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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1074640 | XP_039683647.1 | 97.638 | 127 | 3 | 0 | 1 | 127 | 332 | 458 | 1.48e-83 | 261 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1074640 | sp|Q9LZV3|MAN6_ARATH | 61.240 | 129 | 48 | 1 | 1 | 127 | 320 | 448 | 3.80e-56 | 183 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1074640 | A0A396H2J1 | 97.638 | 127 | 3 | 0 | 1 | 127 | 332 | 458 | 7.06e-84 | 261 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa1074640 | Msa1111690 | 0.832125 | 1.130147e-55 | -8.615850e-47 |
| Msa1074640 | Msa1364630 | 0.803317 | 3.693320e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1074640 | MtrunA17_Chr7g0245051 | 97.638 | 127 | 3 | 0 | 1 | 127 | 332 | 458 | 1.36e-87 | 261 |
| Msa1074640 | MtrunA17_Chr7g0245101 | 97.638 | 127 | 3 | 0 | 1 | 127 | 333 | 459 | 2.78e-86 | 258 |
| Msa1074640 | MtrunA17_Chr8g0334501 | 81.746 | 126 | 23 | 0 | 1 | 126 | 335 | 460 | 1.88e-73 | 225 |
| Msa1074640 | MtrunA17_Chr4g0020521 | 42.857 | 105 | 60 | 0 | 3 | 107 | 306 | 410 | 3.38e-26 | 100 |
| Msa1074640 | MtrunA17_Chr5g0404601 | 40.367 | 109 | 65 | 0 | 1 | 109 | 303 | 411 | 1.03e-23 | 94.4 |
| Msa1074640 | MtrunA17_Chr3g0141751 | 42.424 | 99 | 55 | 1 | 1 | 97 | 293 | 391 | 2.16e-23 | 93.2 |
| Msa1074640 | MtrunA17_Chr1g0193531 | 42.857 | 98 | 56 | 0 | 1 | 98 | 299 | 396 | 3.55e-23 | 92.8 |
| Msa1074640 | MtrunA17_Chr1g0193541 | 39.583 | 96 | 58 | 0 | 3 | 98 | 271 | 366 | 8.01e-22 | 89.0 |
| Msa1074640 | MtrunA17_Chr1g0193611 | 37.755 | 98 | 61 | 0 | 1 | 98 | 303 | 400 | 1.54e-21 | 88.2 |
| Msa1074640 | MtrunA17_Chr1g0193551 | 41.837 | 98 | 57 | 0 | 1 | 98 | 304 | 401 | 1.61e-21 | 88.2 |
| Msa1074640 | MtrunA17_Chr1g0193601 | 37.755 | 98 | 61 | 0 | 1 | 98 | 303 | 400 | 6.26e-21 | 86.7 |
| Msa1074640 | MtrunA17_Chr7g0271511 | 35.789 | 95 | 61 | 0 | 4 | 98 | 332 | 426 | 3.01e-19 | 82.0 |
| Msa1074640 | MtrunA17_Chr2g0324441 | 36.735 | 98 | 62 | 0 | 1 | 98 | 316 | 413 | 1.51e-16 | 74.3 |
| Msa1074640 | MtrunA17_Chr4g0040121 | 33.663 | 101 | 67 | 0 | 1 | 101 | 314 | 414 | 3.35e-12 | 62.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1074640 | AT5G01930.1 | 61.240 | 129 | 48 | 1 | 1 | 127 | 320 | 448 | 3.86e-57 | 183 |
| Msa1074640 | AT5G66460.1 | 44.037 | 109 | 61 | 0 | 1 | 109 | 301 | 409 | 3.76e-24 | 95.9 |
| Msa1074640 | AT3G10890.1 | 36.364 | 99 | 63 | 0 | 1 | 99 | 304 | 402 | 5.97e-20 | 84.3 |
| Msa1074640 | AT3G10900.1 | 38.000 | 100 | 62 | 0 | 1 | 100 | 303 | 402 | 8.52e-19 | 80.9 |
| Msa1074640 | AT4G28320.1 | 37.755 | 98 | 61 | 0 | 1 | 98 | 315 | 412 | 1.20e-18 | 80.9 |
| Msa1074640 | AT2G20680.1 | 38.776 | 98 | 60 | 0 | 1 | 98 | 316 | 413 | 6.44e-18 | 78.6 |
| Msa1074640 | AT1G02310.1 | 34.694 | 98 | 63 | 1 | 1 | 97 | 300 | 397 | 1.23e-14 | 69.3 |
| Msa1074640 | AT1G02310.2 | 34.694 | 98 | 63 | 1 | 1 | 97 | 320 | 417 | 1.35e-14 | 69.3 |
