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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0892310 | RHN51908.1 | 69.811 | 53 | 2 | 1 | 1 | 39 | 123 | 175 | 2.64e-11 | 66.6 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0892310 | A0A396HH37 | 69.811 | 53 | 2 | 1 | 1 | 39 | 123 | 175 | 1.26e-11 | 66.6 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0639460 | Msa0892310 | 0.833186 | 6.161999e-56 | -8.615850e-47 |
| Msa0682360 | Msa0892310 | 0.800726 | 1.258664e-48 | -8.615850e-47 |
| Msa0366900 | Msa0892310 | 0.840759 | 7.166555e-58 | -8.615850e-47 |
| Msa0892310 | Msa0957380 | 0.808834 | 2.548413e-50 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0892310 | MtrunA17_Chr6g0474371 | 69.811 | 53 | 2 | 1 | 1 | 39 | 123 | 175 | 2.43e-15 | 66.6 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 19 sgRNAs with CRISPR-Local
Find 99 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTCTATTTGAAATACATAAA+TGG | 0.239661 | 6_1:+71458242 | None:intergenic |
| TGACAACAACAAAATATTAA+TGG | 0.251022 | 6_1:-71458282 | Msa0892310:three_prime_UTR |
| CAATTGCAGGATATACATTA+AGG | 0.326716 | 6_1:-71459617 | Msa0892310:intron |
| AACAATTCATATTCAATTGC+AGG | 0.336416 | 6_1:-71459630 | Msa0892310:CDS |
| GTTTGGTGTATGTTCTATAT+AGG | 0.399309 | 6_1:-71458215 | Msa0892310:three_prime_UTR |
| GAGATAAATGAGGTGTTGAA+TGG | 0.415839 | 6_1:-71458113 | Msa0892310:three_prime_UTR |
| TAACAAAACATTGGATCCCA+AGG | 0.538783 | 6_1:-71459855 | Msa0892310:intron |
| TTTGTCAACAACGAGGTTTG+AGG | 0.557701 | 6_1:+71459652 | None:intergenic |
| GGAGGAGGTTAACAAAACAT+TGG | 0.566471 | 6_1:-71459864 | Msa0892310:CDS |
| TTGTCAGGTGCATCACTTGG+AGG | 0.569728 | 6_1:-71459882 | Msa0892310:intron |
| AACAACAAAATATTAATGGA+TGG | 0.573678 | 6_1:-71458278 | Msa0892310:three_prime_UTR |
| TCAGGTGCATCACTTGGAGG+AGG | 0.575411 | 6_1:-71459879 | Msa0892310:intron |
| GATATAATAAGTAGATGATG+AGG | 0.578923 | 6_1:-71458148 | Msa0892310:three_prime_UTR |
| ACGTTGTCAGGTGCATCACT+TGG | 0.581480 | 6_1:-71459885 | Msa0892310:intron |
| TGTTGAATGGATATTGAAAG+AGG | 0.584727 | 6_1:-71458100 | Msa0892310:three_prime_UTR |
| GAGATATTTAGAGATAAATG+AGG | 0.599717 | 6_1:-71458123 | Msa0892310:three_prime_UTR |
| GTTGTTGTCGAGCTTGTGTG+AGG | 0.617068 | 6_1:+71460406 | None:intergenic |
| TTGTTGTCGAGCTTGTGTGA+GGG | 0.625910 | 6_1:+71460407 | None:intergenic |
| GAAAGAATTGCAAAGACTCG+AGG | 0.646936 | 6_1:-71460445 | Msa0892310:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TCAATTGAATTTTTTTTTTT+TGG | - | chr6_1:71458755-71458774 | Msa0892310:intron | 10.0% |
