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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0301380 | AES67507.1 | 97.425 | 699 | 11 | 1 | 1 | 692 | 57 | 755 | 0.0 | 1411 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0301380 | sp|Q653H7|ARFR_ORYSJ | 58.890 | 703 | 235 | 14 | 2 | 666 | 14 | 700 | 0.0 | 785 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0301380 | Msa0308220 | 0.809589 | 1.755853e-50 | -8.615850e-47 |
| Msa0301380 | Msa0403190 | 0.816644 | 4.972610e-52 | -8.615850e-47 |
| Msa0301380 | Msa0426810 | 0.814660 | 1.375956e-51 | -8.615850e-47 |
| Msa0301380 | Msa1398860 | 0.804710 | 1.895512e-49 | -8.615850e-47 |
| Msa0301380 | Msa1414970 | 0.803804 | 2.927203e-49 | -8.615850e-47 |
| Msa0301380 | Msa1463760 | 0.960326 | 1.973222e-118 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0301380 | MtrunA17_Chr2g0326761 | 97.425 | 699 | 11 | 1 | 1 | 692 | 1 | 699 | 0.0 | 1409 |
| Msa0301380 | MtrunA17_Chr4g0028971 | 70.139 | 720 | 165 | 17 | 1 | 692 | 1 | 698 | 0.0 | 926 |
| Msa0301380 | MtrunA17_Chr1g0181211 | 56.938 | 699 | 231 | 16 | 2 | 659 | 18 | 687 | 0.0 | 748 |
| Msa0301380 | MtrunA17_Chr1g0199681 | 58.259 | 563 | 201 | 8 | 2 | 533 | 85 | 644 | 0.0 | 606 |
| Msa0301380 | MtrunA17_Chr7g0264171 | 53.211 | 545 | 217 | 10 | 1 | 518 | 21 | 554 | 0.0 | 552 |
| Msa0301380 | MtrunA17_Chr3g0115271 | 44.177 | 541 | 270 | 14 | 7 | 528 | 15 | 542 | 2.74e-124 | 382 |
| Msa0301380 | MtrunA17_Chr7g0264161 | 54.464 | 336 | 111 | 4 | 20 | 348 | 1 | 301 | 9.06e-122 | 365 |
| Msa0301380 | MtrunA17_Chr5g0424931 | 40.552 | 471 | 227 | 13 | 11 | 462 | 19 | 455 | 1.05e-99 | 316 |
| Msa0301380 | MtrunA17_Chr5g0417281 | 36.874 | 499 | 234 | 15 | 1 | 474 | 1 | 443 | 3.30e-88 | 286 |
| Msa0301380 | MtrunA17_Chr5g0436761 | 38.696 | 460 | 216 | 12 | 6 | 452 | 7 | 413 | 4.64e-87 | 280 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0301380 | AT2G28350.1 | 58.367 | 735 | 218 | 20 | 3 | 692 | 2 | 693 | 0.0 | 768 |
| Msa0301380 | AT4G30080.1 | 57.518 | 685 | 233 | 15 | 5 | 662 | 13 | 666 | 0.0 | 739 |
| Msa0301380 | AT2G28350.2 | 58.251 | 709 | 208 | 20 | 3 | 666 | 2 | 667 | 0.0 | 735 |
| Msa0301380 | AT1G77850.2 | 45.113 | 399 | 196 | 8 | 5 | 392 | 13 | 399 | 1.22e-112 | 352 |
| Msa0301380 | AT1G77850.1 | 45.113 | 399 | 196 | 8 | 5 | 392 | 13 | 399 | 1.79e-112 | 351 |
