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 |
|---|
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0389920 | Msa1171040 | 0.903889 | 2.173139e-79 | -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 |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 36 sgRNAs with CRISPR-Local
Find 124 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GGACCTCTTTCATCATGATT+TGG | 0.251911 | 8_1:-522739 | None:intergenic |
| GACCTCTTTCATCATGATTT+GGG | 0.275737 | 8_1:-522738 | None:intergenic |
| GAGGTCGAACATGGTGCTTT+TGG | 0.302406 | 8_1:+522815 | Msa1171040:CDS |
| GGGTACTGCCTTCCCACGCC+TGG | 0.310476 | 8_1:-520556 | None:intergenic |
| TCATCATGTAAGCTCTCTTT+TGG | 0.315060 | 8_1:-522760 | None:intergenic |
| CGCAGCAAGGCAGCCCCTCA+TGG | 0.402699 | 8_1:-520512 | None:intergenic |
| GGCGAAAACGGAATCGGATT+CGG | 0.406569 | 8_1:-520652 | None:intergenic |
| AGCTAATTCAACACAGAAAC+GGG | 0.407519 | 8_1:+520420 | Msa1171040:CDS |
| CGCGTAGGCGAAAACGGAAT+CGG | 0.436784 | 8_1:-520658 | None:intergenic |
| TGCCTTGCTGCGCTCAGGCG+TGG | 0.436962 | 8_1:+520523 | Msa1171040:CDS |
| TTCTGTGTTGAATTAGCTCT+CGG | 0.440951 | 8_1:-520415 | None:intergenic |
| ACCATGTTCGACCTCATTCA+TGG | 0.451070 | 8_1:-522807 | None:intergenic |
| TCGGATTCGGAGTAACGGTT+AGG | 0.460502 | 8_1:-520639 | None:intergenic |
| GGGGCTGCCTTGCTGCGCTC+AGG | 0.464976 | 8_1:+520518 | Msa1171040:CDS |
| ACTGCACAGAGCTGCGTCAC+AGG | 0.475564 | 8_1:-520580 | None:intergenic |
| TGGAAAACTGCGCCCAGGCG+TGG | 0.494657 | 8_1:+520543 | Msa1171040:CDS |
| GCAGCAAGGCAGCCCCTCAT+GGG | 0.496087 | 8_1:-520511 | None:intergenic |
| GGTACTGCCTTCCCACGCCT+GGG | 0.498185 | 8_1:-520555 | None:intergenic |
| TGATTTGGGCATCAAACTGC+TGG | 0.508893 | 8_1:-522724 | None:intergenic |
| GAGCTAATTCAACACAGAAA+CGG | 0.515205 | 8_1:+520419 | Msa1171040:CDS |
| AAAGAGAGCTTACATGATGA+AGG | 0.536545 | 8_1:+522763 | Msa1171040:CDS |
| AACTGCGCCCAGGCGTGGGA+AGG | 0.539934 | 8_1:+520548 | Msa1171040:CDS |
| GGAAAACTGCGCCCAGGCGT+GGG | 0.545704 | 8_1:+520544 | Msa1171040:CDS |
| TGCCCAAATCATGATGAAAG+AGG | 0.568034 | 8_1:+522736 | Msa1171040:CDS |
| CAACAAGCAGTCACCCATGA+GGG | 0.583730 | 8_1:+520498 | Msa1171040:CDS |
| AGGCGTGGAAAACTGCGCCC+AGG | 0.585614 | 8_1:+520538 | Msa1171040:CDS |
| GCACAGAGCTGCGTCACAGG+TGG | 0.587627 | 8_1:-520577 | None:intergenic |
| CGGAATCGGATTCGGAGTAA+CGG | 0.597118 | 8_1:-520644 | None:intergenic |
| AAAAGAAAGAAGAACACGGC+AGG | 0.604100 | 8_1:+521252 | Msa1171040:CDS |
