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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0326480 | XP_013464059.1 | 98.268 | 231 | 2 | 1 | 37 | 265 | 1 | 231 | 1.87e-158 | 449 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0326480 | sp|P93447|EF1D_SPUBR | 77.922 | 231 | 44 | 2 | 37 | 265 | 1 | 226 | 6.29e-120 | 344 |
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0001450 | Msa0326480 | 0.861588 | 9.231290e-64 | -8.615850e-47 |
| Msa0003700 | Msa0326480 | 0.808864 | 2.512119e-50 | -8.615850e-47 |
| Msa0003720 | Msa0326480 | 0.844815 | 5.984085e-59 | -8.615850e-47 |
| Msa0003890 | Msa0326480 | 0.848999 | 4.284478e-60 | -8.615850e-47 |
| Msa0006110 | Msa0326480 | 0.807039 | 6.141937e-50 | -8.615850e-47 |
| Msa0006380 | Msa0326480 | 0.857457 | 1.611707e-62 | -8.615850e-47 |
| Msa0007440 | Msa0326480 | 0.814537 | 1.464555e-51 | -8.615850e-47 |
| Msa0008090 | Msa0326480 | 0.807783 | 4.270187e-50 | -8.615850e-47 |
| Msa0008200 | Msa0326480 | 0.825331 | 4.969082e-54 | -8.615850e-47 |
| Msa0010110 | Msa0326480 | 0.844968 | 5.442465e-59 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0326480 | MtrunA17_Chr2g0305121 | 98.268 | 231 | 2 | 1 | 37 | 265 | 1 | 231 | 7.67e-162 | 449 |
| Msa0326480 | MtrunA17_Chr4g0008681 | 93.939 | 231 | 12 | 1 | 37 | 265 | 1 | 231 | 1.04e-132 | 375 |
| Msa0326480 | MtrunA17_Chr5g0441161 | 56.710 | 231 | 90 | 4 | 37 | 265 | 1 | 223 | 1.29e-76 | 231 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0326480 | AT2G18110.1 | 79.204 | 226 | 44 | 2 | 43 | 265 | 6 | 231 | 3.36e-107 | 310 |
| Msa0326480 | AT1G30230.1 | 78.319 | 226 | 46 | 2 | 43 | 265 | 6 | 231 | 3.28e-103 | 300 |
| Msa0326480 | AT1G30230.2 | 78.319 | 226 | 46 | 2 | 43 | 265 | 6 | 231 | 8.91e-103 | 300 |
| Msa0326480 | AT5G12110.1 | 58.723 | 235 | 84 | 4 | 37 | 265 | 1 | 228 | 1.22e-74 | 227 |
| Msa0326480 | AT5G19510.1 | 56.710 | 231 | 91 | 3 | 37 | 265 | 1 | 224 | 4.55e-68 | 210 |
Find 79 sgRNAs with CRISPR-Local
Find 144 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAACTTGTTCCTGTTGGGTA+CGG | 0.517929 | 2_4:+36425469 | Msa0326480:CDS |
| AAATGACAGCAACAACAAGT+AGG | 0.612547 | 2_4:-36425836 | None:intergenic |
| AACATGGAGATCATGGTAGG+GGG | 0.694332 | 2_4:+36425740 | Msa0326480:three_prime_UTR |
| AAGAGAGGCGAGGAGATTGA+AGG | 0.541739 | 2_4:-36423576 | None:intergenic |
| AAGTGAGAGTGAATTGAAAA+AGG | 0.250665 | 2_4:-36423526 | None:intergenic |
| AATATGGGAATGTTGCTAGG+TGG | 0.778608 | 2_4:+36424221 | Msa0326480:CDS |
| AATCTGCAATTCGTATAACA+TGG | 0.639814 | 2_4:+36425724 | Msa0326480:exon |
| ACATTCCCATATTCATATGA+TGG | 0.500557 | 2_4:-36424211 | None:intergenic |
| ACGTGACATTAAAATTTCTG+GGG | 0.648205 | 2_4:+36425983 | Msa0326480:three_prime_UTR |
| ACTCTGGACATACTCATTGA+TGG | 0.454225 | 2_4:-36425578 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| AGTGAGAGTGAATTGAAAAA+GGG | - | chr2_4:36423528-36423547 | None:intergenic | 30.0% | |
| AAGTGAGAGTGAATTGAAAA+AGG | - | chr2_4:36423529-36423548 | None:intergenic | 30.0% | |
| AGCCTTAAAAAACACAGATT+CGG | - | chr2_4:36423718-36423737 | None:intergenic | 30.0% | |
| AGTTACACTCTATAACCTTA+AGG | + | chr2_4:36423972-36423991 | Msa0326480:CDS | 30.0% | |
| TCAGTTCCATCATATGAATA+TGG | + | chr2_4:36424205-36424224 | Msa0326480:CDS | 30.0% | |
| CAGTTCCATCATATGAATAT+GGG | + | chr2_4:36424206-36424225 | Msa0326480:CDS | 30.0% | |
| ACATTCCCATATTCATATGA+TGG | - | chr2_4:36424214-36424233 | None:intergenic | 30.0% | |
| TCATATCTCACTTGATCTAA+TGG | + | chr2_4:36425075-36425094 | Msa0326480:intron | 30.0% | |
