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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0498360 | KEH33681.1 | 47.771 | 157 | 54 | 5 | 1 | 130 | 9 | 164 | 1.07e-27 | 114 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0498360 | A0A072UW75 | 47.771 | 157 | 54 | 5 | 1 | 130 | 9 | 164 | 5.10e-28 | 114 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0180500 | Msa0498360 | 0.800068 | 1.713685e-48 | -8.615850e-47 |
| Msa0395790 | Msa0498360 | 0.815974 | 7.020383e-52 | -8.615850e-47 |
| Msa0498360 | Msa0529040 | 0.808066 | 3.716872e-50 | -8.615850e-47 |
| Msa0498360 | Msa0585230 | 0.800791 | 1.221077e-48 | -8.615850e-47 |
| Msa0498360 | Msa0743720 | 0.806416 | 8.314259e-50 | -8.615850e-47 |
| Msa0498360 | Msa0768290 | 0.805092 | 1.577115e-49 | -8.615850e-47 |
| Msa0498360 | Msa0844450 | 0.800036 | 1.739569e-48 | -8.615850e-47 |
| Msa0498360 | Msa0898670 | 0.801445 | 8.975029e-49 | -8.615850e-47 |
| Msa0498360 | Msa0953120 | 0.800638 | 1.312149e-48 | -8.615850e-47 |
| Msa0498360 | Msa0969810 | 0.803669 | 3.121303e-49 | -8.615850e-47 |
| Msa0498360 | Msa0998690 | 0.811037 | 8.554334e-51 | -8.615850e-47 |
| Msa0498360 | Msa1253020 | 0.800400 | 1.467438e-48 | -8.615850e-47 |
| Msa0498360 | Msa1276890 | 0.804418 | 2.180612e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0498360 | MtrunA17_Chr3g0095771 | 83.784 | 37 | 6 | 0 | 94 | 130 | 31 | 67 | 3.58e-16 | 69.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 21 sgRNAs with CRISPR-Local
Find 53 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTCATTGTTTATAATTAAA+TGG | 0.123965 | 3_4:-34484917 | Msa0498360:CDS |
| TTAGGGTCTCTTTAGCATTT+TGG | 0.166766 | 3_4:-34485302 | None:intergenic |
| TTGTGCCTGTCAATTGGTTT+TGG | 0.245873 | 3_4:-34485235 | Msa0498360:CDS |
| CTGCTGTTGTGCCTGTCAAT+TGG | 0.342798 | 3_4:-34485241 | Msa0498360:CDS |
| ACTTTCAGCTCAGGCTGCTT+TGG | 0.357433 | 3_4:-34484783 | Msa0498360:intron |
| TTCATTGTTTATAATTAAAT+GGG | 0.387552 | 3_4:-34484916 | Msa0498360:CDS |
| AATTTCTACATTCATTACTA+AGG | 0.412999 | 3_4:-34484881 | Msa0498360:CDS |
| TATCTGTTGATGCGTTGTTT+TGG | 0.417692 | 3_4:-34485275 | Msa0498360:CDS |
| TTAATTATAAACAATGAAAG+AGG | 0.476004 | 3_4:+34484921 | None:intergenic |
| TACATTCATTACTAAGGGAA+AGG | 0.476138 | 3_4:-34484875 | Msa0498360:CDS |
| CCTTGTGCTTTGTGTTCTTG+TGG | 0.489812 | 3_4:-34484725 | Msa0498360:CDS |
| ATTTCTACATTCATTACTAA+GGG | 0.494242 | 3_4:-34484880 | Msa0498360:CDS |
| ACATTCATTACTAAGGGAAA+GGG | 0.500069 | 3_4:-34484874 | Msa0498360:CDS |
| AACATTAACATGATGATTCG+TGG | 0.500489 | 3_4:-34484619 | Msa0498360:CDS |
| AATTAAATGGGACACAAAAG+TGG | 0.521203 | 3_4:-34484904 | Msa0498360:CDS |
| TATCCCCAAAACCAATTGAC+AGG | 0.539690 | 3_4:+34485230 | None:intergenic |
| AAAGCACAAGGTAAACAGTT+GGG | 0.541437 | 3_4:+34484737 | None:intergenic |
| TGTGCTTTGTGTTCTTGTGG+TGG | 0.546521 | 3_4:-34484722 | Msa0498360:CDS |
| CAAAGCACAAGGTAAACAGT+TGG | 0.564224 | 3_4:+34484736 | None:intergenic |
