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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0763350 | XP_003612708.1 | 96.829 | 410 | 11 | 1 | 1 | 408 | 1 | 410 | 0.0 | 815 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0763350 | sp|Q9LVJ0|UVB31_ARATH | 47.321 | 336 | 161 | 7 | 80 | 406 | 91 | 419 | 1.17e-93 | 290 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0009800 | Msa0763350 | 0.803363 | 3.612731e-49 | -8.615850e-47 |
| Msa0028280 | Msa0763350 | 0.803566 | 3.279595e-49 | -8.615850e-47 |
| Msa0032450 | Msa0763350 | 0.849710 | 2.715084e-60 | -8.615850e-47 |
| Msa0039920 | Msa0763350 | 0.805129 | 1.549651e-49 | -8.615850e-47 |
| Msa0040090 | Msa0763350 | 0.811444 | 6.978942e-51 | -8.615850e-47 |
| Msa0041780 | Msa0763350 | 0.852537 | 4.326159e-61 | -8.615850e-47 |
| Msa0057740 | Msa0763350 | 0.823616 | 1.258535e-53 | -8.615850e-47 |
| Msa0059590 | Msa0763350 | 0.809525 | 1.812469e-50 | -8.615850e-47 |
| Msa0063830 | Msa0763350 | 0.826318 | 2.897193e-54 | -8.615850e-47 |
| Msa0085030 | Msa0763350 | -0.807027 | 6.177017e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0763350 | MtrunA17_Chr5g0410131 | 96.829 | 410 | 11 | 1 | 1 | 408 | 1 | 410 | 0.0 | 815 |
| Msa0763350 | MtrunA17_Chr8g0393251 | 48.512 | 336 | 156 | 7 | 83 | 406 | 89 | 419 | 4.06e-103 | 311 |
| Msa0763350 | MtrunA17_Chr6g0479321 | 43.091 | 427 | 211 | 11 | 1 | 406 | 1 | 416 | 2.64e-100 | 304 |
| Msa0763350 | MtrunA17_Chr8g0339211 | 32.303 | 356 | 202 | 10 | 67 | 403 | 32 | 367 | 7.32e-52 | 177 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0763350 | AT1G32160.1 | 60.870 | 368 | 131 | 6 | 46 | 406 | 43 | 404 | 4.61e-153 | 439 |
| Msa0763350 | AT1G48450.1 | 43.956 | 364 | 175 | 6 | 64 | 406 | 66 | 421 | 4.78e-97 | 296 |
| Msa0763350 | AT3G17800.1 | 47.321 | 336 | 161 | 7 | 80 | 406 | 91 | 419 | 1.19e-94 | 290 |
| Msa0763350 | AT3G17800.2 | 46.707 | 334 | 166 | 6 | 80 | 406 | 97 | 425 | 1.78e-94 | 290 |
| Msa0763350 | AT1G48450.3 | 50.244 | 205 | 96 | 4 | 64 | 263 | 66 | 269 | 5.00e-62 | 203 |
| Msa0763350 | AT1G48450.2 | 50.244 | 205 | 96 | 4 | 64 | 263 | 66 | 269 | 6.29e-62 | 203 |
| Msa0763350 | AT3G07310.1 | 34.320 | 338 | 165 | 7 | 81 | 405 | 60 | 353 | 1.00e-50 | 175 |
| Msa0763350 | AT3G07310.2 | 34.875 | 281 | 129 | 6 | 135 | 405 | 13 | 249 | 1.96e-45 | 158 |
| Msa0763350 | AT5G48590.1 | 31.805 | 349 | 174 | 7 | 61 | 403 | 38 | 328 | 3.22e-45 | 160 |
Find 95 sgRNAs with CRISPR-Local
