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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0742120 | AES93751.1 | 72.289 | 83 | 11 | 1 | 1 | 71 | 15 | 97 | 1.21e-30 | 113 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0742120 | sp|Q9SSF0|HIP16_ARATH | 46.377 | 69 | 37 | 0 | 1 | 69 | 11 | 79 | 3.85e-14 | 65.5 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0742120 | G7K532 | 72.289 | 83 | 11 | 1 | 1 | 71 | 15 | 97 | 5.78e-31 | 113 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0742120 | Msa1279170 | 0.924142 | 1.045881e-89 | -8.615850e-47 |
| Msa0742120 | Msa1298310 | 0.901173 | 3.501698e-78 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0742120 | MtrunA17_Chr3g0120541 | 78.571 | 70 | 15 | 0 | 1 | 70 | 12 | 81 | 7.39e-34 | 111 |
| Msa0742120 | MtrunA17_Chr3g0120531 | 80.645 | 62 | 12 | 0 | 1 | 62 | 13 | 74 | 1.19e-31 | 106 |
| Msa0742120 | MtrunA17_Chr3g0120551 | 68.182 | 66 | 21 | 0 | 1 | 66 | 12 | 77 | 2.16e-25 | 90.5 |
| Msa0742120 | MtrunA17_Chr2g0290831 | 43.077 | 65 | 37 | 0 | 1 | 65 | 11 | 75 | 4.19e-13 | 58.2 |
| Msa0742120 | MtrunA17_Chr5g0438551 | 42.683 | 82 | 36 | 2 | 1 | 71 | 10 | 91 | 1.03e-12 | 58.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0742120 | AT3G07600.1 | 46.377 | 69 | 37 | 0 | 1 | 69 | 11 | 79 | 3.91e-15 | 65.5 |
| Msa0742120 | AT5G48290.2 | 49.296 | 71 | 34 | 1 | 1 | 69 | 1 | 71 | 1.49e-14 | 64.3 |
| Msa0742120 | AT5G48290.1 | 45.070 | 71 | 39 | 0 | 1 | 71 | 11 | 81 | 1.66e-14 | 64.7 |
| Msa0742120 | AT5G48290.3 | 39.560 | 91 | 33 | 2 | 1 | 69 | 11 | 101 | 4.88e-12 | 58.5 |
| Msa0742120 | AT3G20180.1 | 41.096 | 73 | 41 | 1 | 1 | 71 | 7 | 79 | 7.94e-12 | 56.2 |
| Msa0742120 | AT3G20180.4 | 41.096 | 73 | 41 | 1 | 1 | 71 | 9 | 81 | 8.55e-12 | 56.2 |
| Msa0742120 | AT3G20180.3 | 39.706 | 68 | 41 | 0 | 1 | 68 | 11 | 78 | 9.72e-12 | 56.2 |
| Msa0742120 | AT3G20180.2 | 41.096 | 73 | 41 | 1 | 1 | 71 | 30 | 102 | 1.13e-11 | 56.2 |
Find 13 sgRNAs with CRISPR-Local
Find 74 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTATATCTCATAAGTATTT+TGG | 0.150399 | 5_1:-61926990 | Msa0742120:five_prime_UTR |
| ACTTATGAGATATAAATAAA+TGG | 0.288883 | 5_1:+61926997 | None:intergenic |
| AACTGCAATCTTCATGGCTT+TGG | 0.309449 | 5_1:+61926522 | None:intergenic |
| AACTCCAACTGCAATCTTCA+TGG | 0.346831 | 5_1:+61926516 | None:intergenic |
| AAAATTATGTCATGCAGAAT+TGG | 0.351294 | 5_1:-61926281 | Msa0742120:CDS |
| AAGGATCAAATAGAGATAAC+AGG | 0.396822 | 5_1:-61926346 | Msa0742120:CDS |
| ATTGGTGAGTGTTGGTGAAG+TGG | 0.534161 | 5_1:-61926263 | Msa0742120:CDS |
| GCAGCAAAAGATAGTGATCA+AGG | 0.536634 | 5_1:-61926572 | Msa0742120:intron |
| TGGTGAAGTGGAAAAGAAAG+AGG | 0.582213 | 5_1:-61926251 | Msa0742120:CDS |
