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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0233100 | XP_013462438.1 | 96.988 | 166 | 5 | 0 | 1 | 166 | 1 | 166 | 1.89e-114 | 331 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0233100 | sp|Q9FH13|RRAA3_ARATH | 75.301 | 166 | 41 | 0 | 1 | 166 | 1 | 166 | 1.58e-89 | 261 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0233100 | A0A072V558 | 96.988 | 166 | 5 | 0 | 1 | 166 | 1 | 166 | 9.03e-115 | 331 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0130120 | Msa0233100 | 0.800661 | 1.298156e-48 | -8.615850e-47 |
| Msa0175900 | Msa0233100 | 0.811749 | 5.991351e-51 | -8.615850e-47 |
| Msa0220760 | Msa0233100 | 0.805081 | 1.585610e-49 | -8.615850e-47 |
| Msa0222510 | Msa0233100 | 0.812037 | 5.186210e-51 | -8.615850e-47 |
| Msa0233100 | Msa0311440 | 0.804610 | 1.988753e-49 | -8.615850e-47 |
| Msa0233100 | Msa0473320 | 0.806707 | 7.216344e-50 | -8.615850e-47 |
| Msa0233100 | Msa0855490 | 0.804010 | 2.652532e-49 | -8.615850e-47 |
| Msa0233100 | Msa1302920 | 0.805299 | 1.427425e-49 | -8.615850e-47 |
| Msa0233100 | Msa1351560 | 0.804512 | 2.084890e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0233100 | MtrunA17_Chr2g0280471 | 96.988 | 166 | 5 | 0 | 1 | 166 | 1 | 166 | 1.74e-118 | 331 |
| Msa0233100 | MtrunA17_Chr2g0280451 | 86.747 | 166 | 22 | 0 | 1 | 166 | 1 | 166 | 6.79e-105 | 297 |
| Msa0233100 | MtrunA17_Chr7g0249341 | 56.627 | 166 | 53 | 1 | 1 | 166 | 1 | 147 | 4.82e-64 | 193 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0233100 | AT5G56260.1 | 75.301 | 166 | 41 | 0 | 1 | 166 | 1 | 166 | 1.61e-90 | 261 |
| Msa0233100 | AT5G56260.2 | 75.301 | 166 | 41 | 0 | 1 | 166 | 1 | 166 | 1.61e-90 | 261 |
| Msa0233100 | AT5G56260.5 | 75.301 | 166 | 41 | 0 | 1 | 166 | 1 | 166 | 1.61e-90 | 261 |
| Msa0233100 | AT5G56260.4 | 75.301 | 166 | 41 | 0 | 1 | 166 | 33 | 198 | 1.07e-89 | 260 |
| Msa0233100 | AT5G56260.3 | 75.301 | 166 | 41 | 0 | 1 | 166 | 33 | 198 | 1.07e-89 | 260 |
| Msa0233100 | AT3G02770.1 | 65.060 | 166 | 58 | 0 | 1 | 166 | 1 | 166 | 9.65e-78 | 229 |
| Msa0233100 | AT5G16450.2 | 65.060 | 166 | 58 | 0 | 1 | 166 | 1 | 166 | 1.48e-77 | 228 |
| Msa0233100 | AT5G16450.1 | 65.060 | 166 | 58 | 0 | 1 | 166 | 1 | 166 | 1.48e-77 | 228 |
Find 39 sgRNAs with CRISPR-Local
Find 49 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGCTCTTGTTGGAGGGAATT+TGG | 0.199853 | 2_2:-5428951 | Msa0233100:CDS |
| TGGCCAGTCTCGGGCATTCT+CGG | 0.281731 | 2_2:-5429086 | Msa0233100:CDS |
