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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1026930 | RHN40820.1 | 47.059 | 119 | 61 | 1 | 43 | 159 | 38 | 156 | 9.21e-32 | 122 |
| 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1026930 | A0A396GIK5 | 47.059 | 119 | 61 | 1 | 43 | 159 | 38 | 156 | 4.40e-32 | 122 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0012310 | Msa1026930 | 0.988775 | 2.325016e-175 | -8.615850e-47 |
| Msa0707630 | Msa1026930 | 0.959879 | 6.251384e-118 | -8.615850e-47 |
| Msa0708150 | Msa1026930 | 0.945603 | 2.241504e-104 | -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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa1026930 | MtrunA17_Chr8g0359031 | 47.059 | 119 | 61 | 1 | 43 | 159 | 38 | 156 | 8.47e-36 | 122 |
| Msa1026930 | MtrunA17_Chr5g0393511 | 45.000 | 120 | 65 | 1 | 43 | 162 | 38 | 156 | 1.18e-31 | 111 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 37 sgRNAs with CRISPR-Local
Find 102 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCATATTGCATGTCAAATTT+TGG | 0.111779 | 7_1:+59138722 | None:intergenic |
| CAATTGCTATGTGAAATTTC+TGG | 0.218719 | 7_1:-59138283 | Msa1026930:CDS |
| TGCAGTAGGTGTGCAATTGC+AGG | 0.348444 | 7_1:-59139013 | Msa1026930:five_prime_UTR |
| AAGGAAGGTTACTATATTCC+TGG | 0.378391 | 7_1:-59138758 | Msa1026930:CDS |
| TAAGAGTTACAAACAATTCA+TGG | 0.378550 | 7_1:-59138664 | Msa1026930:CDS |
| AGCATTCTTCTTCTGAATCA+TGG | 0.388381 | 7_1:+59138795 | None:intergenic |
| CATGCAATATGATGACTATA+AGG | 0.392912 | 7_1:-59138711 | Msa1026930:CDS |
| ATTTCGACTCCTATGTGTAT+AGG | 0.431470 | 7_1:+59138510 | None:intergenic |
| AGACATGGAGGTACCGGCTC+TGG | 0.478033 | 7_1:+59138686 | None:intergenic |
| ACACTTACAACAGCATAAGT+TGG | 0.503451 | 7_1:+59138611 | None:intergenic |
| AGGAATATAGTAACCTTCCT+TGG | 0.507376 | 7_1:+59138760 | None:intergenic |
| GATAAGATGAAGAGGTACAT+AGG | 0.508544 | 7_1:-59138390 | Msa1026930:CDS |
| GTAATGTGGAAGTTGATGAT+AGG | 0.517091 | 7_1:-59138338 | Msa1026930:CDS |
| AATTTCACATAGCAATTGAA+AGG | 0.518483 | 7_1:+59138288 | None:intergenic |
| TACCAGTCATTTACCAAGGA+AGG | 0.524931 | 7_1:-59138773 | Msa1026930:CDS |
| TTTGGAATTGGATCAGAACC+AGG | 0.529513 | 7_1:+59138740 | None:intergenic |
| TTGGTTGATTCAGATGAAGA+TGG | 0.537698 | 7_1:-59138453 | Msa1026930:CDS |
| AACCTTCCTTGGTAAATGAC+TGG | 0.545045 | 7_1:+59138771 | None:intergenic |
| CATAGGAGTCGAAATTCTAA+AGG | 0.559600 | 7_1:-59138502 | Msa1026930:CDS |
| ACTCTTAGACATGGAGGTAC+CGG | 0.560718 | 7_1:+59138680 | None:intergenic |
| GAAGCAAATCACACTGACCT+TGG | 0.564869 | 7_1:-59138472 | Msa1026930:CDS |
| TGACTATAAGGAACCAGAGC+CGG | 0.567138 | 7_1:-59138699 | Msa1026930:CDS |
| ATAAGATGAAGAGGTACATA+GGG | 0.570183 | 7_1:-59138389 | Msa1026930:CDS |
| ATGAAGAGGTACATAGGGCA+AGG | 0.571299 | 7_1:-59138384 | Msa1026930:CDS |
