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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0808110 | GAU44054.1 | 62.205 | 127 | 45 | 2 | 2 | 125 | 126 | 252 | 7.06e-44 | 154 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0808110 | sp|Q9LVU8|RKD4_ARATH | 49.020 | 102 | 50 | 1 | 21 | 120 | 148 | 249 | 1.88e-25 | 99.4 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0808110 | A0A2Z6NHY1 | 62.205 | 127 | 45 | 2 | 2 | 125 | 126 | 252 | 3.37e-44 | 154 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0808110 | TF | RWP-RK |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0808110 | Msa1100980 | 0.805676 | 1.189813e-49 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0808110 | MtrunA17_Chr3g0127001 | 62.931 | 116 | 41 | 1 | 11 | 124 | 144 | 259 | 2.67e-44 | 145 |
| Msa0808110 | MtrunA17_Chr1g0182631 | 57.600 | 125 | 49 | 2 | 4 | 124 | 108 | 232 | 5.29e-42 | 138 |
| Msa0808110 | MtrunA17_Chr4g0060761 | 45.794 | 107 | 47 | 2 | 26 | 121 | 160 | 266 | 2.28e-25 | 96.7 |
| Msa0808110 | MtrunA17_Chr3g0092141 | 43.269 | 104 | 51 | 2 | 26 | 121 | 64 | 167 | 3.37e-22 | 86.7 |
| Msa0808110 | MtrunA17_Chr5g0406901 | 31.250 | 112 | 64 | 1 | 21 | 119 | 201 | 312 | 4.50e-14 | 67.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0808110 | AT5G53040.1 | 49.020 | 102 | 50 | 1 | 21 | 120 | 148 | 249 | 1.91e-26 | 99.4 |
| Msa0808110 | AT5G66990.1 | 43.243 | 111 | 50 | 2 | 26 | 123 | 164 | 274 | 3.76e-23 | 91.3 |
| Msa0808110 | AT1G18790.1 | 41.176 | 119 | 58 | 3 | 18 | 124 | 125 | 243 | 1.19e-21 | 87.0 |
| Msa0808110 | AT1G74480.1 | 38.261 | 115 | 60 | 2 | 11 | 114 | 124 | 238 | 4.52e-21 | 86.3 |
| Msa0808110 | AT4G35590.1 | 32.812 | 128 | 66 | 3 | 14 | 123 | 230 | 355 | 1.00e-13 | 66.6 |
| Msa0808110 | AT4G35590.2 | 32.812 | 128 | 66 | 3 | 14 | 123 | 180 | 305 | 1.07e-13 | 66.2 |
Find 31 sgRNAs with CRISPR-Local
Find 104 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GTCACTCATAAACGACTTTA+AGG | 0.218317 | 5_3:+31870455 | Msa0808110:CDS |
| CATTGCCTCCGACTAGCTTT+AGG | 0.278609 | 5_3:+31870268 | Msa0808110:CDS |
| GTTTGTTTGATACAGGAATT+AGG | 0.292311 | 5_3:+31870797 | Msa0808110:intron |
| CAACCCAACATTCATATTCT+TGG | 0.318517 | 5_3:-31870361 | None:intergenic |
| ATTTCATCAAATTGCAAAGT+TGG | 0.372670 | 5_3:-31870303 | None:intergenic |
| TTTGATACAGGAATTAGGTT+TGG | 0.375313 | 5_3:+31870802 | Msa0808110:intron |
| AAGATGCTGGAGGAATTTCC+TGG | 0.410842 | 5_3:+31870857 | Msa0808110:CDS |
