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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0810340 | XP_003615152.1 | 98.872 | 532 | 6 | 0 | 1 | 532 | 1 | 532 | 0.0 | 1101 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0810340 | sp|P27608|AROF_TOBAC | 82.667 | 525 | 82 | 3 | 7 | 524 | 15 | 537 | 0.0 | 909 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0001510 | Msa0810340 | -0.812491 | 4.128381e-51 | -8.615850e-47 |
| Msa0004180 | Msa0810340 | -0.823484 | 1.351238e-53 | -8.615850e-47 |
| Msa0007570 | Msa0810340 | -0.820156 | 7.960501e-53 | -8.615850e-47 |
| Msa0011040 | Msa0810340 | 0.822135 | 2.785287e-53 | -8.615850e-47 |
| Msa0011060 | Msa0810340 | -0.809142 | 2.190315e-50 | -8.615850e-47 |
| Msa0011100 | Msa0810340 | -0.807011 | 6.226555e-50 | -8.615850e-47 |
| Msa0016380 | Msa0810340 | -0.817137 | 3.854252e-52 | -8.615850e-47 |
| Msa0017710 | Msa0810340 | 0.801427 | 9.052220e-49 | -8.615850e-47 |
| Msa0027020 | Msa0810340 | -0.811396 | 7.148350e-51 | -8.615850e-47 |
| Msa0029280 | Msa0810340 | -0.814638 | 1.391248e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0810340 | MtrunA17_Chr5g0426501 | 98.872 | 532 | 6 | 0 | 1 | 532 | 1 | 532 | 0.0 | 1101 |
| Msa0810340 | MtrunA17_Chr2g0279321 | 79.167 | 504 | 95 | 1 | 26 | 529 | 13 | 506 | 0.0 | 844 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0810340 | AT1G22410.1 | 89.532 | 449 | 47 | 0 | 76 | 524 | 74 | 522 | 0.0 | 863 |
| Msa0810340 | AT4G39980.1 | 77.419 | 527 | 111 | 2 | 1 | 524 | 1 | 522 | 0.0 | 854 |
| Msa0810340 | AT4G33510.1 | 77.543 | 521 | 94 | 4 | 3 | 523 | 1 | 498 | 0.0 | 843 |
| Msa0810340 | AT4G33510.2 | 73.003 | 363 | 75 | 4 | 3 | 365 | 1 | 340 | 0.0 | 552 |
Find 199 sgRNAs with CRISPR-Local
Find 360 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACAATAATTTAACATTGG+TGG | 0.476835 | 5_3:-38673905 | Msa0810340:three_prime_UTR |
| AAAGAAAAGGGTTTGGTTAT+TGG | 0.183467 | 5_3:+38678387 | None:intergenic |
| AAATCAGTTGTTCTCATTAT+TGG | 0.134462 | 5_3:+38675947 | None:intergenic |
| AACAAAGTGAGCAAGGAGAT+AGG | 0.513379 | 5_3:-38677079 | Msa0810340:intron |
| AACACCATAAAGGCTCCATG+TGG | 0.710721 | 5_3:-38675415 | Msa0810340:CDS |
| AACCCACCTTCATTCCCCAT+CGG | 0.554852 | 5_3:-38678149 | Msa0810340:CDS |
| AACCGAGTTGACGAGGCCCT+TGG | 0.475450 | 5_3:-38676004 | Msa0810340:CDS |
| AACGCGTTTCTTCTTCAAGG+TGG | 0.636605 | 5_3:-38677825 | Msa0810340:CDS |