| GCACAAAACATGGGGTGGTC+TGG | 0.304278 | 2_2:-5428920 | Msa0233100:CDS |
| GGCCAGTCTCGGGCATTCTC+GGG | 0.351904 | 2_2:-5429085 | Msa0233100:CDS |
| AAAAGGAGAAGGAAGGGTTT+TGG | 0.369523 | 2_2:-5429002 | Msa0233100:CDS |
| TGGTCTGGGATTGTTGTGAA+TGG | 0.381293 | 2_2:-5428905 | Msa0233100:CDS |
| CACAAAACATGGGGTGGTCT+GGG | 0.391877 | 2_2:-5428919 | Msa0233100:CDS |
| CCCGAGACTGGCCATACATC+TGG | 0.415145 | 2_2:+5429095 | None:intergenic |
| GCCCCGAGAATGCCCGAGAC+TGG | 0.420007 | 2_2:+5429083 | None:intergenic |
| TCAAGTTGGTGTTAGAGCTT+TGG | 0.422544 | 2_2:-5428849 | Msa0233100:CDS |
| AACGCAACACATTTAACAAA+TGG | 0.449158 | 2_2:-5429145 | Msa0233100:CDS |
| TCCAGATGTATGGCCAGTCT+CGG | 0.458278 | 2_2:-5429096 | Msa0233100:CDS |
| GGTGCAGTTGGCACAAAACA+TGG | 0.464361 | 2_2:-5428930 | Msa0233100:CDS |
| CATCCAGTGTTCCAGATGTA+TGG | 0.472302 | 2_2:-5429106 | Msa0233100:CDS |
| CAGTCTAGTACTATTTCAAA+TGG | 0.479945 | 2_2:+5428688 | None:intergenic |
| TCAAATGGACAACTCAAACT+TGG | 0.482072 | 2_2:+5428703 | None:intergenic |
| TGGAGGGAATTTGGTGCAGT+TGG | 0.484334 | 2_2:-5428942 | Msa0233100:CDS |
| AGAGAACTTCTTGAAACAAA+AGG | 0.491488 | 2_2:-5429019 | Msa0233100:CDS |
| GAGATTAATTTGTGTCAAGT+TGG | 0.491931 | 2_2:-5428863 | Msa0233100:CDS |
| CATGTTGCTGTTTATGTTGG+AGG | 0.502059 | 2_2:-5428782 | Msa0233100:CDS |
| TTGAAACAAAAGGAGAAGGA+AGG | 0.507552 | 2_2:-5429009 | Msa0233100:CDS |
| AAACATGTTGCTGTTTATGT+TGG | 0.508506 | 2_2:-5428785 | Msa0233100:CDS |
| TGGCCATACATCTGGAACAC+TGG | 0.512769 | 2_2:+5429103 | None:intergenic |
| CCAGATGTATGGCCAGTCTC+GGG | 0.532810 | 2_2:-5429095 | Msa0233100:CDS |
| GTGTCACATATCTCTGCTGT+TGG | 0.545822 | 2_2:+5429169 | None:intergenic |
| TGAAACAAAAGGAGAAGGAA+GGG | 0.548341 | 2_2:-5429008 | Msa0233100:CDS |
| GCCAGTCTCGGGCATTCTCG+GGG | 0.553955 | 2_2:-5429084 | Msa0233100:CDS |
| AGCATGAGGTGTGCTCTTGT+TGG | 0.557997 | 2_2:-5428962 | Msa0233100:CDS |
| ATGAGGTGTGCTCTTGTTGG+AGG | 0.569564 | 2_2:-5428959 | Msa0233100:CDS |
| CTTCTTGAAACAAAAGGAGA+AGG | 0.585218 | 2_2:-5429013 | Msa0233100:CDS |
| TGGCTCTATGCAGATAATGA+TGG | 0.590987 | 2_2:-5428737 | Msa0233100:CDS |
| ATTTAACAAATGGTGACTTG+AGG | 0.616446 | 2_2:-5429135 | Msa0233100:CDS |
| AGTGTTTGAAGACAATGTGT+TGG | 0.617013 | 2_2:-5429044 | Msa0233100:CDS |
| GTGCAGTTGGCACAAAACAT+GGG | 0.623381 | 2_2:-5428929 | Msa0233100:CDS |
| GAATGGTTGTATTAGAGATG+TGG | 0.623790 | 2_2:-5428888 | Msa0233100:CDS |
| TGAGGTGTGCTCTTGTTGGA+GGG | 0.651891 | 2_2:-5428958 | Msa0233100:CDS |