| AAGAGTTACAAACAATTCAT+GGG | 0.572552 | 7_1:-59138663 | Msa1026930:CDS |
| CAGCGTATTCCTATACACAT+AGG | 0.575668 | 7_1:-59138519 | Msa1026930:CDS |
| CTATGTGAAATTTCTGGAGA+GGG | 0.575789 | 7_1:-59138277 | Msa1026930:CDS |
| TTTGAACAAGACATGATGAC+AGG | 0.594917 | 7_1:+59138941 | None:intergenic |
| TTGTTTGTAACTCTTAGACA+TGG | 0.601947 | 7_1:+59138671 | None:intergenic |
| AGAGGTACATAGGGCAAGGG+TGG | 0.609118 | 7_1:-59138380 | Msa1026930:CDS |
| TCATCATGTCTTGTTCAAAG+AGG | 0.610027 | 7_1:-59138937 | Msa1026930:intron |
| GCTATGTGAAATTTCTGGAG+AGG | 0.612333 | 7_1:-59138278 | Msa1026930:CDS |
| AAGATGGTGATAAGATGAAG+AGG | 0.620620 | 7_1:-59138398 | Msa1026930:CDS |
| TGAAGAGGTACATAGGGCAA+GGG | 0.632528 | 7_1:-59138383 | Msa1026930:CDS |
| TTTGTAACTCTTAGACATGG+AGG | 0.670628 | 7_1:+59138674 | None:intergenic |
| ATCTTCATCTGAATCAACCA+AGG | 0.672333 | 7_1:+59138455 | None:intergenic |
| ATGCTACCAGTCATTTACCA+AGG | 0.679424 | 7_1:-59138777 | Msa1026930:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTCAAGTATTATATTACAAA+TGG | - | chr7_1:59138442-59138461 | Msa1026930:CDS | 15.0% |
| !! | TTCAAGTATTATATTACAAA+TGG | - | chr7_1:59138442-59138461 | Msa1026930:CDS | 15.0% |
| !!! | TTTTCATCACATAACAAAAT+TGG | - | chr7_1:59138313-59138332 | Msa1026930:CDS | 20.0% |
| !! | GTATTATATTACAAATGGAA+TGG | - | chr7_1:59138447-59138466 | Msa1026930:CDS | 20.0% |
| !!! | TTTTGTTAAGAAATGTAATG+TGG | - | chr7_1:59138941-59138960 | Msa1026930:exon | 20.0% |
| !!! | TTTTCATCACATAACAAAAT+TGG | - | chr7_1:59138313-59138332 | Msa1026930:CDS | 20.0% |
| !! | GTATTATATTACAAATGGAA+TGG | - | chr7_1:59138447-59138466 | Msa1026930:CDS | 20.0% |
| !!! | TTTTGTTAAGAAATGTAATG+TGG | - | chr7_1:59138941-59138960 | Msa1026930:exon | 20.0% |
| !! | TCATATTGCATGTCAAATTT+TGG | + | chr7_1:59138574-59138593 | None:intergenic | 25.0% |
| ! | TAAGAGTTACAAACAATTCA+TGG | - | chr7_1:59138629-59138648 | Msa1026930:CDS | 25.0% |
| ! | AAGAGTTACAAACAATTCAT+GGG | - | chr7_1:59138630-59138649 | Msa1026930:CDS | 25.0% |
| !!! | GTTGTGTTATTTATAAACAC+TGG | - | chr7_1:59138735-59138754 | Msa1026930:CDS | 25.0% |
| ! | GTTATTTATAAACACTGGAT+TGG | - | chr7_1:59138740-59138759 | Msa1026930:CDS | 25.0% |
| !!! | TGTGATGTTTTTTTTGAAGA+TGG | - | chr7_1:59138879-59138898 | Msa1026930:intron | 25.0% |
| ! | AATTTCACATAGCAATTGAA+AGG | + | chr7_1:59139008-59139027 | None:intergenic | 25.0% |
| !! | TCATATTGCATGTCAAATTT+TGG | + | chr7_1:59138574-59138593 | None:intergenic | 25.0% |
| ! | TAAGAGTTACAAACAATTCA+TGG | - | chr7_1:59138629-59138648 | Msa1026930:CDS | 25.0% |
| ! | AAGAGTTACAAACAATTCAT+GGG | - | chr7_1:59138630-59138649 | Msa1026930:CDS | 25.0% |
| !!! | GTTGTGTTATTTATAAACAC+TGG | - | chr7_1:59138735-59138754 | Msa1026930:CDS | 25.0% |
| ! | GTTATTTATAAACACTGGAT+TGG | - | chr7_1:59138740-59138759 | Msa1026930:CDS | 25.0% |
