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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0708150 | RHN40820.1 | 47.059 | 119 | 61 | 1 | 85 | 201 | 38 | 156 | 5.31e-31 | 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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0708150 | A0A396GIK5 | 47.059 | 119 | 61 | 1 | 85 | 201 | 38 | 156 | 2.54e-31 | 122 |
| Gene ID | Type | Classification |
|---|
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| Msa0012310 | Msa0708150 | 0.947829 | 3.132620e-106 | -8.615850e-47 |
| Msa0707630 | Msa0708150 | 0.984141 | 1.047885e-159 | -8.615850e-47 |
| Msa0708150 | Msa1026930 | 0.945603 | 2.241504e-104 | -8.615850e-47 |
| Msa0708150 | Msa1065570 | 0.803491 | 3.399463e-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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0708150 | MtrunA17_Chr8g0359031 | 47.059 | 119 | 61 | 1 | 85 | 201 | 38 | 156 | 4.89e-35 | 122 |
| Msa0708150 | MtrunA17_Chr5g0393511 | 45.000 | 120 | 65 | 1 | 85 | 204 | 38 | 156 | 4.55e-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 39 sgRNAs with CRISPR-Local
Find 106 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCATATTGCATGTCAAATTT+TGG | 0.111779 | 4_4:-81642310 | None:intergenic |
| CAATTGCTATGTGAAATTTC+TGG | 0.218719 | 4_4:+81642762 | Msa0708150:CDS |
| GGTTGCAGTTTGCTTATTCC+AGG | 0.370834 | 4_4:+81642019 | Msa0708150:CDS |
| AAGGAAGGTTACTATGTTCC+TGG | 0.375285 | 4_4:+81642274 | Msa0708150:CDS |
| TAAGAGTTACAAACAATTCA+TGG | 0.378550 | 4_4:+81642368 | Msa0708150:CDS |
| TGCATTAGGTGTGCAATTGC+AGG | 0.379007 | 4_4:+81641965 | None:intergenic |
| AGCATTCTTCTTCTGAATCA+TGG | 0.388381 | 4_4:-81642237 | None:intergenic |
| CATGCAATATGATGACTATA+AGG | 0.392912 | 4_4:+81642321 | Msa0708150:CDS |
| ATTTCGACTCCTATGTGTAT+AGG | 0.431470 | 4_4:-81642535 | None:intergenic |
| AGACATGGAGGTACCGGCTC+TGG | 0.478033 | 4_4:-81642346 | None:intergenic |
| ACACTTACAACAGCATAAGT+TGG | 0.503451 | 4_4:-81642421 | None:intergenic |
| GATAAGATGAAGAGGTACAT+AGG | 0.508544 | 4_4:+81642655 | Msa0708150:CDS |
| GTAATGTGGAAGTTGATGAT+AGG | 0.517091 | 4_4:+81642707 | Msa0708150:CDS |
| AATTTCACATAGCAATTGAA+AGG | 0.518483 | 4_4:-81642757 | None:intergenic |
| AGGAACATAGTAACCTTCCT+TGG | 0.521276 | 4_4:-81642272 | None:intergenic |
| TACCAGTCATTTACCAAGGA+AGG | 0.524931 | 4_4:+81642259 | Msa0708150:CDS |
| GATGAAAACAGCACTATGCC+TGG | 0.532475 | 4_4:-81642037 | None:intergenic |