Find 246 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACTCAGGCCATCTTTGGA+AGG | 0.573455 | 5_2:+22528018 | Msa0763350:CDS |
| AAATGTATGTACAGTGCATT+AGG | 0.403190 | 5_2:+22528363 | Msa0763350:three_prime_UTR |
| AACCGGAGCGAGGATGAAGA+TGG | 0.499257 | 5_2:-22523740 | None:intergenic |
| AAGCAAACTCAGGCCATCTT+TGG | 0.319554 | 5_2:+22528014 | Msa0763350:CDS |
| AAGCATAGTCAAGCCTGAGA+AGG | 0.589966 | 5_2:-22528105 | None:intergenic |
| AAGTGAAAGAACTTCATCAT+TGG | 0.547625 | 5_2:-22528081 | None:intergenic |
| AATCAATGATATAGCTTCCT+TGG | 0.338228 | 5_2:-22527988 | None:intergenic |
| AATGGCGGAATTCCGGTAAC+CGG | 0.495289 | 5_2:-22523757 | None:intergenic |
| AATTGATTGCAATTCTAAAC+AGG | 0.398798 | 5_2:+22528284 | Msa0763350:three_prime_UTR |
| ACTGGTGAAGGCAAATCATC+TGG | 0.458702 | 5_2:+22527903 | Msa0763350:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TCTTTCAACTGGATTTCTTA+AGG | + | chr5_2:22523805-22523824 | Msa0763350:CDS | 30.0% | |
| TCTGTATAAAGTTTGAGGAT+AGG | + | chr5_2:22523910-22523929 | Msa0763350:intron | 30.0% | |
| TCAATTAAGTCAATCCAAAC+AGG | - | chr5_2:22524037-22524056 | None:intergenic | 30.0% | |
| GAAATAACTAAGACCTTGTT+TGG | - | chr5_2:22524325-22524344 | None:intergenic | 30.0% | |
| TGAATCAATACCTACAGTAT+AGG | - | chr5_2:22524506-22524525 | None:intergenic | 30.0% | |
| GCTAAAGAGAACAAAATAGT+TGG | - | chr5_2:22524764-22524783 | None:intergenic | 30.0% | |
| GCTTCGTTTATAGATTAGTA+TGG | + | chr5_2:22525143-22525162 | Msa0763350:intron | 30.0% | |
| TTCTCTGCAAAATTCGATTA+TGG | - | chr5_2:22525360-22525379 | None:intergenic | 30.0% | |
| GAAAAATGCATAGTCAATGT+AGG | - | chr5_2:22525999-22526018 | None:intergenic | 30.0% | |
| AGCTTAAGGGAAAAAAAAGT+TGG | - | chr5_2:22526021-22526040 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_2 | gene | 22523518 | 22528469 | 22523518 | ID=Msa0763350;Name=Msa0763350 |
| chr5_2 | mRNA | 22523518 | 22528469 | 22523518 | ID=Msa0763350-mRNA-1;Parent=Msa0763350;Name=Msa0763350-mRNA-1;_AED=0.04;_eAED=0.04;_QI=98|1|1|1|0.66|0.75|4|258|408 |
| chr5_2 | exon | 22523518 | 22523587 | 22523518 | ID=Msa0763350-mRNA-1:exon:9216;Parent=Msa0763350-mRNA-1 |
| chr5_2 | exon | 22523667 | 22523826 | 22523667 | ID=Msa0763350-mRNA-1:exon:9217;Parent=Msa0763350-mRNA-1 |
| chr5_2 | exon | 22526522 | 22526799 | 22526522 | ID=Msa0763350-mRNA-1:exon:9218;Parent=Msa0763350-mRNA-1 |
| chr5_2 | exon | 22527395 | 22528469 | 22527395 | ID=Msa0763350-mRNA-1:exon:9219;Parent=Msa0763350-mRNA-1 |