| AAAGCCATGAAGATTGCAGT+TGG | 0.583776 | 5_1:-61926520 | Msa0742120:CDS |
| TCAAATAATCACATATAGCA+CGG | 0.588637 | 5_1:-61927039 | Msa0742120:five_prime_UTR |
| AGCTATAAAAGCAGATAGCA+AGG | 0.594508 | 5_1:-61926365 | Msa0742120:CDS |
| CATGCAGAATTGGTGAGTGT+TGG | 0.631342 | 5_1:-61926271 | Msa0742120:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTTGAATTGAAAATAATTAA+TGG | + | chr5_1:61926815-61926834 | None:intergenic | 10.0% |
| !! | TTTGAATTGAAAATAATTAA+TGG | + | chr5_1:61926815-61926834 | None:intergenic | 10.0% |
| !! | ACTTATGAGATATAAATAAA+TGG | + | chr5_1:61926282-61926301 | None:intergenic | 15.0% |
| !!! | TTTATATCTCATAAGTATTT+TGG | - | chr5_1:61926286-61926305 | Msa0742120:CDS | 15.0% |
| !!! | CTATATATTTTAAATAAAGG+AGG | + | chr5_1:61926352-61926371 | None:intergenic | 15.0% |
| !! | ACTTATGAGATATAAATAAA+TGG | + | chr5_1:61926282-61926301 | None:intergenic | 15.0% |
| !!! | TTTATATCTCATAAGTATTT+TGG | - | chr5_1:61926286-61926305 | Msa0742120:CDS | 15.0% |
| !!! | CTATATATTTTAAATAAAGG+AGG | + | chr5_1:61926352-61926371 | None:intergenic | 15.0% |
| !!! | AATCTTTTCTTCGAAAATTT+TGG | + | chr5_1:61926562-61926581 | None:intergenic | 20.0% |
| !!! | AATCTTTTCTTCGAAAATTT+TGG | + | chr5_1:61926562-61926581 | None:intergenic | 20.0% |
| ! | AGCAAAGGATATATAATAGA+AGG | + | chr5_1:61926420-61926439 | None:intergenic | 25.0% |
| !!! | TTTTCTTCGAAAATTTTGGT+GGG | + | chr5_1:61926558-61926577 | None:intergenic | 25.0% |
| ! | AAAATTATGTCATGCAGAAT+TGG | - | chr5_1:61926995-61927014 | Msa0742120:five_prime_UTR | 25.0% |
| ! | AGCAAAGGATATATAATAGA+AGG | + | chr5_1:61926420-61926439 | None:intergenic | 25.0% |
| !!! | TTTTCTTCGAAAATTTTGGT+GGG | + | chr5_1:61926558-61926577 | None:intergenic | 25.0% |
| ! | AAAATTATGTCATGCAGAAT+TGG | - | chr5_1:61926995-61927014 | Msa0742120:five_prime_UTR | 25.0% |
| !!! | TCTCATAAGTATTTTGGCTA+AGG | - | chr5_1:61926292-61926311 | Msa0742120:CDS | 30.0% |
| AAAATTGAGAGGGAAAATGT+AGG | - | chr5_1:61926442-61926461 | Msa0742120:intron | 30.0% | |
| AAATTGAGAGGGAAAATGTA+GGG | - | chr5_1:61926443-61926462 | Msa0742120:intron | 30.0% | |
| ! | CTTTTCTTCGAAAATTTTGG+TGG | + | chr5_1:61926559-61926578 | None:intergenic | 30.0% |
| CAATGAACAACCAAAAATCA+AGG | - | chr5_1:61926730-61926749 | Msa0742120:intron | 30.0% | |
| GACTTTGGATAATTAAGCTA+TGG | + | chr5_1:61926850-61926869 | None:intergenic | 30.0% | |
| ! | ATTTCTGCACATGATTAGTT+TGG | + | chr5_1:61926872-61926891 | None:intergenic | 30.0% |
| AATCATGTGCAGAAATATTC+AGG | - | chr5_1:61926876-61926895 | Msa0742120:intron | 30.0% | |
| AAGGATCAAATAGAGATAAC+AGG | - | chr5_1:61926930-61926949 | Msa0742120:intron | 30.0% | |
| !!! | TCTCATAAGTATTTTGGCTA+AGG | - | chr5_1:61926292-61926311 | Msa0742120:CDS | 30.0% |