| !!! | TGTGATGTTTTTTTTGAAGA+TGG | - | chr7_1:59138879-59138898 | Msa1026930:intron | 25.0% |
| ! | AATTTCACATAGCAATTGAA+AGG | + | chr7_1:59139008-59139027 | None:intergenic | 25.0% |
| ! | TTCTTCTGAATCATGGTTTT+TGG | + | chr7_1:59138494-59138513 | None:intergenic | 30.0% |
| !!! | TGCATGTCAAATTTTGGAAT+TGG | + | chr7_1:59138568-59138587 | None:intergenic | 30.0% |
| CATGCAATATGATGACTATA+AGG | - | chr7_1:59138582-59138601 | Msa1026930:intron | 30.0% | |
| TTGTTTGTAACTCTTAGACA+TGG | + | chr7_1:59138625-59138644 | None:intergenic | 30.0% | |
| ! | ATGCTGTTGTAAGTGTTTTA+TGG | - | chr7_1:59138689-59138708 | Msa1026930:CDS | 30.0% |
| ! | ATAAGATGAAGAGGTACATA+GGG | - | chr7_1:59138904-59138923 | Msa1026930:intron | 30.0% |
| CAATTGCTATGTGAAATTTC+TGG | - | chr7_1:59139010-59139029 | Msa1026930:five_prime_UTR | 30.0% | |
| ! | TTCTTCTGAATCATGGTTTT+TGG | + | chr7_1:59138494-59138513 | None:intergenic | 30.0% |
| !!! | TGCATGTCAAATTTTGGAAT+TGG | + | chr7_1:59138568-59138587 | None:intergenic | 30.0% |
| CATGCAATATGATGACTATA+AGG | - | chr7_1:59138582-59138601 | Msa1026930:intron | 30.0% | |
| TTGTTTGTAACTCTTAGACA+TGG | + | chr7_1:59138625-59138644 | None:intergenic | 30.0% | |
| ! | ATGCTGTTGTAAGTGTTTTA+TGG | - | chr7_1:59138689-59138708 | Msa1026930:CDS | 30.0% |
| ! | ATAAGATGAAGAGGTACATA+GGG | - | chr7_1:59138904-59138923 | Msa1026930:intron | 30.0% |
| CAATTGCTATGTGAAATTTC+TGG | - | chr7_1:59139010-59139029 | Msa1026930:five_prime_UTR | 30.0% | |
| TTTGAACAAGACATGATGAC+AGG | + | chr7_1:59138355-59138374 | None:intergenic | 35.0% | |
| ! | TCATCATGTCTTGTTCAAAG+AGG | - | chr7_1:59138356-59138375 | Msa1026930:CDS | 35.0% |
| AGCATTCTTCTTCTGAATCA+TGG | + | chr7_1:59138501-59138520 | None:intergenic | 35.0% | |
| AGGAATATAGTAACCTTCCT+TGG | + | chr7_1:59138536-59138555 | None:intergenic | 35.0% | |
| AAGGAAGGTTACTATATTCC+TGG | - | chr7_1:59138535-59138554 | Msa1026930:intron | 35.0% | |
| TTTGTAACTCTTAGACATGG+AGG | + | chr7_1:59138622-59138641 | None:intergenic | 35.0% | |
| ACACTTACAACAGCATAAGT+TGG | + | chr7_1:59138685-59138704 | None:intergenic | 35.0% | |
| ATTTCGACTCCTATGTGTAT+AGG | + | chr7_1:59138786-59138805 | None:intergenic | 35.0% | |
| CATAGGAGTCGAAATTCTAA+AGG | - | chr7_1:59138791-59138810 | Msa1026930:CDS | 35.0% | |
| ATCTTCATCTGAATCAACCA+AGG | + | chr7_1:59138841-59138860 | None:intergenic | 35.0% | |
| ! | TTGGTTGATTCAGATGAAGA+TGG | - | chr7_1:59138840-59138859 | Msa1026930:intron | 35.0% |
| AAGATGGTGATAAGATGAAG+AGG | - | chr7_1:59138895-59138914 | Msa1026930:intron | 35.0% | |
| ! | GATAAGATGAAGAGGTACAT+AGG | - | chr7_1:59138903-59138922 | Msa1026930:intron | 35.0% |
| !! | GTAATGTGGAAGTTGATGAT+AGG | - | chr7_1:59138955-59138974 | Msa1026930:five_prime_UTR | 35.0% |
| ! | CTATGTGAAATTTCTGGAGA+GGG | - | chr7_1:59139016-59139035 | Msa1026930:five_prime_UTR | 35.0% |
