACGATAATA+AGG | - | chr8_2:5529816-5529835 | Msa1229670:CDS | 30.0% | |
| ATAAACTATTAGGCTCAGTT+TGG | + | chr8_2:5529943-5529962 | None:intergenic | 30.0% | |
| AAACTGAGCCTAATAGTTTA+TGG | - | chr8_2:5529942-5529961 | Msa1229670:intron | 30.0% | |
| GTGAAGAACCATAAACTATT+AGG | + | chr8_2:5529953-5529972 | None:intergenic | 30.0% | |
| ATAGGAATTAGTTAGTTGGT+TGG | - | chr8_2:5530166-5530185 | Msa1229670:intron | 30.0% | |
| TAGGAATTAGTTAGTTGGTT+GGG | - | chr8_2:5530167-5530186 | Msa1229670:intron | 30.0% | |
| AGTATTCTCTAATGTGAAAG+GGG | - | chr8_2:5530286-5530305 | Msa1229670:intron | 30.0% | |
| TGCTCATGATATAATATGGT+TGG | - | chr8_2:5530667-5530686 | Msa1229670:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_2 | gene | 5529012 | 5535358 | 5529012 | ID=Msa1229670;Name=Msa1229670 |
| chr8_2 | mRNA | 5529012 | 5535358 | 5529012 | ID=Msa1229670-mRNA-1;Parent=Msa1229670;Name=Msa1229670-mRNA-1;_AED=0.21;_eAED=0.21;_QI=49|1|1|1|1|1|9|368|399 |
| chr8_2 | exon | 5529012 | 5529418 | 5529012 | ID=Msa1229670-mRNA-1:exon:1921;Parent=Msa1229670-mRNA-1 |
| chr8_2 | exon | 5529798 | 5529957 | 5529798 | ID=Msa1229670-mRNA-1:exon:1920;Parent=Msa1229670-mRNA-1 |
| chr8_2 | exon | 5530346 | 5530427 | 5530346 | ID=Msa1229670-mRNA-1:exon:1919;Parent=Msa1229670-mRNA-1 |
| chr8_2 | exon | 5531518 | 5531587 | 5531518 | ID=Msa1229670-mRNA-1:exon:1918;Parent=Msa1229670-mRNA-1 |
| chr8_2 | exon | 5531731 | 5531898 | 5531731 | ID=Msa1229670-mRNA-1:exon:1917;Parent=Msa1229670-mRNA-1 |
| chr8_2 | exon | 5532315 | 5532458 | 5532315 | ID=Msa1229670-mRNA-1:exon:1916;Parent=Msa1229670-mRNA-1 |
| chr8_2 | exon | 5533316 | 5533564 | 5533316 | ID=Msa1229670-mRNA-1:exon:1915;Parent=Msa1229670-mRNA-1 |
| chr8_2 | exon | 5534946 | 5535137 | 5534946 | ID=Msa1229670-mRNA-1:exon:1914;Parent=Msa1229670-mRNA-1 |
| chr8_2 | exon | 5535214 | 5535358 | 5535214 | ID=Msa1229670-mRNA-1:exon:1913;Parent=Msa1229670-mRNA-1 |
| chr8_2 | five_prime_UTR | 5535310 | 5535358 | 5535310 | ID=Msa1229670-mRNA-1:five_prime_utr;Parent=Msa1229670-mRNA-1 |
| chr8_2 | CDS | 5535214 | 5535309 | 5535214 | ID=Msa1229670-mRNA-1:cds;Parent=Msa1229670-mRNA-1 |
| chr8_2 | CDS | 5534946 | 5535137 | 5534946 | ID=Msa1229670-mRNA-1:cds;Parent=Msa1229670-mRNA-1 |
| chr8_2 | CDS | 5533316 | 5533564 | 5533316 | ID=Msa1229670-mRNA-1:cds;Parent=Msa1229670-mRNA-1 |