| GCTGCAAAACTCCATGAATG+AGG | 0.615989 | 8_1:+522796 | Msa1171040:CDS |
| TCCATGAATGAGGTCGAACA+TGG | 0.622123 | 8_1:+522806 | Msa1171040:CDS |
| TTCCACGCCTGAGCGCAGCA+AGG | 0.630680 | 8_1:-520525 | None:intergenic |
| ACATGATGAAGGTTCCAGAT+CGG | 0.634970 | 8_1:+522774 | Msa1171040:CDS |
| CACAGAGCTGCGTCACAGGT+GGG | 0.641915 | 8_1:-520576 | None:intergenic |
| AACAAGCAGTCACCCATGAG+GGG | 0.666342 | 8_1:+520499 | Msa1171040:CDS |
| ACAACAAGCAGTCACCCATG+AGG | 0.702894 | 8_1:+520497 | Msa1171040:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATAGTTTTTTCTTATATTAA+AGG | - | chr8_1:520711-520730 | None:intergenic | 10.0% |
| !!! | ATTAGTTTAAATTCAGATTT+TGG | + | chr8_1:520960-520979 | Msa1171040:intron | 15.0% |
| !!! | AAAATATGTTAGTACTATTT+TGG | - | chr8_1:521462-521481 | None:intergenic | 15.0% |
| !!! | TAATTATTTGATTTGTATTG+TGG | - | chr8_1:522567-522586 | None:intergenic | 15.0% |
| !! | TATATTAAAGGAGATATGAT+AGG | - | chr8_1:520699-520718 | None:intergenic | 20.0% |
| !! | TATAAGAAAAAACTATGTTG+TGG | + | chr8_1:520715-520734 | Msa1171040:intron | 20.0% |
| !! | TTTGTACCAAAAGATATAAT+TGG | + | chr8_1:521010-521029 | Msa1171040:intron | 20.0% |
| !! | GTTAAATATACATGTTATGA+AGG | - | chr8_1:521347-521366 | None:intergenic | 20.0% |
| !!! | AAAAAAAGTATCTTGTTTTG+TGG | - | chr8_1:521691-521710 | None:intergenic | 20.0% |
| !!! | GATACTTTTTTTTTTTTGAG+AGG | + | chr8_1:521699-521718 | Msa1171040:intron | 20.0% |
| !!! | CACTACTATTTTAAAATAAC+AGG | + | chr8_1:521759-521778 | Msa1171040:intron | 20.0% |
| !!! | ATTGTTTCATTTTTTTTGAG+AGG | + | chr8_1:521795-521814 | Msa1171040:intron | 20.0% |
| !!! | AAAAGACATTCATTTTAGAA+AGG | + | chr8_1:521890-521909 | Msa1171040:intron | 20.0% |
| !! | TTTATAAACAATTGTTCACA+TGG | + | chr8_1:522068-522087 | Msa1171040:intron | 20.0% |
| !!! | GAATAAAATAAGAACTCTTT+TGG | - | chr8_1:522240-522259 | None:intergenic | 20.0% |
| !! | TATCGTTTAAATGATTTATG+TGG | - | chr8_1:522470-522489 | None:intergenic | 20.0% |
| !! | ACAAATCAAATAATTAGACA+TGG | + | chr8_1:522571-522590 | Msa1171040:intron | 20.0% |
| !! | TAACAACAACAACAAATTAA+AGG | - | chr8_1:522668-522687 | None:intergenic | 20.0% |
| !! | TTTGCATTAAAAAGGCATAA+GGG | - | chr8_1:520755-520774 | None:intergenic | 25.0% |
| ! | TTGAAAGGTTTGCATTAAAA+AGG | - | chr8_1:520763-520782 | None:intergenic | 25.0% |
| !! | AATGCAAACCTTTCAAATTT+TGG | + | chr8_1:520767-520786 | Msa1171040:intron | 25.0% |