| AAGAAAAGGGTTTGGTTATT+GGG | 0.256169 | 5_3:+38678388 | None:intergenic |
| AAGAGGAGTTGCTAATCCCT+TGG | 0.471432 | 5_3:-38675774 | Msa0810340:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| TAAGAAGAAAGAAAAGGGTT+TGG | + | chr5_3:38673663-38673682 | None:intergenic | 30.0% | |
| TGAAGATGAAAATGTGAAAG+TGG | - | chr5_3:38674667-38674686 | Msa0810340:intron | 30.0% | |
| GAAAAGACAAAAACATGTCT+TGG | + | chr5_3:38675303-38675322 | None:intergenic | 30.0% | |
| GTGATGATTGATATAACAAC+TGG | - | chr5_3:38675472-38675491 | Msa0810340:CDS | 30.0% | |
| CAATCTAAGTCTTTATCCAA+CGG | - | chr5_3:38675874-38675893 | Msa0810340:CDS | 30.0% | |
| AGAAACAAAATAAAGAGCTG+TGG | + | chr5_3:38675924-38675943 | None:intergenic | 30.0% | |
| TGGTCTAGTTATGTTAATGT+TGG | - | chr5_3:38675948-38675967 | Msa0810340:CDS | 30.0% | |
| AATTAAACGTATTCTTGGCA+TGG | - | chr5_3:38675994-38676013 | Msa0810340:CDS | 30.0% | |
| ATGAGTTTAACAAGCTCATT+TGG | + | chr5_3:38676454-38676473 | None:intergenic | 30.0% | |
| AATAACTGTGATCACTAGAA+TGG | - | chr5_3:38676507-38676526 | Msa0810340:intron | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_3 | gene | 38673619 | 38678443 | 38673619 | ID=Msa0810340;Name=Msa0810340 |
| chr5_3 | mRNA | 38673619 | 38678443 | 38673619 | ID=Msa0810340-mRNA-1;Parent=Msa0810340;Name=Msa0810340-mRNA-1;_AED=0.01;_eAED=0.01;_QI=203|1|1|1|1|1|5|639|532 |
| chr5_3 | exon | 38673619 | 38674524 | 38673619 | ID=Msa0810340-mRNA-1:exon:11748;Parent=Msa0810340-mRNA-1 |
| chr5_3 | exon | 38675384 | 38675629 | 38675384 | ID=Msa0810340-mRNA-1:exon:11747;Parent=Msa0810340-mRNA-1 |
| chr5_3 | exon | 38675766 | 38676042 | 38675766 | ID=Msa0810340-mRNA-1:exon:11746;Parent=Msa0810340-mRNA-1 |
| chr5_3 | exon | 38677080 | 38677357 | 38677080 | ID=Msa0810340-mRNA-1:exon:11745;Parent=Msa0810340-mRNA-1 |
| chr5_3 | exon | 38677710 | 38678443 | 38677710 | ID=Msa0810340-mRNA-1:exon:11744;Parent=Msa0810340-mRNA-1 |
| chr5_3 | five_prime_UTR | 38678241 | 38678443 | 38678241 | ID=Msa0810340-mRNA-1:five_prime_utr;Parent=Msa0810340-mRNA-1 |
| chr5_3 | CDS | 38677710 | 38678240 | 38677710 | ID=Msa0810340-mRNA-1:cds;Parent=Msa0810340-mRNA-1 |
| chr5_3 | CDS | 38677080 | 38677357 | 38677080 | ID=Msa0810340-mRNA-1:cds;Parent=Msa0810340-mRNA-1 |
| chr5_3 | CDS | 38675766 | 38676042 | 38675766 | ID=Msa0810340-mRNA-1:cds;Parent=Msa0810340-mRNA-1 |
| chr5_3 | CDS | 38675384 | 38675629 | 38675384 | ID=Msa0810340-mRNA-1:cds;Parent=Msa0810340-mRNA-1 |