| Msa0301380 | AT5G37020.2 | 41.470 | 381 | 184 | 6 | 3 | 375 | 14 | 363 | 8.58e-85 | 283 |
| Msa0301380 | AT5G37020.1 | 41.470 | 381 | 184 | 6 | 3 | 375 | 14 | 363 | 2.29e-84 | 283 |
| Msa0301380 | AT5G60450.2 | 41.045 | 402 | 186 | 8 | 2 | 387 | 32 | 398 | 2.78e-82 | 276 |
| Msa0301380 | AT5G60450.1 | 41.476 | 393 | 179 | 8 | 11 | 387 | 65 | 422 | 1.52e-81 | 275 |
| Msa0301380 | AT1G19220.1 | 38.903 | 401 | 204 | 9 | 5 | 399 | 17 | 382 | 5.07e-81 | 279 |
Find 165 sgRNAs with CRISPR-Local
Find 508 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAATACTTCATCAGTTTCA+GGG | 0.442229 | 2_3:+57401565 | None:intergenic |
| AAAATGTTGGTATCTGAAAC+TGG | 0.382111 | 2_3:+57399751 | None:intergenic |
| AAACGGAGTTTCTTCCTTGG+TGG | 0.510040 | 2_3:+57399807 | None:intergenic |
| AAACTGGTGAAGAACCCTTC+AGG | 0.541832 | 2_3:-57399044 | Msa0301380:intron |
| AAAGCTTAGATCCACAACTA+TGG | 0.458962 | 2_3:-57401755 | Msa0301380:CDS |
| AAAGGGTTGCCTGAAAATGT+TGG | 0.562489 | 2_3:+57399738 | None:intergenic |
| AAAGTCAGCACTAGCACTAG+TGG | 0.602500 | 2_3:+57399260 | None:intergenic |
| AAAGTCTTTGCAAAAGATGC+AGG | 0.501554 | 2_3:+57401459 | None:intergenic |
| AAATTCTCACAAGAGAAGTT+TGG | 0.389679 | 2_3:-57399481 | Msa0301380:CDS |
| AACAACAACAAATTTCAGTT+AGG | 0.435844 | 2_3:-57399606 | Msa0301380:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TCAGAGAGAAAAAGAAGAAA+GGG | + | chr2_3:57398439-57398458 | None:intergenic | 30.0% | |
| TTTCTTTGTCTCTTATCCTT+TGG | + | chr2_3:57398476-57398495 | None:intergenic | 30.0% | |
| GAAAATACTTCATCAGTTTC+AGG | + | chr2_3:57399339-57399358 | None:intergenic | 30.0% | |
| CTTGAAAATGATGATTCTGA+TGG | - | chr2_3:57399393-57399412 | Msa0301380:CDS | 30.0% | |
| AAGTTTAGGCATATCTATAG+AGG | - | chr2_3:57399603-57399622 | Msa0301380:CDS | 30.0% | |
| TGCTAGTAATCAAACATTTG+AGG | - | chr2_3:57399932-57399951 | Msa0301380:intron | 30.0% | |
| ACTAATCCTAGAAGAATCTT+CGG | + | chr2_3:57400072-57400091 | None:intergenic | 30.0% | |
| CATATTCATGAATTAAGCCT+TGG | + | chr2_3:57400518-57400537 | None:intergenic | 30.0% | |
| GGTTTGTATATAAGCAAACA+TGG | - | chr2_3:57400781-57400800 | Msa0301380:CDS | 30.0% | |
| AGCAAACATGGATAAGTATT+TGG | - | chr2_3:57400793-57400812 | Msa0301380:CDS | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_3 | gene | 57398419 | 57402503 | 57398419 | ID=Msa0301380;Name=Msa0301380 |
