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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0094960 | XP_003597843.1 | 98.660 | 373 | 5 | 0 | 1 | 373 | 1 | 373 | 0.0 | 764 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0031120 | Msa0094960 | 0.817991 | 2.474468e-52 | -8.615850e-47 |
| Msa0094960 | Msa0173250 | 0.806261 | 8.964996e-50 | -8.615850e-47 |
| Msa0094960 | Msa0226640 | 0.864484 | 1.176124e-64 | -8.615850e-47 |
| Msa0094960 | Msa0228540 | 0.811289 | 7.543319e-51 | -8.615850e-47 |
| Msa0094960 | Msa0260250 | 0.963400 | 4.871183e-122 | -8.615850e-47 |
| Msa0094960 | Msa0260290 | 0.963476 | 3.936340e-122 | -8.615850e-47 |
| Msa0094960 | Msa0304250 | 0.990042 | 8.530809e-181 | -8.615850e-47 |
| Msa0094960 | Msa0495620 | 0.807274 | 5.475167e-50 | -8.615850e-47 |
| Msa0094960 | Msa0550400 | 0.852768 | 3.717882e-61 | -8.615850e-47 |
| Msa0094960 | Msa0605900 | 0.817830 | 2.689772e-52 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0094960 | MtrunA17_Chr2g0332541 | 98.660 | 373 | 5 | 0 | 1 | 373 | 1 | 373 | 0.0 | 764 |
| Msa0094960 | MtrunA17_Chr1g0149051 | 68.661 | 351 | 104 | 2 | 20 | 369 | 31 | 376 | 0.0 | 508 |
| Msa0094960 | MtrunA17_Chr3g0089391 | 50.595 | 336 | 160 | 2 | 26 | 361 | 32 | 361 | 6.07e-119 | 349 |
| Msa0094960 | MtrunA17_Chr4g0019601 | 50.599 | 334 | 159 | 2 | 28 | 361 | 37 | 364 | 3.67e-115 | 339 |
| Msa0094960 | MtrunA17_Chr4g0019581 | 50.000 | 334 | 161 | 2 | 28 | 361 | 106 | 433 | 3.22e-114 | 339 |
| Msa0094960 | MtrunA17_Chr2g0286051 | 45.706 | 361 | 188 | 2 | 3 | 363 | 13 | 365 | 6.28e-113 | 334 |
| Msa0094960 | MtrunA17_Chr4g0019571 | 45.810 | 358 | 188 | 2 | 4 | 361 | 13 | 364 | 2.87e-110 | 327 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0094960 | AT5G11420.1 | 65.014 | 363 | 122 | 1 | 7 | 369 | 9 | 366 | 0.0 | 510 |
| Msa0094960 | AT5G25460.1 | 65.301 | 366 | 122 | 1 | 4 | 369 | 9 | 369 | 1.21e-180 | 506 |
| Msa0094960 | AT4G32460.2 | 64.865 | 370 | 124 | 2 | 1 | 369 | 1 | 365 | 2.57e-178 | 500 |
| Msa0094960 | AT4G32460.1 | 64.865 | 370 | 124 | 2 | 1 | 369 | 1 | 365 | 2.57e-178 | 500 |
| Msa0094960 | AT1G80240.1 | 66.570 | 344 | 110 | 1 | 23 | 366 | 27 | 365 | 2.35e-169 | 477 |
| Msa0094960 | AT4G32460.4 | 67.273 | 330 | 103 | 1 | 40 | 369 | 1 | 325 | 2.54e-165 | 465 |
| Msa0094960 | AT4G32460.3 | 67.273 | 330 | 103 | 1 | 40 | 369 | 1 | 325 | 2.54e-165 | 465 |
