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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0938340 | XP_003618655.1 | 87.449 | 486 | 61 | 0 | 1 | 486 | 1 | 486 | 0.0 | 886 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0938340 | sp|F8WKW1|UGT2_GARJA | 56.303 | 476 | 204 | 3 | 8 | 482 | 9 | 481 | 0.0 | 554 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0873010 | Msa0938340 | 0.839507 | 1.520920e-57 | -8.615850e-47 |
| Msa0873040 | Msa0938340 | 0.917103 | 7.978816e-86 | -8.615850e-47 |
| Msa0938300 | Msa0938340 | 0.803272 | 3.772533e-49 | -8.615850e-47 |
| Msa0938330 | Msa0938340 | 0.800928 | 1.144951e-48 | -8.615850e-47 |
| Msa0938340 | Msa0975560 | 0.825050 | 5.789426e-54 | -8.615850e-47 |
| Msa0938340 | Msa1144410 | 0.819004 | 1.458006e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0938340 | MtrunA17_Chr6g0454261 | 87.449 | 486 | 61 | 0 | 1 | 486 | 1 | 486 | 0.0 | 886 |
| Msa0938340 | MtrunA17_Chr6g0454141 | 82.851 | 484 | 83 | 0 | 1 | 484 | 1 | 484 | 0.0 | 845 |
| Msa0938340 | MtrunA17_Chr6g0452771 | 80.538 | 483 | 94 | 0 | 1 | 483 | 1 | 483 | 0.0 | 798 |
| Msa0938340 | MtrunA17_Chr6g0454151 | 79.296 | 483 | 98 | 1 | 1 | 483 | 1 | 481 | 0.0 | 778 |
| Msa0938340 | MtrunA17_Chr6g0453961 | 76.240 | 484 | 114 | 1 | 1 | 483 | 10 | 493 | 0.0 | 777 |
| Msa0938340 | MtrunA17_Chr6g0454191 | 76.495 | 485 | 113 | 1 | 1 | 484 | 1 | 485 | 0.0 | 764 |
| Msa0938340 | MtrunA17_Chr6g0454121 | 76.653 | 484 | 112 | 1 | 1 | 484 | 1 | 483 | 0.0 | 761 |
| Msa0938340 | MtrunA17_Chr6g0454131 | 77.019 | 483 | 110 | 1 | 1 | 483 | 1 | 482 | 0.0 | 759 |
| Msa0938340 | MtrunA17_Chr6g0454181 | 73.347 | 484 | 129 | 0 | 1 | 484 | 1 | 484 | 0.0 | 744 |
| Msa0938340 | MtrunA17_Chr6g0454331 | 72.557 | 481 | 130 | 1 | 8 | 486 | 5 | 485 | 0.0 | 738 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0938340 | AT1G22340.1 | 53.027 | 479 | 216 | 5 | 8 | 482 | 11 | 484 | 0.0 | 526 |
| Msa0938340 | AT1G22360.1 | 53.027 | 479 | 217 | 4 | 8 | 483 | 8 | 481 | 0.0 | 523 |
| Msa0938340 | AT1G22400.1 | 52.292 | 480 | 220 | 5 | 8 | 483 | 11 | 485 | 0.0 | 518 |
| Msa0938340 | AT1G22380.1 | 51.559 | 481 | 225 | 4 | 6 | 483 | 9 | 484 | 2.49e-180 | 514 |
| Msa0938340 | AT1G22370.2 | 53.445 | 479 | 210 | 5 | 8 | 483 | 11 | 479 | 8.82e-176 | 503 |
| Msa0938340 | AT1G22360.2 | 51.148 | 479 | 214 | 5 | 8 | 483 | 8 | 469 | 7.91e-174 | 497 |
| Msa0938340 | AT1G78270.1 | 48.218 | 477 | 237 | 6 | 8 | 480 | 11 | 481 | 2.77e-164 | 474 |
