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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0282250 | XP_003594885.1 | 99.649 | 285 | 1 | 0 | 1 | 285 | 1 | 285 | 0.0 | 590 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0282250 | sp|Q9ZV56|CCT1_ARATH | 78.652 | 267 | 52 | 2 | 12 | 277 | 31 | 293 | 2.84e-155 | 439 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000550 | Msa0282250 | -0.815230 | 1.028274e-51 | -8.615850e-47 |
| Msa0001790 | Msa0282250 | 0.811897 | 5.563328e-51 | -8.615850e-47 |
| Msa0004880 | Msa0282250 | 0.813923 | 2.001471e-51 | -8.615850e-47 |
| Msa0004920 | Msa0282250 | 0.819969 | 8.784025e-53 | -8.615850e-47 |
| Msa0005270 | Msa0282250 | 0.808172 | 3.528225e-50 | -8.615850e-47 |
| Msa0008340 | Msa0282250 | 0.805920 | 1.057305e-49 | -8.615850e-47 |
| Msa0008410 | Msa0282250 | 0.821282 | 4.386931e-53 | -8.615850e-47 |
| Msa0011170 | Msa0282250 | 0.819279 | 1.262658e-52 | -8.615850e-47 |
| Msa0011660 | Msa0282250 | -0.820449 | 6.819653e-53 | -8.615850e-47 |
| Msa0011720 | Msa0282250 | 0.842496 | 2.495198e-58 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0282250 | MtrunA17_Chr2g0297021 | 99.649 | 285 | 1 | 0 | 1 | 285 | 1 | 285 | 0.0 | 590 |
| Msa0282250 | MtrunA17_Chr3g0120311 | 83.673 | 245 | 36 | 1 | 13 | 257 | 15 | 255 | 3.01e-156 | 437 |
| Msa0282250 | MtrunA17_Chr4g0032051 | 87.429 | 175 | 19 | 2 | 111 | 284 | 20 | 192 | 1.52e-96 | 282 |
| Msa0282250 | MtrunA17_Chr4g0032041 | 98.630 | 73 | 1 | 0 | 66 | 138 | 1 | 73 | 4.75e-47 | 156 |
| Msa0282250 | MtrunA17_Chr4g0032031 | 83.051 | 59 | 9 | 1 | 1 | 59 | 1 | 58 | 2.92e-29 | 105 |
| Msa0282250 | MtrunA17_Chr7g0245591 | 31.429 | 245 | 148 | 7 | 11 | 248 | 50 | 281 | 2.93e-28 | 112 |
| Msa0282250 | MtrunA17_Chr7g0245591 | 36.957 | 92 | 54 | 2 | 18 | 107 | 258 | 347 | 4.76e-12 | 65.9 |
| Msa0282250 | MtrunA17_Chr8g0389111 | 42.553 | 141 | 73 | 3 | 16 | 152 | 65 | 201 | 3.00e-26 | 106 |
| Msa0282250 | MtrunA17_Chr8g0389111 | 35.484 | 155 | 93 | 4 | 18 | 169 | 256 | 406 | 4.75e-19 | 86.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0282250 | AT2G32260.1 | 78.652 | 267 | 52 | 2 | 12 | 277 | 31 | 293 | 2.89e-156 | 439 |
| Msa0282250 | AT2G32260.2 | 77.637 | 237 | 48 | 2 | 42 | 277 | 12 | 244 | 9.09e-135 | 382 |
| Msa0282250 | AT2G38670.1 | 31.304 | 230 | 139 | 6 | 14 | 237 | 53 | 269 | 3.31e-28 | 112 |
| Msa0282250 | AT2G38670.1 | 32.692 | 156 | 100 | 3 | 18 | 170 | 257 | 410 | 2.64e-17 | 81.6 |
Find 85 sgRNAs with CRISPR-Local
Find 341 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGATTGAGAATGAACAT+GGG | 0.642829 | 2_3:-18090771 | Msa0282250:CDS |