| !!! | CAATTGAATTTTTTTTTTTT+GGG | - | chr6_1:71458756-71458775 | Msa0892310:intron | 10.0% |
| !!! | TTTTGAAATAGCAAATAAAT+AGG | - | chr6_1:71458350-71458369 | Msa0892310:CDS | 15.0% |
| !!! | AGTATGCAATTATTTTTAAA+AGG | - | chr6_1:71458524-71458543 | Msa0892310:intron | 15.0% |
| !!! | AAAATTTGATGTTTTTGTTT+CGG | - | chr6_1:71459252-71459271 | Msa0892310:intron | 15.0% |
| !! | TATTATTATTACTTATGCTT+TGG | - | chr6_1:71460061-71460080 | Msa0892310:intron | 15.0% |
| !!! | TTCTATTTGAAATACATAAA+TGG | + | chr6_1:71460262-71460281 | None:intergenic | 15.0% |
| !! | ATTTCAAATAGAAAAATGTT+TGG | - | chr6_1:71460269-71460288 | Msa0892310:intron | 15.0% |
| !!! | TAATATTTTTCTTTCTATCA+AGG | + | chr6_1:71460320-71460339 | None:intergenic | 15.0% |
| !! | GATGTATAATATGTATATGA+TGG | + | chr6_1:71458145-71458164 | None:intergenic | 20.0% |
| !!! | TAGTAACATGAATTTTTGAA+AGG | + | chr6_1:71458677-71458696 | None:intergenic | 20.0% |
| !! | TAGAATTGATAAAGTAGAAA+TGG | - | chr6_1:71459049-71459068 | Msa0892310:intron | 20.0% |
| !!! | CTTATATATTTTGTTGCAAT+TGG | - | chr6_1:71460140-71460159 | Msa0892310:intron | 20.0% |
| !! | TGACAACAACAAAATATTAA+TGG | - | chr6_1:71460219-71460238 | Msa0892310:intron | 20.0% |
| !! | AACAACAAAATATTAATGGA+TGG | - | chr6_1:71460223-71460242 | Msa0892310:intron | 20.0% |
| !!! | TTTTTGAAAGGAAAAACCTT+GGG | + | chr6_1:71458665-71458684 | None:intergenic | 25.0% |
| !!! | ATTTTTGAAAGGAAAAACCT+TGG | + | chr6_1:71458666-71458685 | None:intergenic | 25.0% |
| !! | TTCAAAAGTGCAAGTATATA+AGG | + | chr6_1:71458803-71458822 | None:intergenic | 25.0% |
| !!! | ACTTTTGAAATTTACTTTGC+AGG | - | chr6_1:71458814-71458833 | Msa0892310:intron | 25.0% |
| ! | AACAATTCATATTCAATTGC+AGG | - | chr6_1:71458871-71458890 | Msa0892310:intron | 25.0% |
| ! | TTGAAAGACACATGATATAT+CGG | - | chr6_1:71459098-71459117 | Msa0892310:intron | 25.0% |
| ! | CAATAAATTTAATGTCAGCT+AGG | + | chr6_1:71459221-71459240 | None:intergenic | 25.0% |
| ! | TTATGTTTATGCAAAAATCG+TGG | - | chr6_1:71459325-71459344 | Msa0892310:intron | 25.0% |
| ! | AAAAAAATGAGCGAACTTAT+AGG | - | chr6_1:71459501-71459520 | Msa0892310:intron | 25.0% |
| ! | TTAACTGTTTAATAGTGAAG+TGG | - | chr6_1:71459708-71459727 | Msa0892310:intron | 25.0% |
| ! | TTGGTTACTATATTAGATCT+AGG | - | chr6_1:71459845-71459864 | Msa0892310:intron | 25.0% |
| ! | TCGATTCCTAGAAAAAAAAT+GGG | + | chr6_1:71460000-71460019 | None:intergenic | 25.0% |
| ! | TTCGATTCCTAGAAAAAAAA+TGG | + | chr6_1:71460001-71460020 | None:intergenic | 25.0% |
| !!! | ATTTTTTTTCTAGGAATCGA+AGG | - | chr6_1:71460000-71460019 | Msa0892310:intron | 25.0% |