| TTTGAACAAGACATGATGAC+AGG | + | chr7_1:59138355-59138374 | None:intergenic | 35.0% | |
| ! | TCATCATGTCTTGTTCAAAG+AGG | - | chr7_1:59138356-59138375 | Msa1026930:CDS | 35.0% |
| AGCATTCTTCTTCTGAATCA+TGG | + | chr7_1:59138501-59138520 | None:intergenic | 35.0% | |
| AGGAATATAGTAACCTTCCT+TGG | + | chr7_1:59138536-59138555 | None:intergenic | 35.0% | |
| AAGGAAGGTTACTATATTCC+TGG | - | chr7_1:59138535-59138554 | Msa1026930:intron | 35.0% | |
| TTTGTAACTCTTAGACATGG+AGG | + | chr7_1:59138622-59138641 | None:intergenic | 35.0% | |
| ACACTTACAACAGCATAAGT+TGG | + | chr7_1:59138685-59138704 | None:intergenic | 35.0% | |
| ATTTCGACTCCTATGTGTAT+AGG | + | chr7_1:59138786-59138805 | None:intergenic | 35.0% | |
| CATAGGAGTCGAAATTCTAA+AGG | - | chr7_1:59138791-59138810 | Msa1026930:CDS | 35.0% | |
| ATCTTCATCTGAATCAACCA+AGG | + | chr7_1:59138841-59138860 | None:intergenic | 35.0% | |
| ! | TTGGTTGATTCAGATGAAGA+TGG | - | chr7_1:59138840-59138859 | Msa1026930:intron | 35.0% |
| AAGATGGTGATAAGATGAAG+AGG | - | chr7_1:59138895-59138914 | Msa1026930:intron | 35.0% | |
| ! | GATAAGATGAAGAGGTACAT+AGG | - | chr7_1:59138903-59138922 | Msa1026930:intron | 35.0% |
| !! | GTAATGTGGAAGTTGATGAT+AGG | - | chr7_1:59138955-59138974 | Msa1026930:five_prime_UTR | 35.0% |
| ! | CTATGTGAAATTTCTGGAGA+GGG | - | chr7_1:59139016-59139035 | Msa1026930:five_prime_UTR | 35.0% |
| GGAATGGTTGTTCTTAACAG+CGG | - | chr7_1:59138463-59138482 | Msa1026930:CDS | 40.0% | |
| GAATGGTTGTTCTTAACAGC+GGG | - | chr7_1:59138464-59138483 | Msa1026930:CDS | 40.0% | |
| AATGGTTGTTCTTAACAGCG+GGG | - | chr7_1:59138465-59138484 | Msa1026930:CDS | 40.0% | |
| ATGCTACCAGTCATTTACCA+AGG | - | chr7_1:59138516-59138535 | Msa1026930:CDS | 40.0% | |
| TACCAGTCATTTACCAAGGA+AGG | - | chr7_1:59138520-59138539 | Msa1026930:intron | 40.0% | |
| AACCTTCCTTGGTAAATGAC+TGG | + | chr7_1:59138525-59138544 | None:intergenic | 40.0% | |
| ! | TTTGGAATTGGATCAGAACC+AGG | + | chr7_1:59138556-59138575 | None:intergenic | 40.0% |
| CAGCGTATTCCTATACACAT+AGG | - | chr7_1:59138774-59138793 | Msa1026930:CDS | 40.0% | |
| ! | GCTATGTGAAATTTCTGGAG+AGG | - | chr7_1:59139015-59139034 | Msa1026930:five_prime_UTR | 40.0% |
| GGAATGGTTGTTCTTAACAG+CGG | - | chr7_1:59138463-59138482 | Msa1026930:CDS | 40.0% | |
| GAATGGTTGTTCTTAACAGC+GGG | - | chr7_1:59138464-59138483 | Msa1026930:CDS | 40.0% | |
| AATGGTTGTTCTTAACAGCG+GGG | - | chr7_1:59138465-59138484 | Msa1026930:CDS | 40.0% | |
| ATGCTACCAGTCATTTACCA+AGG | - | chr7_1:59138516-59138535 | Msa1026930:CDS | 40.0% | |
| TACCAGTCATTTACCAAGGA+AGG | - | chr7_1:59138520-59138539 | Msa1026930:intron | 40.0% | |
| AACCTTCCTTGGTAAATGAC+TGG | + | chr7_1:59138525-59138544 | None:intergenic | 40.0% | |
| ! | TTTGGAATTGGATCAGAACC+AGG | + | chr7_1:59138556-59138575 | None:intergenic | 40.0% |
| CAGCGTATTCCTATACACAT+AGG | - | chr7_1:59138774-59138793 | Msa1026930:CDS | 40.0% | |