Find 29 sgRNAs with CRISPR-Local
Find 32 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTCCTTTCTTTGTGGAGTTC+AGG | 0.208252 | 7_2:+72544902 | Msa1074630:intron |
| TCCTGAAGGAACGGATAATA+TGG | 0.326511 | 7_2:-72544845 | Msa1074640:CDS |
| TCCACTCCCTCCTTTCTTTG+TGG | 0.336362 | 7_2:+72544894 | Msa1074630:intron |
| TCCATATTATCCGTTCCTTC+AGG | 0.368709 | 7_2:+72544844 | Msa1074630:intron |
| CTTACAACTCCAATTGCATC+TGG | 0.426201 | 7_2:+72544723 | Msa1074630:intron |
| AAGAAAGGAGGGAGTGGAGC+TGG | 0.438177 | 7_2:-72544889 | Msa1074640:CDS |
| GAGGATGCTGAAAAGTATCT+TGG | 0.444822 | 7_2:-72545024 | Msa1074640:CDS |
| CTATATGTTGAGTTGTAGCC+AGG | 0.468183 | 7_2:+72544958 | Msa1074630:intron |
| TGTGTTCTACCAGATGCAAT+TGG | 0.470041 | 7_2:-72544732 | Msa1074640:CDS |
| CAGGAAATACCTGCCACAAA+AGG | 0.479541 | 7_2:+72544863 | Msa1074630:intron |
| ATCCTGAACTCCACAAAGAA+AGG | 0.485690 | 7_2:-72544904 | Msa1074640:CDS |
| AAGGGTTACAATACTTGAAG+TGG | 0.512139 | 7_2:+72544786 | Msa1074630:intron |
| AAGCAAGCCTCGTGGATTGA+AGG | 0.524825 | 7_2:+72544767 | Msa1074630:intron |
| GGTGTATCATCCAAGGATCC+TGG | 0.525677 | 7_2:-72544976 | Msa1074640:CDS |
| TGAGTTTGGTGTATCATCCA+AGG | 0.526819 | 7_2:-72544983 | Msa1074640:CDS |
| TGAGTTGTAGCCAGGATCCT+TGG | 0.527284 | 7_2:+72544966 | Msa1074630:intron |
| TTGTAAGAAGAAGAAAATGT+TGG | 0.531641 | 7_2:-72544707 | Msa1074640:CDS |
| TCCACAAAGAAAGGAGGGAG+TGG | 0.557857 | 7_2:-72544895 | Msa1074640:CDS |
| AGCAAGCCTCGTGGATTGAA+GGG | 0.560648 | 7_2:+72544768 | Msa1074630:intron |
| TTGTGGCAGGTATTTCCTGA+AGG | 0.566518 | 7_2:-72544859 | Msa1074640:CDS |
| ATGGATGGATGCACACATAG+AGG | 0.593062 | 7_2:-72545043 | None:intergenic |
| CTGAACTCCACAAAGAAAGG+AGG | 0.603796 | 7_2:-72544901 | Msa1074640:CDS |
| GCAGGTATTTCCTGAAGGAA+CGG | 0.606073 | 7_2:-72544854 | Msa1074640:CDS |
| TGAACTCCACAAAGAAAGGA+GGG | 0.614896 | 7_2:-72544900 | Msa1074640:CDS |
| GTTACAATACTTGAAGTGGA+AGG | 0.619163 | 7_2:+72544790 | Msa1074630:intron |
| GGAACGGATAATATGGATGA+CGG | 0.623585 | 7_2:-72544838 | Msa1074640:CDS |
| ATTGCATCTGGTAGAACACA+AGG | 0.641862 | 7_2:+72544735 | Msa1074630:intron |
| GTTGAACAAAGCAAGCCTCG+TGG | 0.681133 | 7_2:+72544759 | Msa1074630:intron |
| TTGTAACCCTTCAATCCACG+AGG | 0.744151 | 7_2:-72544774 | Msa1074640:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ! | TTGTAAGAAGAAGAAAATGT+TGG | - | chr7_2:72545010-72545029 | Msa1074640:CDS | 25.0% |
| CCAAACTCAGAAAAAACAAC+TGG | + | chr7_2:72544723-72544742 | Msa1074630:intron | 35.0% | |
| !!! | CCAGTTGTTTTTTCTGAGTT+TGG | - | chr7_2:72544720-72544739 | Msa1074640:CDS | 35.0% |
| GTTACAATACTTGAAGTGGA+AGG | + | chr7_2:72544930-72544949 | Msa1074630:intron | 35.0% | |
| AAGGGTTACAATACTTGAAG+TGG | + | chr7_2:72544934-72544953 | Msa1074630:intron | 35.0% | |
| !! | GAGGATGCTGAAAAGTATCT+TGG | - | chr7_2:72544693-72544712 | Msa1074640:CDS | 40.0% |
