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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0492390 | XP_003598789.1 | 75.510 | 98 | 17 | 1 | 1 | 91 | 1 | 98 | 4.11e-43 | 145 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0492390 | sp|P16064|ICI1_PHAAN | 67.742 | 93 | 22 | 2 | 6 | 91 | 1 | 92 | 1.99e-33 | 113 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0492390 | G7IW97 | 75.510 | 98 | 17 | 1 | 1 | 91 | 1 | 98 | 1.97e-43 | 145 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0397480 | Msa0492390 | 0.921079 | 5.661259e-88 | -8.615850e-47 |
| Msa0444790 | Msa0492390 | 0.960557 | 1.081003e-118 | -8.615850e-47 |
| Msa0350440 | Msa0492390 | 0.904228 | 1.528313e-79 | -8.615850e-47 |
PPI
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0492390 | MtrunA17_Chr3g0085011 | 75.510 | 98 | 17 | 1 | 1 | 91 | 1 | 98 | 3.78e-47 | 145 |
| Msa0492390 | MtrunA17_Chr3g0084961 | 75.824 | 91 | 12 | 2 | 1 | 91 | 1 | 81 | 1.39e-41 | 130 |
| Msa0492390 | MtrunA17_Chr3g0084991 | 88.060 | 67 | 8 | 0 | 25 | 91 | 28 | 94 | 2.78e-39 | 125 |
| Msa0492390 | MtrunA17_Chr3g0084931 | 65.217 | 69 | 24 | 0 | 23 | 91 | 13 | 81 | 4.98e-24 | 86.7 |
| Msa0492390 | MtrunA17_Chr5g0442291 | 47.619 | 63 | 33 | 0 | 29 | 91 | 8 | 70 | 3.34e-14 | 61.6 |
| Msa0492390 | MtrunA17_Chr1g0184411 | 44.444 | 63 | 35 | 0 | 29 | 91 | 8 | 70 | 7.20e-12 | 55.5 |
| Msa0492390 | MtrunA17_Chr5g0419531 | 41.270 | 63 | 37 | 0 | 29 | 91 | 7 | 69 | 2.21e-11 | 54.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 33 sgRNAs with CRISPR-Local
Find 104 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AATATTGTTCAAATGAGATT+TGG | 0.239176 | 3_4:-16050281 | Msa0492390:three_prime_UTR |
| TTAGAATAAACAAGGGGATT+TGG | 0.263245 | 3_4:-16050209 | Msa0492390:three_prime_UTR |
| TAGAATAAACAAGGGGATTT+GGG | 0.271314 | 3_4:-16050208 | Msa0492390:three_prime_UTR |
| CAACATACAATCGAACTCTT+TGG | 0.322647 | 3_4:+16050356 | None:intergenic |
| TCACTTGGCAAGGGTTCATT+TGG | 0.330216 | 3_4:+16050957 | None:intergenic |
| ATATTGTTCAAATGAGATTT+GGG | 0.371910 | 3_4:-16050280 | Msa0492390:three_prime_UTR |
| TTGATGAATCAACCAATTGT+TGG | 0.386467 | 3_4:+16050307 | None:intergenic |
| AGAAGCAGAGAGGAAAATAA+AGG | 0.396970 | 3_4:-16050446 | Msa0492390:CDS |
| GTATGTTGATGAATCTAATA+AGG | 0.406117 | 3_4:-16050341 | Msa0492390:CDS |
| AACATACAATCGAACTCTTT+GGG | 0.421595 | 3_4:+16050357 | None:intergenic |
| GTCACCAGGGCTCCAACAAT+TGG | 0.468531 | 3_4:-16050319 | Msa0492390:CDS |
| GGTTCATTTGGCTGCTCCTG+AGG | 0.488032 | 3_4:+16050969 | None:intergenic |
| AAAATAAAGGAAGAGATGCC+TGG | 0.497171 | 3_4:-16050433 | Msa0492390:CDS |
| GAAATTCGAGTGGTGCCTCC+TGG | 0.516148 | 3_4:-16050406 | Msa0492390:CDS |
| TCATTTGGCTGCTCCTGAGG+AGG | 0.525124 | 3_4:+16050972 | None:intergenic |
| ACCACTCGAATTTCAACTCC+AGG | 0.541025 | 3_4:+16050415 | None:intergenic |
| ACAAGGAACAAATCCTCCTC+AGG | 0.544834 | 3_4:-16050985 | Msa0492390:CDS |
