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.gene59954.t1 | XP_024636802.1 | 75.8 | 211 | 48 | 1 | 3 | 213 | 25 | 232 | 1.70E-54 | 222.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene59954.t1 | A0A396IJH9 | 75.8 | 211 | 48 | 1 | 3 | 213 | 25 | 232 | 1.2e-54 | 222.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene59954.t1 | TF | C2H2 |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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.gene59954.t1 | MTR_3g084720 | 49.524 | 210 | 86 | 4 | 3 | 210 | 38 | 229 | 4.85e-51 | 165 |
| MS.gene59954.t1 | MTR_6g465230 | 69.388 | 98 | 29 | 1 | 3 | 100 | 122 | 218 | 2.32e-31 | 114 |
| MS.gene59954.t1 | MTR_7g010470 | 66.234 | 77 | 25 | 1 | 138 | 213 | 4 | 80 | 1.87e-27 | 100 |
| MS.gene59954.t1 | MTR_6g055180 | 61.290 | 62 | 21 | 1 | 3 | 64 | 29 | 87 | 2.50e-12 | 60.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene59954.t1 | AT2G18490 | 48.810 | 84 | 37 | 2 | 102 | 185 | 155 | 232 | 5.72e-21 | 87.8 |
| MS.gene59954.t1 | AT2G18490 | 48.810 | 84 | 37 | 2 | 102 | 185 | 205 | 282 | 1.19e-20 | 88.2 |
| MS.gene59954.t1 | AT5G22990 | 53.750 | 80 | 36 | 1 | 97 | 175 | 227 | 306 | 8.09e-20 | 86.3 |
| MS.gene59954.t1 | AT2G15740 | 59.701 | 67 | 23 | 1 | 101 | 167 | 229 | 291 | 1.68e-19 | 85.1 |
| MS.gene59954.t1 | AT5G42640 | 51.471 | 68 | 29 | 1 | 95 | 158 | 218 | 285 | 2.13e-18 | 82.0 |
Find 32 sgRNAs with CRISPR-Local
Find 41 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CATCATCTGATAATAATAAT+AGG | 0.318777 | 8.3:+12577954 | MS.gene59954:CDS |
| AATGATGGAACAACTACTTT+TGG | 0.332371 | 8.3:+12578367 | MS.gene59954:CDS |
| CAAATGCTTGAAGCTCAGTT+TGG | 0.351149 | 8.3:+12577911 | MS.gene59954:CDS |
| AACAATACTGTTGCTACTAA+TGG | 0.363944 | 8.3:+12578088 | MS.gene59954:CDS |
| AAGTGGGGTAAAAGTTAAAC+TGG | 0.383067 | 8.3:+12578471 | MS.gene59954:CDS |
| CTACTAATGGTGATGAAATC+CGG | 0.385370 | 8.3:+12578101 | MS.gene59954:CDS |
| TTACACTTTGGACACGTATA+CGG | 0.389805 | 8.3:-12578211 | None:intergenic |
| CGATTTCAAAAGCTCAATGA+TGG | 0.441823 | 8.3:+12578352 | MS.gene59954:CDS |
| AAATGCTTGAAGCTCAGTTT+GGG | 0.444522 | 8.3:+12577912 | MS.gene59954:CDS |
| CTATTATTATTATCAGATGA+TGG | 0.447972 | 8.3:-12577953 | None:intergenic |
| GACGAGCCTCCAAGGAGATC+AGG | 0.460583 | 8.3:-12578034 | None:intergenic |
| GCTAGTACTTTGTTACACTT+TGG | 0.466837 | 8.3:-12578223 | None:intergenic |
| CCCCTACTCCTCCTCTAAGT+GGG | 0.481758 | 8.3:+12578455 | MS.gene59954:CDS |
| GCTCATCCTGATCTCCTTGG+AGG | 0.493768 | 8.3:+12578028 | MS.gene59954:CDS |
| TATGCTCATCCTGATCTCCT+TGG | 0.493878 | 8.3:+12578025 | MS.gene59954:CDS |
| AAAGAAGAAATTGTTGATGA+TGG | 0.494936 | 8.3:+12578154 | MS.gene59954:CDS |
