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.gene53061.t1 | AES96821.1 | 97.6 | 85 | 2 | 0 | 1 | 85 | 177 | 261 | 3.80E-37 | 163.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene53061.t1 | Q9XI73 | 71.8 | 85 | 24 | 0 | 1 | 85 | 106 | 190 | 3.6e-28 | 125.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene53061.t1 | B7FN42 | 97.6 | 85 | 2 | 0 | 1 | 85 | 109 | 193 | 2.7e-37 | 163.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene054802 | MS.gene53061 | 0.817972 | 2.50E-52 | -1.69E-46 |
| MS.gene054803 | MS.gene53061 | 0.81331 | 2.73E-51 | -1.69E-46 |
| MS.gene054804 | MS.gene53061 | 0.819319 | 1.24E-52 | -1.69E-46 |
| MS.gene056407 | MS.gene53061 | 0.804885 | 1.74E-49 | -1.69E-46 |
| MS.gene057129 | MS.gene53061 | 0.802799 | 4.73E-49 | -1.69E-46 |
| MS.gene057927 | MS.gene53061 | 0.800235 | 1.58E-48 | -1.69E-46 |
| MS.gene058006 | MS.gene53061 | 0.80191 | 7.20E-49 | -1.69E-46 |
| MS.gene058019 | MS.gene53061 | 0.82024 | 7.61E-53 | -1.69E-46 |
| MS.gene058293 | MS.gene53061 | 0.870332 | 1.58E-66 | -1.69E-46 |
| MS.gene059676 | MS.gene53061 | 0.801587 | 8.39E-49 | -1.69E-46 |
| MS.gene059960 | MS.gene53061 | 0.811924 | 5.49E-51 | -1.69E-46 |
| MS.gene060193 | MS.gene53061 | 0.806697 | 7.25E-50 | -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.gene53061.t1 | MTR_5g041910 | 97.647 | 85 | 2 | 0 | 1 | 85 | 177 | 261 | 5.64e-55 | 171 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene53061.t1 | AT1G14150 | 71.765 | 85 | 24 | 0 | 1 | 85 | 106 | 190 | 6.56e-40 | 130 |
| MS.gene53061.t1 | AT1G14150 | 64.815 | 54 | 19 | 0 | 1 | 54 | 106 | 159 | 7.49e-21 | 80.9 |
Find 12 sgRNAs with CRISPR-Local
Find 40 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| GAAACAGAATTATCTTGAAC+AGG | 0.378711 | 5.4:-30707570 | MS.gene53061:CDS |
| AAATGTTGGAAACTTTATCT+TGG | 0.406839 | 5.4:-30707619 | MS.gene53061:CDS |
| TCAATGTCTTCTCGTAGTAT+AGG | 0.434954 | 5.4:+30706539 | None:intergenic |
| ATTCATATACCTTTGGTGTC+CGG | 0.448494 | 5.4:+30706566 | None:intergenic |
| TGTTGGAAACTTTATCTTGG+AGG | 0.454333 | 5.4:-30707616 | MS.gene53061:CDS |
| AGGTATGATTCATATACCTT+TGG | 0.468647 | 5.4:+30706559 | None:intergenic |
| TTCAGATGGATCGTTATGTC+CGG | 0.516551 | 5.4:-30706585 | MS.gene53061:intron |
| GAAATCAATAGATGAACTTG+TGG | 0.590899 | 5.4:-30706518 | MS.gene53061:CDS |
| TGTCAAAACTGCTAATGAGT+TGG | 0.620448 | 5.4:-30707498 | MS.gene53061:CDS |
| TCGTTATGTCCGGACACCAA+AGG | 0.636412 | 5.4:-30706575 | MS.gene53061:CDS |
| TTTGCCTGAAAATCGTCGCA+AGG | 0.639622 | 5.4:-30707525 | MS.gene53061:CDS |
| GTTGGTTGATAATTTGACTG+AGG | 0.655182 | 5.4:-30707480 | MS.gene53061:intron |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TAATAAGATAATTTAGTCAT+TGG | - | chr5.4:30706804-30706823 | MS.gene53061:intron | 15.0% |
| !! | TGAAATTGTTAATGAATATA+AGG | - | chr5.4:30707331-30707350 | MS.gene53061:intron | 15.0% |
| !! | TTAAATGTAATTATATGTGT+CGG | - | chr5.4:30707233-30707252 | MS.gene53061:intron | 15.0% |
| !!! | CTATTAGTTGAATTTTTTTA+AGG | + | chr5.4:30706956-30706975 | None:intergenic | 15.0% |
| !! | ATAAGATACATAATCTTTCA+AGG | + | chr5.4:30707490-30707509 | None:intergenic | 20.0% |
| !! | TAAGATACATAATCTTTCAA+GGG | + | chr5.4:30707489-30707508 | None:intergenic | 20.0% |
| !!! | TGCATTTTTAGTATATGATT+AGG | - | chr5.4:30707387-30707406 | MS.gene53061:intron | 20.0% |
| ! | AAGATACATAATCTTTCAAG+GGG | + | chr5.4:30707488-30707507 | None:intergenic | 25.0% |
| ! | AATATAAGGTACAATACAAG+AGG | - | chr5.4:30707345-30707364 | MS.gene53061:intron | 25.0% |
