Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
Nr:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene70944.t1 | XP_013444857.1 | 100 | 97 | 0 | 0 | 1 | 97 | 75 | 171 | 4.30E-43 | 183.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene70944.t1 | Q9SA23 | 77.6 | 98 | 21 | 1 | 1 | 97 | 77 | 174 | 1.2e-33 | 143.7 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene70944.t1 | A0A072TNC4 | 100.0 | 97 | 0 | 0 | 1 | 97 | 75 | 171 | 3.1e-43 | 183.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene053322 | MS.gene70944 | -0.803828 | 2.89E-49 | -1.69E-46 |
| MS.gene056796 | MS.gene70944 | -0.811283 | 7.56E-51 | -1.69E-46 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene70944.t1 | MTR_8g031190 | 100.000 | 97 | 0 | 0 | 1 | 97 | 75 | 171 | 3.24e-65 | 196 |
| MS.gene70944.t1 | MTR_3g055200 | 100.000 | 97 | 0 | 0 | 1 | 97 | 107 | 203 | 6.92e-65 | 196 |
| MS.gene70944.t1 | MTR_5g094010 | 85.484 | 62 | 9 | 0 | 2 | 63 | 78 | 139 | 6.77e-34 | 115 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene70944.t1 | AT1G16240 | 77.551 | 98 | 21 | 1 | 1 | 97 | 77 | 174 | 3.16e-49 | 156 |
| MS.gene70944.t1 | AT1G16240 | 77.551 | 98 | 21 | 1 | 1 | 97 | 77 | 174 | 3.16e-49 | 156 |
| MS.gene70944.t1 | AT1G16240 | 77.551 | 98 | 21 | 1 | 1 | 97 | 77 | 174 | 3.16e-49 | 156 |
| MS.gene70944.t1 | AT1G16240 | 77.551 | 98 | 21 | 1 | 1 | 97 | 77 | 174 | 3.95e-49 | 155 |
| MS.gene70944.t1 | AT1G79590 | 76.531 | 98 | 22 | 1 | 1 | 97 | 78 | 175 | 1.12e-47 | 152 |
| MS.gene70944.t1 | AT1G79590 | 76.531 | 98 | 22 | 1 | 1 | 97 | 78 | 175 | 1.12e-47 | 152 |
| MS.gene70944.t1 | AT1G79590 | 76.531 | 98 | 22 | 1 | 1 | 97 | 109 | 206 | 1.41e-47 | 152 |
| MS.gene70944.t1 | AT1G16230 | 62.887 | 97 | 35 | 1 | 1 | 97 | 77 | 172 | 8.89e-35 | 118 |
| MS.gene70944.t1 | AT1G16225 | 52.577 | 97 | 43 | 1 | 1 | 97 | 53 | 146 | 2.10e-23 | 89.4 |
| MS.gene70944.t1 | AT1G16225 | 52.577 | 97 | 43 | 1 | 1 | 97 | 77 | 170 | 4.11e-23 | 89.0 |
| MS.gene70944.t1 | AT1G16225 | 50.794 | 63 | 28 | 1 | 1 | 63 | 77 | 136 | 1.27e-12 | 60.1 |
Find 26 sgRNAs with CRISPR-Local
Find 34 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATTGCATCTGGTTTAATTTC+TGG | 0.179304 | 3.3:-44722514 | None:intergenic |
| ACATGTCAAACTTTGCAAAT+AGG | 0.204618 | 3.3:+44722476 | MS.gene70944:CDS |
| AGATGAGGGCCTTGAGAAAT+TGG | 0.280110 | 3.3:+44722686 | MS.gene70944:CDS |
| CATGTCAAACTTTGCAAATA+GGG | 0.294997 | 3.3:+44722477 | MS.gene70944:CDS |
| ACAGTTCTGCTCATTGCATC+TGG | 0.359258 | 3.3:-44722526 | None:intergenic |
| TGTTCAAAGTTGAAGCCATT+TGG | 0.405777 | 3.3:-44722456 | None:intergenic |
| ATGTAGATGTCACAGATTCT+CGG | 0.431976 | 3.3:+44722894 | MS.gene70944:intron |