| Msa0938340 | AT1G22370.1 | 53.465 | 303 | 138 | 2 | 184 | 483 | 7 | 309 | 2.34e-109 | 327 |
| Msa0938340 | AT5G59590.1 | 36.907 | 485 | 258 | 14 | 1 | 476 | 1 | 446 | 2.03e-90 | 283 |
| Msa0938340 | AT5G59580.1 | 36.534 | 479 | 255 | 13 | 7 | 476 | 6 | 444 | 5.49e-90 | 282 |
Find 108 sgRNAs with CRISPR-Local
Find 266 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAAGAAGCTAATGGACCAA+TGG | 0.589223 | 6_3:+10111503 | None:intergenic |
| AAAGTCGGTGAAACCATCAA+AGG | 0.644046 | 6_3:+10112364 | None:intergenic |
| AAATCGATGCGAATGTAAAG+AGG | 0.526764 | 6_3:-10111011 | Msa0938340:CDS |
| AAATTTGAAGGGGAAAATAA+AGG | 0.439864 | 6_3:+10110653 | None:intergenic |
| AACTTTGAGACCATTCCTGA+TGG | 0.557993 | 6_3:-10112341 | Msa0938340:CDS |
| AAGAAGTAACATGCACTACA+TGG | 0.516155 | 6_3:+10112092 | None:intergenic |
| AAGATACTAAATGTCTTGAA+TGG | 0.490321 | 6_3:-10111425 | Msa0938340:CDS |
| AAGCTCTTAGAGTTTGCTTG+GGG | 0.622426 | 6_3:-10111333 | Msa0938340:CDS |
| AATAGTCAACTACCATTCAA+AGG | 0.564580 | 6_3:-10112038 | Msa0938340:intron |
| AATCGATGCGAATGTAAAGA+GGG | 0.650256 | 6_3:-10111010 | Msa0938340:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| ATCAATGCATTGTTGAAACT+AGG | - | chr6_3:10110652-10110671 | Msa0938340:three_prime_UTR | 30.0% | |
| AATGGTCTCAAAGTTAAAGT+CGG | + | chr6_3:10110782-10110801 | None:intergenic | 30.0% | |
| CAAGAAGTTTATCAAAGAAG+TGG | + | chr6_3:10110891-10110910 | None:intergenic | 30.0% | |
| AATAGTCAACTACCATTCAA+AGG | - | chr6_3:10111090-10111109 | Msa0938340:CDS | 30.0% | |
| CACAAATGATTACCTTTGAA+TGG | + | chr6_3:10111105-10111124 | None:intergenic | 30.0% | |
| CATAAAATCCTGATCAAATG+TGG | + | chr6_3:10111260-10111279 | None:intergenic | 30.0% | |
| ATTTGGACACTAAATTTGAC+TGG | - | chr6_3:10111403-10111422 | Msa0938340:CDS | 30.0% | |
| GGATCTTCCTGATTTAATAA+AGG | - | chr6_3:10111455-10111474 | Msa0938340:CDS | 30.0% | |
| AGTATTCAAAACAAAAGCAG+AGG | + | chr6_3:10111544-10111563 | None:intergenic | 30.0% | |
| TTTACATAAACAACAGATCC+TGG | + | chr6_3:10111744-10111763 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_3 | gene | 10110562 | 10112588 | 10110562 | ID=Msa0938340;Name=Msa0938340 |
| chr6_3 | mRNA | 10110562 | 10112588 | 10110562 | ID=Msa0938340-mRNA-1;Parent=Msa0938340;Name=Msa0938340-mRNA-1;_AED=0.35;_eAED=0.35;_QI=27|1|1|1|1|1|2|272|486 |
| chr6_3 | exon | 10110562 | 10111771 | 10110562 | ID=Msa0938340-mRNA-1:exon:3211;Parent=Msa0938340-mRNA-1 |
| chr6_3 | exon | 10112039 | 10112588 | 10112039 | ID=Msa0938340-mRNA-1:exon:3210;Parent=Msa0938340-mRNA-1 |