| TTCACATCTTTCTTACTAGT+AGG | 0.449650 | 5_3:-31870204 | None:intergenic |
| CTAGTCGGAGGCAATGTTGA+TGG | 0.469356 | 5_3:-31870261 | None:intergenic |
| GGAGGCAATGTTGATGGCGT+TGG | 0.509712 | 5_3:-31870255 | None:intergenic |
| AGATGTGAAGAAAGAAGAAG+CGG | 0.509863 | 5_3:+31870218 | Msa0808110:five_prime_UTR |
| CGACTAGCTTTAGGAGGAAG+AGG | 0.518880 | 5_3:+31870277 | Msa0808110:CDS |
| CTGCCAAGAATATGAATGTT+GGG | 0.524405 | 5_3:+31870358 | Msa0808110:CDS |
| ACGATGAGTTCGAGAAACTA+AGG | 0.525507 | 5_3:+31870891 | Msa0808110:CDS |
| TCATCGTTCAATTCCATCCC+AGG | 0.546218 | 5_3:-31870875 | None:intergenic |
| GCTGCCAAGAATATGAATGT+TGG | 0.548797 | 5_3:+31870357 | Msa0808110:CDS |
| GTGAAGAAGTTCAACGATGG+AGG | 0.550347 | 5_3:-31870952 | None:intergenic |
| AGTCGTTTATGAGTGACCTC+AGG | 0.551618 | 5_3:-31870449 | None:intergenic |
| TAGATAAGTCAAGAAAGAAG+AGG | 0.555935 | 5_3:+31870161 | Msa0808110:five_prime_UTR |
| GCTGGAGGAATTTCCTGGGA+TGG | 0.564591 | 5_3:+31870862 | Msa0808110:CDS |
| ATTCATATTCTTGGCAGCTG+TGG | 0.570868 | 5_3:-31870352 | None:intergenic |
| ATAAGTCAAGAAAGAAGAGG+AGG | 0.579690 | 5_3:+31870164 | Msa0808110:five_prime_UTR |
| CTCTTCCTCCTAAAGCTAGT+CGG | 0.580045 | 5_3:-31870276 | None:intergenic |
| TGCCTCCGACTAGCTTTAGG+AGG | 0.582463 | 5_3:+31870271 | Msa0808110:CDS |
| AGATGCTGGAGGAATTTCCT+GGG | 0.585900 | 5_3:+31870858 | Msa0808110:CDS |
| TTCTTGGCAGCTGTGGTCTG+AGG | 0.604130 | 5_3:-31870345 | None:intergenic |
| ATAGAAAATTTAAGAGCCTG+AGG | 0.606382 | 5_3:+31870433 | Msa0808110:CDS |
| TGAAGAAGTTCAACGATGGA+GGG | 0.613260 | 5_3:-31870951 | None:intergenic |
| AGGAGCTCAAAATAACAAAG+TGG | 0.664945 | 5_3:+31870406 | Msa0808110:CDS |
| TTCCTCCTAAAGCTAGTCGG+AGG | 0.684484 | 5_3:-31870273 | None:intergenic |
| ATGGTGAAGAAGTTCAACGA+TGG | 0.684820 | 5_3:-31870955 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTCTTATGTTGTTTGATTA+TGG | + | chr5_3:31870485-31870504 | Msa0808110:intron | 20.0% |
| !! | GCTTAAAAGTTAAAAATGTT+AGG | - | chr5_3:31870517-31870536 | None:intergenic | 20.0% |
| !!! | ATTCTTATGTTGTTTGATTA+TGG | + | chr5_3:31870485-31870504 | Msa0808110:intron | 20.0% |
| !! | GCTTAAAAGTTAAAAATGTT+AGG | - | chr5_3:31870517-31870536 | None:intergenic | 20.0% |
| ! | ATTTCATCAAATTGCAAAGT+TGG | - | chr5_3:31870306-31870325 | None:intergenic | 25.0% |
| !! | AGGCTCTTAAATTTTCTATA+AGG | - | chr5_3:31870432-31870451 | None:intergenic | 25.0% |