| chr5_3 | CDS | 38674258 | 38674524 | 38674258 | ID=Msa0810340-mRNA-1:cds;Parent=Msa0810340-mRNA-1 |
| chr5_3 | three_prime_UTR | 38673619 | 38674257 | 38673619 | ID=Msa0810340-mRNA-1:three_prime_utr;Parent=Msa0810340-mRNA-1 |
| Gene Sequence |
>Msa0810340 ATGTCTCTCTCTTCAACATCTTCCACCTCTCTCATTCCCACCAAATCATTACTCCAACCAAACAAACCAAACCCACCTTCATTCCCCATCGGGCTCAAACCCATGCCCAAAACCAAACCCGGTTCAATCCTCGCCGTCCACGCCGCCGAGCCAGCAAAAAATCCAGTCATAACAGAAAAGCCCAGCAAGCCTCAACCAACCACCATCCCCCGTAATGCATCCACCAAATGGACCATTGACAGCTGGAAATCCAAGAAGGCTCTTCAACTTCCTGAATACCCGAATCAGGAAGACCTTGAATCGGTTTTGAAGACACTCGATGCTTTCCCACCGATTGTGTTTGCTGGTGAAGCTAGAACTTTGGAGGAGCATTTGGGTGAAGCTGCTATGGGAAACGCGTTTCTTCTTCAAGGTGGTGATTGTGCTGAGAGCTTTAAGGAGTTTAATGCTAATAATATTCGTGATACTTTCAGGATTATTCTTCAGATGAGTGTTGTTATGATGTTTGGTGGTCAAATGCCGGTTATTAAGGTGGGGAGAATGGCGGGTCAATTTGCGAAGCCAAGATCGGATAATTTTGAGGAGAAGAATGGTGTGAAGCTTCCTAGTTACAGAGGGGATAACATCAACGGTGATGCATTTGATGAGAAATCCAGGACACCGGATCCTCAGAGGATGATTCGTGCTTATTGTCAAGCTGCAGCTACTCTGAATCTTCTCAGAGCTTTTGCTACTGGTGGTTATGCTGCTATGCAGAGGGTTACTCAATGGAACTTGGATTTCACTGAACAAAGTGAGCAAGGAGATAGGTACCGTGAGCTTGCTAACCGAGTTGACGAGGCCCTTGGATTCATGGCTGCTGCTGGTCTCACAGTTGACCATCCAATAATGAGAACAACTGATTTCTGGACTTCACATGAATGCTTGTTATTGCCATACGAACAATCACTGACTAGGTTGGATTCAACTTCTGGTCTCTACTATGACTGCTCGGCCCATATGATTTGGGTCGGTGAAAGGACCCGGCAGCTAGATGGTGCCCATGTGGAATTTCTAAGAGGAGTTGCTAATCCCTTGGGAATCAAGGTAAGTGACAAGATGGATCCAAATGAGCTTGTTAAACTCATTGAGATCTTGAATCCTCAAAACAAACCAGGGAGAATAACTGTGATCACTAGAATGGGAGCTGAAAATATGAGGGTGAAGCTTCCACATCTAATCAGGGCAGTGCGTAGAGCAGGACAAATTGTCACATGGGTCAGCGATCCTATGCATGGAAACACCATAAAGGCTCCATGTGGTCTCAAAACTCGCCCCTTCGATGCCATCAGGGCTGAAGTGAGAGCATTCTTTGATGTTCACGAACAAGAAGGAAGCCACCCAGGAGGAGTTCATCTTGAGATGACAGGTCAAAATGTGACCGAGTGCATTGGTGGGTCAAAGATAGTCACATTTGACGATCTTAGCTCACGCTACCACACACACTGCGATCCTAGACTTAATGCTTCACAATCTCTCGAGCTTGCTTTCATCATTGCTGAAAGGCTAAGAAAGAGTAGAATCAGATCACAGCCTCCTCTTGAATCTACTGGATTTTGA |
| Protein sequence |
>Msa0810340 MSLSSTSSTSLIPTKSLLQPNKPNPPSFPIGLKPMPKTKPGSILAVHAAEPAKNPVITEKPSKPQPTTIPRNASTKWTIDSWKSKKALQLPEYPNQEDLESVLKTLDAFPPIVFAGEARTLEEHLGEAAMGNAFLLQGGDCAESFKEFNANNIRDTFRIILQMSVVMMFGGQMPVIKVGRMAGQFAKPRSDNFEEKNGVKLPSYRGDNINGDAFDEKSRTPDPQRMIRAYCQAAATLNLLRAFATGGYAAMQRVTQWNLDFTEQSEQGDRYRELANRVDEALGFMAAAGLTVDHPIMRTTDFWTSHECLLLPYEQSLTRLDSTSGLYYDCSAHMIWVGERTRQLDGAHVEFLRGVANPLGIKVSDKMDPNELVKLIEILNPQNKPGRITVITRMGAENMRVKLPHLIRAVRRAGQIVTWVSDPMHGNTIKAPCGLKTRPFDAIRAEVRAFFDVHEQEGSHPGGVHLEMTGQNVTECIGGSKIVTFDDLSSRYHTHCDPRLNASQSLELAFIIAERLRKSRIRSQPPLESTGF* |