| !! | ATGCAAACCTTTCAAATTTT+GGG | + | chr8_1:520768-520787 | Msa1171040:intron | 25.0% |
| !! | TTTGCATTACAAAGGTATAA+GGG | - | chr8_1:520840-520859 | None:intergenic | 25.0% |
| ! | TCTCTTTCAAAAAAACAATC+TGG | + | chr8_1:521126-521145 | Msa1171040:intron | 25.0% |
| ! | TACAAAAAGAAAGAAGAACA+CGG | + | chr8_1:521248-521267 | Msa1171040:CDS | 25.0% |
| ! | GTTTAAATGATTTATGTGGA+TGG | - | chr8_1:522466-522485 | None:intergenic | 25.0% |
| !!! | AATTAAAGGCTTTTAAAGTC+AGG | - | chr8_1:522654-522673 | None:intergenic | 25.0% |
| ! | GTTTGCATTAAAAAGGCATA+AGG | - | chr8_1:520756-520775 | None:intergenic | 30.0% |
| ! | TGCAAACCTTTCAAATTTTG+GGG | + | chr8_1:520769-520788 | Msa1171040:intron | 30.0% |
| GATTTACCCCAAAATTTGAA+AGG | - | chr8_1:520778-520797 | None:intergenic | 30.0% | |
| !!! | TTCAAATTTTGGGGTAAATC+TGG | + | chr8_1:520778-520797 | Msa1171040:intron | 30.0% |
| ! | GTATTTTCAACTTACATCTG+TGG | + | chr8_1:520800-520819 | Msa1171040:intron | 30.0% |
| ! | GTTTGCATTACAAAGGTATA+AGG | - | chr8_1:520841-520860 | None:intergenic | 30.0% |
| ! | TAATGCAAACCTCTCAATTT+TGG | + | chr8_1:520851-520870 | Msa1171040:intron | 30.0% |
| ! | AATGCAAACCTCTCAATTTT+GGG | + | chr8_1:520852-520871 | Msa1171040:intron | 30.0% |
| !!! | AATTCAGATTTTGGTTGACA+CGG | + | chr8_1:520969-520988 | Msa1171040:intron | 30.0% |
| GTACCAAAAGATATAATTGG+AGG | + | chr8_1:521013-521032 | Msa1171040:intron | 30.0% | |
| ! | TTGCCTCCAATTATATCTTT+TGG | - | chr8_1:521019-521038 | None:intergenic | 30.0% |
| AGAAAGTGGAGTTAAAAAGA+TGG | - | chr8_1:521200-521219 | None:intergenic | 30.0% | |
| AAGGAAAAACATTAGATCGA+AGG | - | chr8_1:521615-521634 | None:intergenic | 30.0% | |
| TTTCCTTTGAATAGCAGAAA+AGG | + | chr8_1:521628-521647 | Msa1171040:intron | 30.0% | |
| TTCCTTTGAATAGCAGAAAA+GGG | + | chr8_1:521629-521648 | Msa1171040:intron | 30.0% | |
| !!! | TTTTTTTGAGAGGACAAAAC+AGG | + | chr8_1:521709-521728 | Msa1171040:intron | 30.0% |
| GGATACTTATGTCACATATT+TGG | + | chr8_1:521730-521749 | Msa1171040:intron | 30.0% | |
| TTTCATGGCAGGATATAAAA+AGG | + | chr8_1:521828-521847 | Msa1171040:intron | 30.0% | |
| !! | GACATTCATTTTAGAAAGGA+TGG | + | chr8_1:521894-521913 | Msa1171040:intron | 30.0% |
| CTGGTAAAAAACTTGTCAAA+AGG | + | chr8_1:522328-522347 | Msa1171040:intron | 30.0% | |
| TTCTTATGAGGAAACAAAGT+TGG | - | chr8_1:522544-522563 | None:intergenic | 30.0% | |
| TTTGTATTGTGGTTCTTATG+AGG | - | chr8_1:522556-522575 | None:intergenic | 30.0% | |