| TTGGTTGATTCAGATGAAGA+TGG | 0.537698 | 4_4:+81642592 | Msa0708150:CDS |
| AACCTTCCTTGGTAAATGAC+TGG | 0.545045 | 4_4:-81642261 | None:intergenic |
| CATAGGAGTCGAAATTCTAA+AGG | 0.559600 | 4_4:+81642543 | Msa0708150:CDS |
| ACTCTTAGACATGGAGGTAC+CGG | 0.560718 | 4_4:-81642352 | None:intergenic |
| GAAGCAAATCACACTGACCT+TGG | 0.564869 | 4_4:+81642573 | Msa0708150:CDS |
| TGACTATAAGGAACCAGAGC+CGG | 0.567138 | 4_4:+81642333 | Msa0708150:CDS |
| ATAAGATGAAGAGGTACATA+GGG | 0.570183 | 4_4:+81642656 | Msa0708150:CDS |
| ATGAAGAGGTACATAGGGCA+AGG | 0.571299 | 4_4:+81642661 | Msa0708150:CDS |
| AAGAGTTACAAACAATTCAT+GGG | 0.572552 | 4_4:+81642369 | Msa0708150:CDS |
| CAGCGTATTCCTATACACAT+AGG | 0.575668 | 4_4:+81642526 | Msa0708150:intron |
| CTATGTGAAATTTCTGGAGA+GGG | 0.575789 | 4_4:+81642768 | Msa0708150:CDS |
| TTTGGAACTGGATCAGAACC+AGG | 0.576151 | 4_4:-81642292 | None:intergenic |
| TTTGAACAAGACATGATGAC+AGG | 0.594917 | 4_4:-81642091 | None:intergenic |
| TTGTTTGTAACTCTTAGACA+TGG | 0.601947 | 4_4:-81642361 | None:intergenic |
| AGAGGTACATAGGGCAAGGG+TGG | 0.609118 | 4_4:+81642665 | Msa0708150:CDS |
| TCATCATGTCTTGTTCAAAG+AGG | 0.610027 | 4_4:+81642095 | Msa0708150:CDS |
| GCTATGTGAAATTTCTGGAG+AGG | 0.612333 | 4_4:+81642767 | Msa0708150:CDS |
| AAGATGGTGATAAGATGAAG+AGG | 0.620620 | 4_4:+81642647 | Msa0708150:CDS |
| TGAAGAGGTACATAGGGCAA+GGG | 0.632528 | 4_4:+81642662 | Msa0708150:CDS |
| TTTGTAACTCTTAGACATGG+AGG | 0.670628 | 4_4:-81642358 | None:intergenic |
| ATCTTCATCTGAATCAACCA+AGG | 0.672333 | 4_4:-81642590 | None:intergenic |
| ATGCTACCAGTCATTTACCA+AGG | 0.679424 | 4_4:+81642255 | Msa0708150:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TTCAAGTATTATATTACAAA+TGG | + | chr4_4:81642181-81642200 | Msa0708150:intron | 15.0% |
| !! | TTCAAGTATTATATTACAAA+TGG | + | chr4_4:81642181-81642200 | Msa0708150:intron | 15.0% |
| !!! | TTTTCATCACATAACAAAAT+TGG | + | chr4_4:81641998-81642017 | Msa0708150:CDS | 20.0% |
| !!! | TTTTCATCACATAACAAAAT+TGG | + | chr4_4:81641998-81642017 | Msa0708150:CDS | 20.0% |
| !! | GTATTATATTACAAATGGAA+TGG | + | chr4_4:81642186-81642205 | Msa0708150:intron | 20.0% |
| !!! | TTTTGTTAAGAAATGTAATG+TGG | + | chr4_4:81642693-81642712 | Msa0708150:CDS | 20.0% |
| !!! | TTTTCATCACATAACAAAAT+TGG | + | chr4_4:81641998-81642017 | Msa0708150:CDS | 20.0% |
| !!! | TTTTCATCACATAACAAAAT+TGG | + | chr4_4:81641998-81642017 | Msa0708150:CDS | 20.0% |