| GCCCCTACTCCTCCTCTAAG+TGG | 0.499796 | 8.3:+12578454 | MS.gene59954:CDS |
| ACAGTATTGTTTACCTCAGA+TGG | 0.506108 | 8.3:-12578076 | None:intergenic |
| CCCCACTTAGAGGAGGAGTA+GGG | 0.515661 | 8.3:-12578456 | None:intergenic |
| AATATAAATTAATTATCAGC+AGG | 0.519786 | 8.3:-12578496 | None:intergenic |
| TGTTGGTATTATTAGAAGCC+CGG | 0.523272 | 8.3:-12578120 | None:intergenic |
| GACTGATCAACAGAAGCAAT+AGG | 0.525212 | 8.3:-12578391 | None:intergenic |
| TACTAATGGTGATGAAATCC+GGG | 0.531216 | 8.3:+12578102 | MS.gene59954:CDS |
| AAAGTGAAGACGAGCCTCCA+AGG | 0.567472 | 8.3:-12578042 | None:intergenic |
| ACCCCACTTAGAGGAGGAGT+AGG | 0.570382 | 8.3:-12578457 | None:intergenic |
| CTAATAATACCAACATGAAG+CGG | 0.574702 | 8.3:+12578128 | MS.gene59954:CDS |
| CCCTACTCCTCCTCTAAGTG+GGG | 0.599231 | 8.3:+12578456 | MS.gene59954:CDS |
| GAGATCAGGATGAGCATAAG+CGG | 0.608512 | 8.3:-12578020 | None:intergenic |
| TGTCATCATCAACAACAAGA+TGG | 0.630742 | 8.3:+12577982 | MS.gene59954:CDS |
| TTCACAACAACCGCCATCTG+AGG | 0.636470 | 8.3:+12578063 | MS.gene59954:CDS |
| CCCACTTAGAGGAGGAGTAG+GGG | 0.654382 | 8.3:-12578455 | None:intergenic |
| GTATTGTTTACCTCAGATGG+CGG | 0.675983 | 8.3:-12578073 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | CATCATCTGATAATAATAAT+AGG | + | chr8.3:12577954-12577973 | MS.gene59954:CDS | 20.0% |
| !! | CTATTATTATTATCAGATGA+TGG | - | chr8.3:12577956-12577975 | None:intergenic | 20.0% |
| !! | AAAGAAGAAATTGTTGATGA+TGG | + | chr8.3:12578154-12578173 | MS.gene59954:CDS | 25.0% |
| AACAATACTGTTGCTACTAA+TGG | + | chr8.3:12578088-12578107 | MS.gene59954:CDS | 30.0% | |
| AGTCTACCACACAATAAAAA+TGG | + | chr8.3:12578187-12578206 | MS.gene59954:CDS | 30.0% | |
| CTAATAATACCAACATGAAG+CGG | + | chr8.3:12578128-12578147 | MS.gene59954:CDS | 30.0% | |
| GAAAAAAGAGATACAAGTCT+AGG | + | chr8.3:12578308-12578327 | MS.gene59954:CDS | 30.0% | |
| !! | AATGATGGAACAACTACTTT+TGG | + | chr8.3:12578367-12578386 | MS.gene59954:CDS | 30.0% |
| AAATGCTTGAAGCTCAGTTT+GGG | + | chr8.3:12577912-12577931 | MS.gene59954:CDS | 35.0% | |
| AAGTGGGGTAAAAGTTAAAC+TGG | + | chr8.3:12578471-12578490 | MS.gene59954:CDS | 35.0% | |
| ACAGTATTGTTTACCTCAGA+TGG | - | chr8.3:12578079-12578098 | None:intergenic | 35.0% | |
| CGATTTCAAAAGCTCAATGA+TGG | + | chr8.3:12578352-12578371 | MS.gene59954:CDS | 35.0% | |
| GCTAGTACTTTGTTACACTT+TGG | - | chr8.3:12578226-12578245 | None:intergenic | 35.0% | |
| TGTCATCATCAACAACAAGA+TGG | + | chr8.3:12577982-12578001 | MS.gene59954:CDS | 35.0% | |
| TGTTGGTATTATTAGAAGCC+CGG | - | chr8.3:12578123-12578142 | None:intergenic | 35.0% | |
| TTACACTTTGGACACGTATA+CGG | - | chr8.3:12578214-12578233 | None:intergenic | 35.0% | |