| chr8_2 | CDS | 5532315 | 5532458 | 5532315 | ID=Msa1229670-mRNA-1:cds;Parent=Msa1229670-mRNA-1 |
| chr8_2 | CDS | 5531731 | 5531898 | 5531731 | ID=Msa1229670-mRNA-1:cds;Parent=Msa1229670-mRNA-1 |
| chr8_2 | CDS | 5531518 | 5531587 | 5531518 | ID=Msa1229670-mRNA-1:cds;Parent=Msa1229670-mRNA-1 |
| chr8_2 | CDS | 5530346 | 5530427 | 5530346 | ID=Msa1229670-mRNA-1:cds;Parent=Msa1229670-mRNA-1 |
| chr8_2 | CDS | 5529798 | 5529957 | 5529798 | ID=Msa1229670-mRNA-1:cds;Parent=Msa1229670-mRNA-1 |
| chr8_2 | CDS | 5529380 | 5529418 | 5529380 | ID=Msa1229670-mRNA-1:cds;Parent=Msa1229670-mRNA-1 |
| chr8_2 | three_prime_UTR | 5529012 | 5529379 | 5529012 | ID=Msa1229670-mRNA-1:three_prime_utr;Parent=Msa1229670-mRNA-1 |
| Gene Sequence |
>Msa1229670 ATGTCCACTCTACTTCAATCTTCTTTCATTTCTTCTTCGTCTTCATTCTCTCCGATCACTCCTCGTTTCTCCCTCCGCAACGCCGCCGCCGTCGTCAGATGTAATAATGTAGTACAATCTGTCAATCTGGAAAACGGAAAACCGTACCGTTCAACTGAATATTCAGTTACCGGTGGTACAAGTTCAATTCCCAGTTATCTAGTGGCGCCAAACACTCGTATTCATGATCTCGTTAACAAGAATCGTCTTCGTATTTTCTCTGGCACCGCCAATCCCGCACTCGCTCAGGAAATTGCATGTTATATGGGCCTGGATCTGGGAAAAATTAAGATAAAACGTTTTGCCGATGGGGAGATATATGTCCAACTGCAAGAGAGTGTCAGGGGGTGTGATGTGTTTCTTGTGCAGCCTACATGTCCTCCCGCGAATGAGAATCTTATGGAGCTTCTCGTAATGATTGATGCCTGCAGGAGAGCTTCTGCCAAAAATATTACTGCAGTCATTCCATATTTTGGATATGCTAGAGCTGATAGAAAGACTCAAGGGCGTGAATCAATTGCTGCTAAGCTTGTAGCAAATTTAATTACAGAAGCTGGTGCAAATCGTGTTCTTGCATGTGACCTCCACTCTGGGCAGTCTATGGGCTACTTCGATATTCCAGTTGATCATGTGTATGGACAGCCTGTTATACTCGATTACCTTGCCAGCAAGACTATTTGTTCAGATGATTTGATAGTTGTCTCGCCAGATGTTGGTGGTGTAGCTAGAGCACGTGCTTTTGCCAAAAAGTTATCTGATGCTCCTTTAGCAATTGTTGATAAAAGACGTCATGGGCATAATGTTGCCGAGGTGATGAATTTGATTGGTGATGTAAAAGGAAAGGTAGCAGTGATGGTAGATGACATGATTGATACTGCTGGGACCATCGCCAAAGGAGCAGCTCTTTTGCATCAAGAAGGGGCAAGAGAAGTCTATGCATGCACAACACACGCTGTTTTCAGCCCTCCTGCTATAGAGAGATTGTCAAGCGGTTTATTTCAAGAAGTTATCATAACTAATACAATTCCACTAGCAGAGAAGAACTACTTCCCCCAATTAACTGTCTTATCAGTAGCAAACCTTCTGGGCGAGACCATATGGCGTGTTCACGATGACTGCTCAGGTGGAATTGAACCTTATTCCAGTTTGGGCATCGATTGA |
| Protein sequence |
>Msa1229670 MSTLLQSSFISSSSSFSPITPRFSLRNAAAVVRCNNVVQSVNLENGKPYRSTEYSVTGGTSSIPSYLVAPNTRIHDLVNKNRLRIFSGTANPALAQEIACYMGLDLGKIKIKRFADGEIYVQLQESVRGCDVFLVQPTCPPANENLMELLVMIDACRRASAKNITAVIPYFGYARADRKTQGRESIAAKLVANLITEAGANRVLACDLHSGQSMGYFDIPVDHVYGQPVILDYLASKTICSDDLIVVSPDVGGVARARAFAKKLSDAPLAIVDKRRHGHNVAEVMNLIGDVKGKVAVMVDDMIDTAGTIAKGAALLHQEGAREVYACTTHAVFSPPAIERLSSGLFQEVIITNTIPLAEKNYFPQLTVLSVANLLGETIWRVHDDCSGGIEPYSSLGID* |