| !! | GTATTATATTACAAATGGAA+TGG | + | chr4_4:81642186-81642205 | Msa0708150:intron | 20.0% |
| !!! | TTTTGTTAAGAAATGTAATG+TGG | + | chr4_4:81642693-81642712 | Msa0708150:CDS | 20.0% |
| !! | TCATATTGCATGTCAAATTT+TGG | - | chr4_4:81642313-81642332 | None:intergenic | 25.0% |
| ! | TAAGAGTTACAAACAATTCA+TGG | + | chr4_4:81642368-81642387 | Msa0708150:CDS | 25.0% |
| ! | AAGAGTTACAAACAATTCAT+GGG | + | chr4_4:81642369-81642388 | Msa0708150:CDS | 25.0% |
| !!! | GTTGTGTTATTTATAAACAC+TGG | + | chr4_4:81642474-81642493 | Msa0708150:intron | 25.0% |
| ! | GTTATTTATAAACACTGGAT+TGG | + | chr4_4:81642479-81642498 | Msa0708150:intron | 25.0% |
| !!! | TGTGATGTTTTTTTTGAAGA+TGG | + | chr4_4:81642631-81642650 | Msa0708150:CDS | 25.0% |
| ! | AATTTCACATAGCAATTGAA+AGG | - | chr4_4:81642760-81642779 | None:intergenic | 25.0% |
| !! | TCATATTGCATGTCAAATTT+TGG | - | chr4_4:81642313-81642332 | None:intergenic | 25.0% |
| ! | TAAGAGTTACAAACAATTCA+TGG | + | chr4_4:81642368-81642387 | Msa0708150:CDS | 25.0% |
| ! | AAGAGTTACAAACAATTCAT+GGG | + | chr4_4:81642369-81642388 | Msa0708150:CDS | 25.0% |
| !!! | GTTGTGTTATTTATAAACAC+TGG | + | chr4_4:81642474-81642493 | Msa0708150:intron | 25.0% |
| ! | GTTATTTATAAACACTGGAT+TGG | + | chr4_4:81642479-81642498 | Msa0708150:intron | 25.0% |
| !!! | TGTGATGTTTTTTTTGAAGA+TGG | + | chr4_4:81642631-81642650 | Msa0708150:CDS | 25.0% |
| ! | AATTTCACATAGCAATTGAA+AGG | - | chr4_4:81642760-81642779 | None:intergenic | 25.0% |
| ! | TTCTTCTGAATCATGGTTTT+TGG | - | chr4_4:81642233-81642252 | None:intergenic | 30.0% |
| CATGCAATATGATGACTATA+AGG | + | chr4_4:81642321-81642340 | Msa0708150:CDS | 30.0% | |
| TTGTTTGTAACTCTTAGACA+TGG | - | chr4_4:81642364-81642383 | None:intergenic | 30.0% | |
| ! | ATGCTGTTGTAAGTGTTTTA+TGG | + | chr4_4:81642428-81642447 | Msa0708150:intron | 30.0% |
| ! | ATAAGATGAAGAGGTACATA+GGG | + | chr4_4:81642656-81642675 | Msa0708150:CDS | 30.0% |
| CAATTGCTATGTGAAATTTC+TGG | + | chr4_4:81642762-81642781 | Msa0708150:CDS | 30.0% | |
| ! | TTCTTCTGAATCATGGTTTT+TGG | - | chr4_4:81642233-81642252 | None:intergenic | 30.0% |
| CATGCAATATGATGACTATA+AGG | + | chr4_4:81642321-81642340 | Msa0708150:CDS | 30.0% | |
| TTGTTTGTAACTCTTAGACA+TGG | - | chr4_4:81642364-81642383 | None:intergenic | 30.0% | |
| ! | ATGCTGTTGTAAGTGTTTTA+TGG | + | chr4_4:81642428-81642447 | Msa0708150:intron | 30.0% |
| ! | ATAAGATGAAGAGGTACATA+GGG | + | chr4_4:81642656-81642675 | Msa0708150:CDS | 30.0% |