| AGTTGGCACAAAACATGGGG+TGG | 0.672135 | 2_2:-5428925 | Msa0233100:CDS |
| TGCAGTTGGCACAAAACATG+GGG | 0.672279 | 2_2:-5428928 | Msa0233100:CDS |
| TTGATGGAGGAGGAAGCATG+AGG | 0.673507 | 2_2:-5428976 | Msa0233100:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATTGTCTTCAAACACTTTTA+CGG | + | chr2_2:5428836-5428855 | None:intergenic | 25.0% |
| ! | CCACTTAAATCCAATAAAAA+CGG | - | chr2_2:5429066-5429085 | Msa0233100:CDS | 25.0% |
| AACGCAACACATTTAACAAA+TGG | - | chr2_2:5428739-5428758 | Msa0233100:CDS | 30.0% | |
| ATTTAACAAATGGTGACTTG+AGG | - | chr2_2:5428749-5428768 | Msa0233100:CDS | 30.0% | |
| AGAGAACTTCTTGAAACAAA+AGG | - | chr2_2:5428865-5428884 | Msa0233100:CDS | 30.0% | |
| !! | GAGATTAATTTGTGTCAAGT+TGG | - | chr2_2:5429021-5429040 | Msa0233100:CDS | 30.0% |
| !! | CCGTTTTTATTGGATTTAAG+TGG | + | chr2_2:5429069-5429088 | None:intergenic | 30.0% |
| AAATCCAATAAAAACGGTAC+TGG | - | chr2_2:5429072-5429091 | Msa0233100:CDS | 30.0% | |
| !! | AAACATGTTGCTGTTTATGT+TGG | - | chr2_2:5429099-5429118 | Msa0233100:CDS | 30.0% |
| ! | AACACTTTTACGGTAACAAC+AGG | + | chr2_2:5428826-5428845 | None:intergenic | 35.0% |
| AGTGTTTGAAGACAATGTGT+TGG | - | chr2_2:5428840-5428859 | Msa0233100:CDS | 35.0% | |
| CTTCTTGAAACAAAAGGAGA+AGG | - | chr2_2:5428871-5428890 | Msa0233100:CDS | 35.0% | |
| TTGAAACAAAAGGAGAAGGA+AGG | - | chr2_2:5428875-5428894 | Msa0233100:CDS | 35.0% | |
| TGAAACAAAAGGAGAAGGAA+GGG | - | chr2_2:5428876-5428895 | Msa0233100:CDS | 35.0% | |
| GAATGGTTGTATTAGAGATG+TGG | - | chr2_2:5428996-5429015 | Msa0233100:CDS | 35.0% | |
| !! | TTCACCAGTACCGTTTTTAT+TGG | + | chr2_2:5429079-5429098 | None:intergenic | 35.0% |
| !! | CTTTTATTCGTGATGGAGAA+TGG | - | chr2_2:5429127-5429146 | Msa0233100:CDS | 35.0% |
| TCAAATGGACAACTCAAACT+TGG | + | chr2_2:5429184-5429203 | None:intergenic | 35.0% | |
| ! | AAAAGGAGAAGGAAGGGTTT+TGG | - | chr2_2:5428882-5428901 | Msa0233100:CDS | 40.0% |
| !!! | GGAAGGGTTTTGGTTATTGA+TGG | - | chr2_2:5428892-5428911 | Msa0233100:CDS | 40.0% |
| !!! | AGGGTTTTGGTTATTGATGG+AGG | - | chr2_2:5428895-5428914 | Msa0233100:CDS | 40.0% |
| !!! | GTTTTGGTTATTGATGGAGG+AGG | - | chr2_2:5428898-5428917 | Msa0233100:CDS | 40.0% |
| !! | TCAAGTTGGTGTTAGAGCTT+TGG | - | chr2_2:5429035-5429054 | Msa0233100:CDS | 40.0% |
| !! | CATGTTGCTGTTTATGTTGG+AGG | - | chr2_2:5429102-5429121 | Msa0233100:CDS | 40.0% |
| ! | GGAGGAACTTTTATTCGTGA+TGG | - | chr2_2:5429120-5429139 | Msa0233100:CDS | 40.0% |
| ! | TGGCTCTATGCAGATAATGA+TGG | - | chr2_2:5429147-5429166 | Msa0233100:CDS | 40.0% |