| Msa0094960 | AT3G08030.1 | 52.149 | 349 | 160 | 2 | 15 | 361 | 16 | 359 | 1.26e-122 | 358 |
| Msa0094960 | AT2G41800.1 | 48.611 | 360 | 173 | 2 | 15 | 367 | 16 | 370 | 1.27e-120 | 353 |
| Msa0094960 | AT2G41810.1 | 47.011 | 368 | 183 | 2 | 4 | 364 | 5 | 367 | 2.41e-118 | 348 |
Find 95 sgRNAs with CRISPR-Local
Find 239 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACAAGGTGACATGCTTT+TGG | 0.342997 | 1_2:-78373365 | Msa0094960:CDS |
| AAAAGGTGAAATTAAATAAA+GGG | 0.413489 | 1_2:-78373288 | Msa0094960:CDS |
| AAAATGTAACAATGAGACAT+TGG | 0.564498 | 1_2:+78371669 | None:intergenic |
| AAATTACCTCTGGTTCTTCT+AGG | 0.274083 | 1_2:+78372998 | None:intergenic |
| AACCCACCTAGAAGAACCAG+AGG | 0.693541 | 1_2:-78373004 | Msa0094960:intron |
| AAGCACCTTGGCATATTGAG+AGG | 0.644905 | 1_2:+78376238 | None:intergenic |
| AAGGCAACAGAATCAATAAG+TGG | 0.552750 | 1_2:+78373037 | None:intergenic |
| AATACTCCCCATGATGCATT+TGG | 0.357606 | 1_2:+78372402 | None:intergenic |
| ACCAGAGTTATCATTCTTCA+TGG | 0.360617 | 1_2:+78372002 | None:intergenic |
| ACCATGAAGAATGATAACTC+TGG | 0.691442 | 1_2:-78372003 | Msa0094960:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AGGAACTATATGCAATGTAA+TGG | - | chr1_2:78371844-78371863 | Msa0094960:three_prime_UTR | 30.0% | |
| ATATGCAATGTAATGGTGTT+TGG | - | chr1_2:78371851-78371870 | Msa0094960:three_prime_UTR | 30.0% | |
| TGAAGTACAACAATGAAGAA+AGG | + | chr1_2:78372001-78372020 | None:intergenic | 30.0% | |
| GATACATTTGTAGTATCATG+GGG | + | chr1_2:78372812-78372831 | None:intergenic | 30.0% | |
| CGATACATTTGTAGTATCAT+GGG | + | chr1_2:78372813-78372832 | None:intergenic | 30.0% | |
| ATATGTGTGAAAAACCAAAC+TGG | + | chr1_2:78372893-78372912 | None:intergenic | 30.0% | |
| GACGTAATATACATAAGAAC+TGG | - | chr1_2:78373375-78373394 | Msa0094960:CDS | 30.0% | |
| AACGCAGGAAAAAAATATAG+AGG | - | chr1_2:78373399-78373418 | Msa0094960:CDS | 30.0% | |
| TTGACAAAAAAAGCTCTGTT+TGG | + | chr1_2:78373629-78373648 | None:intergenic | 30.0% | |
| AAACAGACCCTTATTGTATT+GGG | - | chr1_2:78373695-78373714 | Msa0094960:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_2 | gene | 78371675 | 78376343 | 78371675 | ID=Msa0094960;Name=Msa0094960 |
| chr1_2 | mRNA | 78371675 | 78376343 | 78371675 | ID=Msa0094960-mRNA-1;Parent=Msa0094960;Name=Msa0094960-mRNA-1;_AED=0.01;_eAED=0.01;_QI=51|1|1|1|0.5|0.66|3|258|373 |
| chr1_2 | exon | 78371675 | 78372471 | 78371675 | ID=Msa0094960-mRNA-1:exon:27928;Parent=Msa0094960-mRNA-1 |