| CAATTGCTATGTGAAATTTC+TGG | + | chr4_4:81642762-81642781 | Msa0708150:CDS | 30.0% | |
| TTTGAACAAGACATGATGAC+AGG | - | chr4_4:81642094-81642113 | None:intergenic | 35.0% | |
| ! | TCATCATGTCTTGTTCAAAG+AGG | + | chr4_4:81642095-81642114 | Msa0708150:CDS | 35.0% |
| AGCATTCTTCTTCTGAATCA+TGG | - | chr4_4:81642240-81642259 | None:intergenic | 35.0% | |
| !!! | TGCATGTCAAATTTTGGAAC+TGG | - | chr4_4:81642307-81642326 | None:intergenic | 35.0% |
| TTTGTAACTCTTAGACATGG+AGG | - | chr4_4:81642361-81642380 | None:intergenic | 35.0% | |
| ACACTTACAACAGCATAAGT+TGG | - | chr4_4:81642424-81642443 | None:intergenic | 35.0% | |
| ATTTCGACTCCTATGTGTAT+AGG | - | chr4_4:81642538-81642557 | None:intergenic | 35.0% | |
| CATAGGAGTCGAAATTCTAA+AGG | + | chr4_4:81642543-81642562 | Msa0708150:CDS | 35.0% | |
| ATCTTCATCTGAATCAACCA+AGG | - | chr4_4:81642593-81642612 | None:intergenic | 35.0% | |
| ! | TTGGTTGATTCAGATGAAGA+TGG | + | chr4_4:81642592-81642611 | Msa0708150:CDS | 35.0% |
| AAGATGGTGATAAGATGAAG+AGG | + | chr4_4:81642647-81642666 | Msa0708150:CDS | 35.0% | |
| ! | GATAAGATGAAGAGGTACAT+AGG | + | chr4_4:81642655-81642674 | Msa0708150:CDS | 35.0% |
| !! | GTAATGTGGAAGTTGATGAT+AGG | + | chr4_4:81642707-81642726 | Msa0708150:CDS | 35.0% |
| ! | CTATGTGAAATTTCTGGAGA+GGG | + | chr4_4:81642768-81642787 | Msa0708150:CDS | 35.0% |
| TTTGAACAAGACATGATGAC+AGG | - | chr4_4:81642094-81642113 | None:intergenic | 35.0% | |
| ! | TCATCATGTCTTGTTCAAAG+AGG | + | chr4_4:81642095-81642114 | Msa0708150:CDS | 35.0% |
| AGCATTCTTCTTCTGAATCA+TGG | - | chr4_4:81642240-81642259 | None:intergenic | 35.0% | |
| !!! | TGCATGTCAAATTTTGGAAC+TGG | - | chr4_4:81642307-81642326 | None:intergenic | 35.0% |
| TTTGTAACTCTTAGACATGG+AGG | - | chr4_4:81642361-81642380 | None:intergenic | 35.0% | |
| ACACTTACAACAGCATAAGT+TGG | - | chr4_4:81642424-81642443 | None:intergenic | 35.0% | |
| ATTTCGACTCCTATGTGTAT+AGG | - | chr4_4:81642538-81642557 | None:intergenic | 35.0% | |
| CATAGGAGTCGAAATTCTAA+AGG | + | chr4_4:81642543-81642562 | Msa0708150:CDS | 35.0% | |
| ATCTTCATCTGAATCAACCA+AGG | - | chr4_4:81642593-81642612 | None:intergenic | 35.0% | |
| ! | TTGGTTGATTCAGATGAAGA+TGG | + | chr4_4:81642592-81642611 | Msa0708150:CDS | 35.0% |
| AAGATGGTGATAAGATGAAG+AGG | + | chr4_4:81642647-81642666 | Msa0708150:CDS | 35.0% | |
| ! | GATAAGATGAAGAGGTACAT+AGG | + | chr4_4:81642655-81642674 | Msa0708150:CDS | 35.0% |