| ! | TCAATTGACAACAAAATAGA+TGG | - | chr5_3:31870559-31870578 | None:intergenic | 25.0% |
| !! | ATGCCATAATTGTTTTCAAT+TGG | + | chr5_3:31870640-31870659 | Msa0808110:intron | 25.0% |
| ! | ATTTCATCAAATTGCAAAGT+TGG | - | chr5_3:31870306-31870325 | None:intergenic | 25.0% |
| !! | AGGCTCTTAAATTTTCTATA+AGG | - | chr5_3:31870432-31870451 | None:intergenic | 25.0% |
| ! | TCAATTGACAACAAAATAGA+TGG | - | chr5_3:31870559-31870578 | None:intergenic | 25.0% |
| !! | ATGCCATAATTGTTTTCAAT+TGG | + | chr5_3:31870640-31870659 | Msa0808110:intron | 25.0% |
| TAGATAAGTCAAGAAAGAAG+AGG | + | chr5_3:31870161-31870180 | Msa0808110:five_prime_UTR | 30.0% | |
| TTCACATCTTTCTTACTAGT+AGG | - | chr5_3:31870207-31870226 | None:intergenic | 30.0% | |
| ATAGAAAATTTAAGAGCCTG+AGG | + | chr5_3:31870433-31870452 | Msa0808110:CDS | 30.0% | |
| TGTTGTCAATTGAGCAATTT+AGG | + | chr5_3:31870566-31870585 | Msa0808110:intron | 30.0% | |
| CTACAAAGAAAAAATGAGCT+AGG | - | chr5_3:31870707-31870726 | None:intergenic | 30.0% | |
| !!! | TTCTGTAGCATTTTGAGTTA+TGG | + | chr5_3:31870745-31870764 | Msa0808110:intron | 30.0% |
| TTGAGTTATGGAATGATCAA+CGG | + | chr5_3:31870757-31870776 | Msa0808110:intron | 30.0% | |
| ! | ATCAACGGTTTCAAAGTATT+TGG | + | chr5_3:31870772-31870791 | Msa0808110:intron | 30.0% |
| TTTGGTTGTTTGTTTGATAC+AGG | + | chr5_3:31870790-31870809 | Msa0808110:intron | 30.0% | |
| GTTTGTTTGATACAGGAATT+AGG | + | chr5_3:31870797-31870816 | Msa0808110:intron | 30.0% | |
| TTTGATACAGGAATTAGGTT+TGG | + | chr5_3:31870802-31870821 | Msa0808110:intron | 30.0% | |
| TAGATAAGTCAAGAAAGAAG+AGG | + | chr5_3:31870161-31870180 | Msa0808110:five_prime_UTR | 30.0% | |
| TTCACATCTTTCTTACTAGT+AGG | - | chr5_3:31870207-31870226 | None:intergenic | 30.0% | |
| ATAGAAAATTTAAGAGCCTG+AGG | + | chr5_3:31870433-31870452 | Msa0808110:CDS | 30.0% | |
| TGTTGTCAATTGAGCAATTT+AGG | + | chr5_3:31870566-31870585 | Msa0808110:intron | 30.0% | |
| CTACAAAGAAAAAATGAGCT+AGG | - | chr5_3:31870707-31870726 | None:intergenic | 30.0% | |
| !!! | TTCTGTAGCATTTTGAGTTA+TGG | + | chr5_3:31870745-31870764 | Msa0808110:intron | 30.0% |
| TTGAGTTATGGAATGATCAA+CGG | + | chr5_3:31870757-31870776 | Msa0808110:intron | 30.0% | |
| ! | ATCAACGGTTTCAAAGTATT+TGG | + | chr5_3:31870772-31870791 | Msa0808110:intron | 30.0% |
| TTTGGTTGTTTGTTTGATAC+AGG | + | chr5_3:31870790-31870809 | Msa0808110:intron | 30.0% | |
| GTTTGTTTGATACAGGAATT+AGG | + | chr5_3:31870797-31870816 | Msa0808110:intron | 30.0% | |
