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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0326170 | XP_013463848.1 | 97.050 | 339 | 10 | 0 | 8 | 346 | 4 | 342 | 0.0 | 688 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0326170 | sp|Q0WPT7|Y2104_ARATH | 63.920 | 352 | 121 | 3 | 1 | 346 | 1 | 352 | 1.39e-159 | 453 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0000610 | Msa0326170 | 0.849832 | 2.509532e-60 | -8.615850e-47 |
| Msa0000800 | Msa0326170 | -0.804380 | 2.221085e-49 | -8.615850e-47 |
| Msa0001040 | Msa0326170 | 0.816350 | 5.787210e-52 | -8.615850e-47 |
| Msa0001510 | Msa0326170 | 0.856499 | 3.087710e-62 | -8.615850e-47 |
| Msa0001550 | Msa0326170 | 0.834524 | 2.852247e-56 | -8.615850e-47 |
| Msa0002110 | Msa0326170 | 0.947739 | 3.740450e-106 | -8.615850e-47 |
| Msa0002690 | Msa0326170 | 0.872436 | 3.185358e-67 | -8.615850e-47 |
| Msa0002700 | Msa0326170 | 0.869971 | 2.074866e-66 | -8.615850e-47 |
| Msa0003340 | Msa0326170 | 0.890178 | 1.245996e-73 | -8.615850e-47 |
| Msa0004180 | Msa0326170 | 0.882578 | 9.259774e-71 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0326170 | MtrunA17_Chr2g0304641 | 97.050 | 339 | 10 | 0 | 8 | 346 | 4 | 342 | 0.0 | 688 |
| Msa0326170 | MtrunA17_Chr3g0115691 | 48.750 | 320 | 146 | 5 | 36 | 346 | 31 | 341 | 2.43e-100 | 300 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0326170 | AT2G41040.1 | 63.920 | 352 | 121 | 3 | 1 | 346 | 1 | 352 | 1.41e-160 | 453 |
| Msa0326170 | AT1G78140.1 | 53.265 | 291 | 127 | 5 | 64 | 346 | 65 | 354 | 1.89e-101 | 303 |
Find 108 sgRNAs with CRISPR-Local
Find 460 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAACTGGAGTGTCTAGTAA+AGG | 0.553348 | 2_4:-35382772 | Msa0326170:three_prime_UTR |
| AAAGACCTTTGCACTTCATG+TGG | 0.564824 | 2_4:-35382979 | Msa0326170:CDS |
| AAATCGTACACTAGCAAAGA+CGG | 0.529071 | 2_4:-35386431 | Msa0326170:CDS |
| AACAAATAAAACATCAAATA+TGG | 0.272851 | 2_4:+35382838 | None:intergenic |
| AACTTACAAGTTAAGACCAA+CGG | 0.579343 | 2_4:+35386719 | None:intergenic |
| AAGAGTTTACCTCTCTGAAC+AGG | 0.467690 | 2_4:+35383403 | None:intergenic |
| AAGCGGTCATTGTAGTGGAA+TGG | 0.557747 | 2_4:+35388328 | None:intergenic |
| AATCGTACACTAGCAAAGAC+GGG | 0.601636 | 2_4:-35386430 | Msa0326170:CDS |
| ACAATCAGACCACCTTTAGC+AGG | 0.549004 | 2_4:+35385284 | None:intergenic |