| ! | TTCTGTGTTGAATTAGCTCT+CGG | - | chr8_1:520418-520437 | None:intergenic | 35.0% |
| GAGCTAATTCAACACAGAAA+CGG | + | chr8_1:520419-520438 | Msa1171040:CDS | 35.0% | |
| AGCTAATTCAACACAGAAAC+GGG | + | chr8_1:520420-520439 | Msa1171040:CDS | 35.0% | |
| AACGGTGAAACCGAAAAAAT+GGG | - | chr8_1:520606-520625 | None:intergenic | 35.0% | |
| AAACGGTGAAACCGAAAAAA+TGG | - | chr8_1:520607-520626 | None:intergenic | 35.0% | |
| ! | TTAGGTTTTTACGGACGAAA+CGG | - | chr8_1:520624-520643 | None:intergenic | 35.0% |
| ! | GAGTAACGGTTAGGTTTTTA+CGG | - | chr8_1:520633-520652 | None:intergenic | 35.0% |
| TTGAGAGGTTTGCATTACAA+AGG | - | chr8_1:520848-520867 | None:intergenic | 35.0% | |
| ! | ATGCAAACCTCTCAATTTTG+GGG | + | chr8_1:520853-520872 | Msa1171040:intron | 35.0% |
| TCATCGAAAAAGAGGAAGTA+AGG | - | chr8_1:520896-520915 | None:intergenic | 35.0% | |
| TTGTGATGTCATCGAAAAAG+AGG | - | chr8_1:520904-520923 | None:intergenic | 35.0% | |
| TCAAAGAGAGAAGAGGAAAA+AGG | - | chr8_1:521177-521196 | None:intergenic | 35.0% | |
| GCAAATGAGAGAAAAGAAAG+TGG | - | chr8_1:521214-521233 | None:intergenic | 35.0% | |
| ! | CTTTCTTTTCTCTCATTTGC+AGG | + | chr8_1:521214-521233 | Msa1171040:intron | 35.0% |
| ! | TTTGACAGCTTTGTCAAAAG+AGG | - | chr8_1:521294-521313 | None:intergenic | 35.0% |
| !! | AGAGGAGTATTGTCATTTCA+TGG | + | chr8_1:521813-521832 | Msa1171040:intron | 35.0% |
| TTGAGTAGTGTACTTAGTAG+TGG | + | chr8_1:522145-522164 | Msa1171040:intron | 35.0% | |
| !! | AGTAGTGGATTACTACTACT+TGG | + | chr8_1:522160-522179 | Msa1171040:intron | 35.0% |
| TTACTACTACTTGGATTGCT+AGG | + | chr8_1:522169-522188 | Msa1171040:intron | 35.0% | |
| ACAAACTGTGTTTGTCAAAC+TGG | + | chr8_1:522309-522328 | Msa1171040:intron | 35.0% | |
| GTTGCTATAGACCAATTGTT+CGG | - | chr8_1:522355-522374 | None:intergenic | 35.0% | |
| GACCTCTTTCATCATGATTT+GGG | - | chr8_1:522741-522760 | None:intergenic | 35.0% | |
| ! | TCATCATGTAAGCTCTCTTT+TGG | - | chr8_1:522763-522782 | None:intergenic | 35.0% |
| AAAGAGAGCTTACATGATGA+AGG | + | chr8_1:522763-522782 | Msa1171040:CDS | 35.0% | |
| !!! | TCTGTGCAGTCCCATTTTTT+CGG | + | chr8_1:520593-520612 | Msa1171040:CDS | 40.0% |
| ATTTGTCGAATAGAACGCGT+AGG | - | chr8_1:520676-520695 | None:intergenic | 40.0% | |
| ! | AAAGGCATAAGGGCATAAAG+AGG | - | chr8_1:520745-520764 | None:intergenic | 40.0% |
| ! | TGCAAACCTCTCAATTTTGG+GGG | + | chr8_1:520854-520873 | Msa1171040:intron | 40.0% |