| TTTGATACAGGAATTAGGTT+TGG | + | chr5_3:31870802-31870821 | Msa0808110:intron | 30.0% | |
| ATAAGTCAAGAAAGAAGAGG+AGG | + | chr5_3:31870164-31870183 | Msa0808110:five_prime_UTR | 35.0% | |
| AGATGTGAAGAAAGAAGAAG+CGG | + | chr5_3:31870218-31870237 | Msa0808110:five_prime_UTR | 35.0% | |
| CTGCCAAGAATATGAATGTT+GGG | + | chr5_3:31870358-31870377 | Msa0808110:CDS | 35.0% | |
| CAACCCAACATTCATATTCT+TGG | - | chr5_3:31870364-31870383 | None:intergenic | 35.0% | |
| AGGAGCTCAAAATAACAAAG+TGG | + | chr5_3:31870406-31870425 | Msa0808110:CDS | 35.0% | |
| GTCACTCATAAACGACTTTA+AGG | + | chr5_3:31870455-31870474 | Msa0808110:CDS | 35.0% | |
| GCGCCAATTGAAAACAATTA+TGG | - | chr5_3:31870646-31870665 | None:intergenic | 35.0% | |
| GGAATTAGGTTTGGAAAAAG+AGG | + | chr5_3:31870811-31870830 | Msa0808110:intron | 35.0% | |
| ATAAGTCAAGAAAGAAGAGG+AGG | + | chr5_3:31870164-31870183 | Msa0808110:five_prime_UTR | 35.0% | |
| AGATGTGAAGAAAGAAGAAG+CGG | + | chr5_3:31870218-31870237 | Msa0808110:five_prime_UTR | 35.0% | |
| CTGCCAAGAATATGAATGTT+GGG | + | chr5_3:31870358-31870377 | Msa0808110:CDS | 35.0% | |
| CAACCCAACATTCATATTCT+TGG | - | chr5_3:31870364-31870383 | None:intergenic | 35.0% | |
| AGGAGCTCAAAATAACAAAG+TGG | + | chr5_3:31870406-31870425 | Msa0808110:CDS | 35.0% | |
| GTCACTCATAAACGACTTTA+AGG | + | chr5_3:31870455-31870474 | Msa0808110:CDS | 35.0% | |
| GCGCCAATTGAAAACAATTA+TGG | - | chr5_3:31870646-31870665 | None:intergenic | 35.0% | |
| GGAATTAGGTTTGGAAAAAG+AGG | + | chr5_3:31870811-31870830 | Msa0808110:intron | 35.0% | |
| ATTCATATTCTTGGCAGCTG+TGG | - | chr5_3:31870355-31870374 | None:intergenic | 40.0% | |
| GCTGCCAAGAATATGAATGT+TGG | + | chr5_3:31870357-31870376 | Msa0808110:CDS | 40.0% | |
| ! | CTTGCACCTTTTCCTCAAAA+GGG | - | chr5_3:31870388-31870407 | None:intergenic | 40.0% |
| ATCTTGTACCAGTGCTTACT+TGG | + | chr5_3:31870666-31870685 | Msa0808110:intron | 40.0% | |
| GGAGAAGCAAAAAAAGATGC+TGG | + | chr5_3:31870844-31870863 | Msa0808110:CDS | 40.0% | |
| GAAGCAAAAAAAGATGCTGG+AGG | + | chr5_3:31870847-31870866 | Msa0808110:CDS | 40.0% | |
| ACGATGAGTTCGAGAAACTA+AGG | + | chr5_3:31870891-31870910 | Msa0808110:CDS | 40.0% | |
| ATTCATATTCTTGGCAGCTG+TGG | - | chr5_3:31870355-31870374 | None:intergenic | 40.0% | |
| GCTGCCAAGAATATGAATGT+TGG | + | chr5_3:31870357-31870376 | Msa0808110:CDS | 40.0% | |