| AAAATTGAGAGGGAAAATGT+AGG | - | chr5_1:61926442-61926461 | Msa0742120:intron | 30.0% | |
| AAATTGAGAGGGAAAATGTA+GGG | - | chr5_1:61926443-61926462 | Msa0742120:intron | 30.0% | |
| ! | CTTTTCTTCGAAAATTTTGG+TGG | + | chr5_1:61926559-61926578 | None:intergenic | 30.0% |
| CAATGAACAACCAAAAATCA+AGG | - | chr5_1:61926730-61926749 | Msa0742120:intron | 30.0% | |
| GACTTTGGATAATTAAGCTA+TGG | + | chr5_1:61926850-61926869 | None:intergenic | 30.0% | |
| ! | ATTTCTGCACATGATTAGTT+TGG | + | chr5_1:61926872-61926891 | None:intergenic | 30.0% |
| AATCATGTGCAGAAATATTC+AGG | - | chr5_1:61926876-61926895 | Msa0742120:intron | 30.0% | |
| AAGGATCAAATAGAGATAAC+AGG | - | chr5_1:61926930-61926949 | Msa0742120:intron | 30.0% | |
| TCCTTTGCTTGAAAATTGAG+AGG | - | chr5_1:61926431-61926450 | Msa0742120:intron | 35.0% | |
| CCTTTGCTTGAAAATTGAGA+GGG | - | chr5_1:61926432-61926451 | Msa0742120:intron | 35.0% | |
| ! | AAGATTGCAGTTGGAGTTTT+AGG | - | chr5_1:61926765-61926784 | Msa0742120:intron | 35.0% |
| !! | CACATGATTAGTTTGGACTT+TGG | + | chr5_1:61926865-61926884 | None:intergenic | 35.0% |
| AGCTATAAAAGCAGATAGCA+AGG | - | chr5_1:61926911-61926930 | Msa0742120:intron | 35.0% | |
| TCCTTTGCTTGAAAATTGAG+AGG | - | chr5_1:61926431-61926450 | Msa0742120:intron | 35.0% | |
| CCTTTGCTTGAAAATTGAGA+GGG | - | chr5_1:61926432-61926451 | Msa0742120:intron | 35.0% | |
| ! | AAGATTGCAGTTGGAGTTTT+AGG | - | chr5_1:61926765-61926784 | Msa0742120:intron | 35.0% |
| !! | CACATGATTAGTTTGGACTT+TGG | + | chr5_1:61926865-61926884 | None:intergenic | 35.0% |
| AGCTATAAAAGCAGATAGCA+AGG | - | chr5_1:61926911-61926930 | Msa0742120:intron | 35.0% | |
| !! | CCCTCTCAATTTTCAAGCAA+AGG | + | chr5_1:61926435-61926454 | None:intergenic | 40.0% |
| AGGGAAAATGTAGGGAAAGA+GGG | - | chr5_1:61926451-61926470 | Msa0742120:intron | 40.0% | |
| GCAGCAAAAGATAGTGATCA+AGG | - | chr5_1:61926704-61926723 | Msa0742120:intron | 40.0% | |
| !!! | TGGCTTTGGACCTTGATTTT+TGG | + | chr5_1:61926743-61926762 | None:intergenic | 40.0% |
| AACTGCAATCTTCATGGCTT+TGG | + | chr5_1:61926757-61926776 | None:intergenic | 40.0% | |
| AAAGCCATGAAGATTGCAGT+TGG | - | chr5_1:61926756-61926775 | Msa0742120:intron | 40.0% | |
| AACTCCAACTGCAATCTTCA+TGG | + | chr5_1:61926763-61926782 | None:intergenic | 40.0% | |
| TGTGCAGAAATATTCAGGAG+TGG | - | chr5_1:61926881-61926900 | Msa0742120:intron | 40.0% | |
| TGGTGAAGTGGAAAAGAAAG+AGG | - | chr5_1:61927025-61927044 | Msa0742120:five_prime_UTR | 40.0% | |
| !! | CCCTCTCAATTTTCAAGCAA+AGG | + | chr5_1:61926435-61926454 | None:intergenic | 40.0% |
| AGGGAAAATGTAGGGAAAGA+GGG | - | chr5_1:61926451-61926470 | Msa0742120:intron | 40.0% | |
| GCAGCAAAAGATAGTGATCA+AGG | - | chr5_1:61926704-61926723 | Msa0742120:intron | 40.0% | |
| !!! | TGGCTTTGGACCTTGATTTT+TGG | + | chr5_1:61926743-61926762 | None:intergenic | 40.0% |