| TTGGATAACAATGGACTTGT+TGG | 0.440074 | 3.3:+44722553 | MS.gene70944:CDS |
| GAGGTCAAAGGTTAACCAAA+TGG | 0.450048 | 3.3:+44722441 | MS.gene70944:CDS |
| AGGACAACCTTGCAAATTTG+AGG | 0.487031 | 3.3:+44722422 | MS.gene70944:CDS |
| CCTTGCAAATTTGAGGTCAA+AGG | 0.488877 | 3.3:+44722429 | MS.gene70944:CDS |
| GCAAATAGGGATAGTTTGCT+CGG | 0.495730 | 3.3:+44722490 | MS.gene70944:CDS |
| CAAATAGGGATAGTTTGCTC+GGG | 0.550659 | 3.3:+44722491 | MS.gene70944:CDS |
| ATGTCACAGATTCTCGGCTG+AGG | 0.559797 | 3.3:+44722900 | MS.gene70944:CDS |
| ATGGACTTGTTGGTCTGCAA+CGG | 0.564781 | 3.3:+44722563 | MS.gene70944:CDS |
| CGGTCTCCTCCAATTTCTCA+AGG | 0.568939 | 3.3:-44722695 | None:intergenic |
| CCTTTGACCTCAAATTTGCA+AGG | 0.577028 | 3.3:-44722429 | None:intergenic |
| TTTCTAACAGAGCAAGATGA+GGG | 0.582199 | 3.3:+44722672 | MS.gene70944:intron |
| CTGCAACGGCAAGTTATGAA+AGG | 0.592264 | 3.3:+44722577 | MS.gene70944:CDS |
| TGAGGGCCTTGAGAAATTGG+AGG | 0.594430 | 3.3:+44722689 | MS.gene70944:CDS |
| AAGTACAAAACATATTGCGT+TGG | 0.595524 | 3.3:+44722722 | MS.gene70944:CDS |
| TGTCACAGATTCTCGGCTGA+GGG | 0.596979 | 3.3:+44722901 | MS.gene70944:CDS |
| GATGCAATGAGCAGAACTGT+TGG | 0.597248 | 3.3:+44722529 | MS.gene70944:CDS |
| AATGAGCAGAACTGTTGGCT+TGG | 0.609524 | 3.3:+44722534 | MS.gene70944:CDS |
| ACTGTTGGCTTGGATAACAA+TGG | 0.640180 | 3.3:+44722544 | MS.gene70944:CDS |
| GAAGGAGATGAATCGTCGCA+AGG | 0.683093 | 3.3:+44722402 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AATATGTTTTGTACTTAATA+CGG | - | chr3.3:44722718-44722737 | None:intergenic | 15.0% |
| !! | AAAGAAAATTAACATAGGAT+GGG | - | chr3.3:44722793-44722812 | None:intergenic | 20.0% |
| !! | TTAGCAAAGAAAATTAACAT+AGG | - | chr3.3:44722798-44722817 | None:intergenic | 20.0% |
| !!! | TGAATCTTTTATTTTCTTCT+AGG | + | chr3.3:44722856-44722875 | MS.gene70944:intron | 20.0% |
| ! | CAAAGAAAATTAACATAGGA+TGG | - | chr3.3:44722794-44722813 | None:intergenic | 25.0% |
| !! | GAAATACATAATTTGTGCTT+TGG | + | chr3.3:44722628-44722647 | MS.gene70944:intron | 25.0% |
| !! | TTTTCAGACTGATAGAAAAA+TGG | - | chr3.3:44722832-44722851 | None:intergenic | 25.0% |
| !!! | TATTTTCTTCTAGGATGATT+TGG | + | chr3.3:44722865-44722884 | MS.gene70944:intron | 25.0% |
| AAGTACAAAACATATTGCGT+TGG | + | chr3.3:44722722-44722741 | MS.gene70944:CDS | 30.0% | |
| ACATGTCAAACTTTGCAAAT+AGG | + | chr3.3:44722476-44722495 | MS.gene70944:CDS | 30.0% | |
| CATGTCAAACTTTGCAAATA+GGG | + | chr3.3:44722477-44722496 | MS.gene70944:CDS | 30.0% | |
| ! | ATTGCATCTGGTTTAATTTC+TGG | - | chr3.3:44722517-44722536 | None:intergenic | 30.0% |
| !! | TGTGCTTTGGATATTGATTT+CGG | + | chr3.3:44722641-44722660 | MS.gene70944:intron | 30.0% |
| ATGTAGATGTCACAGATTCT+CGG | + | chr3.3:44722894-44722913 | MS.gene70944:intron | 35.0% | |