| ! | CTTGCACCTTTTCCTCAAAA+GGG | - | chr5_3:31870388-31870407 | None:intergenic | 40.0% |
| ATCTTGTACCAGTGCTTACT+TGG | + | chr5_3:31870666-31870685 | Msa0808110:intron | 40.0% | |
| GGAGAAGCAAAAAAAGATGC+TGG | + | chr5_3:31870844-31870863 | Msa0808110:CDS | 40.0% | |
| GAAGCAAAAAAAGATGCTGG+AGG | + | chr5_3:31870847-31870866 | Msa0808110:CDS | 40.0% | |
| ACGATGAGTTCGAGAAACTA+AGG | + | chr5_3:31870891-31870910 | Msa0808110:CDS | 40.0% | |
| CTCTTCCTCCTAAAGCTAGT+CGG | - | chr5_3:31870279-31870298 | None:intergenic | 45.0% | |
| !!! | ATGTTGGGTTGACCCTTTTG+AGG | + | chr5_3:31870373-31870392 | Msa0808110:CDS | 45.0% |
| !! | GGTTGACCCTTTTGAGGAAA+AGG | + | chr5_3:31870379-31870398 | Msa0808110:CDS | 45.0% |
| ! | CCTTGCACCTTTTCCTCAAA+AGG | - | chr5_3:31870389-31870408 | None:intergenic | 45.0% |
| !! | CCTTTTGAGGAAAAGGTGCA+AGG | + | chr5_3:31870386-31870405 | Msa0808110:CDS | 45.0% |
| AGTCGTTTATGAGTGACCTC+AGG | - | chr5_3:31870452-31870471 | None:intergenic | 45.0% | |
| TACCAGTGCTTACTTGGTAG+CGG | + | chr5_3:31870672-31870691 | Msa0808110:intron | 45.0% | |
| GGAAAAAGAGGTTGCTACGT+TGG | + | chr5_3:31870823-31870842 | Msa0808110:CDS | 45.0% | |
| AAGATGCTGGAGGAATTTCC+TGG | + | chr5_3:31870857-31870876 | Msa0808110:CDS | 45.0% | |
| AGATGCTGGAGGAATTTCCT+GGG | + | chr5_3:31870858-31870877 | Msa0808110:CDS | 45.0% | |
| TCATCGTTCAATTCCATCCC+AGG | - | chr5_3:31870878-31870897 | None:intergenic | 45.0% | |
| CTCTTCCTCCTAAAGCTAGT+CGG | - | chr5_3:31870279-31870298 | None:intergenic | 45.0% | |
| !!! | ATGTTGGGTTGACCCTTTTG+AGG | + | chr5_3:31870373-31870392 | Msa0808110:CDS | 45.0% |
| !! | GGTTGACCCTTTTGAGGAAA+AGG | + | chr5_3:31870379-31870398 | Msa0808110:CDS | 45.0% |
| ! | CCTTGCACCTTTTCCTCAAA+AGG | - | chr5_3:31870389-31870408 | None:intergenic | 45.0% |
| !! | CCTTTTGAGGAAAAGGTGCA+AGG | + | chr5_3:31870386-31870405 | Msa0808110:CDS | 45.0% |
| AGTCGTTTATGAGTGACCTC+AGG | - | chr5_3:31870452-31870471 | None:intergenic | 45.0% | |
| TACCAGTGCTTACTTGGTAG+CGG | + | chr5_3:31870672-31870691 | Msa0808110:intron | 45.0% | |
| GGAAAAAGAGGTTGCTACGT+TGG | + | chr5_3:31870823-31870842 | Msa0808110:CDS | 45.0% | |
| AAGATGCTGGAGGAATTTCC+TGG | + | chr5_3:31870857-31870876 | Msa0808110:CDS | 45.0% | |
| AGATGCTGGAGGAATTTCCT+GGG | + | chr5_3:31870858-31870877 | Msa0808110:CDS | 45.0% | |
| TCATCGTTCAATTCCATCCC+AGG | - | chr5_3:31870878-31870897 | None:intergenic | 45.0% | |
| CTAGTCGGAGGCAATGTTGA+TGG | - | chr5_3:31870264-31870283 | None:intergenic | 50.0% | |