| chr5_2 | five_prime_UTR | 22523518 | 22523587 | 22523518 | ID=Msa0763350-mRNA-1:five_prime_utr;Parent=Msa0763350-mRNA-1 |
| chr5_2 | five_prime_UTR | 22523667 | 22523694 | 22523667 | ID=Msa0763350-mRNA-1:five_prime_utr;Parent=Msa0763350-mRNA-1 |
| chr5_2 | CDS | 22523695 | 22523826 | 22523695 | ID=Msa0763350-mRNA-1:cds;Parent=Msa0763350-mRNA-1 |
| chr5_2 | CDS | 22526522 | 22526799 | 22526522 | ID=Msa0763350-mRNA-1:cds;Parent=Msa0763350-mRNA-1 |
| chr5_2 | CDS | 22527395 | 22528211 | 22527395 | ID=Msa0763350-mRNA-1:cds;Parent=Msa0763350-mRNA-1 |
| chr5_2 | three_prime_UTR | 22528212 | 22528469 | 22528212 | ID=Msa0763350-mRNA-1:three_prime_utr;Parent=Msa0763350-mRNA-1 |
| Gene Sequence |
>Msa0763350 ATGCAAGTTTCAGGTGCTGCAATCAGCGACGTTATGGTGGTGCTTCCATCTTCATCCTCGCTCCGGTTACCGGAATTCCGCCATTTCCATTCTTCTGACGCAAAGAATGTTCTTTCAACTGGATTTCTTAAGAGTTGTCCTCCATCTTACAATGCCAAACACTACAATGAACCCTACAGTTTTCGAGGTAGAGGGTTAGTTGTGAGAGCATCTACAGATTCAAGTGATAATTTTGTGCCTTCTCCTCCTCTCCAATTTGAGTCACCAGTTGGTCAGCTGTTGGAACAAATTTTGCAAACCCATCCTCATTTGTTTTTAGCAACCATTGATCAGCAGCTAGAGAAACTTCAGACTGAAAGAGATGCCAACAAAGAAGAATCGTCTACATCATACGAGGATTCCCTTTATAAGAGGATAGCTGAAGTTAAAGAGAAAGAAAAGCGCACAACATTGGAAGAGATAATGTATTGCTTAATCGTGAACAGATTTAAAGAGAACAAAATTTCAATGATCCCAAAAATATCAGCAACCTCGGATCCTAATGAGCAAGTGGATTTATGGCCAAATCAAGAGTTTAAGTTAGAAGCTGTTCATTCTTCAGAGGCATTTGAGATGATACAGAGTCACTTATCTCTGGTACTAGGAGAACGGGTTGTGGGTCCTCTCCAGACAATTATTCAGATTAGCAAAATCAAGCTGGGTAAGTTATACGCTGCTTCAATAATGTATGGATATTTTCTCAAACGGGTTGATGAACGCTTTCAACTTGAGAGGTCAGTGGGAACACTTACACAGGATTTGGGTAAAGAAAATGTTAGTTTTGATGAACCATCGCCACCAAACAAGCTCTGGGATTCAGATTCCTTGATTAGGATCTATCCTGACGACGAAGGTTATTATGAAATGGATGACATGAATACTGGTGAAGGCAAATCATCTGGACTGAGAGATTATGTGACGCAGTTGGATGCGGAGGCACTTCAGAGACTTGCTACTGTACGCTCCAAGGAAGCTATATCATTGATTGAAAAGCAAACTCAGGCCATCTTTGGAAGGCCTGATATCCGCCTCTCTGGCGATGGTTCGATTGAAAGTACCAATGATGAAGTTCTTTCACTTACCTTCTCAGGCTTGACTATGCTTGTTTTGGAATCTGTTGCTTTTGGATCATTCTTATGGGACGAAGAAAACTATGTTGAGTCCAAGTATCCTTTTCTTGCTAAATAG |
| Protein sequence |
>Msa0763350 MQVSGAAISDVMVVLPSSSSLRLPEFRHFHSSDAKNVLSTGFLKSCPPSYNAKHYNEPYSFRGRGLVVRASTDSSDNFVPSPPLQFESPVGQLLEQILQTHPHLFLATIDQQLEKLQTERDANKEESSTSYEDSLYKRIAEVKEKEKRTTLEEIMYCLIVNRFKENKISMIPKISATSDPNEQVDLWPNQEFKLEAVHSSEAFEMIQSHLSLVLGERVVGPLQTIIQISKIKLGKLYAASIMYGYFLKRVDERFQLERSVGTLTQDLGKENVSFDEPSPPNKLWDSDSLIRIYPDDEGYYEMDDMNTGEGKSSGLRDYVTQLDAEALQRLATVRSKEAISLIEKQTQAIFGRPDIRLSGDGSIESTNDEVLSLTFSGLTMLVLESVAFGSFLWDEENYVESKYPFLAK* |