| chr6_3 | five_prime_UTR | 10112562 | 10112588 | 10112562 | ID=Msa0938340-mRNA-1:five_prime_utr;Parent=Msa0938340-mRNA-1 |
| chr6_3 | CDS | 10112039 | 10112561 | 10112039 | ID=Msa0938340-mRNA-1:cds;Parent=Msa0938340-mRNA-1 |
| chr6_3 | CDS | 10110834 | 10111771 | 10110834 | ID=Msa0938340-mRNA-1:cds;Parent=Msa0938340-mRNA-1 |
| chr6_3 | three_prime_UTR | 10110562 | 10110833 | 10110562 | ID=Msa0938340-mRNA-1:three_prime_utr;Parent=Msa0938340-mRNA-1 |
| Gene Sequence |
>Msa0938340 ATGAGTAACTTTCAAGAGATAAAGCCACATGCAGTGTTAACTCCATTTCCAGCTCAAGGCCATATCAATGCATTGTTGAAACTAGGAAAACTACTTTACCTTAGAGGCTTTCACATAACCTTTGTTAACACTGAATACAATCACAATCGCTTGCTCAAATCAAGAGGTCCAAATGCCTTTGATGGTTTCACCGACTTTAACTTTGAGACCATTCCTGATGGTTTAACTCAGATAGAAGGCGATGGTGATGTTATTCAAGACCTACGCTCTCTTGGTGAATCGATCTTGACGAACTTTCTCCACTTCTTTGATAAACTTCTTGCTAAACTTCAAGACTCTGCCACTGCTGGTCTTATACCTCCGGTTACTTGCTTAGTTTCTGATTGCTACATGCCATTTACAGTAGATGCTGCCGAAGAACATGCACTCCCAATTGTTCTCTTTTCCCCATGTAGTGCATGTTACTTCTTGGCTAGTTTTCACATTCCGAAATTGTATCAGAATAGTCAACTACCATTCAAAGATGAGAGTGATCTAACAAATGAATATTTGGACACTAAATTTGACTGGATTCCAGGTCTGAAAAACTTTAGATTGAAGGATCTTCCTGATTTAATAAAGGTAAAAGATCCTGATCACTTGATGATAAAATATACAAATGAAGTGACAGATAAATGTCAAAGAGCCTCTGCTTTTGTTTTGAATACTTCTAATGACCTTGAGACTGATGTTATGAATGCTTTCTATTCTATGTTCCCATCTCTATACACCATTGGTCCATTAGCTTCTTTTGTAATTCAAAGTCCACAAAATCACTTGACATCTTTAAATTCTAATCTTTGGAAAGAAGATACTAAATGTCTTGAATGGCTTGAATCAAAAGAACCAGGATCTGTTGTTTATGTAAATTTTGGCAGTATCACTGTTATGTCTCGAGAGAAGCTCTTAGAGTTTGCTTGGGGTTTGGCCAACAGCAAGAAACACTTTTTGTGGATCATTAGGCCTGATCTTATCATTGGTGGCTCGGTGGTTTTCTCATCTGACTTTTTGAAAGAAATTTCAGATAGAGGACTAATAGCAAGTTGGTGTCCACAAGAGAAAGTATTGAACCATCCTTCAGTCGGTGGATTCTTGACTCACTGCGGATGGAACTCAACCACTGAAAGTATATGTGCTGGAGTTCCAATGTTATGTTGGCCATTTTTTTCGGATCAGCCAGCAAACTGCAGATATATTTGCAATGAATGGGAGATTGGAAACGAAATCGATGCGAATGTAAAGAGGGAGGAGGTGGAGAAACTAGTCAATGAATTGATGGTGGGAGAGAAAGGAAAGAAGATGAGGCAAAAGGCCATGGAGTTGAAGAAGAAGGCGGAGGTGGAGACTAGAGCTGGAGGTTGTTCATACATGAATTTGGAGAAAGTGATTAAGGAGGTTTTGCTTAAACAAAATCAAGCTTAA |
| Protein sequence |
>Msa0938340 MSNFQEIKPHAVLTPFPAQGHINALLKLGKLLYLRGFHITFVNTEYNHNRLLKSRGPNAFDGFTDFNFETIPDGLTQIEGDGDVIQDLRSLGESILTNFLHFFDKLLAKLQDSATAGLIPPVTCLVSDCYMPFTVDAAEEHALPIVLFSPCSACYFLASFHIPKLYQNSQLPFKDESDLTNEYLDTKFDWIPGLKNFRLKDLPDLIKVKDPDHLMIKYTNEVTDKCQRASAFVLNTSNDLETDVMNAFYSMFPSLYTIGPLASFVIQSPQNHLTSLNSNLWKEDTKCLEWLESKEPGSVVYVNFGSITVMSREKLLEFAWGLANSKKHFLWIIRPDLIIGGSVVFSSDFLKEISDRGLIASWCPQEKVLNHPSVGGFLTHCGWNSTTESICAGVPMLCWPFFSDQPANCRYICNEWEIGNEIDANVKREEVEKLVNELMVGEKGKKMRQKAMELKKKAEVETRAGGCSYMNLEKVIKEVLLKQNQA* |