| !! | GTAATGTGGAAGTTGATGAT+AGG | + | chr4_4:81642707-81642726 | Msa0708150:CDS | 35.0% |
| ! | CTATGTGAAATTTCTGGAGA+GGG | + | chr4_4:81642768-81642787 | Msa0708150:CDS | 35.0% |
| GGAATGGTTGTTCTTAACAG+CGG | + | chr4_4:81642202-81642221 | Msa0708150:intron | 40.0% | |
| GAATGGTTGTTCTTAACAGC+GGG | + | chr4_4:81642203-81642222 | Msa0708150:intron | 40.0% | |
| AATGGTTGTTCTTAACAGCG+GGG | + | chr4_4:81642204-81642223 | Msa0708150:intron | 40.0% | |
| ATGCTACCAGTCATTTACCA+AGG | + | chr4_4:81642255-81642274 | Msa0708150:CDS | 40.0% | |
| TACCAGTCATTTACCAAGGA+AGG | + | chr4_4:81642259-81642278 | Msa0708150:CDS | 40.0% | |
| AACCTTCCTTGGTAAATGAC+TGG | - | chr4_4:81642264-81642283 | None:intergenic | 40.0% | |
| AGGAACATAGTAACCTTCCT+TGG | - | chr4_4:81642275-81642294 | None:intergenic | 40.0% | |
| AAGGAAGGTTACTATGTTCC+TGG | + | chr4_4:81642274-81642293 | Msa0708150:CDS | 40.0% | |
| CAGCGTATTCCTATACACAT+AGG | + | chr4_4:81642526-81642545 | Msa0708150:intron | 40.0% | |
| ! | GCTATGTGAAATTTCTGGAG+AGG | + | chr4_4:81642767-81642786 | Msa0708150:CDS | 40.0% |
| GGAATGGTTGTTCTTAACAG+CGG | + | chr4_4:81642202-81642221 | Msa0708150:intron | 40.0% | |
| GAATGGTTGTTCTTAACAGC+GGG | + | chr4_4:81642203-81642222 | Msa0708150:intron | 40.0% | |
| AATGGTTGTTCTTAACAGCG+GGG | + | chr4_4:81642204-81642223 | Msa0708150:intron | 40.0% | |
| ATGCTACCAGTCATTTACCA+AGG | + | chr4_4:81642255-81642274 | Msa0708150:CDS | 40.0% | |
| TACCAGTCATTTACCAAGGA+AGG | + | chr4_4:81642259-81642278 | Msa0708150:CDS | 40.0% | |
| AACCTTCCTTGGTAAATGAC+TGG | - | chr4_4:81642264-81642283 | None:intergenic | 40.0% | |
| AGGAACATAGTAACCTTCCT+TGG | - | chr4_4:81642275-81642294 | None:intergenic | 40.0% | |
| AAGGAAGGTTACTATGTTCC+TGG | + | chr4_4:81642274-81642293 | Msa0708150:CDS | 40.0% | |
| CAGCGTATTCCTATACACAT+AGG | + | chr4_4:81642526-81642545 | Msa0708150:intron | 40.0% | |
| ! | GCTATGTGAAATTTCTGGAG+AGG | + | chr4_4:81642767-81642786 | Msa0708150:CDS | 40.0% |
| ! | GGTTGCAGTTTGCTTATTCC+AGG | + | chr4_4:81642019-81642038 | Msa0708150:CDS | 45.0% |
| GATGAAAACAGCACTATGCC+TGG | - | chr4_4:81641986-81642005 | None:intergenic | 45.0% | |
| ATGGTTGTTCTTAACAGCGG+GGG | + | chr4_4:81642205-81642224 | Msa0708150:intron | 45.0% | |
| ! | TTTGGAACTGGATCAGAACC+AGG | - | chr4_4:81642295-81642314 | None:intergenic | 45.0% |
| TGACTATAAGGAACCAGAGC+CGG | + | chr4_4:81642333-81642352 | Msa0708150:CDS | 45.0% | |