| AACTCCTGATTGATTACCCA+CGG | 0.589451 | 2_3:+18092634 | None:intergenic |
| AAGAAACAGCAAGAGACTGT+AGG | 0.592810 | 2_3:-18090723 | Msa0282250:CDS |
| AAGGAAACAAAGAGGACTGA+AGG | 0.570979 | 2_3:-18091044 | Msa0282250:CDS |
| AAGGTACAATCCAAATCCAA+AGG | 0.626057 | 2_3:+18089320 | None:intergenic |
| AAGGTAGGAATATGGTTGGA+CGG | 0.628552 | 2_3:+18089339 | None:intergenic |
| AAGTTATTCCAGATGTGCCG+TGG | 0.587410 | 2_3:-18092651 | Msa0282250:CDS |
| AATCTCTTCTTTATGATGAG+TGG | 0.507907 | 2_3:-18089712 | Msa0282250:CDS |
| AATGCAGATCGATTAGTTGC+TGG | 0.449023 | 2_3:-18089948 | Msa0282250:CDS |
| AATGTGAAAATATGTTTGAT+TGG | 0.429677 | 2_3:-18089198 | Msa0282250:three_prime_UTR |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AATGAGAGAGTAAAAAAGAG+AGG | - | chr2_3:18089036-18089055 | Msa0282250:three_prime_UTR | 30.0% | |
| TTCAATGTTCAGAGTCAAAA+CGG | + | chr2_3:18089115-18089134 | None:intergenic | 30.0% | |
| ATTTACGATCTCTTTCACTT+TGG | - | chr2_3:18089223-18089242 | Msa0282250:three_prime_UTR | 30.0% | |
| ATGAAGCAAAAGAAAAAGGA+GGG | + | chr2_3:18089298-18089317 | None:intergenic | 30.0% | |
| AATGAAGCAAAAGAAAAAGG+AGG | + | chr2_3:18089299-18089318 | None:intergenic | 30.0% | |
| AAAAGAACAAAAAATGGGGT+TGG | + | chr2_3:18089407-18089426 | None:intergenic | 30.0% | |
| ACCCAAAAGAACAAAAAATG+GGG | + | chr2_3:18089411-18089430 | None:intergenic | 30.0% | |
| TTGATTTCCCATTTGCAATT+AGG | - | chr2_3:18089616-18089635 | Msa0282250:three_prime_UTR | 30.0% | |
| TGTAGAATAGTAGATGTATC+AGG | - | chr2_3:18089995-18090014 | Msa0282250:CDS | 30.0% | |
| AAAAATTGAAGAGTTTGTGC+GGG | - | chr2_3:18090115-18090134 | Msa0282250:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_3 | gene | 18089014 | 18094846 | 18089014 | ID=Msa0282250;Name=Msa0282250 |
| chr2_3 | mRNA | 18089014 | 18094846 | 18089014 | ID=Msa0282250-mRNA-1;Parent=Msa0282250;Name=Msa0282250-mRNA-1;_AED=0.09;_eAED=0.09;_QI=143|1|1|1|1|1|8|638|285 |
| chr2_3 | exon | 18089014 | 18089786 | 18089014 | ID=Msa0282250-mRNA-1:exon:7445;Parent=Msa0282250-mRNA-1 |
| chr2_3 | exon | 18089911 | 18090021 | 18089911 | ID=Msa0282250-mRNA-1:exon:7444;Parent=Msa0282250-mRNA-1 |
| chr2_3 | exon | 18090716 | 18090796 | 18090716 | ID=Msa0282250-mRNA-1:exon:7443;Parent=Msa0282250-mRNA-1 |
| chr2_3 | exon | 18090932 | 18091087 | 18090932 | ID=Msa0282250-mRNA-1:exon:7442;Parent=Msa0282250-mRNA-1 |
| chr2_3 | exon | 18091375 | 18091417 | 18091375 | ID=Msa0282250-mRNA-1:exon:7441;Parent=Msa0282250-mRNA-1 |