| chr1_2 | exon | 78373005 | 78373517 | 78373005 | ID=Msa0094960-mRNA-1:exon:27927;Parent=Msa0094960-mRNA-1 |
| chr1_2 | exon | 78376223 | 78376343 | 78376223 | ID=Msa0094960-mRNA-1:exon:27926;Parent=Msa0094960-mRNA-1 |
| chr1_2 | five_prime_UTR | 78376293 | 78376343 | 78376293 | ID=Msa0094960-mRNA-1:five_prime_utr;Parent=Msa0094960-mRNA-1 |
| chr1_2 | CDS | 78376223 | 78376292 | 78376223 | ID=Msa0094960-mRNA-1:cds;Parent=Msa0094960-mRNA-1 |
| chr1_2 | CDS | 78373005 | 78373517 | 78373005 | ID=Msa0094960-mRNA-1:cds;Parent=Msa0094960-mRNA-1 |
| chr1_2 | CDS | 78371933 | 78372471 | 78371933 | ID=Msa0094960-mRNA-1:cds;Parent=Msa0094960-mRNA-1 |
| chr1_2 | three_prime_UTR | 78371675 | 78371932 | 78371675 | ID=Msa0094960-mRNA-1:three_prime_utr;Parent=Msa0094960-mRNA-1 |
| Gene Sequence |
>Msa0094960 ATGCAGAAGTTTAAAGTTCTATTAGTTATATTCCTCTCAATATGCCAAGGTGCTTTGTCTTATACAGATGGTTTATTGCCAAATGGTGACTTTGAAGTTGGTCCAAAAGCATCAAACCTAAAGGGCACAGTAGTGACAACCCATGATGCCATACCTAATTGGACAGTTTCAGGATACGTTGAATACATAAAATCAGGACAAAAACAAGGTGACATGCTTTTGGTTGTACCAGAAGGTGCTTATGCTGTTAGGCTAGGAAATGAAGCATACATTAAACAAAAGGTGAAATTAAATAAAGGGTCATCTTATTCCATCACGTTCAGTGCAGCTCGCACGTGTGCACAAGAAGAGAAGCTTAATGTGTCAGTGGTACCAACTTCTGAGAAAAGAGATTATGGTATCATTCCAATACAGACTATGTATGGTAGCAATGGTTGGGAATCATTTGCTTGTGGGTTTAGAGCTGATTATCCAGAAGGGGAAATTGTTATCCATAACTCTGGTGTTGAAGATGATCCAGCTTGTGGCCCACTTATTGATTCTGTTGCCTTGAAGGTTTTGAACCCACCTAGAAGAACCAGAGCCAATTTATTGAAAAATGGAAACTTTGAAGAAGGACCATATGTGTTCCCAAATGCATCATGGGGAGTATTGATCCCACCACACATTGAGGATGCTCATGGTCCATTACCAGGATGGATAGTTGAATCTCTCAAAGCAGTGAAATACATTGATTCTGAACACTTCACAGTACCAGAAGGAAAAAGAGCAATTGAACTTGTAGCAGGGAAAGAAAGTGCACTTGCACAAGAAGTCTTCACCACAATTGGAAAAGTTTATGTCCTCACTTTTGCAGTTGGTGATGCTAATAATGCATGTGAAGGTTCTATGACTGTAGAAGCATTTGCTGGTAGAGACACTGTTCAAGTTCCTTATCAATCTAAGGGCAAAGGAGGGTTTGTTAGAGGCAAACTTCGTTTTAAGGCTACGACAAGACGTACTAGGATTAGGTTCCTAAGTACATTTTACACCATGAAGAATGATAACTCTGGTTCTCTTTGTGGACCTGTTATTGATGATGTAAAATTGCTTAGTGTTCGTTATCCCAACAAGCATACCTAA |
| Protein sequence |
>Msa0094960 MQKFKVLLVIFLSICQGALSYTDGLLPNGDFEVGPKASNLKGTVVTTHDAIPNWTVSGYVEYIKSGQKQGDMLLVVPEGAYAVRLGNEAYIKQKVKLNKGSSYSITFSAARTCAQEEKLNVSVVPTSEKRDYGIIPIQTMYGSNGWESFACGFRADYPEGEIVIHNSGVEDDPACGPLIDSVALKVLNPPRRTRANLLKNGNFEEGPYVFPNASWGVLIPPHIEDAHGPLPGWIVESLKAVKYIDSEHFTVPEGKRAIELVAGKESALAQEVFTTIGKVYVLTFAVGDANNACEGSMTVEAFAGRDTVQVPYQSKGKGGFVRGKLRFKATTRRTRIRFLSTFYTMKNDNSGSLCGPVIDDVKLLSVRYPNKHT* |