| !!! | TTTTTTTTCTAGGAATCGAA+GGG | - | chr6_1:71460001-71460020 | Msa0892310:intron | 25.0% |
| ! | GATATAATAAGTAGATGATG+AGG | - | chr6_1:71460353-71460372 | Msa0892310:intron | 25.0% |
| ! | GAGATATTTAGAGATAAATG+AGG | - | chr6_1:71460378-71460397 | Msa0892310:intron | 25.0% |
| AAGGAAAATTAATGATCAGC+AGG | + | chr6_1:71458588-71458607 | None:intergenic | 30.0% | |
| ! | TGCTGATCATTAATTTTCCT+TGG | - | chr6_1:71458587-71458606 | Msa0892310:intron | 30.0% |
| CAATTGCAGGATATACATTA+AGG | - | chr6_1:71458884-71458903 | Msa0892310:intron | 30.0% | |
| ! | ATGTATGCTCTGTCTATTTT+TGG | - | chr6_1:71458922-71458941 | Msa0892310:intron | 30.0% |
| TAATGTCACTACTAATGAGA+AGG | + | chr6_1:71458978-71458997 | None:intergenic | 30.0% | |
| ! | TTGTGGCGTGATTTTAAATT+AGG | - | chr6_1:71459363-71459382 | Msa0892310:intron | 30.0% |
| AATTAGGTTCAGTATTGTGA+TGG | - | chr6_1:71459379-71459398 | Msa0892310:intron | 30.0% | |
| ATTAGGTTCAGTATTGTGAT+GGG | - | chr6_1:71459380-71459399 | Msa0892310:intron | 30.0% | |
| AAATCGTAATGTGTATTGTC+TGG | - | chr6_1:71459413-71459432 | Msa0892310:intron | 30.0% | |
| TCTAGATGTAAGTCATTGTT+GGG | - | chr6_1:71459745-71459764 | Msa0892310:intron | 30.0% | |
| ! | CTCTCTTTTTCTTTTTCTTG+TGG | - | chr6_1:71459808-71459827 | Msa0892310:intron | 30.0% |
| ! | GTTACTACTTCTTTTTACTC+TGG | - | chr6_1:71459917-71459936 | Msa0892310:intron | 30.0% |
| !! | GTCATTTGAAGTAGTTTTCA+TGG | + | chr6_1:71460174-71460193 | None:intergenic | 30.0% |
| !!! | TATTTTGTTGTTGTCATTGC+AGG | + | chr6_1:71460215-71460234 | None:intergenic | 30.0% |
| !! | GTTTGGTGTATGTTCTATAT+AGG | - | chr6_1:71460286-71460305 | Msa0892310:intron | 30.0% |
| TGTTGAATGGATATTGAAAG+AGG | - | chr6_1:71460401-71460420 | Msa0892310:intron | 30.0% | |
| ATGATGGCACTTATGTTTAG+TGG | + | chr6_1:71458129-71458148 | None:intergenic | 35.0% | |
| TAACAAAACATTGGATCCCA+AGG | - | chr6_1:71458646-71458665 | Msa0892310:intron | 35.0% | |
| !! | GAATTGTTTTGTCAACAACG+AGG | + | chr6_1:71458859-71458878 | None:intergenic | 35.0% |
| AGTCTAATCAATGATTGAGC+CGG | + | chr6_1:71459183-71459202 | None:intergenic | 35.0% | |
| !! | TTTTTGTTTCGGCAAAATCG+TGG | - | chr6_1:71459263-71459282 | Msa0892310:intron | 35.0% |
| TACGATAATCTGACACGATT+TGG | - | chr6_1:71459286-71459305 | Msa0892310:intron | 35.0% | |
| TTAGGTTCAGTATTGTGATG+GGG | - | chr6_1:71459381-71459400 | Msa0892310:intron | 35.0% | |
| ATCATTGTGTCTCTTGATCA+TGG | - | chr6_1:71459593-71459612 | Msa0892310:intron | 35.0% | |
| CTTGATCATGGAAAGAGATT+CGG | - | chr6_1:71459605-71459624 | Msa0892310:intron | 35.0% | |
| TTGATCATGGAAAGAGATTC+GGG | - | chr6_1:71459606-71459625 | Msa0892310:intron | 35.0% | |