| AATTTGCCCCCAAAATTGAG+AGG | - | chr8_1:520863-520882 | None:intergenic | 40.0% | |
| AAGATGGTCAAAGAGAGAAG+AGG | - | chr8_1:521184-521203 | None:intergenic | 40.0% | |
| AAAAGAAAGAAGAACACGGC+AGG | + | chr8_1:521252-521271 | Msa1171040:CDS | 40.0% | |
| !! | CTTGTTGTCTGATCTGCTTT+TGG | - | chr8_1:521531-521550 | None:intergenic | 40.0% |
| ! | GTCCCTTTTCTGCTATTCAA+AGG | - | chr8_1:521634-521653 | None:intergenic | 40.0% |
| ! | GAGTATTGTCATTTCATGGC+AGG | + | chr8_1:521817-521836 | Msa1171040:intron | 40.0% |
| TAGGCTCGAGGTTGAAATAA+TGG | + | chr8_1:522188-522207 | Msa1171040:intron | 40.0% | |
| TAATGGCAGACAAGTAGAAG+TGG | + | chr8_1:522205-522224 | Msa1171040:intron | 40.0% | |
| AATGGCAGACAAGTAGAAGT+GGG | + | chr8_1:522206-522225 | Msa1171040:intron | 40.0% | |
| TGTCAAAAGGTCCGAACAAT+TGG | + | chr8_1:522341-522360 | Msa1171040:intron | 40.0% | |
| TGCCCAAATCATGATGAAAG+AGG | + | chr8_1:522736-522755 | Msa1171040:CDS | 40.0% | |
| GGACCTCTTTCATCATGATT+TGG | - | chr8_1:522742-522761 | None:intergenic | 40.0% | |
| ACATGATGAAGGTTCCAGAT+CGG | + | chr8_1:522774-522793 | Msa1171040:CDS | 40.0% | |
| ATAGAACGCGTAGGCGAAAA+CGG | - | chr8_1:520667-520686 | None:intergenic | 45.0% | |
| TTCCTGTCAGTAGTGTAGTG+AGG | - | chr8_1:522037-522056 | None:intergenic | 45.0% | |
| ! | TGATTTGGGCATCAAACTGC+TGG | - | chr8_1:522727-522746 | None:intergenic | 45.0% |
| GCTGCAAAACTCCATGAATG+AGG | + | chr8_1:522796-522815 | Msa1171040:CDS | 45.0% | |
| TCCATGAATGAGGTCGAACA+TGG | + | chr8_1:522806-522825 | Msa1171040:CDS | 45.0% | |
| ACCATGTTCGACCTCATTCA+TGG | - | chr8_1:522810-522829 | None:intergenic | 45.0% | |
| !!! | AAATGTAAAATAATATATTT+TGG | + | chr8_1:522011-522030 | Msa1171040:intron | 5.0% |
| ACAACAAGCAGTCACCCATG+AGG | + | chr8_1:520497-520516 | Msa1171040:CDS | 50.0% | |
| CAACAAGCAGTCACCCATGA+GGG | + | chr8_1:520498-520517 | Msa1171040:CDS | 50.0% | |
| AACAAGCAGTCACCCATGAG+GGG | + | chr8_1:520499-520518 | Msa1171040:CDS | 50.0% | |
| TCGGATTCGGAGTAACGGTT+AGG | - | chr8_1:520642-520661 | None:intergenic | 50.0% | |
| CGGAATCGGATTCGGAGTAA+CGG | - | chr8_1:520647-520666 | None:intergenic | 50.0% | |
| GGCGAAAACGGAATCGGATT+CGG | - | chr8_1:520655-520674 | None:intergenic | 50.0% | |
| TACTTGGATTGCTAGGCTCG+AGG | + | chr8_1:522176-522195 | Msa1171040:intron | 50.0% | |
| ! | ATGGAGTTTTGCAGCCGATC+TGG | - | chr8_1:522791-522810 | None:intergenic | 50.0% |
| ! | GAGGTCGAACATGGTGCTTT+TGG | + | chr8_1:522815-522834 | Msa1171040:CDS | 50.0% |