| TGGTGCACAAATAAGATATT+TGG | + | chr2_4:36425196-36425215 | Msa0326480:intron | 30.0% | |
| TAGATCAAGCGAGATATTAA+GGG | - | chr2_4:36425265-36425284 | None:intergenic | 30.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_4 | gene | 36423510 | 36426074 | 36423510 | ID=Msa0326480;Name=Msa0326480 |
| chr2_4 | mRNA | 36423510 | 36426074 | 36423510 | ID=Msa0326480-mRNA-1;Parent=Msa0326480;Name=Msa0326480-mRNA-1;_AED=0.07;_eAED=0.07;_QI=0|0.85|0.75|1|0.42|0.25|8|308|265 |
| chr2_4 | exon | 36423510 | 36423605 | 36423510 | ID=Msa0326480-mRNA-1:exon:11198;Parent=Msa0326480-mRNA-1 |
| chr2_4 | exon | 36423955 | 36424052 | 36423955 | ID=Msa0326480-mRNA-1:exon:11199;Parent=Msa0326480-mRNA-1 |
| chr2_4 | exon | 36424159 | 36424275 | 36424159 | ID=Msa0326480-mRNA-1:exon:11200;Parent=Msa0326480-mRNA-1 |
| chr2_4 | exon | 36424413 | 36424627 | 36424413 | ID=Msa0326480-mRNA-1:exon:11201;Parent=Msa0326480-mRNA-1 |
| chr2_4 | exon | 36424722 | 36424829 | 36424722 | ID=Msa0326480-mRNA-1:exon:11202;Parent=Msa0326480-mRNA-1 |
| chr2_4 | exon | 36425467 | 36425628 | 36425467 | ID=Msa0326480-mRNA-1:exon:11203;Parent=Msa0326480-mRNA-1 |
| chr2_4 | exon | 36425724 | 36425929 | 36425724 | ID=Msa0326480-mRNA-1:exon:11204;Parent=Msa0326480-mRNA-1 |
| chr2_4 | exon | 36425971 | 36426074 | 36425971 | ID=Msa0326480-mRNA-1:exon:11205;Parent=Msa0326480-mRNA-1 |
| chr2_4 | CDS | 36423510 | 36423605 | 36423510 | ID=Msa0326480-mRNA-1:cds;Parent=Msa0326480-mRNA-1 |
| chr2_4 | CDS | 36423955 | 36424052 | 36423955 | ID=Msa0326480-mRNA-1:cds;Parent=Msa0326480-mRNA-1 |
| chr2_4 | CDS | 36424159 | 36424275 | 36424159 | ID=Msa0326480-mRNA-1:cds;Parent=Msa0326480-mRNA-1 |
| chr2_4 | CDS | 36424413 | 36424627 | 36424413 | ID=Msa0326480-mRNA-1:cds;Parent=Msa0326480-mRNA-1 |
| chr2_4 | CDS | 36424722 | 36424829 | 36424722 | ID=Msa0326480-mRNA-1:cds;Parent=Msa0326480-mRNA-1 |
| chr2_4 | CDS | 36425467 | 36425628 | 36425467 | ID=Msa0326480-mRNA-1:cds;Parent=Msa0326480-mRNA-1 |
| chr2_4 | CDS | 36425724 | 36425725 | 36425724 | ID=Msa0326480-mRNA-1:cds;Parent=Msa0326480-mRNA-1 |
| chr2_4 | three_prime_UTR | 36425726 | 36425929 | 36425726 | ID=Msa0326480-mRNA-1:three_prime_utr;Parent=Msa0326480-mRNA-1 |
| chr2_4 | three_prime_UTR | 36425971 | 36426074 | 36425971 | ID=Msa0326480-mRNA-1:three_prime_utr;Parent=Msa0326480-mRNA-1 |
| Gene Sequence |
>Msa0326480 CTATATAAAACAAAACCCTTTTTCAATTCACTCTCACTTTGCATTGAATCTCGTTGCTACTACTTGCCTTCAATCTCCTCGCCTCTCTTAACACAGAAGAAAAAAAAAATGGCAGTTACACTCTATAACCTTAAGGCTGAATCTGGTTTGAAGAAGCTTGATGAGTACCTTCTTACACGCAGTTACATCACTGGGTACCAAGCTTCAAAGGATGACATCACTGTTTATGCAGCTTTGCCATCAGTTCCATCATATGAATATGGGAATGTTGCTAGGTGGTACAAGCACATTGATGCTTTGTTGAGAATTGCTGGTGTTTCTGGTGAGGGATCTGGTGTCACTGTCGAATCTTCTCTTGTGGCTGAAGAGACTGTTGCCACTCCTCCAGTTTCTGACACAAAGGCTGCTGAAGCTGAGGATGAAGATGATGACGATGTTGATTTGTTTGGTGAAGAGACTGAGGAAGAGAAGAAGGCAGCTGAGGAACGGGCAGCAGCCGTGAAGGCATCTGGCAAAAAGAAAGAGAGTGGGAAATCATCTGTATTGTTGGATGTGAAGCCATGGGATGATGAGACCGACATGAAGAAGCTTGAAGAAGCAGTGAGATCTGTTCAGTTGGAAGGGTTGTTTTGGGCCAAACTTGTTCCTGTTGGGTACGGTATCAAGAAACTTCAAATTATGCTTACTATTGTGGATGATCTTGTTTCCGTTGACAATATGGTTGAGGATTATCTTACTGTTGAGCCCATCAATGAGTATGTCCAGAGTTGTGACATTGTGGCCTTCAATAAAATCTAA |
| Protein sequence |
>Msa0326480 LYKTKPFFNSLSLCIESRCYYLPSISSPLLTQKKKKMAVTLYNLKAESGLKKLDEYLLTRSYITGYQASKDDITVYAALPSVPSYEYGNVARWYKHIDALLRIAGVSGEGSGVTVESSLVAEETVATPPVSDTKAAEAEDEDDDDVDLFGEETEEEKKAAEERAAAVKASGKKKESGKSSVLLDVKPWDDETDMKKLEEAVRSVQLEGLFWAKLVPVGYGIKKLQIMLTIVDDLVSVDNMVEDYLTVEPINEYVQSCDIVAFNKI* |
