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.gene28323.t1 | XP_003606815.2 | 95.5 | 67 | 3 | 0 | 1 | 67 | 1 | 67 | 3.90E-27 | 130.2 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene28323.t1 | O22860 | 88.1 | 67 | 8 | 0 | 1 | 67 | 1 | 67 | 2.0e-27 | 122.5 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene28323.t1 | G7JEV4 | 95.5 | 67 | 3 | 0 | 1 | 67 | 1 | 67 | 2.8e-27 | 130.2 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050277 | MS.gene28323 | 0.824467 | 7.94E-54 | -1.69E-46 |
| MS.gene050290 | MS.gene28323 | 0.819045 | 1.43E-52 | -1.69E-46 |
| MS.gene050320 | MS.gene28323 | 0.849843 | 2.49E-60 | -1.69E-46 |
| MS.gene051330 | MS.gene28323 | 0.833339 | 5.65E-56 | -1.69E-46 |
| MS.gene051746 | MS.gene28323 | 0.815066 | 1.12E-51 | -1.69E-46 |
| MS.gene051748 | MS.gene28323 | 0.835722 | 1.42E-56 | -1.69E-46 |
| MS.gene051756 | MS.gene28323 | 0.863409 | 2.54E-64 | -1.69E-46 |
| MS.gene051850 | MS.gene28323 | 0.811144 | 8.11E-51 | -1.69E-46 |
| MS.gene051903 | MS.gene28323 | 0.907124 | 7.11E-81 | -1.69E-46 |
| MS.gene052202 | MS.gene28323 | 0.802134 | 6.48E-49 | -1.69E-46 |
| MS.gene052947 | MS.gene28323 | 0.81091 | 9.11E-51 | -1.69E-46 |
| MS.gene053109 | MS.gene28323 | 0.822559 | 2.22E-53 | -1.69E-46 |
| MS.gene053952 | MS.gene28323 | 0.839268 | 1.75E-57 | -1.69E-46 |
| MS.gene054937 | MS.gene28323 | 0.806614 | 7.55E-50 | -1.69E-46 |
| MS.gene055424 | MS.gene28323 | 0.819122 | 1.37E-52 | -1.69E-46 |
| MS.gene056075 | MS.gene28323 | 0.837169 | 6.09E-57 | -1.69E-46 |
| MS.gene057094 | MS.gene28323 | 0.859853 | 3.10E-63 | -1.69E-46 |
| MS.gene057206 | MS.gene28323 | 0.80608 | 9.79E-50 | -1.69E-46 |
| MS.gene057234 | MS.gene28323 | 0.820223 | 7.69E-53 | -1.69E-46 |
| MS.gene058238 | MS.gene28323 | 0.806581 | 7.67E-50 | -1.69E-46 |
| MS.gene059898 | MS.gene28323 | 0.811258 | 7.66E-51 | -1.69E-46 |
| MS.gene06001 | MS.gene28323 | 0.855874 | 4.71E-62 | -1.69E-46 |
| MS.gene061145 | MS.gene28323 | 0.898633 | 4.38E-77 | -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.gene28323.t1 | MTR_4g068040 | 92.754 | 69 | 5 | 0 | 1 | 69 | 1 | 69 | 1.64e-41 | 129 |
| MS.gene28323.t1 | MTR_4g068040 | 100.000 | 63 | 0 | 0 | 1 | 63 | 1 | 63 | 1.21e-40 | 127 |
| MS.gene28323.t1 | MTR_2g018680 | 86.957 | 69 | 9 | 0 | 1 | 69 | 1 | 69 | 2.23e-38 | 122 |
| MS.gene28323.t1 | MTR_8g079485 | 95.238 | 63 | 3 | 0 | 1 | 63 | 1 | 63 | 2.36e-38 | 122 |
| MS.gene28323.t1 | MTR_2g018680 | 95.238 | 63 | 3 | 0 | 1 | 63 | 1 | 63 | 2.54e-38 | 121 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene28323.t1 | AT3G59540 | 85.507 | 69 | 10 | 0 | 1 | 69 | 1 | 69 | 1.16e-38 | 122 |
| MS.gene28323.t1 | AT2G43460 | 85.507 | 69 | 10 | 0 | 1 | 69 | 1 | 69 | 1.16e-38 | 122 |
Find 13 sgRNAs with CRISPR-Local
Find 42 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAAGAATTATTACACCTTTA+AGG | 0.113781 | 4.4:-39075024 | None:intergenic |
