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 |
|---|
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0113760 | A0A072VHF1 | 95.918 | 49 | 0 | 2 | 1 | 47 | 1 | 49 | 2.32e-20 | 91.7 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0113760 | Msa1082500 | 0.803931 | 2.753852e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0113760 | MtrunA17_Chr1g0171561 | 95.918 | 49 | 0 | 2 | 1 | 47 | 1 | 49 | 5.04e-24 | 92.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 26 sgRNAs with CRISPR-Local
Find 47 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CCTGCATTTCGCAAGCCTAC+TGG | 0.300840 | 1_3:+29775700 | Msa0113760:CDS |
| TATGTTTGTTTACAGGGTTA+TGG | 0.318346 | 1_3:+29775606 | Msa0113760:intron |
| GGGGCATACGAGTAAGTTTA+GGG | 0.361739 | 1_3:-29775448 | None:intergenic |
| CTGCATTTCGCAAGCCTACT+GGG | 0.363911 | 1_3:+29775701 | Msa0113760:CDS |
| AGGGGCATACGAGTAAGTTT+AGG | 0.368249 | 1_3:-29775449 | None:intergenic |
| CTGGGGATGCACTAGCTAAT+AGG | 0.369545 | 1_3:+29775719 | Msa0113760:CDS |
| GAGTAAGTTTAGGGATTTGA+GGG | 0.444279 | 1_3:-29775439 | None:intergenic |
| AGTGTAAACGACAGTGCAAT+TGG | 0.458733 | 1_3:+29775301 | None:intergenic |
| CTGAGCTATTCTCAGGAAGT+AGG | 0.459339 | 1_3:-29775991 | None:intergenic |
| CGAGTAAGTTTAGGGATTTG+AGG | 0.475854 | 1_3:-29775440 | None:intergenic |
| CAGCAGAATCGTTGTTGTTG+TGG | 0.498747 | 1_3:-29775660 | None:intergenic |
| TAAGTTACTGTGAATTGAGT+TGG | 0.500621 | 1_3:-29775416 | None:intergenic |
| CCAGTAGGCTTGCGAAATGC+AGG | 0.500892 | 1_3:-29775700 | None:intergenic |
| AACAAAACGACGAGAGAAGA+GGG | 0.506181 | 1_3:+29775334 | Msa0113760:five_prime_UTR |
| AAACAAAACGACGAGAGAAG+AGG | 0.506932 | 1_3:+29775333 | Msa0113760:five_prime_UTR |
| TGAGCTATTCTCAGGAAGTA+GGG | 0.521513 | 1_3:-29775990 | None:intergenic |
| AATTATCGCCGCCCACCTCA+TGG | 0.538347 | 1_3:+29775742 | Msa0113760:CDS |
| TGAGTTGGCGCTTGTAATTG+AGG | 0.551980 | 1_3:-29775401 | None:intergenic |
| TGCATTTCGCAAGCCTACTG+GGG | 0.600671 | 1_3:+29775702 | Msa0113760:CDS |
| TTAGCTAGTGCATCCCCAGT+AGG | 0.608050 | 1_3:-29775715 | None:intergenic |
| TTGTTGTGGTCATGAGGCGG+AGG | 0.610691 | 1_3:-29775646 | None:intergenic |
| GATAGAATGAAACCATGAGG+TGG | 0.629864 | 1_3:-29775754 | None:intergenic |
| TCGTTGTTGTTGTGGTCATG+AGG | 0.630592 | 1_3:-29775652 | None:intergenic |
| ATAGAATGAAACCATGAGGT+GGG | 0.652178 | 1_3:-29775753 | None:intergenic |
| TTGTTGTTGTGGTCATGAGG+CGG | 0.654130 | 1_3:-29775649 | None:intergenic |
| GAATGAAACCATGAGGTGGG+CGG | 0.657383 | 1_3:-29775750 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | CTTTTTTTTAATGTTTTTTT+AGG | + | chr1_3:29775776-29775795 | Msa0113760:intron | 10.0% |