| ! | GTCGAACATGGTGCTTTTGG+AGG | + | chr8_1:522818-522837 | Msa1171040:CDS | 50.0% |
| !! | GAACATGGTGCTTTTGGAGG+AGG | + | chr8_1:522821-522840 | Msa1171040:CDS | 50.0% |
| CGCGTAGGCGAAAACGGAAT+CGG | - | chr8_1:520661-520680 | None:intergenic | 55.0% | |
| GGCCTCACTACACTACTGAC+AGG | + | chr8_1:522032-522051 | Msa1171040:intron | 55.0% | |
| CACAGAGCTGCGTCACAGGT+GGG | - | chr8_1:520579-520598 | None:intergenic | 60.0% | |
| ACTGCACAGAGCTGCGTCAC+AGG | - | chr8_1:520583-520602 | None:intergenic | 60.0% | |
| GCAGCAAGGCAGCCCCTCAT+GGG | - | chr8_1:520514-520533 | None:intergenic | 65.0% | |
| TTCCACGCCTGAGCGCAGCA+AGG | - | chr8_1:520528-520547 | None:intergenic | 65.0% | |
| AGGCGTGGAAAACTGCGCCC+AGG | + | chr8_1:520538-520557 | Msa1171040:CDS | 65.0% | |
| TGGAAAACTGCGCCCAGGCG+TGG | + | chr8_1:520543-520562 | Msa1171040:CDS | 65.0% | |
| GGAAAACTGCGCCCAGGCGT+GGG | + | chr8_1:520544-520563 | Msa1171040:CDS | 65.0% | |
| GGTACTGCCTTCCCACGCCT+GGG | - | chr8_1:520558-520577 | None:intergenic | 65.0% | |
| GCACAGAGCTGCGTCACAGG+TGG | - | chr8_1:520580-520599 | None:intergenic | 65.0% | |
| CGCAGCAAGGCAGCCCCTCA+TGG | - | chr8_1:520515-520534 | None:intergenic | 70.0% | |
| TGCCTTGCTGCGCTCAGGCG+TGG | + | chr8_1:520523-520542 | Msa1171040:CDS | 70.0% | |
| AACTGCGCCCAGGCGTGGGA+AGG | + | chr8_1:520548-520567 | Msa1171040:CDS | 70.0% | |
| ! | GGGTACTGCCTTCCCACGCC+TGG | - | chr8_1:520559-520578 | None:intergenic | 70.0% |
| GGGGCTGCCTTGCTGCGCTC+AGG | + | chr8_1:520518-520537 | Msa1171040:CDS | 75.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8_1 | gene | 520406 | 522862 | 520406 | ID=Msa1171040;Name=Msa1171040 |
| chr8_1 | mRNA | 520406 | 522862 | 520406 | ID=Msa1171040-mRNA-1;Parent=Msa1171040;Name=Msa1171040-mRNA-1;_AED=0.63;_eAED=0.63;_QI=0|0|0|0.33|1|1|3|0|147 |
| chr8_1 | exon | 520406 | 520665 | 520406 | ID=Msa1171040-mRNA-1:exon:143;Parent=Msa1171040-mRNA-1 |
| chr8_1 | exon | 521236 | 521273 | 521236 | ID=Msa1171040-mRNA-1:exon:144;Parent=Msa1171040-mRNA-1 |
| chr8_1 | exon | 522717 | 522862 | 522717 | ID=Msa1171040-mRNA-1:exon:145;Parent=Msa1171040-mRNA-1 |
| chr8_1 | CDS | 520406 | 520665 | 520406 | ID=Msa1171040-mRNA-1:cds;Parent=Msa1171040-mRNA-1 |
| chr8_1 | CDS | 521236 | 521273 | 521236 | ID=Msa1171040-mRNA-1:cds;Parent=Msa1171040-mRNA-1 |
| chr8_1 | CDS | 522717 | 522862 | 522717 | ID=Msa1171040-mRNA-1:cds;Parent=Msa1171040-mRNA-1 |
| Gene Sequence |
| Protein sequence |