| TCAACCAATTGTTGGAGCCC+TGG | 0.547441 | 3_4:+16050315 | None:intergenic |
| ACATTAGAACTCACTTGGCA+AGG | 0.548421 | 3_4:+16050947 | None:intergenic |
| TAGTTTGGTATTCATGGCAG+AGG | 0.551246 | 3_4:-16051018 | None:intergenic |
| ATGAATCTAATAAGGTCACC+AGG | 0.557287 | 3_4:-16050333 | Msa0492390:CDS |
| CATTAGAACTCACTTGGCAA+GGG | 0.564463 | 3_4:+16050948 | None:intergenic |
| AGAAGTTGGTCTGAGCTAGT+TGG | 0.565121 | 3_4:-16050481 | Msa0492390:CDS |
| ATAATCCTACGAGAAGAAGT+TGG | 0.577821 | 3_4:-16050495 | Msa0492390:CDS |
| TCAGCAGTAACAAAATAGCC+AGG | 0.584623 | 3_4:+16050388 | None:intergenic |
| TGTAATTTGAAGAATAAACA+AGG | 0.595208 | 3_4:-16050172 | Msa0492390:three_prime_UTR |
| TCAGACCAACTTCTTCTCGT+AGG | 0.624195 | 3_4:+16050490 | None:intergenic |
| AGATTTGGGTATAATGCTAG+AGG | 0.635650 | 3_4:-16050266 | Msa0492390:three_prime_UTR |
| GTAATTTGAAGAATAAACAA+GGG | 0.646457 | 3_4:-16050171 | Msa0492390:three_prime_UTR |
| TGAATCTAATAAGGTCACCA+GGG | 0.698547 | 3_4:-16050332 | Msa0492390:CDS |
| GCCTGGAGTTGAAATTCGAG+TGG | 0.708630 | 3_4:-16050416 | Msa0492390:CDS |
| TCACTGCAGAAGAAGCAGAG+AGG | 0.716587 | 3_4:-16050456 | Msa0492390:CDS |
| GCAGTAACAAAATAGCCAGG+AGG | 0.750368 | 3_4:+16050391 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATGATATTGAATATATATTT+TGG | - | chr3_4:16050573-16050592 | Msa0492390:intron | 10.0% |
| !!! | TTTTTAATTAGAATAAACAA+GGG | - | chr3_4:16050934-16050953 | Msa0492390:intron | 10.0% |
| !!! | ATGATATTGAATATATATTT+TGG | - | chr3_4:16050573-16050592 | Msa0492390:intron | 10.0% |
| !!! | TTTTTAATTAGAATAAACAA+GGG | - | chr3_4:16050934-16050953 | Msa0492390:intron | 10.0% |
| !! | CTAAATCTTATTGAATAATT+TGG | + | chr3_4:16050257-16050276 | None:intergenic | 15.0% |
| !! | AAAGAAATATTATGTTACTA+TGG | + | chr3_4:16050511-16050530 | None:intergenic | 15.0% |
| !!! | GTTTTTAATTAGAATAAACA+AGG | - | chr3_4:16050933-16050952 | Msa0492390:intron | 15.0% |
| !!! | TTTTAATTAGAATAAACAAG+GGG | - | chr3_4:16050935-16050954 | Msa0492390:intron | 15.0% |
| !! | CTAAATCTTATTGAATAATT+TGG | + | chr3_4:16050257-16050276 | None:intergenic | 15.0% |
| !! | AAAGAAATATTATGTTACTA+TGG | + | chr3_4:16050511-16050530 | None:intergenic | 15.0% |
| !!! | GTTTTTAATTAGAATAAACA+AGG | - | chr3_4:16050933-16050952 | Msa0492390:intron | 15.0% |
| !!! | TTTTAATTAGAATAAACAAG+GGG | - | chr3_4:16050935-16050954 | Msa0492390:intron | 15.0% |
| !! | TTAATGATTAAAAATTCACG+TGG | - | chr3_4:16050329-16050348 | Msa0492390:CDS | 20.0% |
| !! | AATATTGTTCAAATGAGATT+TGG | - | chr3_4:16050869-16050888 | Msa0492390:intron | 20.0% |
| !! | ATATTGTTCAAATGAGATTT+GGG | - | chr3_4:16050870-16050889 | Msa0492390:intron | 20.0% |
| !! | TGTAATTTGAAGAATAAACA+AGG | - | chr3_4:16050978-16050997 | Msa0492390:CDS | 20.0% |
| !! | GTAATTTGAAGAATAAACAA+GGG | - | chr3_4:16050979-16050998 | Msa0492390:CDS | 20.0% |
| !! | TTAATGATTAAAAATTCACG+TGG | - | chr3_4:16050329-16050348 | Msa0492390:CDS | 20.0% |