| TCGGGAAAAGGTTATACATT+AGG | - | chr6_1:71459624-71459643 | Msa0892310:CDS | 35.0% | |
| CAACAATGACTTACATCTAG+AGG | + | chr6_1:71459746-71459765 | None:intergenic | 35.0% | |
| CTCTAGATGTAAGTCATTGT+TGG | - | chr6_1:71459744-71459763 | Msa0892310:intron | 35.0% | |
| !! | GCTTGAGGCTACTTTAAAAT+TGG | - | chr6_1:71459895-71459914 | Msa0892310:intron | 35.0% |
| !!! | ATCCAGCCCATTTTTTTTCT+AGG | - | chr6_1:71459991-71460010 | Msa0892310:intron | 35.0% |
| TTCCTAGAAAAAAAATGGGC+TGG | + | chr6_1:71459996-71460015 | None:intergenic | 35.0% | |
| !! | GAGATAAATGAGGTGTTGAA+TGG | - | chr6_1:71460388-71460407 | Msa0892310:intron | 35.0% |
| GAAAGAATTGCAAAGACTCG+AGG | - | chr6_1:71458056-71458075 | Msa0892310:three_prime_UTR | 40.0% | |
| TTTGCAGATGAAGAAGCTCA+TGG | - | chr6_1:71458476-71458495 | Msa0892310:intron | 40.0% | |
| GTCGAGAAACATGTGACATA+AGG | + | chr6_1:71458566-71458585 | None:intergenic | 40.0% | |
| GGAGGAGGTTAACAAAACAT+TGG | - | chr6_1:71458637-71458656 | Msa0892310:intron | 40.0% | |
| TTTGTCAACAACGAGGTTTG+AGG | + | chr6_1:71458852-71458871 | None:intergenic | 40.0% | |
| ACACATGATATATCGGCAAG+TGG | - | chr6_1:71459105-71459124 | Msa0892310:intron | 40.0% | |
| ! | GATTTGGCTCAACAGTTTGA+AGG | - | chr6_1:71459302-71459321 | Msa0892310:intron | 40.0% |
| TCCAAGCTCTCTCAACAAAT+GGG | + | chr6_1:71459470-71459489 | None:intergenic | 40.0% | |
| AGTGTCTTGGTGAGATTCTA+GGG | - | chr6_1:71459535-71459554 | Msa0892310:intron | 40.0% | |
| ATGGAAAGAGATTCGGGAAA+AGG | - | chr6_1:71459612-71459631 | Msa0892310:intron | 40.0% | |
| ! | TGTGGTTTGTGCTTTACACT+TGG | - | chr6_1:71459826-71459845 | Msa0892310:intron | 40.0% |
| TTGTTGTCGAGCTTGTGTGA+GGG | + | chr6_1:71458097-71458116 | None:intergenic | 45.0% | |
| AAGAACTCGAGTTCCAAACC+TGG | - | chr6_1:71459157-71459176 | Msa0892310:intron | 45.0% | |
| TTAATGTCAGCTAGGTCGAG+AGG | + | chr6_1:71459213-71459232 | None:intergenic | 45.0% | |
| ! | ACCCATTTGTTGAGAGAGCT+TGG | - | chr6_1:71459466-71459485 | Msa0892310:intron | 45.0% |
| CTCCAAGCTCTCTCAACAAA+TGG | + | chr6_1:71459471-71459490 | None:intergenic | 45.0% | |
| GGCTAAGAGTTTGAGTGTCT+TGG | - | chr6_1:71459522-71459541 | Msa0892310:intron | 45.0% | |
| GAGTGTCTTGGTGAGATTCT+AGG | - | chr6_1:71459534-71459553 | Msa0892310:intron | 45.0% | |
| !! | TCTTGGTGAGATTCTAGGGT+TGG | - | chr6_1:71459539-71459558 | Msa0892310:intron | 45.0% |
| AGTCATTGTTGGGTCGAACT+AGG | - | chr6_1:71459755-71459774 | Msa0892310:intron | 45.0% | |
| CGAACTAGGTGAACAACGTT+TGG | - | chr6_1:71459769-71459788 | Msa0892310:intron | 45.0% | |