| chr2_3 | mRNA | 57398419 | 57402503 | 57398419 | ID=Msa0301380-mRNA-1;Parent=Msa0301380;Name=Msa0301380-mRNA-1;_AED=0.04;_eAED=0.04;_QI=382|1|1|1|0.8|0.83|6|276|692 |
| chr2_3 | exon | 57398419 | 57398776 | 57398419 | ID=Msa0301380-mRNA-1:exon:18519;Parent=Msa0301380-mRNA-1 |
| chr2_3 | exon | 57398868 | 57398933 | 57398868 | ID=Msa0301380-mRNA-1:exon:18518;Parent=Msa0301380-mRNA-1 |
| chr2_3 | exon | 57399045 | 57399934 | 57399045 | ID=Msa0301380-mRNA-1:exon:18517;Parent=Msa0301380-mRNA-1 |
| chr2_3 | exon | 57400753 | 57401814 | 57400753 | ID=Msa0301380-mRNA-1:exon:18516;Parent=Msa0301380-mRNA-1 |
| chr2_3 | exon | 57402057 | 57402259 | 57402057 | ID=Msa0301380-mRNA-1:exon:18515;Parent=Msa0301380-mRNA-1 |
| chr2_3 | exon | 57402346 | 57402503 | 57402346 | ID=Msa0301380-mRNA-1:exon:18514;Parent=Msa0301380-mRNA-1 |
| chr2_3 | five_prime_UTR | 57402346 | 57402503 | 57402346 | ID=Msa0301380-mRNA-1:five_prime_utr;Parent=Msa0301380-mRNA-1 |
| chr2_3 | five_prime_UTR | 57402057 | 57402259 | 57402057 | ID=Msa0301380-mRNA-1:five_prime_utr;Parent=Msa0301380-mRNA-1 |
| chr2_3 | five_prime_UTR | 57401794 | 57401814 | 57401794 | ID=Msa0301380-mRNA-1:five_prime_utr;Parent=Msa0301380-mRNA-1 |
| chr2_3 | CDS | 57400753 | 57401793 | 57400753 | ID=Msa0301380-mRNA-1:cds;Parent=Msa0301380-mRNA-1 |
| chr2_3 | CDS | 57399045 | 57399934 | 57399045 | ID=Msa0301380-mRNA-1:cds;Parent=Msa0301380-mRNA-1 |
| chr2_3 | CDS | 57398868 | 57398933 | 57398868 | ID=Msa0301380-mRNA-1:cds;Parent=Msa0301380-mRNA-1 |
| chr2_3 | CDS | 57398695 | 57398776 | 57398695 | ID=Msa0301380-mRNA-1:cds;Parent=Msa0301380-mRNA-1 |
| chr2_3 | three_prime_UTR | 57398419 | 57398694 | 57398419 | ID=Msa0301380-mRNA-1:three_prime_utr;Parent=Msa0301380-mRNA-1 |
| Gene Sequence |
>Msa0301380 ATGAAAGAAGCTGAGAAAAGCTTAGATCCACAACTATGGCACGCATGTGCTGGAGGAATGGTTCAAATGCCATCAGTGAACACGAAAGTGTTTTACTTTCCACAAGGGCATGCAGAACATGCACAATCCAACGTTGATTTTGGAGATTCTTTTAGAATTCCACCACTCATCCTCTGTAGAGTGGCTTCTGTGAAATTCTTAGCTGACCCTGAAACTGATGAAGTATTTTCAAAGATAACTTTGATTCCCTTAAGAAATTCAGAGCTTGAAAATGATGATTCTGATGGTCATGGTTCAGAGAATTCAGAAAAGCCTGCATCTTTTGCAAAGACTTTGACACAATCTGATGCAAACAATGGTGGAGGGTTCTCTGTTCCTAGATACTGTGCTGAAACGATTTTTCCTCGGCTTGATTACTCGGCTGAGCCACCGGTTCAGACGGTGATTGCAAAGGATGTTCACGGCGAGGTTTGGAAGTTTAGGCATATCTATAGAGGAACACCAAGGAGGCATTTGTTAACAACTGGTTGGAGTAGTTTTGTGAATCAGAAAAAACTTGTTGCAGGTGATTCTATTGTGTTTCTGAGAGGTGAAAGTGGAGAACTTTTTGTTGGTATTCGTCGCGCGAAGAGAGGGATTGTTAATGGATTGGAAACACCTTCTGGATGGAGTTCTGGTAATGGAAATTGTGGTCTTGGACCTTATGGTGGTGCTTTTTCTGCTTTTTTGAGAGAGGAGAATAAGTTGGGGGGTGGAAGAGTGAAAGTGAGTGGTGAATCAGTGAAGGAAGCTATGAGACTTGCTGCTAGTAATCAAACATTTGAGGTTGTTTATTATCCTAGAGCAAGTACTCCTGAGTTTTGTATCAAGACTTCAGCTGTTAAAGCTTCCATGAGAATTCAATGGTGTTCTGGGATGAGGTTTAAGATGCCATTCGAAACCGAAGATTCTTCTAGGATTAGTTGGTTCATGGGAACTATTTCTTCTGTTCAGGTTGTTGATCCTATTCGTTGGCCTAATTCCCCTTGGAGACTTCTTCAGGTCACTTGGGACGAACCAGATTTACTACACAATGTGAAGCGAGTAAGTCCATGGTTGGTTGAATTGGTATCAAACATGTCGATGATTCATCTCGCACCCTTCTCACCACCAAGGAAGAAACTCCGTTTTCCACAACATCCGGATTTCCCTCTCGATGTTGTCCAGTTTCAGATACCAACATTTTCAGGCAACCCTTTTAACCCTTTGTGTTGTATATCTTCTTCGGATAATTATAACGCTCCTGCCGCAGGCATTCAGGGAGCCAGGCATGCTCAAATTGGAATATCTTTATCGGATCTTCACCTTAACAACAACAAATTTCAGTTAGGTGTGTTTCCAAATAATCGAGAGACGATTTCTAATGGTAGCAACATAACTACGAACCATGATAATAAGAGCAAAGAAAGTATATCATGTCTGTTGACTATAGGAAATTCTCACAAGAGAAGTTTGGAGATCAAATCTGATAATAATGATAAGAGACACCAATTTTTGCTTTTTGGTCAACCAATTCTCACTGAGCAACAAATCTCTAGAAAATCTTCTAGTGATGATGTGTTGTTGTCCAAGAAAAAGGACAAAGAGAAGTGGTTTTTCAGTGATACTACTAAATCTTCTATTTCTGAACAGTTTTCACCAGCAAAATCCTCTACCACTAGTGCTAGTGCTGACTTTTGTTGGCAACTTGGATTAGATACTGGTCATTGTAAGGTTTTCTTGGAGTCAGAGGATGTTGGAAGAACCTTAGATTTGTCATGTGTTGGTTCTTATGAAGAACTTTATAGAAAACTGGCTAAGATGTTTGGAATAGAAAGATCTGAGATGTTGAGTCGTGTACTCTATCGTGATGCAACAGGTGCTGTTAAACAAACTGGTGAAGAACCCTTCAGTGACTTCATGAAGACAGCAAAAAGATTGACAATTCTGATGGATTCAGGCAGCAAAGATACTAGAAGGGTTTGTATCACAGGAACTAGGAATGCTGAACGTGGATTAGATGCATCAAATAAGACAGGACCTATGAGCATCTTTGTTTAA |
| Protein sequence |
>Msa0301380 MKEAEKSLDPQLWHACAGGMVQMPSVNTKVFYFPQGHAEHAQSNVDFGDSFRIPPLILCRVASVKFLADPETDEVFSKITLIPLRNSELENDDSDGHGSENSEKPASFAKTLTQSDANNGGGFSVPRYCAETIFPRLDYSAEPPVQTVIAKDVHGEVWKFRHIYRGTPRRHLLTTGWSSFVNQKKLVAGDSIVFLRGESGELFVGIRRAKRGIVNGLETPSGWSSGNGNCGLGPYGGAFSAFLREENKLGGGRVKVSGESVKEAMRLAASNQTFEVVYYPRASTPEFCIKTSAVKASMRIQWCSGMRFKMPFETEDSSRISWFMGTISSVQVVDPIRWPNSPWRLLQVTWDEPDLLHNVKRVSPWLVELVSNMSMIHLAPFSPPRKKLRFPQHPDFPLDVVQFQIPTFSGNPFNPLCCISSSDNYNAPAAGIQGARHAQIGISLSDLHLNNNKFQLGVFPNNRETISNGSNITTNHDNKSKESISCLLTIGNSHKRSLEIKSDNNDKRHQFLLFGQPILTEQQISRKSSSDDVLLSKKKDKEKWFFSDTTKSSISEQFSPAKSSTTSASADFCWQLGLDTGHCKVFLESEDVGRTLDLSCVGSYEELYRKLAKMFGIERSEMLSRVLYRDATGAVKQTGEEPFSDFMKTAKRLTILMDSGSKDTRRVCITGTRNAERGLDASNKTGPMSIFV* |