| !! | AATATTGTTCAAATGAGATT+TGG | - | chr3_4:16050869-16050888 | Msa0492390:intron | 20.0% |
| !! | ATATTGTTCAAATGAGATTT+GGG | - | chr3_4:16050870-16050889 | Msa0492390:intron | 20.0% |
| !! | TGTAATTTGAAGAATAAACA+AGG | - | chr3_4:16050978-16050997 | Msa0492390:CDS | 20.0% |
| !! | GTAATTTGAAGAATAAACAA+GGG | - | chr3_4:16050979-16050998 | Msa0492390:CDS | 20.0% |
| !!! | TCTAACTTTTATTTGACACA+CGG | - | chr3_4:16050481-16050500 | Msa0492390:CDS | 25.0% |
| !! | GTATGTTGATGAATCTAATA+AGG | - | chr3_4:16050809-16050828 | Msa0492390:intron | 25.0% |
| !!! | TCTAACTTTTATTTGACACA+CGG | - | chr3_4:16050481-16050500 | Msa0492390:CDS | 25.0% |
| !! | GTATGTTGATGAATCTAATA+AGG | - | chr3_4:16050809-16050828 | Msa0492390:intron | 25.0% |
| TAAAAATTCACGTGGATAAG+TGG | - | chr3_4:16050337-16050356 | Msa0492390:CDS | 30.0% | |
| AAAAATTCACGTGGATAAGT+GGG | - | chr3_4:16050338-16050357 | Msa0492390:CDS | 30.0% | |
| AACATACAATCGAACTCTTT+GGG | + | chr3_4:16050796-16050815 | None:intergenic | 30.0% | |
| TTGATGAATCAACCAATTGT+TGG | + | chr3_4:16050846-16050865 | None:intergenic | 30.0% | |
| TTAGAATAAACAAGGGGATT+TGG | - | chr3_4:16050941-16050960 | Msa0492390:intron | 30.0% | |
| TAGAATAAACAAGGGGATTT+GGG | - | chr3_4:16050942-16050961 | Msa0492390:intron | 30.0% | |
| TAAAAATTCACGTGGATAAG+TGG | - | chr3_4:16050337-16050356 | Msa0492390:CDS | 30.0% | |
| AAAAATTCACGTGGATAAGT+GGG | - | chr3_4:16050338-16050357 | Msa0492390:CDS | 30.0% | |
| AACATACAATCGAACTCTTT+GGG | + | chr3_4:16050796-16050815 | None:intergenic | 30.0% | |
| TTGATGAATCAACCAATTGT+TGG | + | chr3_4:16050846-16050865 | None:intergenic | 30.0% | |
| TTAGAATAAACAAGGGGATT+TGG | - | chr3_4:16050941-16050960 | Msa0492390:intron | 30.0% | |
| TAGAATAAACAAGGGGATTT+GGG | - | chr3_4:16050942-16050961 | Msa0492390:intron | 30.0% | |
| GAGAAACATTAGAACTCACT+TGG | + | chr3_4:16050211-16050230 | None:intergenic | 35.0% | |
| !! | CAAACACAAGACTGTCATTT+TGG | + | chr3_4:16050290-16050309 | None:intergenic | 35.0% |
| ACAACTCATTGCATGATCTA+GGG | + | chr3_4:16050379-16050398 | None:intergenic | 35.0% | |
| TACAACTCATTGCATGATCT+AGG | + | chr3_4:16050380-16050399 | None:intergenic | 35.0% | |
| GTCACTGTGTTATGATAAGT+TGG | + | chr3_4:16050535-16050554 | None:intergenic | 35.0% | |
| ATAATCCTACGAGAAGAAGT+TGG | - | chr3_4:16050655-16050674 | Msa0492390:intron | 35.0% | |
| AGAAGCAGAGAGGAAAATAA+AGG | - | chr3_4:16050704-16050723 | Msa0492390:intron | 35.0% | |
| AAAATAAAGGAAGAGATGCC+TGG | - | chr3_4:16050717-16050736 | Msa0492390:intron | 35.0% | |
| CAACATACAATCGAACTCTT+TGG | + | chr3_4:16050797-16050816 | None:intergenic | 35.0% | |
| ATGAATCTAATAAGGTCACC+AGG | - | chr3_4:16050817-16050836 | Msa0492390:intron | 35.0% | |
| TGAATCTAATAAGGTCACCA+GGG | - | chr3_4:16050818-16050837 | Msa0492390:intron | 35.0% | |
| AGATTTGGGTATAATGCTAG+AGG | - | chr3_4:16050884-16050903 | Msa0492390:intron | 35.0% | |