| !! | TGAAAAATAATAAAATTTAA+TGG | + | chr6_1:71458215-71458234 | None:intergenic | 5.0% |
| GTTGTTGTCGAGCTTGTGTG+AGG | + | chr6_1:71458098-71458117 | None:intergenic | 50.0% | |
| CCTGACAACGTATACAGCCA+AGG | + | chr6_1:71458607-71458626 | None:intergenic | 50.0% | |
| CCTTGGCTGTATACGTTGTC+AGG | - | chr6_1:71458604-71458623 | Msa0892310:intron | 50.0% | |
| ACGTTGTCAGGTGCATCACT+TGG | - | chr6_1:71458616-71458635 | Msa0892310:intron | 50.0% | |
| TTGTCAGGTGCATCACTTGG+AGG | - | chr6_1:71458619-71458638 | Msa0892310:intron | 50.0% | |
| AATCAATGATTGAGCCGGCC+AGG | + | chr6_1:71459178-71459197 | None:intergenic | 50.0% | |
| GGCGCGAGATGCATAAATTG+TGG | - | chr6_1:71459346-71459365 | Msa0892310:intron | 50.0% | |
| ! | GTTGTTGATGCTGCTGCTTG+AGG | - | chr6_1:71459880-71459899 | Msa0892310:intron | 50.0% |
| TCAGGTGCATCACTTGGAGG+AGG | - | chr6_1:71458622-71458641 | Msa0892310:intron | 55.0% | |
| ACTCGAGTTCCAAACCTGGC+CGG | - | chr6_1:71459161-71459180 | Msa0892310:intron | 55.0% | |
| ATGATTGAGCCGGCCAGGTT+TGG | + | chr6_1:71459173-71459192 | None:intergenic | 55.0% | |
| GAAGCTCATGGCACGAGCTG+AGG | - | chr6_1:71458488-71458507 | Msa0892310:intron | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6_1 | gene | 71458033 | 71460490 | 71458033 | ID=Msa0892310;Name=Msa0892310 |
| chr6_1 | mRNA | 71458033 | 71460490 | 71458033 | ID=Msa0892310-mRNA-1;Parent=Msa0892310;Name=Msa0892310-mRNA-1;_AED=0.04;_eAED=0.04;_QI=21|0.33|0.75|1|0|0.25|4|314|70 |
| chr6_1 | exon | 71458033 | 71458388 | 71458033 | ID=Msa0892310-mRNA-1:exon:12321;Parent=Msa0892310-mRNA-1 |
| chr6_1 | exon | 71459618 | 71459680 | 71459618 | ID=Msa0892310-mRNA-1:exon:12320;Parent=Msa0892310-mRNA-1 |
| chr6_1 | exon | 71459856 | 71459897 | 71459856 | ID=Msa0892310-mRNA-1:exon:12319;Parent=Msa0892310-mRNA-1 |
| chr6_1 | exon | 71460404 | 71460490 | 71460404 | ID=Msa0892310-mRNA-1:exon:12318;Parent=Msa0892310-mRNA-1 |
| chr6_1 | five_prime_UTR | 71460470 | 71460490 | 71460470 | ID=Msa0892310-mRNA-1:five_prime_utr;Parent=Msa0892310-mRNA-1 |
| chr6_1 | CDS | 71460404 | 71460469 | 71460404 | ID=Msa0892310-mRNA-1:cds;Parent=Msa0892310-mRNA-1 |
| chr6_1 | CDS | 71459856 | 71459897 | 71459856 | ID=Msa0892310-mRNA-1:cds;Parent=Msa0892310-mRNA-1 |
| chr6_1 | CDS | 71459618 | 71459680 | 71459618 | ID=Msa0892310-mRNA-1:cds;Parent=Msa0892310-mRNA-1 |
| chr6_1 | CDS | 71458347 | 71458388 | 71458347 | ID=Msa0892310-mRNA-1:cds;Parent=Msa0892310-mRNA-1 |
| chr6_1 | three_prime_UTR | 71458033 | 71458346 | 71458033 | ID=Msa0892310-mRNA-1:three_prime_utr;Parent=Msa0892310-mRNA-1 |
| Gene Sequence |
| Protein sequence |