| ACCCGTGTACTAAGAAGTGG+TGG | 0.640111 | 2_4:-35383483 | Msa0326170:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GTATTTGATTAAGAGGATGA+AGG | + | chr2_4:35382714-35382733 | None:intergenic | 30.0% | |
| GGGAATTGTATTTGATTAAG+AGG | + | chr2_4:35382721-35382740 | None:intergenic | 30.0% | |
| GGGATTTAGTAAAAAGATGA+GGG | + | chr2_4:35382750-35382769 | None:intergenic | 30.0% | |
| TGGGATTTAGTAAAAAGATG+AGG | + | chr2_4:35382751-35382770 | None:intergenic | 30.0% | |
| TAACGTTACACTCTGAATTA+AGG | - | chr2_4:35382895-35382914 | Msa0326170:three_prime_UTR | 30.0% | |
| AATTAAGGAACGAGTTAACT+TGG | - | chr2_4:35382910-35382929 | Msa0326170:exon | 30.0% | |
| TGTTAACTGATACACAACTA+AGG | - | chr2_4:35382988-35383007 | Msa0326170:CDS | 30.0% | |
| CTCTTAAAACTTAAGATCAG+CGG | - | chr2_4:35383073-35383092 | Msa0326170:intron | 30.0% | |
| TAAAAAACTGTATCGAAGGA+GGG | + | chr2_4:35383516-35383535 | None:intergenic | 30.0% | |
| GTACTAAAAAACTGTATCGA+AGG | + | chr2_4:35383520-35383539 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_4 | gene | 35382568 | 35388445 | 35382568 | ID=Msa0326170;Name=Msa0326170 |
| chr2_4 | mRNA | 35382568 | 35388445 | 35382568 | ID=Msa0326170-mRNA-1;Parent=Msa0326170;Name=Msa0326170-mRNA-1;_AED=0.04;_eAED=0.04;_QI=108|1|1|1|1|1|8|347|346 |
| chr2_4 | exon | 35382568 | 35383043 | 35382568 | ID=Msa0326170-mRNA-1:exon:10991;Parent=Msa0326170-mRNA-1 |
| chr2_4 | exon | 35383413 | 35383517 | 35383413 | ID=Msa0326170-mRNA-1:exon:10990;Parent=Msa0326170-mRNA-1 |
| chr2_4 | exon | 35384904 | 35385015 | 35384904 | ID=Msa0326170-mRNA-1:exon:10989;Parent=Msa0326170-mRNA-1 |
| chr2_4 | exon | 35385140 | 35385333 | 35385140 | ID=Msa0326170-mRNA-1:exon:10988;Parent=Msa0326170-mRNA-1 |
| chr2_4 | exon | 35385976 | 35386057 | 35385976 | ID=Msa0326170-mRNA-1:exon:10987;Parent=Msa0326170-mRNA-1 |
| chr2_4 | exon | 35386356 | 35386496 | 35386356 | ID=Msa0326170-mRNA-1:exon:10986;Parent=Msa0326170-mRNA-1 |
| chr2_4 | exon | 35386726 | 35386826 | 35386726 | ID=Msa0326170-mRNA-1:exon:10985;Parent=Msa0326170-mRNA-1 |
| chr2_4 | exon | 35388161 | 35388445 | 35388161 | ID=Msa0326170-mRNA-1:exon:10984;Parent=Msa0326170-mRNA-1 |
| chr2_4 | five_prime_UTR | 35388338 | 35388445 | 35388338 | ID=Msa0326170-mRNA-1:five_prime_utr;Parent=Msa0326170-mRNA-1 |
| chr2_4 | CDS | 35388161 | 35388337 | 35388161 | ID=Msa0326170-mRNA-1:cds;Parent=Msa0326170-mRNA-1 |