| !!! | GGGTTTTGTTGTGACATTTT+CGG | - | chr3_4:16050999-16051018 | Msa0492390:CDS | 35.0% |
| !!! | GGTTTTGTTGTGACATTTTC+GGG | - | chr3_4:16051000-16051019 | Msa0492390:CDS | 35.0% |
| GAGAAACATTAGAACTCACT+TGG | + | chr3_4:16050211-16050230 | None:intergenic | 35.0% | |
| !! | CAAACACAAGACTGTCATTT+TGG | + | chr3_4:16050290-16050309 | None:intergenic | 35.0% |
| ACAACTCATTGCATGATCTA+GGG | + | chr3_4:16050379-16050398 | None:intergenic | 35.0% | |
| TACAACTCATTGCATGATCT+AGG | + | chr3_4:16050380-16050399 | None:intergenic | 35.0% | |
| GTCACTGTGTTATGATAAGT+TGG | + | chr3_4:16050535-16050554 | None:intergenic | 35.0% | |
| ATAATCCTACGAGAAGAAGT+TGG | - | chr3_4:16050655-16050674 | Msa0492390:intron | 35.0% | |
| AGAAGCAGAGAGGAAAATAA+AGG | - | chr3_4:16050704-16050723 | Msa0492390:intron | 35.0% | |
| AAAATAAAGGAAGAGATGCC+TGG | - | chr3_4:16050717-16050736 | Msa0492390:intron | 35.0% | |
| CAACATACAATCGAACTCTT+TGG | + | chr3_4:16050797-16050816 | None:intergenic | 35.0% | |
| ATGAATCTAATAAGGTCACC+AGG | - | chr3_4:16050817-16050836 | Msa0492390:intron | 35.0% | |
| TGAATCTAATAAGGTCACCA+GGG | - | chr3_4:16050818-16050837 | Msa0492390:intron | 35.0% | |
| AGATTTGGGTATAATGCTAG+AGG | - | chr3_4:16050884-16050903 | Msa0492390:intron | 35.0% | |
| !!! | GGGTTTTGTTGTGACATTTT+CGG | - | chr3_4:16050999-16051018 | Msa0492390:CDS | 35.0% |
| !!! | GGTTTTGTTGTGACATTTTC+GGG | - | chr3_4:16051000-16051019 | Msa0492390:CDS | 35.0% |
| CATTAGAACTCACTTGGCAA+GGG | + | chr3_4:16050205-16050224 | None:intergenic | 40.0% | |
| ACATTAGAACTCACTTGGCA+AGG | + | chr3_4:16050206-16050225 | None:intergenic | 40.0% | |
| TCAGCAGTAACAAAATAGCC+AGG | + | chr3_4:16050765-16050784 | None:intergenic | 40.0% | |
| CATTAGAACTCACTTGGCAA+GGG | + | chr3_4:16050205-16050224 | None:intergenic | 40.0% | |
| ACATTAGAACTCACTTGGCA+AGG | + | chr3_4:16050206-16050225 | None:intergenic | 40.0% | |
| TCAGCAGTAACAAAATAGCC+AGG | + | chr3_4:16050765-16050784 | None:intergenic | 40.0% | |
| GCAGAGGAAAAACAAGGACA+AGG | - | chr3_4:16050148-16050167 | Msa0492390:three_prime_UTR | 45.0% | |
| ACAAGGAACAAATCCTCCTC+AGG | - | chr3_4:16050165-16050184 | Msa0492390:three_prime_UTR | 45.0% | |
| TCACTTGGCAAGGGTTCATT+TGG | + | chr3_4:16050196-16050215 | None:intergenic | 45.0% | |
| TCAGACCAACTTCTTCTCGT+AGG | + | chr3_4:16050663-16050682 | None:intergenic | 45.0% | |
| ! | AGAAGTTGGTCTGAGCTAGT+TGG | - | chr3_4:16050669-16050688 | Msa0492390:intron | 45.0% |
| ACCACTCGAATTTCAACTCC+AGG | + | chr3_4:16050738-16050757 | None:intergenic | 45.0% | |
| GCAGTAACAAAATAGCCAGG+AGG | + | chr3_4:16050762-16050781 | None:intergenic | 45.0% | |
| GCAGAGGAAAAACAAGGACA+AGG | - | chr3_4:16050148-16050167 | Msa0492390:three_prime_UTR | 45.0% | |
| ACAAGGAACAAATCCTCCTC+AGG | - | chr3_4:16050165-16050184 | Msa0492390:three_prime_UTR | 45.0% | |