| !!! | TTTTTTTAATGTTTTTTTAG+GGG | + | chr1_3:29775778-29775797 | Msa0113760:intron | 10.0% |
| !! | TTCTTAAAGAACAATATAAA+AGG | - | chr1_3:29775804-29775823 | None:intergenic | 15.0% |
| !!! | AACTTATATGTTTTATCTTT+AGG | + | chr1_3:29775946-29775965 | Msa0113760:intron | 15.0% |
| !! | AAATTGAAGATGAATAGAAA+AGG | - | chr1_3:29775497-29775516 | None:intergenic | 20.0% |
| !! | TATATTCCAAGTTTCAAAAT+TGG | - | chr1_3:29775588-29775607 | None:intergenic | 20.0% |
| ! | ATGAATAGAAAAGGTGATTA+TGG | - | chr1_3:29775488-29775507 | None:intergenic | 25.0% |
| !! | TGGTTGTTTCAACAAATAAA+TGG | - | chr1_3:29775568-29775587 | None:intergenic | 25.0% |
| !!! | AAACAACCAATTTTGAAACT+TGG | + | chr1_3:29775579-29775598 | Msa0113760:intron | 25.0% |
| ! | TGGAATATATGTTTGTTTAC+AGG | + | chr1_3:29775599-29775618 | Msa0113760:intron | 25.0% |
| ! | GGAATATATGTTTGTTTACA+GGG | + | chr1_3:29775600-29775619 | Msa0113760:intron | 25.0% |
| TAAGTTACTGTGAATTGAGT+TGG | - | chr1_3:29775419-29775438 | None:intergenic | 30.0% | |
| AATAGAAAAGGTGATTATGG+AGG | - | chr1_3:29775485-29775504 | None:intergenic | 30.0% | |
| TATGTTTGTTTACAGGGTTA+TGG | + | chr1_3:29775606-29775625 | Msa0113760:intron | 30.0% | |
| AAAGATAGAATGAAACCATG+AGG | - | chr1_3:29775760-29775779 | None:intergenic | 30.0% | |
| ATAATAGAGTCATTGTCTAC+TGG | + | chr1_3:29775904-29775923 | Msa0113760:intron | 30.0% | |
| AGGGAAAAATCAATCAATCG+AGG | + | chr1_3:29775353-29775372 | Msa0113760:five_prime_UTR | 35.0% | |
| GGGAAAAATCAATCAATCGA+GGG | + | chr1_3:29775354-29775373 | Msa0113760:five_prime_UTR | 35.0% | |
| GAGTAAGTTTAGGGATTTGA+GGG | - | chr1_3:29775442-29775461 | None:intergenic | 35.0% | |
| ATAGAATGAAACCATGAGGT+GGG | - | chr1_3:29775756-29775775 | None:intergenic | 35.0% | |
| ! | GAAAGTTTGTTCCATAAAGC+TGG | - | chr1_3:29775868-29775887 | None:intergenic | 35.0% |
| AAACAAAACGACGAGAGAAG+AGG | + | chr1_3:29775333-29775352 | Msa0113760:five_prime_UTR | 40.0% | |
| AACAAAACGACGAGAGAAGA+GGG | + | chr1_3:29775334-29775353 | Msa0113760:five_prime_UTR | 40.0% | |
| CGAGTAAGTTTAGGGATTTG+AGG | - | chr1_3:29775443-29775462 | None:intergenic | 40.0% | |
| TTATGGAGGAAGGAGAAAGA+GGG | - | chr1_3:29775471-29775490 | None:intergenic | 40.0% | |
| ATTATGGAGGAAGGAGAAAG+AGG | - | chr1_3:29775472-29775491 | None:intergenic | 40.0% | |
| GAAAAGGTGATTATGGAGGA+AGG | - | chr1_3:29775481-29775500 | None:intergenic | 40.0% | |
| GATAGAATGAAACCATGAGG+TGG | - | chr1_3:29775757-29775776 | None:intergenic | 40.0% | |
| AGCTGGTGTCTTTCATGAAT+AGG | - | chr1_3:29775851-29775870 | None:intergenic | 40.0% | |
| CATGAAAGACACCAGCTTTA+TGG | + | chr1_3:29775854-29775873 | Msa0113760:intron | 40.0% | |