| CAGGCTGCTTTGGCTATCAG+AGG | 0.612905 | 3_4:-34484773 | Msa0498360:CDS |
| CCACAAGAACACAAAGCACA+AGG | 0.638086 | 3_4:+34484725 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTCATTGTTTATAATTAAA+TGG | - | chr3_4:34484953-34484972 | Msa0498360:intron | 10.0% |
| !! | TTCATTGTTTATAATTAAAT+GGG | - | chr3_4:34484954-34484973 | Msa0498360:intron | 10.0% |
| !!! | TTTATTTTTCAATTGTATTA+TGG | - | chr3_4:34485184-34485203 | Msa0498360:intron | 10.0% |
| !! | TTAATTATAAACAATGAAAG+AGG | + | chr3_4:34484952-34484971 | None:intergenic | 15.0% |
| !!! | GTTTTTTTTTCTTTCTGAAA+CGG | + | chr3_4:34484751-34484770 | None:intergenic | 20.0% |
| !! | AATTTCTACATTCATTACTA+AGG | - | chr3_4:34484989-34485008 | Msa0498360:intron | 20.0% |
| !! | ATTTCTACATTCATTACTAA+GGG | - | chr3_4:34484990-34485009 | Msa0498360:intron | 20.0% |
| !!! | TTTTACAAGTTGATATTGTA+CGG | - | chr3_4:34485043-34485062 | Msa0498360:intron | 20.0% |
| !! | GTATTATGGTTAAAAATGTT+TGG | - | chr3_4:34485198-34485217 | Msa0498360:intron | 20.0% |
| ! | TTGTTTGTTCTTCTCTTTAA+TGG | - | chr3_4:34484676-34484695 | Msa0498360:CDS | 25.0% |
| !!! | CTGTTAATTTGTGTGTTAAA+GGG | - | chr3_4:34484699-34484718 | Msa0498360:CDS | 25.0% |
| !!! | TGTTAATTTGTGTGTTAAAG+GGG | - | chr3_4:34484700-34484719 | Msa0498360:CDS | 25.0% |
| ! | AAGAAAAAAAAACTTGTGAC+AGG | - | chr3_4:34484758-34484777 | Msa0498360:CDS | 25.0% |
| ! | TTATGGTTAAAAATGTTTGG+AGG | - | chr3_4:34485201-34485220 | Msa0498360:intron | 25.0% |
| !! | AATTTTGCTAAATCCAAGAA+GGG | - | chr3_4:34485295-34485314 | Msa0498360:CDS | 25.0% |
| !! | GCTGTTAATTTGTGTGTTAA+AGG | - | chr3_4:34484698-34484717 | Msa0498360:CDS | 30.0% |
| AAACGGCTAAACTTTATGAA+AGG | + | chr3_4:34484734-34484753 | None:intergenic | 30.0% | |
| AAAAAAAAACTTGTGACAGG+AGG | - | chr3_4:34484761-34484780 | Msa0498360:CDS | 30.0% | |
| AATTAAATGGGACACAAAAG+TGG | - | chr3_4:34484966-34484985 | Msa0498360:intron | 30.0% | |
| TACATTCATTACTAAGGGAA+AGG | - | chr3_4:34484995-34485014 | Msa0498360:intron | 30.0% | |
| ACATTCATTACTAAGGGAAA+GGG | - | chr3_4:34484996-34485015 | Msa0498360:intron | 30.0% | |
| AACATTAACATGATGATTCG+TGG | - | chr3_4:34485251-34485270 | Msa0498360:CDS | 30.0% | |
| !!! | TGGAAGCATTTTCTTCTTTT+TGG | - | chr3_4:34485271-34485290 | Msa0498360:CDS | 30.0% |
| ! | CAATTTTGCTAAATCCAAGA+AGG | - | chr3_4:34485294-34485313 | Msa0498360:CDS | 30.0% |
| ! | TATCTGTTGATGCGTTGTTT+TGG | - | chr3_4:34484595-34484614 | Msa0498360:CDS | 35.0% |
| CCAAAGAATCAGAAGCTAAA+AGG | + | chr3_4:34484792-34484811 | None:intergenic | 35.0% | |
| !!! | CCTTTTAGCTTCTGATTCTT+TGG | - | chr3_4:34484789-34484808 | Msa0498360:intron | 35.0% |
| ! | TGGCTTCAGTAATTTGTGTT+TGG | - | chr3_4:34484809-34484828 | Msa0498360:intron | 35.0% |
| AAAGCACAAGGTAAACAGTT+GGG | + | chr3_4:34485136-34485155 | None:intergenic | 35.0% | |
| !! | AGGAATGTTTTCGATTCGTT+GGG | - | chr3_4:34485221-34485240 | Msa0498360:CDS | 35.0% |
| !! | TTGTGCCTGTCAATTGGTTT+TGG | - | chr3_4:34484635-34484654 | Msa0498360:CDS | 40.0% |