| TCACTTGGCAAGGGTTCATT+TGG | + | chr3_4:16050196-16050215 | None:intergenic | 45.0% | |
| TCAGACCAACTTCTTCTCGT+AGG | + | chr3_4:16050663-16050682 | None:intergenic | 45.0% | |
| ! | AGAAGTTGGTCTGAGCTAGT+TGG | - | chr3_4:16050669-16050688 | Msa0492390:intron | 45.0% |
| ACCACTCGAATTTCAACTCC+AGG | + | chr3_4:16050738-16050757 | None:intergenic | 45.0% | |
| GCAGTAACAAAATAGCCAGG+AGG | + | chr3_4:16050762-16050781 | None:intergenic | 45.0% | |
| !! | AAAATTAAATAATTTATTTC+AGG | - | chr3_4:16050627-16050646 | Msa0492390:intron | 5.0% |
| !! | AAATTAAATAATTTATTTCA+GGG | - | chr3_4:16050628-16050647 | Msa0492390:intron | 5.0% |
| !! | AAAATTAAATAATTTATTTC+AGG | - | chr3_4:16050627-16050646 | Msa0492390:intron | 5.0% |
| !! | AAATTAAATAATTTATTTCA+GGG | - | chr3_4:16050628-16050647 | Msa0492390:intron | 5.0% |
| TCACTGCAGAAGAAGCAGAG+AGG | - | chr3_4:16050694-16050713 | Msa0492390:intron | 50.0% | |
| GCCTGGAGTTGAAATTCGAG+TGG | - | chr3_4:16050734-16050753 | Msa0492390:intron | 50.0% | |
| TCAACCAATTGTTGGAGCCC+TGG | + | chr3_4:16050838-16050857 | None:intergenic | 50.0% | |
| TCACTGCAGAAGAAGCAGAG+AGG | - | chr3_4:16050694-16050713 | Msa0492390:intron | 50.0% | |
| GCCTGGAGTTGAAATTCGAG+TGG | - | chr3_4:16050734-16050753 | Msa0492390:intron | 50.0% | |
| TCAACCAATTGTTGGAGCCC+TGG | + | chr3_4:16050838-16050857 | None:intergenic | 50.0% | |
| TCATTTGGCTGCTCCTGAGG+AGG | + | chr3_4:16050181-16050200 | None:intergenic | 55.0% | |
| GGTTCATTTGGCTGCTCCTG+AGG | + | chr3_4:16050184-16050203 | None:intergenic | 55.0% | |
| GAAATTCGAGTGGTGCCTCC+TGG | - | chr3_4:16050744-16050763 | Msa0492390:intron | 55.0% | |
| GTCACCAGGGCTCCAACAAT+TGG | - | chr3_4:16050831-16050850 | Msa0492390:intron | 55.0% | |
| TCATTTGGCTGCTCCTGAGG+AGG | + | chr3_4:16050181-16050200 | None:intergenic | 55.0% | |
| GGTTCATTTGGCTGCTCCTG+AGG | + | chr3_4:16050184-16050203 | None:intergenic | 55.0% | |
| GAAATTCGAGTGGTGCCTCC+TGG | - | chr3_4:16050744-16050763 | Msa0492390:intron | 55.0% | |
| GTCACCAGGGCTCCAACAAT+TGG | - | chr3_4:16050831-16050850 | Msa0492390:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 16050145 | 16051027 | 16050145 | ID=Msa0492390;Name=Msa0492390 |
| chr3_4 | mRNA | 16050145 | 16051027 | 16050145 | ID=Msa0492390-mRNA-1;Parent=Msa0492390;Name=Msa0492390-mRNA-1;_AED=0.02;_eAED=0.02;_QI=0|1|0.5|1|1|1|2|170|91 |
| chr3_4 | exon | 16050145 | 16050523 | 16050145 | ID=Msa0492390-mRNA-1:exon:4622;Parent=Msa0492390-mRNA-1 |
| chr3_4 | exon | 16050961 | 16051027 | 16050961 | ID=Msa0492390-mRNA-1:exon:4621;Parent=Msa0492390-mRNA-1 |
| chr3_4 | CDS | 16050961 | 16051027 | 16050961 | ID=Msa0492390-mRNA-1:cds;Parent=Msa0492390-mRNA-1 |
| chr3_4 | CDS | 16050315 | 16050523 | 16050315 | ID=Msa0492390-mRNA-1:cds;Parent=Msa0492390-mRNA-1 |
| chr3_4 | three_prime_UTR | 16050145 | 16050314 | 16050145 | ID=Msa0492390-mRNA-1:three_prime_utr;Parent=Msa0492390-mRNA-1 |
| Gene Sequence |
| Protein sequence |