| chr2_4 | CDS | 35386726 | 35386826 | 35386726 | ID=Msa0326170-mRNA-1:cds;Parent=Msa0326170-mRNA-1 |
| chr2_4 | CDS | 35386356 | 35386496 | 35386356 | ID=Msa0326170-mRNA-1:cds;Parent=Msa0326170-mRNA-1 |
| chr2_4 | CDS | 35385976 | 35386057 | 35385976 | ID=Msa0326170-mRNA-1:cds;Parent=Msa0326170-mRNA-1 |
| chr2_4 | CDS | 35385140 | 35385333 | 35385140 | ID=Msa0326170-mRNA-1:cds;Parent=Msa0326170-mRNA-1 |
| chr2_4 | CDS | 35384904 | 35385015 | 35384904 | ID=Msa0326170-mRNA-1:cds;Parent=Msa0326170-mRNA-1 |
| chr2_4 | CDS | 35383413 | 35383517 | 35383413 | ID=Msa0326170-mRNA-1:cds;Parent=Msa0326170-mRNA-1 |
| chr2_4 | CDS | 35382915 | 35383043 | 35382915 | ID=Msa0326170-mRNA-1:cds;Parent=Msa0326170-mRNA-1 |
| chr2_4 | three_prime_UTR | 35382568 | 35382914 | 35382568 | ID=Msa0326170-mRNA-1:three_prime_utr;Parent=Msa0326170-mRNA-1 |
| Gene Sequence |
>Msa0326170 ATGACCGCTTCTGCTACTACCGCTGCTTCTCATTTCCTTCATCCTCTTAATCAAATACAATTCCCCAAATGCCCTCATCTTTTTACTAAATCCCACTTTCGCCCTCGCCTTCTCCGCTCTCAAACCCAAAGGTTCAATATTCGTGCCTCCTCTGCTGTTGTTGTGGAGTCTCCGTCGGATTTAAGTACGAAGCAGGATAAAGGAACACAAGTTGACTTATTCGCATGCCCTATATGTTATGAACCATTGATAAGAAAAGGTCCCGTTGGTCTTAACTTGTCAGCAATATACAGGTCTGGTTTCAAGTGTAAGAGATGTCAAAAATCGTACACTAGCAAAGACGGGTATCTGGATCTGACAGTGACTTCTGGGTTGAGAGATTATGTTGAAGTTCAACCAAATCGGACTGAACTTTTTAGGAGTCCCCTTGTTTCATTCCTATATGAAAGAGGTTGGCGTCAAAATTTCAGGCAAAGTGGCTTTCCTGGTCCTGATGAAGAGTTCAGAATGGCTCAAGAGTACTTTGAGCCTGCTAAAGGTGGTCTGATTGTCGATGTTAGCTGTGGAAGTGGTCTATTTTCCCGAAAATTTGCCAAATCTGGAACCTACTCTGGAGTAATTGCTCTAGATTTTTCTGAAAATATGCTCCGTCAATGCTACGATTTCATTAAGAAAGATGACACACTATCAACCACTAATCTTGCCCTTGTAAGAGCAGATGTTTCTAGGCTTCCCTTTGAATCAGGTTCAGTTGATGCGGTTCATGCTGGTGCTGCTTTGCATTGTTGGCCATCTCCCTCCAATGCTGTTGCCGAAATCACCCGTGTACTAAGAAGTGGTGGAGTATTTGTTGGAACCACTTTTCTTCGTTACACTTCATCAACTTCCTGGGTTGCACGCCTGTTCAGAGAGAGGTCTTCTCTAGGCTATGGCTACTTAACAGAAGAAGAAATCAAAGACCTTTGCACTTCATGTGGTCTTACAAATTACTCATGCAAAATTCAGAAGTCTTTTATTATGTTTACGGCTCAGAAGCCATAA |
| Protein sequence |
>Msa0326170 MTASATTAASHFLHPLNQIQFPKCPHLFTKSHFRPRLLRSQTQRFNIRASSAVVVESPSDLSTKQDKGTQVDLFACPICYEPLIRKGPVGLNLSAIYRSGFKCKRCQKSYTSKDGYLDLTVTSGLRDYVEVQPNRTELFRSPLVSFLYERGWRQNFRQSGFPGPDEEFRMAQEYFEPAKGGLIVDVSCGSGLFSRKFAKSGTYSGVIALDFSENMLRQCYDFIKKDDTLSTTNLALVRADVSRLPFESGSVDAVHAGAALHCWPSPSNAVAEITRVLRSGGVFVGTTFLRYTSSTSWVARLFRERSSLGYGYLTEEEIKDLCTSCGLTNYSCKIQKSFIMFTAQKP* |