| ! | AATCTATGAAGTATGAATAC+AGG | - | chr5.4:30707115-30707134 | MS.gene53061:intron | 25.0% |
| ! | TGTGTTTAATTAGTTAAGCT+GGG | - | chr5.4:30706927-30706946 | MS.gene53061:intron | 25.0% |
| ! | TTGTGTTTAATTAGTTAAGC+TGG | - | chr5.4:30706926-30706945 | MS.gene53061:intron | 25.0% |
| !!! | AATTTATATGCCTGTTTTTG+AGG | + | chr5.4:30707052-30707071 | None:intergenic | 25.0% |
| AGACTCAAATTGTCAATTCA+TGG | - | chr5.4:30706974-30706993 | MS.gene53061:intron | 30.0% | |
| AGGTATGATTCATATACCTT+TGG | + | chr5.4:30707565-30707584 | None:intergenic | 30.0% | |
| AGTATATGATTAGGTTCGAT+TGG | - | chr5.4:30707396-30707415 | MS.gene53061:intron | 30.0% | |
| ATTTAGCTATCCTCAAAAAC+AGG | - | chr5.4:30707039-30707058 | MS.gene53061:intron | 30.0% | |
| GAAACAGAATTATCTTGAAC+AGG | - | chr5.4:30706551-30706570 | MS.gene53061:CDS | 30.0% | |
| GAAATCAATAGATGAACTTG+TGG | - | chr5.4:30707603-30707622 | MS.gene53061:CDS | 30.0% | |
| GGTTCGATTGGCAAAATAAA+AGG | - | chr5.4:30707408-30707427 | MS.gene53061:intron | 35.0% | |
| TCAATGTCTTCTCGTAGTAT+AGG | + | chr5.4:30707585-30707604 | None:intergenic | 35.0% | |
| TGTCAAAACTGCTAATGAGT+TGG | - | chr5.4:30706623-30706642 | MS.gene53061:intron | 35.0% | |
| TGTTGGAAACTTTATCTTGG+AGG | - | chr5.4:30706505-30706524 | MS.gene53061:CDS | 35.0% | |
| TTCGTCCAAATTAGTTCATC+TGG | - | chr5.4:30706870-30706889 | MS.gene53061:intron | 35.0% | |
| TTGAGCCAGATGAACTAATT+TGG | + | chr5.4:30706878-30706897 | None:intergenic | 35.0% | |
| !! | ATTCATATACCTTTGGTGTC+CGG | + | chr5.4:30707558-30707577 | None:intergenic | 35.0% |
| !! | GTTGGTTGATAATTTGACTG+AGG | - | chr5.4:30706641-30706660 | MS.gene53061:intron | 35.0% |
| !! | TGTGCTTAATTTGTTGCTTG+TGG | - | chr5.4:30706668-30706687 | MS.gene53061:intron | 35.0% |
| !!! | GTTTTTTTTCCCTCTTCAGA+TGG | - | chr5.4:30707522-30707541 | MS.gene53061:CDS | 35.0% |
| ACATAACGATCCATCTGAAG+AGG | + | chr5.4:30707535-30707554 | None:intergenic | 40.0% | |
| AGGCAGAGACATATGAAGTA+TGG | - | chr5.4:30707135-30707154 | MS.gene53061:intron | 40.0% | |
| CATAACGATCCATCTGAAGA+GGG | + | chr5.4:30707534-30707553 | None:intergenic | 40.0% | |
| TTCAGATGGATCGTTATGTC+CGG | - | chr5.4:30707536-30707555 | MS.gene53061:CDS | 40.0% | |
| TTTGCCTGAAAATCGTCGCA+AGG | - | chr5.4:30706596-30706615 | MS.gene53061:intron | 45.0% | |
| ! | TACTCCTTGCGACGATTTTC+AGG | + | chr5.4:30706603-30706622 | None:intergenic | 45.0% |
| ACCAGGACACGACTAATTCG+AGG | - | chr5.4:30707268-30707287 | MS.gene53061:intron | 50.0% | |
| TCCTCGAATTAGTCGTGTCC+TGG | + | chr5.4:30707272-30707291 | None:intergenic | 50.0% | |
| TCGTTATGTCCGGACACCAA+AGG | - | chr5.4:30707546-30707565 | MS.gene53061:CDS | 50.0% | |
| !! | GAGGAGCGTTTGTGCTTCAT+AGG | - | chr5.4:30707287-30707306 | MS.gene53061:intron | 50.0% |
| !! | GTCGGTGTTGTATCGACACC+AGG | - | chr5.4:30707251-30707270 | MS.gene53061:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.4 | gene | 30706504 | 30707639 | 30706504 | ID=MS.gene53061 |
| chr5.4 | mRNA | 30706504 | 30707639 | 30706504 | ID=MS.gene53061.t1;Parent=MS.gene53061 |
| chr5.4 | exon | 30707481 | 30707639 | 30707481 | ID=MS.gene53061.t1.exon1;Parent=MS.gene53061.t1 |
| chr5.4 | CDS | 30707481 | 30707639 | 30707481 | ID=cds.MS.gene53061.t1;Parent=MS.gene53061.t1 |
| chr5.4 | exon | 30706504 | 30706602 | 30706504 | ID=MS.gene53061.t1.exon2;Parent=MS.gene53061.t1 |
| chr5.4 | CDS | 30706504 | 30706602 | 30706504 | ID=cds.MS.gene53061.t1;Parent=MS.gene53061.t1 |
| Gene Sequence |
| Protein sequence |