| ! | GCTATGTGAAATTTCTGGAG+AGG | - | chr7_1:59139015-59139034 | Msa1026930:five_prime_UTR | 40.0% |
| ATGGTTGTTCTTAACAGCGG+GGG | - | chr7_1:59138466-59138485 | Msa1026930:CDS | 45.0% | |
| TGACTATAAGGAACCAGAGC+CGG | - | chr7_1:59138594-59138613 | Msa1026930:intron | 45.0% | |
| ! | ACTCTTAGACATGGAGGTAC+CGG | + | chr7_1:59138616-59138635 | None:intergenic | 45.0% |
| GAAGCAAATCACACTGACCT+TGG | - | chr7_1:59138821-59138840 | Msa1026930:intron | 45.0% | |
| ! | ATGAAGAGGTACATAGGGCA+AGG | - | chr7_1:59138909-59138928 | Msa1026930:intron | 45.0% |
| ! | TGAAGAGGTACATAGGGCAA+GGG | - | chr7_1:59138910-59138929 | Msa1026930:intron | 45.0% |
| ATGGTTGTTCTTAACAGCGG+GGG | - | chr7_1:59138466-59138485 | Msa1026930:CDS | 45.0% | |
| TGACTATAAGGAACCAGAGC+CGG | - | chr7_1:59138594-59138613 | Msa1026930:intron | 45.0% | |
| ! | ACTCTTAGACATGGAGGTAC+CGG | + | chr7_1:59138616-59138635 | None:intergenic | 45.0% |
| GAAGCAAATCACACTGACCT+TGG | - | chr7_1:59138821-59138840 | Msa1026930:intron | 45.0% | |
| ! | ATGAAGAGGTACATAGGGCA+AGG | - | chr7_1:59138909-59138928 | Msa1026930:intron | 45.0% |
| ! | TGAAGAGGTACATAGGGCAA+GGG | - | chr7_1:59138910-59138929 | Msa1026930:intron | 45.0% |
| TGCAGTAGGTGTGCAATTGC+AGG | - | chr7_1:59138280-59138299 | Msa1026930:CDS | 50.0% | |
| TGCAGTAGGTGTGCAATTGC+AGG | - | chr7_1:59138280-59138299 | Msa1026930:CDS | 50.0% | |
| ! | AGAGGTACATAGGGCAAGGG+TGG | - | chr7_1:59138913-59138932 | Msa1026930:intron | 55.0% |
| ! | AGAGGTACATAGGGCAAGGG+TGG | - | chr7_1:59138913-59138932 | Msa1026930:intron | 55.0% |
| !! | AGACATGGAGGTACCGGCTC+TGG | + | chr7_1:59138610-59138629 | None:intergenic | 60.0% |
| !! | AGACATGGAGGTACCGGCTC+TGG | + | chr7_1:59138610-59138629 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7_1 | gene | 59138269 | 59139046 | 59138269 | ID=Msa1026930;Name=Msa1026930 |
| chr7_1 | mRNA | 59138269 | 59139046 | 59138269 | ID=Msa1026930-mRNA-1;Parent=Msa1026930;Name=Msa1026930-mRNA-1;_AED=0.05;_eAED=0.05;_QI=92|1|0.66|1|1|1|3|0|166 |
| chr7_1 | exon | 59138269 | 59138538 | 59138269 | ID=Msa1026930-mRNA-1:exon:11978;Parent=Msa1026930-mRNA-1 |
| chr7_1 | exon | 59138619 | 59138832 | 59138619 | ID=Msa1026930-mRNA-1:exon:11977;Parent=Msa1026930-mRNA-1 |
| chr7_1 | exon | 59138938 | 59139046 | 59138938 | ID=Msa1026930-mRNA-1:exon:11976;Parent=Msa1026930-mRNA-1 |
| chr7_1 | five_prime_UTR | 59138955 | 59139046 | 59138955 | ID=Msa1026930-mRNA-1:five_prime_utr;Parent=Msa1026930-mRNA-1 |
| chr7_1 | CDS | 59138938 | 59138954 | 59138938 | ID=Msa1026930-mRNA-1:cds;Parent=Msa1026930-mRNA-1 |
| chr7_1 | CDS | 59138619 | 59138832 | 59138619 | ID=Msa1026930-mRNA-1:cds;Parent=Msa1026930-mRNA-1 |
| chr7_1 | CDS | 59138269 | 59138538 | 59138269 | ID=Msa1026930-mRNA-1:cds;Parent=Msa1026930-mRNA-1 |
| Gene Sequence |
| Protein sequence |