| AACTGCAATCTTCATGGCTT+TGG | + | chr5_1:61926757-61926776 | None:intergenic | 40.0% | |
| AAAGCCATGAAGATTGCAGT+TGG | - | chr5_1:61926756-61926775 | Msa0742120:intron | 40.0% | |
| AACTCCAACTGCAATCTTCA+TGG | + | chr5_1:61926763-61926782 | None:intergenic | 40.0% | |
| TGTGCAGAAATATTCAGGAG+TGG | - | chr5_1:61926881-61926900 | Msa0742120:intron | 40.0% | |
| TGGTGAAGTGGAAAAGAAAG+AGG | - | chr5_1:61927025-61927044 | Msa0742120:five_prime_UTR | 40.0% | |
| AGGAGGTAACACTACTTAGC+AGG | + | chr5_1:61926335-61926354 | None:intergenic | 45.0% | |
| GAGGGAAAATGTAGGGAAAG+AGG | - | chr5_1:61926450-61926469 | Msa0742120:intron | 45.0% | |
| GACTTGATGAGCTAGAGAGT+TGG | - | chr5_1:61926629-61926648 | Msa0742120:intron | 45.0% | |
| CATGCAGAATTGGTGAGTGT+TGG | - | chr5_1:61927005-61927024 | Msa0742120:five_prime_UTR | 45.0% | |
| !! | ATTGGTGAGTGTTGGTGAAG+TGG | - | chr5_1:61927013-61927032 | Msa0742120:five_prime_UTR | 45.0% |
| AGGAGGTAACACTACTTAGC+AGG | + | chr5_1:61926335-61926354 | None:intergenic | 45.0% | |
| GAGGGAAAATGTAGGGAAAG+AGG | - | chr5_1:61926450-61926469 | Msa0742120:intron | 45.0% | |
| GACTTGATGAGCTAGAGAGT+TGG | - | chr5_1:61926629-61926648 | Msa0742120:intron | 45.0% | |
| CATGCAGAATTGGTGAGTGT+TGG | - | chr5_1:61927005-61927024 | Msa0742120:five_prime_UTR | 45.0% | |
| !! | ATTGGTGAGTGTTGGTGAAG+TGG | - | chr5_1:61927013-61927032 | Msa0742120:five_prime_UTR | 45.0% |
| !!! | TAACTATATATTTTAAATAA+AGG | + | chr5_1:61926355-61926374 | None:intergenic | 5.0% |
| !!! | TAACTATATATTTTAAATAA+AGG | + | chr5_1:61926355-61926374 | None:intergenic | 5.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5_1 | gene | 61926240 | 61927058 | 61926240 | ID=Msa0742120;Name=Msa0742120 |
| chr5_1 | mRNA | 61926240 | 61927058 | 61926240 | ID=Msa0742120-mRNA-1;Parent=Msa0742120;Name=Msa0742120-mRNA-1;_AED=0.14;_eAED=0.14;_QI=98|1|0.66|1|0|0|3|0|71 |
| chr5_1 | exon | 61926240 | 61926400 | 61926240 | ID=Msa0742120-mRNA-1:exon:18116;Parent=Msa0742120-mRNA-1 |
| chr5_1 | exon | 61926512 | 61926590 | 61926512 | ID=Msa0742120-mRNA-1:exon:18115;Parent=Msa0742120-mRNA-1 |
| chr5_1 | exon | 61926985 | 61927058 | 61926985 | ID=Msa0742120-mRNA-1:exon:18114;Parent=Msa0742120-mRNA-1 |
| chr5_1 | five_prime_UTR | 61926985 | 61927058 | 61926985 | ID=Msa0742120-mRNA-1:five_prime_utr;Parent=Msa0742120-mRNA-1 |
| chr5_1 | five_prime_UTR | 61926567 | 61926590 | 61926567 | ID=Msa0742120-mRNA-1:five_prime_utr;Parent=Msa0742120-mRNA-1 |
| chr5_1 | CDS | 61926512 | 61926566 | 61926512 | ID=Msa0742120-mRNA-1:cds;Parent=Msa0742120-mRNA-1 |
| chr5_1 | CDS | 61926240 | 61926400 | 61926240 | ID=Msa0742120-mRNA-1:cds;Parent=Msa0742120-mRNA-1 |
| Gene Sequence |
| Protein sequence |