| !!! | TGTGCCTGTCAATTGGTTTT+GGG | - | chr3_4:34484636-34484655 | Msa0498360:CDS | 40.0% |
| TATCCCCAAAACCAATTGAC+AGG | + | chr3_4:34484643-34484662 | None:intergenic | 40.0% | |
| CGGCTAAACTTTATGAAAGG+AGG | + | chr3_4:34484731-34484750 | None:intergenic | 40.0% | |
| TCTCTCTGCAATTGTCATTC+AGG | - | chr3_4:34484838-34484857 | Msa0498360:CDS | 40.0% | |
| ACCTGATAAACTTTCAGCTC+AGG | - | chr3_4:34485078-34485097 | Msa0498360:intron | 40.0% | |
| CAAAGCACAAGGTAAACAGT+TGG | + | chr3_4:34485137-34485156 | None:intergenic | 40.0% | |
| !! | GAGGAATGTTTTCGATTCGT+TGG | - | chr3_4:34485220-34485239 | Msa0498360:CDS | 40.0% |
| !! | TGTTTTCGATTCGTTGGGAT+TGG | - | chr3_4:34485226-34485245 | Msa0498360:CDS | 40.0% |
| !!! | GTTGATGCGTTGTTTTGGCT+CGG | - | chr3_4:34484600-34484619 | Msa0498360:CDS | 45.0% |
| !!! | TTGATGCGTTGTTTTGGCTC+GGG | - | chr3_4:34484601-34484620 | Msa0498360:CDS | 45.0% |
| !!! | GTGCCTGTCAATTGGTTTTG+GGG | - | chr3_4:34484637-34484656 | Msa0498360:CDS | 45.0% |
| GCCTGAGCTGAAAGTTTATC+AGG | + | chr3_4:34485082-34485101 | None:intergenic | 45.0% | |
| CCACAAGAACACAAAGCACA+AGG | + | chr3_4:34485148-34485167 | None:intergenic | 45.0% | |
| CCTTGTGCTTTGTGTTCTTG+TGG | - | chr3_4:34485145-34485164 | Msa0498360:intron | 45.0% | |
| TGTGCTTTGTGTTCTTGTGG+TGG | - | chr3_4:34485148-34485167 | Msa0498360:intron | 45.0% | |
| CTGCTGTTGTGCCTGTCAAT+TGG | - | chr3_4:34484629-34484648 | Msa0498360:CDS | 50.0% | |
| !!! | TGGTTTTGGGGATAGCAGCT+AGG | - | chr3_4:34484649-34484668 | Msa0498360:CDS | 50.0% |
| ACTTTCAGCTCAGGCTGCTT+TGG | - | chr3_4:34485087-34485106 | Msa0498360:intron | 50.0% | |
| !!! | ATGCGTTGTTTTGGCTCGGG+TGG | - | chr3_4:34484604-34484623 | Msa0498360:CDS | 55.0% |
| !!! | TGCGTTGTTTTGGCTCGGGT+GGG | - | chr3_4:34484605-34484624 | Msa0498360:CDS | 55.0% |
| ! | CAGGCTGCTTTGGCTATCAG+AGG | - | chr3_4:34485097-34485116 | Msa0498360:intron | 55.0% |
| !!! | GCGTTGTTTTGGCTCGGGTG+GGG | - | chr3_4:34484606-34484625 | Msa0498360:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_4 | gene | 34484573 | 34485319 | 34484573 | ID=Msa0498360;Name=Msa0498360 |
| chr3_4 | mRNA | 34484573 | 34485319 | 34484573 | ID=Msa0498360-mRNA-1;Parent=Msa0498360;Name=Msa0498360-mRNA-1;_AED=0.11;_eAED=0.45;_QI=0|0|0|1|0|0|3|0|150 |
| chr3_4 | exon | 34485215 | 34485319 | 34485215 | ID=Msa0498360-mRNA-1:exon:7315;Parent=Msa0498360-mRNA-1 |
| chr3_4 | exon | 34484833 | 34484952 | 34484833 | ID=Msa0498360-mRNA-1:exon:7314;Parent=Msa0498360-mRNA-1 |
| chr3_4 | exon | 34484573 | 34484797 | 34484573 | ID=Msa0498360-mRNA-1:exon:7313;Parent=Msa0498360-mRNA-1 |
| chr3_4 | CDS | 34485215 | 34485319 | 34485215 | ID=Msa0498360-mRNA-1:cds;Parent=Msa0498360-mRNA-1 |
| chr3_4 | CDS | 34484833 | 34484952 | 34484833 | ID=Msa0498360-mRNA-1:cds;Parent=Msa0498360-mRNA-1 |
| chr3_4 | CDS | 34484573 | 34484797 | 34484573 | ID=Msa0498360-mRNA-1:cds;Parent=Msa0498360-mRNA-1 |
| Gene Sequence |
| Protein sequence |