| chr2_3 | exon | 18092589 | 18092684 | 18092589 | ID=Msa0282250-mRNA-1:exon:7440;Parent=Msa0282250-mRNA-1 |
| chr2_3 | exon | 18093970 | 18094083 | 18093970 | ID=Msa0282250-mRNA-1:exon:7439;Parent=Msa0282250-mRNA-1 |
| chr2_3 | exon | 18094582 | 18094846 | 18094582 | ID=Msa0282250-mRNA-1:exon:7438;Parent=Msa0282250-mRNA-1 |
| chr2_3 | five_prime_UTR | 18094704 | 18094846 | 18094704 | ID=Msa0282250-mRNA-1:five_prime_utr;Parent=Msa0282250-mRNA-1 |
| chr2_3 | CDS | 18094582 | 18094703 | 18094582 | ID=Msa0282250-mRNA-1:cds;Parent=Msa0282250-mRNA-1 |
| chr2_3 | CDS | 18093970 | 18094083 | 18093970 | ID=Msa0282250-mRNA-1:cds;Parent=Msa0282250-mRNA-1 |
| chr2_3 | CDS | 18092589 | 18092684 | 18092589 | ID=Msa0282250-mRNA-1:cds;Parent=Msa0282250-mRNA-1 |
| chr2_3 | CDS | 18091375 | 18091417 | 18091375 | ID=Msa0282250-mRNA-1:cds;Parent=Msa0282250-mRNA-1 |
| chr2_3 | CDS | 18090932 | 18091087 | 18090932 | ID=Msa0282250-mRNA-1:cds;Parent=Msa0282250-mRNA-1 |
| chr2_3 | CDS | 18090716 | 18090796 | 18090716 | ID=Msa0282250-mRNA-1:cds;Parent=Msa0282250-mRNA-1 |
| chr2_3 | CDS | 18089911 | 18090021 | 18089911 | ID=Msa0282250-mRNA-1:cds;Parent=Msa0282250-mRNA-1 |
| chr2_3 | CDS | 18089652 | 18089786 | 18089652 | ID=Msa0282250-mRNA-1:cds;Parent=Msa0282250-mRNA-1 |
| chr2_3 | three_prime_UTR | 18089014 | 18089651 | 18089014 | ID=Msa0282250-mRNA-1:three_prime_utr;Parent=Msa0282250-mRNA-1 |
| Gene Sequence |
>Msa0282250 ATGAATGAACAAGATGACTCTGAAGTTGGCAAAAACGATAAACCTGTTCGTGTTTATGCTGATGGAATTTACGATCTCTTTCACTTTGGCCATGCCCGTTCTCTTGAACAAGCAAAGAAATCGTTTCCAAACACATATCTCCTTGTTGGATGCTGCAGTGATGAGATCACACACAAGTACAAGGGTAAAACAGTTATGAATGAGCAAGAACGCTATGAGTCTCTTCGTCACTGCAAGTGGGTTGATGAAGTTATTCCAGATGTGCCGTGGGTAATCAATCAGGAGTTCATTGACAAGCATAAAATTGACTATGTGGCACATGACGCTCTTCCTTATGCTGATACAAGTGGAGCTGGAAAGGATGTCTATGAATTTGTTAAGGCTATTGGAAAATTTAAGGAAACAAAGAGGACTGAAGGAATTTCTACCTCTGATATCATAATGAGAATCATCAAGGATTACAACCAGTATGTAATGCGTAATCTGGATCGTGGTTATTCAAGAAAGGAGCTAGGTGTTAGCTATGTCAAGGAGAAAAGATTGAGAATGAACATGGGACTTAAAAAGTTGCAGGAGAGAGTCAAGAAACAGCAAGAGACTGTAGGAAAGAAGATAGGAACAGTGAGAAGAATTGCTGGGATGAACCGTACTGAATGGGTTGAAAATGCAGATCGATTAGTTGCTGGATTTCTCGAGATGTTTGAAGAAGGATGCCACAAAATGGGAACAGCAATCAGAGACAGAATTCAAGAACAGCTGAAGGCACAACAGCTAAAATCTCTTCTTTATGATGAGTGGGATGATGACGTTGACGACGAATTCTATGAAGATGAATCTGTAGAATACTACAGCGACTAA |
| Protein sequence |
>Msa0282250 MNEQDDSEVGKNDKPVRVYADGIYDLFHFGHARSLEQAKKSFPNTYLLVGCCSDEITHKYKGKTVMNEQERYESLRHCKWVDEVIPDVPWVINQEFIDKHKIDYVAHDALPYADTSGAGKDVYEFVKAIGKFKETKRTEGISTSDIIMRIIKDYNQYVMRNLDRGYSRKELGVSYVKEKRLRMNMGLKKLQERVKKQQETVGKKIGTVRRIAGMNRTEWVENADRLVAGFLEMFEEGCHKMGTAIRDRIQEQLKAQQLKSLLYDEWDDDVDDEFYEDESVEYYSD* |