| TGTTCAAAGTTGAAGCCATT+TGG | - | chr3.3:44722459-44722478 | None:intergenic | 35.0% | |
| TTTCTAACAGAGCAAGATGA+GGG | + | chr3.3:44722672-44722691 | MS.gene70944:intron | 35.0% | |
| ! | TTGGATAACAATGGACTTGT+TGG | + | chr3.3:44722553-44722572 | MS.gene70944:CDS | 35.0% |
| ! | TTTTCTAACAGAGCAAGATG+AGG | + | chr3.3:44722671-44722690 | MS.gene70944:intron | 35.0% |
| AGGACAACCTTGCAAATTTG+AGG | + | chr3.3:44722422-44722441 | MS.gene70944:CDS | 40.0% | |
| CCTTTGACCTCAAATTTGCA+AGG | - | chr3.3:44722432-44722451 | None:intergenic | 40.0% | |
| GAGGTCAAAGGTTAACCAAA+TGG | + | chr3.3:44722441-44722460 | MS.gene70944:CDS | 40.0% | |
| ! | CCTTGCAAATTTGAGGTCAA+AGG | + | chr3.3:44722429-44722448 | MS.gene70944:CDS | 40.0% |
| !! | ACTGTTGGCTTGGATAACAA+TGG | + | chr3.3:44722544-44722563 | MS.gene70944:CDS | 40.0% |
| !! | CAAATAGGGATAGTTTGCTC+GGG | + | chr3.3:44722491-44722510 | MS.gene70944:CDS | 40.0% |
| !! | GCAAATAGGGATAGTTTGCT+CGG | + | chr3.3:44722490-44722509 | MS.gene70944:CDS | 40.0% |
| !! | GCTTTGGATATTGATTTCGG+AGG | + | chr3.3:44722644-44722663 | MS.gene70944:intron | 40.0% |
| ACAGTTCTGCTCATTGCATC+TGG | - | chr3.3:44722529-44722548 | None:intergenic | 45.0% | |
| AGATGAGGGCCTTGAGAAAT+TGG | + | chr3.3:44722686-44722705 | MS.gene70944:CDS | 45.0% | |
| CTGCAACGGCAAGTTATGAA+AGG | + | chr3.3:44722577-44722596 | MS.gene70944:CDS | 45.0% | |
| GATGCAATGAGCAGAACTGT+TGG | + | chr3.3:44722529-44722548 | MS.gene70944:CDS | 45.0% | |
| ! | AATGAGCAGAACTGTTGGCT+TGG | + | chr3.3:44722534-44722553 | MS.gene70944:CDS | 45.0% |
| !! | ATGGACTTGTTGGTCTGCAA+CGG | + | chr3.3:44722563-44722582 | MS.gene70944:CDS | 45.0% |
| CGGTCTCCTCCAATTTCTCA+AGG | - | chr3.3:44722698-44722717 | None:intergenic | 50.0% | |
| TGAGGGCCTTGAGAAATTGG+AGG | + | chr3.3:44722689-44722708 | MS.gene70944:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.3 | gene | 44722409 | 44722920 | 44722409 | ID=MS.gene70944 |
| chr3.3 | mRNA | 44722409 | 44722920 | 44722409 | ID=MS.gene70944.t1;Parent=MS.gene70944 |
| chr3.3 | exon | 44722409 | 44722598 | 44722409 | ID=MS.gene70944.t1.exon1;Parent=MS.gene70944.t1 |
| chr3.3 | CDS | 44722409 | 44722598 | 44722409 | ID=cds.MS.gene70944.t1;Parent=MS.gene70944.t1 |
| chr3.3 | exon | 44722682 | 44722782 | 44722682 | ID=MS.gene70944.t1.exon2;Parent=MS.gene70944.t1 |
| chr3.3 | CDS | 44722682 | 44722782 | 44722682 | ID=cds.MS.gene70944.t1;Parent=MS.gene70944.t1 |
| chr3.3 | exon | 44722900 | 44722920 | 44722900 | ID=MS.gene70944.t1.exon3;Parent=MS.gene70944.t1 |
| chr3.3 | CDS | 44722900 | 44722920 | 44722900 | ID=cds.MS.gene70944.t1;Parent=MS.gene70944.t1 |
| Gene Sequence |
| Protein sequence |