| GTGTCACATATCTCTGCTGT+TGG | + | chr2_2:5428718-5428737 | None:intergenic | 45.0% | |
| CATCCAGTGTTCCAGATGTA+TGG | - | chr2_2:5428778-5428797 | Msa0233100:CDS | 45.0% | |
| TGCTCTTGTTGGAGGGAATT+TGG | - | chr2_2:5428933-5428952 | Msa0233100:CDS | 45.0% | |
| GTGCAGTTGGCACAAAACAT+GGG | - | chr2_2:5428955-5428974 | Msa0233100:CDS | 45.0% | |
| TGCAGTTGGCACAAAACATG+GGG | - | chr2_2:5428956-5428975 | Msa0233100:CDS | 45.0% | |
| ! | TGGTCTGGGATTGTTGTGAA+TGG | - | chr2_2:5428979-5428998 | Msa0233100:CDS | 45.0% |
| ! | TGGCCATACATCTGGAACAC+TGG | + | chr2_2:5428784-5428803 | None:intergenic | 50.0% |
| TCCAGATGTATGGCCAGTCT+CGG | - | chr2_2:5428788-5428807 | Msa0233100:CDS | 50.0% | |
| ! | TTGATGGAGGAGGAAGCATG+AGG | - | chr2_2:5428908-5428927 | Msa0233100:CDS | 50.0% |
| AGCATGAGGTGTGCTCTTGT+TGG | - | chr2_2:5428922-5428941 | Msa0233100:CDS | 50.0% | |
| ATGAGGTGTGCTCTTGTTGG+AGG | - | chr2_2:5428925-5428944 | Msa0233100:CDS | 50.0% | |
| TGAGGTGTGCTCTTGTTGGA+GGG | - | chr2_2:5428926-5428945 | Msa0233100:CDS | 50.0% | |
| !! | TGGAGGGAATTTGGTGCAGT+TGG | - | chr2_2:5428942-5428961 | Msa0233100:CDS | 50.0% |
| GGTGCAGTTGGCACAAAACA+TGG | - | chr2_2:5428954-5428973 | Msa0233100:CDS | 50.0% | |
| AGTTGGCACAAAACATGGGG+TGG | - | chr2_2:5428959-5428978 | Msa0233100:CDS | 50.0% | |
| CACAAAACATGGGGTGGTCT+GGG | - | chr2_2:5428965-5428984 | Msa0233100:CDS | 50.0% | |
| CCAGATGTATGGCCAGTCTC+GGG | - | chr2_2:5428789-5428808 | Msa0233100:CDS | 55.0% | |
| GCACAAAACATGGGGTGGTC+TGG | - | chr2_2:5428964-5428983 | Msa0233100:CDS | 55.0% | |
| ! | CCCGAGACTGGCCATACATC+TGG | + | chr2_2:5428792-5428811 | None:intergenic | 60.0% |
| TGGCCAGTCTCGGGCATTCT+CGG | - | chr2_2:5428798-5428817 | Msa0233100:CDS | 60.0% | |
| GGCCAGTCTCGGGCATTCTC+GGG | - | chr2_2:5428799-5428818 | Msa0233100:CDS | 65.0% | |
| GCCAGTCTCGGGCATTCTCG+GGG | - | chr2_2:5428800-5428819 | Msa0233100:CDS | 65.0% | |
| GCCCCGAGAATGCCCGAGAC+TGG | + | chr2_2:5428804-5428823 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2_2 | gene | 5428703 | 5429203 | 5428703 | ID=Msa0233100;Name=Msa0233100 |
| chr2_2 | mRNA | 5428703 | 5429203 | 5428703 | ID=Msa0233100-mRNA-1;Parent=Msa0233100;Name=Msa0233100-mRNA-1;_AED=0.22;_eAED=0.23;_QI=0|-1|0|1|-1|1|1|0|166 |
| chr2_2 | exon | 5428703 | 5429203 | 5428703 | ID=Msa0233100-mRNA-1:exon:2375;Parent=Msa0233100-mRNA-1 |
| chr2_2 | CDS | 5428703 | 5429203 | 5428703 | ID=Msa0233100-mRNA-1:cds;Parent=Msa0233100-mRNA-1 |
| Gene Sequence |
| Protein sequence |