| !! | TGAGTTTGGTGTATCATCCA+AGG | - | chr7_2:72544734-72544753 | Msa1074640:CDS | 40.0% |
| ! | CTATATGTTGAGTTGTAGCC+AGG | + | chr7_2:72544762-72544781 | Msa1074630:intron | 40.0% |
| ATCCTGAACTCCACAAAGAA+AGG | - | chr7_2:72544813-72544832 | Msa1074640:CDS | 40.0% | |
| TGAACTCCACAAAGAAAGGA+GGG | - | chr7_2:72544817-72544836 | Msa1074640:CDS | 40.0% | |
| TCCTGAAGGAACGGATAATA+TGG | - | chr7_2:72544872-72544891 | Msa1074640:CDS | 40.0% | |
| TCCATATTATCCGTTCCTTC+AGG | + | chr7_2:72544876-72544895 | Msa1074630:intron | 40.0% | |
| GGAACGGATAATATGGATGA+CGG | - | chr7_2:72544879-72544898 | Msa1074640:CDS | 40.0% | |
| ATTGCATCTGGTAGAACACA+AGG | + | chr7_2:72544985-72545004 | Msa1074630:intron | 40.0% | |
| TGTGTTCTACCAGATGCAAT+TGG | - | chr7_2:72544985-72545004 | Msa1074640:CDS | 40.0% | |
| CTTACAACTCCAATTGCATC+TGG | + | chr7_2:72544997-72545016 | Msa1074630:intron | 40.0% | |
| CTCCTTTCTTTGTGGAGTTC+AGG | + | chr7_2:72544818-72544837 | Msa1074630:intron | 45.0% | |
| CTGAACTCCACAAAGAAAGG+AGG | - | chr7_2:72544816-72544835 | Msa1074640:CDS | 45.0% | |
| CAGGAAATACCTGCCACAAA+AGG | + | chr7_2:72544857-72544876 | Msa1074630:intron | 45.0% | |
| TTGTGGCAGGTATTTCCTGA+AGG | - | chr7_2:72544858-72544877 | Msa1074640:CDS | 45.0% | |
| GCAGGTATTTCCTGAAGGAA+CGG | - | chr7_2:72544863-72544882 | Msa1074640:CDS | 45.0% | |
| TTGTAACCCTTCAATCCACG+AGG | - | chr7_2:72544943-72544962 | Msa1074640:CDS | 45.0% | |
| GGTGTATCATCCAAGGATCC+TGG | - | chr7_2:72544741-72544760 | Msa1074640:CDS | 50.0% | |
| TGAGTTGTAGCCAGGATCCT+TGG | + | chr7_2:72544754-72544773 | Msa1074630:intron | 50.0% | |
| TCCACAAAGAAAGGAGGGAG+TGG | - | chr7_2:72544822-72544841 | Msa1074640:CDS | 50.0% | |
| TCCACTCCCTCCTTTCTTTG+TGG | + | chr7_2:72544826-72544845 | Msa1074630:intron | 50.0% | |
| ! | AGCAAGCCTCGTGGATTGAA+GGG | + | chr7_2:72544952-72544971 | Msa1074630:intron | 50.0% |
| ! | AAGCAAGCCTCGTGGATTGA+AGG | + | chr7_2:72544953-72544972 | Msa1074630:intron | 50.0% |
| GTTGAACAAAGCAAGCCTCG+TGG | + | chr7_2:72544961-72544980 | Msa1074630:intron | 50.0% | |
| AAGAAAGGAGGGAGTGGAGC+TGG | - | chr7_2:72544828-72544847 | Msa1074640:CDS | 55.0% | |
| ! | GTGGAGCTGGAAGCCTTTTG+TGG | - | chr7_2:72544841-72544860 | Msa1074640:CDS | 55.0% |
| ! | AGCTGGAAGCCTTTTGTGGC+AGG | - | chr7_2:72544845-72544864 | Msa1074640:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_2 | gene | 72544678 | 72545061 | 72544678 | ID=Msa1074640;Name=Msa1074640 |
| chr7_2 | mRNA | 72544678 | 72545061 | 72544678 | ID=Msa1074640-mRNA-1;Parent=Msa1074640;Name=Msa1074640-mRNA-1;_AED=0.43;_eAED=0.44;_QI=0|-1|0|1|-1|1|1|0|127 |
| chr7_2 | exon | 72544678 | 72545061 | 72544678 | ID=Msa1074640-mRNA-1:exon:16760;Parent=Msa1074640-mRNA-1 |
| chr7_2 | CDS | 72544678 | 72545061 | 72544678 | ID=Msa1074640-mRNA-1:cds;Parent=Msa1074640-mRNA-1 |
| Gene Sequence |
| Protein sequence |