| TAAGCAAATCAATGAGATTA+AGG | 0.290766 | 4.4:+39074702 | MS.gene28323:CDS |
| GTTATAGGTCGGAACCTTAA+AGG | 0.291426 | 4.4:+39075010 | MS.gene28323:intron |
| CTTCAACTTATCAGCTTTCT+CGG | 0.350966 | 4.4:-39074845 | None:intergenic |
| TTTGCTTCTCTTGATCTTCA+CGG | 0.377542 | 4.4:-39074761 | None:intergenic |
| CAAAGATGTTGTCAAGTTCA+AGG | 0.412153 | 4.4:+39074780 | MS.gene28323:CDS |
| ACAAAGTGTGTACAAGTACT+TGG | 0.506752 | 4.4:-39074812 | None:intergenic |
| TTAATCTCATTGATTTGCTT+AGG | 0.531275 | 4.4:-39074700 | None:intergenic |
| AGGACTTCCTCCTCACTGCT+AGG | 0.557805 | 4.4:+39074722 | MS.gene28323:CDS |
| CCTCCTCACTGCTAGGAGGA+AGG | 0.566472 | 4.4:+39074729 | MS.gene28323:CDS |
| CCTTCCTCCTAGCAGTGAGG+AGG | 0.657731 | 4.4:-39074729 | None:intergenic |
| ACTTCCTCCTCACTGCTAGG+AGG | 0.666318 | 4.4:+39074725 | MS.gene28323:CDS |
| CATCCTTCCTCCTAGCAGTG+AGG | 0.669946 | 4.4:-39074732 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTATTATATTTTTTTTTATT+TGG | + | chr4.4:39074601-39074620 | MS.gene28323:intron | 0.0% |
| !!! | AATTTTTTTTACTCAATTTT+AGG | + | chr4.4:39074451-39074470 | MS.gene28323:intron | 10.0% |
| !!! | ATTTTTTTTACTCAATTTTA+GGG | + | chr4.4:39074452-39074471 | MS.gene28323:intron | 10.0% |
| !!! | TATTTTTTTTTATTTGGATT+TGG | + | chr4.4:39074607-39074626 | MS.gene28323:intron | 10.0% |
| !! | ATTGAGTAAAAAAAATTCAT+AGG | - | chr4.4:39074448-39074467 | None:intergenic | 15.0% |
| !! | AAAGAATTATTACACCTTTA+AGG | - | chr4.4:39075027-39075046 | None:intergenic | 20.0% |
| !! | ACATTTCAATAAACACAAAA+AGG | - | chr4.4:39074678-39074697 | None:intergenic | 20.0% |
| !! | ATTATACATTGATCTGAATT+AGG | + | chr4.4:39074513-39074532 | MS.gene28323:intron | 20.0% |
| !! | TTATACATTGATCTGAATTA+GGG | + | chr4.4:39074514-39074533 | MS.gene28323:intron | 20.0% |
| !!! | TTTTTATTTGGATTTGGATT+TGG | + | chr4.4:39074613-39074632 | MS.gene28323:intron | 20.0% |
| ! | AAATCAATGCAAAGAATCAA+TGG | - | chr4.4:39074378-39074397 | None:intergenic | 25.0% |
| ! | AACAAGTGAAATTGAATCAA+TGG | + | chr4.4:39074482-39074501 | MS.gene28323:intron | 25.0% |
| ! | ATAATTCTCAAAAACTAACC+TGG | - | chr4.4:39074883-39074902 | None:intergenic | 25.0% |
| ! | CAACAGAAATAAACAATCTA+TGG | - | chr4.4:39074987-39075006 | None:intergenic | 25.0% |
| ! | TAAGCAAATCAATGAGATTA+AGG | + | chr4.4:39074702-39074721 | MS.gene28323:CDS | 25.0% |
| ! | TAATTCTCAAAAACTAACCT+GGG | - | chr4.4:39074882-39074901 | None:intergenic | 25.0% |
| !!! | CATAGATTGTTTATTTCTGT+TGG | + | chr4.4:39074985-39075004 | MS.gene28323:intron | 25.0% |
| !!! | TAGTTTTTGAGAATTATCGT+TGG | + | chr4.4:39074886-39074905 | MS.gene28323:intron | 25.0% |
| !!! | TGGTTTTTGATTTTCAAACT+TGG | + | chr4.4:39074543-39074562 | MS.gene28323:intron | 25.0% |
| !!! | TTAATCTCATTGATTTGCTT+AGG | - | chr4.4:39074703-39074722 | None:intergenic | 25.0% |