| ! | TGAGTTGGCGCTTGTAATTG+AGG | - | chr1_3:29775404-29775423 | None:intergenic | 45.0% |
| GGGGCATACGAGTAAGTTTA+GGG | - | chr1_3:29775451-29775470 | None:intergenic | 45.0% | |
| ! | AGGGGCATACGAGTAAGTTT+AGG | - | chr1_3:29775452-29775471 | None:intergenic | 45.0% |
| TATGGAGGAAGGAGAAAGAG+GGG | - | chr1_3:29775470-29775489 | None:intergenic | 45.0% | |
| ! | TTGTTGTTGTGGTCATGAGG+CGG | - | chr1_3:29775652-29775671 | None:intergenic | 45.0% |
| ! | TCGTTGTTGTTGTGGTCATG+AGG | - | chr1_3:29775655-29775674 | None:intergenic | 45.0% |
| ! | CAGCAGAATCGTTGTTGTTG+TGG | - | chr1_3:29775663-29775682 | None:intergenic | 45.0% |
| !!! | TTTTTTTTAATGTTTTTTTA+GGG | + | chr1_3:29775777-29775796 | Msa0113760:intron | 5.0% |
| CTGCATTTCGCAAGCCTACT+GGG | + | chr1_3:29775701-29775720 | Msa0113760:CDS | 50.0% | |
| TGCATTTCGCAAGCCTACTG+GGG | + | chr1_3:29775702-29775721 | Msa0113760:CDS | 50.0% | |
| TTAGCTAGTGCATCCCCAGT+AGG | - | chr1_3:29775718-29775737 | None:intergenic | 50.0% | |
| CTGGGGATGCACTAGCTAAT+AGG | + | chr1_3:29775719-29775738 | Msa0113760:CDS | 50.0% | |
| GAATGAAACCATGAGGTGGG+CGG | - | chr1_3:29775753-29775772 | None:intergenic | 50.0% | |
| TTGTTGTGGTCATGAGGCGG+AGG | - | chr1_3:29775649-29775668 | None:intergenic | 55.0% | |
| CCAGTAGGCTTGCGAAATGC+AGG | - | chr1_3:29775703-29775722 | None:intergenic | 55.0% | |
| CCTGCATTTCGCAAGCCTAC+TGG | + | chr1_3:29775700-29775719 | Msa0113760:CDS | 55.0% | |
| AATTATCGCCGCCCACCTCA+TGG | + | chr1_3:29775742-29775761 | Msa0113760:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1_3 | gene | 29775309 | 29776002 | 29775309 | ID=Msa0113760;Name=Msa0113760 |
| chr1_3 | mRNA | 29775309 | 29776002 | 29775309 | ID=Msa0113760-mRNA-1;Parent=Msa0113760;Name=Msa0113760-mRNA-1;_AED=0.14;_eAED=0.14;_QI=157|0.5|0.66|0.66|0.5|0.33|3|0|57 |
| chr1_3 | exon | 29775309 | 29775461 | 29775309 | ID=Msa0113760-mRNA-1:exon:9840;Parent=Msa0113760-mRNA-1 |
| chr1_3 | exon | 29775621 | 29775763 | 29775621 | ID=Msa0113760-mRNA-1:exon:9841;Parent=Msa0113760-mRNA-1 |
| chr1_3 | exon | 29775968 | 29776002 | 29775968 | ID=Msa0113760-mRNA-1:exon:9842;Parent=Msa0113760-mRNA-1 |
| chr1_3 | five_prime_UTR | 29775309 | 29775461 | 29775309 | ID=Msa0113760-mRNA-1:five_prime_utr;Parent=Msa0113760-mRNA-1 |
| chr1_3 | five_prime_UTR | 29775621 | 29775624 | 29775621 | ID=Msa0113760-mRNA-1:five_prime_utr;Parent=Msa0113760-mRNA-1 |
| chr1_3 | CDS | 29775625 | 29775763 | 29775625 | ID=Msa0113760-mRNA-1:cds;Parent=Msa0113760-mRNA-1 |
| chr1_3 | CDS | 29775968 | 29776002 | 29775968 | ID=Msa0113760-mRNA-1:cds;Parent=Msa0113760-mRNA-1 |
| Gene Sequence |
| Protein sequence |