| ! | ACTCTTAGACATGGAGGTAC+CGG | - | chr4_4:81642355-81642374 | None:intergenic | 45.0% |
| GAAGCAAATCACACTGACCT+TGG | + | chr4_4:81642573-81642592 | Msa0708150:CDS | 45.0% | |
| ! | ATGAAGAGGTACATAGGGCA+AGG | + | chr4_4:81642661-81642680 | Msa0708150:CDS | 45.0% |
| ! | TGAAGAGGTACATAGGGCAA+GGG | + | chr4_4:81642662-81642681 | Msa0708150:CDS | 45.0% |
| ! | GGTTGCAGTTTGCTTATTCC+AGG | + | chr4_4:81642019-81642038 | Msa0708150:CDS | 45.0% |
| GATGAAAACAGCACTATGCC+TGG | - | chr4_4:81641986-81642005 | None:intergenic | 45.0% | |
| ATGGTTGTTCTTAACAGCGG+GGG | + | chr4_4:81642205-81642224 | Msa0708150:intron | 45.0% | |
| ! | TTTGGAACTGGATCAGAACC+AGG | - | chr4_4:81642295-81642314 | None:intergenic | 45.0% |
| TGACTATAAGGAACCAGAGC+CGG | + | chr4_4:81642333-81642352 | Msa0708150:CDS | 45.0% | |
| ! | ACTCTTAGACATGGAGGTAC+CGG | - | chr4_4:81642355-81642374 | None:intergenic | 45.0% |
| GAAGCAAATCACACTGACCT+TGG | + | chr4_4:81642573-81642592 | Msa0708150:CDS | 45.0% | |
| ! | ATGAAGAGGTACATAGGGCA+AGG | + | chr4_4:81642661-81642680 | Msa0708150:CDS | 45.0% |
| ! | TGAAGAGGTACATAGGGCAA+GGG | + | chr4_4:81642662-81642681 | Msa0708150:CDS | 45.0% |
| ! | AGAGGTACATAGGGCAAGGG+TGG | + | chr4_4:81642665-81642684 | Msa0708150:CDS | 55.0% |
| ! | AGAGGTACATAGGGCAAGGG+TGG | + | chr4_4:81642665-81642684 | Msa0708150:CDS | 55.0% |
| !! | AGACATGGAGGTACCGGCTC+TGG | - | chr4_4:81642349-81642368 | None:intergenic | 60.0% |
| !! | AGACATGGAGGTACCGGCTC+TGG | - | chr4_4:81642349-81642368 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4_4 | gene | 81641974 | 81642798 | 81641974 | ID=Msa0708150;Name=Msa0708150 |
| chr4_4 | mRNA | 81641974 | 81642798 | 81641974 | ID=Msa0708150-mRNA-1;Parent=Msa0708150;Name=Msa0708150-mRNA-1;_AED=0.06;_eAED=0.06;_QI=0|1|0.33|1|1|1|3|0|208 |
| chr4_4 | exon | 81641974 | 81642116 | 81641974 | ID=Msa0708150-mRNA-1:exon:26750;Parent=Msa0708150-mRNA-1 |
| chr4_4 | exon | 81642222 | 81642435 | 81642222 | ID=Msa0708150-mRNA-1:exon:26751;Parent=Msa0708150-mRNA-1 |
| chr4_4 | exon | 81642529 | 81642798 | 81642529 | ID=Msa0708150-mRNA-1:exon:26752;Parent=Msa0708150-mRNA-1 |
| chr4_4 | CDS | 81641974 | 81642116 | 81641974 | ID=Msa0708150-mRNA-1:cds;Parent=Msa0708150-mRNA-1 |
| chr4_4 | CDS | 81642222 | 81642435 | 81642222 | ID=Msa0708150-mRNA-1:cds;Parent=Msa0708150-mRNA-1 |
| chr4_4 | CDS | 81642529 | 81642798 | 81642529 | ID=Msa0708150-mRNA-1:cds;Parent=Msa0708150-mRNA-1 |
| Gene Sequence |
| Protein sequence |