| !!! | TTATTTCTGTTGGTTGTTAT+AGG | + | chr4.4:39074995-39075014 | MS.gene28323:intron | 25.0% |
| AATTCTCAAAAACTAACCTG+GGG | - | chr4.4:39074881-39074900 | None:intergenic | 30.0% | |
| GATCTGAATTAGGGAATTTA+TGG | + | chr4.4:39074523-39074542 | MS.gene28323:intron | 30.0% | |
| ! | TTATCGTTGGTTGTATGTTA+TGG | + | chr4.4:39074899-39074918 | MS.gene28323:intron | 30.0% |
| !! | CAAACTTGGTAGTTGATAAA+GGG | + | chr4.4:39074557-39074576 | MS.gene28323:intron | 30.0% |
| !! | TCAAACTTGGTAGTTGATAA+AGG | + | chr4.4:39074556-39074575 | MS.gene28323:intron | 30.0% |
| ACAAAGTGTGTACAAGTACT+TGG | - | chr4.4:39074815-39074834 | None:intergenic | 35.0% | |
| ATTCTCAAAAACTAACCTGG+GGG | - | chr4.4:39074880-39074899 | None:intergenic | 35.0% | |
| CAAAGATGTTGTCAAGTTCA+AGG | + | chr4.4:39074780-39074799 | MS.gene28323:CDS | 35.0% | |
| CTGTGTTGTGATTTGAAAGA+TGG | + | chr4.4:39074640-39074659 | MS.gene28323:intron | 35.0% | |
| CTTCAACTTATCAGCTTTCT+CGG | - | chr4.4:39074848-39074867 | None:intergenic | 35.0% | |
| TTTGCTTCTCTTGATCTTCA+CGG | - | chr4.4:39074764-39074783 | None:intergenic | 35.0% | |
| ! | TTCTGTTGGTTGTTATAGGT+CGG | + | chr4.4:39074999-39075018 | MS.gene28323:intron | 35.0% |
| AGTACTTTCAACTCTAGGTG+AGG | + | chr4.4:39074949-39074968 | MS.gene28323:intron | 40.0% | |
| GTGCAAGTACTTTCAACTCT+AGG | + | chr4.4:39074944-39074963 | MS.gene28323:intron | 40.0% | |
| GTTATAGGTCGGAACCTTAA+AGG | + | chr4.4:39075010-39075029 | MS.gene28323:intron | 40.0% | |
| TTGAAGCAATCACTTCCCCC+AGG | + | chr4.4:39074862-39074881 | MS.gene28323:CDS | 50.0% | |
| ACTTCCTCCTCACTGCTAGG+AGG | + | chr4.4:39074725-39074744 | MS.gene28323:CDS | 55.0% | |
| AGGACTTCCTCCTCACTGCT+AGG | + | chr4.4:39074722-39074741 | MS.gene28323:CDS | 55.0% | |
| CATCCTTCCTCCTAGCAGTG+AGG | - | chr4.4:39074735-39074754 | None:intergenic | 55.0% | |
| CCTCCTCACTGCTAGGAGGA+AGG | + | chr4.4:39074729-39074748 | MS.gene28323:CDS | 60.0% | |
| CCTTCCTCCTAGCAGTGAGG+AGG | - | chr4.4:39074732-39074751 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.4 | gene | 39074356 | 39075048 | 39074356 | ID=MS.gene28323 |
| chr4.4 | mRNA | 39074356 | 39075048 | 39074356 | ID=MS.gene28323.t1;Parent=MS.gene28323 |
| chr4.4 | exon | 39074356 | 39074358 | 39074356 | ID=MS.gene28323.t1.exon1;Parent=MS.gene28323.t1 |
| chr4.4 | CDS | 39074356 | 39074358 | 39074356 | ID=cds.MS.gene28323.t1;Parent=MS.gene28323.t1 |
| chr4.4 | exon | 39074700 | 39074883 | 39074700 | ID=MS.gene28323.t1.exon2;Parent=MS.gene28323.t1 |
| chr4.4 | CDS | 39074700 | 39074883 | 39074700 | ID=cds.MS.gene28323.t1;Parent=MS.gene28323.t1 |
| chr4.4 | exon | 39075017 | 39075048 | 39075017 | ID=MS.gene28323.t1.exon3;Parent=MS.gene28323.t1 |
| chr4.4 | CDS | 39075017 | 39075048 | 39075017 | ID=cds.MS.gene28323.t1;Parent=MS.gene28323.t1 |
| Gene Sequence |
| Protein sequence |