| ! | CTACTAATGGTGATGAAATC+CGG | + | chr8.3:12578101-12578120 | MS.gene59954:CDS | 35.0% |
| ! | TACTAATGGTGATGAAATCC+GGG | + | chr8.3:12578102-12578121 | MS.gene59954:CDS | 35.0% |
| ! | TTAACTTTTACCCCACTTAG+AGG | - | chr8.3:12578469-12578488 | None:intergenic | 35.0% |
| ! | TTTTATTGTGTGGTAGACTG+TGG | - | chr8.3:12578186-12578205 | None:intergenic | 35.0% |
| !! | TACGGTCCATTTTTATTGTG+TGG | - | chr8.3:12578196-12578215 | None:intergenic | 35.0% |
| !!! | AGCTTTTGAAATCGAAGATC+TGG | - | chr8.3:12578346-12578365 | None:intergenic | 35.0% |
| !!! | TTCTTTTTTCCGCTTCATGT+TGG | - | chr8.3:12578140-12578159 | None:intergenic | 35.0% |
| CAAATGCTTGAAGCTCAGTT+TGG | + | chr8.3:12577911-12577930 | MS.gene59954:CDS | 40.0% | |
| GACTGATCAACAGAAGCAAT+AGG | - | chr8.3:12578394-12578413 | None:intergenic | 40.0% | |
| GTATTGTTTACCTCAGATGG+CGG | - | chr8.3:12578076-12578095 | None:intergenic | 40.0% | |
| GAGATCAGGATGAGCATAAG+CGG | - | chr8.3:12578023-12578042 | None:intergenic | 45.0% | |
| TATGCTCATCCTGATCTCCT+TGG | + | chr8.3:12578025-12578044 | MS.gene59954:CDS | 45.0% | |
| ! | ACTTTTACCCCACTTAGAGG+AGG | - | chr8.3:12578466-12578485 | None:intergenic | 45.0% |
| ! | ATTTTCGGTAGTCATGCTCC+AGG | + | chr8.3:12577872-12577891 | MS.gene59954:CDS | 45.0% |
| !! | TGCATCGCTTTTATGATGCC+TGG | - | chr8.3:12577893-12577912 | None:intergenic | 45.0% |
| AAAGTGAAGACGAGCCTCCA+AGG | - | chr8.3:12578045-12578064 | None:intergenic | 50.0% | |
| TTCACAACAACCGCCATCTG+AGG | + | chr8.3:12578063-12578082 | MS.gene59954:CDS | 50.0% | |
| ACCCCACTTAGAGGAGGAGT+AGG | - | chr8.3:12578460-12578479 | None:intergenic | 55.0% | |
| CCCACTTAGAGGAGGAGTAG+GGG | - | chr8.3:12578458-12578477 | None:intergenic | 55.0% | |
| CCCCACTTAGAGGAGGAGTA+GGG | - | chr8.3:12578459-12578478 | None:intergenic | 55.0% | |
| CCCCTACTCCTCCTCTAAGT+GGG | + | chr8.3:12578455-12578474 | MS.gene59954:CDS | 55.0% | |
| CCCTACTCCTCCTCTAAGTG+GGG | + | chr8.3:12578456-12578475 | MS.gene59954:CDS | 55.0% | |
| GCTCATCCTGATCTCCTTGG+AGG | + | chr8.3:12578028-12578047 | MS.gene59954:CDS | 55.0% | |
| GACGAGCCTCCAAGGAGATC+AGG | - | chr8.3:12578037-12578056 | None:intergenic | 60.0% | |
| GCCCCTACTCCTCCTCTAAG+TGG | + | chr8.3:12578454-12578473 | MS.gene59954:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8.3 | gene | 12577869 | 12578510 | 12577869 | ID=MS.gene59954 |
| chr8.3 | mRNA | 12577869 | 12578510 | 12577869 | ID=MS.gene59954.t1;Parent=MS.gene59954 |
| chr8.3 | exon | 12577869 | 12578510 | 12577869 | ID=MS.gene59954.t1.exon1;Parent=MS.gene59954.t1 |
| chr8.3 | CDS | 12577869 | 12578510 | 12577869 | ID=cds.MS.gene59954.t1;Parent=MS.gene59954.t1 |
| Gene Sequence |
| Protein sequence |