| !! | CATTGCCTCCGACTAGCTTT+AGG | + | chr5_3:31870268-31870287 | Msa0808110:CDS | 50.0% |
| TTCCTCCTAAAGCTAGTCGG+AGG | - | chr5_3:31870276-31870295 | None:intergenic | 50.0% | |
| !! | CGACTAGCTTTAGGAGGAAG+AGG | + | chr5_3:31870277-31870296 | Msa0808110:CDS | 50.0% |
| ATCCGCTACCAAGTAAGCAC+TGG | - | chr5_3:31870677-31870696 | None:intergenic | 50.0% | |
| CTAGTCGGAGGCAATGTTGA+TGG | - | chr5_3:31870264-31870283 | None:intergenic | 50.0% | |
| !! | CATTGCCTCCGACTAGCTTT+AGG | + | chr5_3:31870268-31870287 | Msa0808110:CDS | 50.0% |
| TTCCTCCTAAAGCTAGTCGG+AGG | - | chr5_3:31870276-31870295 | None:intergenic | 50.0% | |
| !! | CGACTAGCTTTAGGAGGAAG+AGG | + | chr5_3:31870277-31870296 | Msa0808110:CDS | 50.0% |
| ATCCGCTACCAAGTAAGCAC+TGG | - | chr5_3:31870677-31870696 | None:intergenic | 50.0% | |
| !! | GGAGGCAATGTTGATGGCGT+TGG | - | chr5_3:31870258-31870277 | None:intergenic | 55.0% |
| !! | TGCCTCCGACTAGCTTTAGG+AGG | + | chr5_3:31870271-31870290 | Msa0808110:CDS | 55.0% |
| TTCTTGGCAGCTGTGGTCTG+AGG | - | chr5_3:31870348-31870367 | None:intergenic | 55.0% | |
| GCTGGAGGAATTTCCTGGGA+TGG | + | chr5_3:31870862-31870881 | Msa0808110:CDS | 55.0% | |
| !! | GGAGGCAATGTTGATGGCGT+TGG | - | chr5_3:31870258-31870277 | None:intergenic | 55.0% |
| !! | TGCCTCCGACTAGCTTTAGG+AGG | + | chr5_3:31870271-31870290 | Msa0808110:CDS | 55.0% |
| TTCTTGGCAGCTGTGGTCTG+AGG | - | chr5_3:31870348-31870367 | None:intergenic | 55.0% | |
| GCTGGAGGAATTTCCTGGGA+TGG | + | chr5_3:31870862-31870881 | Msa0808110:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_3 | gene | 31870148 | 31870964 | 31870148 | ID=Msa0808110;Name=Msa0808110 |
| chr5_3 | mRNA | 31870148 | 31870964 | 31870148 | ID=Msa0808110-mRNA-1;Parent=Msa0808110;Name=Msa0808110-mRNA-1;_AED=0.03;_eAED=0.03;_QI=101|1|0.5|1|1|1|2|0|126 |
| chr5_3 | exon | 31870148 | 31870476 | 31870148 | ID=Msa0808110-mRNA-1:exon:10510;Parent=Msa0808110-mRNA-1 |
| chr5_3 | exon | 31870812 | 31870964 | 31870812 | ID=Msa0808110-mRNA-1:exon:10511;Parent=Msa0808110-mRNA-1 |
| chr5_3 | five_prime_UTR | 31870148 | 31870248 | 31870148 | ID=Msa0808110-mRNA-1:five_prime_utr;Parent=Msa0808110-mRNA-1 |
| chr5_3 | CDS | 31870249 | 31870476 | 31870249 | ID=Msa0808110-mRNA-1:cds;Parent=Msa0808110-mRNA-1 |
| chr5_3 | CDS | 31870812 | 31870964 | 31870812 | ID=Msa0808110-mRNA-1:cds;Parent=Msa0808110-mRNA-1 |
| Gene Sequence |
| Protein sequence |
