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.gene43212.t1 | XP_013457865.1 | 97.9 | 233 | 5 | 0 | 1 | 233 | 67 | 299 | 9.80E-104 | 386.3 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene43212.t1 | Q9STS6 | 25.9 | 239 | 131 | 5 | 1 | 196 | 93 | 328 | 5.6e-07 | 56.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene43212.t1 | A0A072URD2 | 97.9 | 233 | 5 | 0 | 1 | 233 | 67 | 299 | 7.0e-104 | 386.3 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene43212.t1 | TF | LOB |
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.gene43212.t1 | MTR_4g107450 | 98.712 | 233 | 3 | 0 | 1 | 233 | 67 | 299 | 5.71e-173 | 478 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene43212.t1 | AT3G47870 | 30.417 | 240 | 119 | 8 | 1 | 196 | 93 | 328 | 1.80e-16 | 77.4 |
Find 41 sgRNAs with CRISPR-Local
Find 44 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATGCTACAAATCCTAATTTA+TGG | 0.149478 | 8.4:+19445164 | MS.gene43212:CDS |
| TTATCATTCAAGCTAATTAT+AGG | 0.238366 | 8.4:+19444795 | MS.gene43212:CDS |
| GTGACTTCACAGTTAGAATT+AGG | 0.247178 | 8.4:+19444965 | MS.gene43212:CDS |
| ATCAACAACTTGAAATTTGC+AGG | 0.281961 | 8.4:+19444906 | MS.gene43212:CDS |
| GCAGGCTACAATATCAAATA+TGG | 0.297786 | 8.4:+19444855 | MS.gene43212:CDS |
| GCAATCATACATTTATTCTA+AGG | 0.300515 | 8.4:+19445345 | MS.gene43212:CDS |
| CTGCTATTATTATTTGTGTA+AGG | 0.327541 | 8.4:-19445196 | None:intergenic |
| TATCATTCAAGCTAATTATA+GGG | 0.334002 | 8.4:+19444796 | MS.gene43212:CDS |
| GGGCACTGAAGCCATAAATT+AGG | 0.357230 | 8.4:-19445175 | None:intergenic |
| TATCTTCAACAACTCCTTGT+TGG | 0.395214 | 8.4:-19445279 | None:intergenic |
| CATCATGAGGTAACTGTTGT+TGG | 0.408383 | 8.4:-19444940 | None:intergenic |
| TTGTTGTAACTCTGTGGTTG+TGG | 0.444565 | 8.4:-19445034 | None:intergenic |
| AAAGAGTGCGAGCGCATTGA+AGG | 0.447294 | 8.4:-19445002 | None:intergenic |
| GATGTTGTGAGGAAATTTGC+AGG | 0.467829 | 8.4:+19444837 | MS.gene43212:CDS |
| ACAATATCAAATATGGATGA+TGG | 0.492612 | 8.4:+19444862 | MS.gene43212:CDS |
| CTAAGGAGGCTTATGAATCA+AGG | 0.503681 | 8.4:+19445362 | MS.gene43212:CDS |
| TGCTATTATTATTTGTGTAA+GGG | 0.504837 | 8.4:-19445195 | None:intergenic |
| TCTGAGGTAACCAACTTATG+AGG | 0.517348 | 8.4:-19445235 | None:intergenic |
| ATAATCCACACTATTGCTGT+TGG | 0.518450 | 8.4:-19445107 | None:intergenic |
| AGCAATGCAACCTCATAAGT+TGG | 0.519249 | 8.4:+19445225 | MS.gene43212:CDS |
| TAATAACTCCTCCCTCTACA+TGG | 0.525658 | 8.4:+19445129 | MS.gene43212:CDS |
| TTGAATGATAATAGAATCCA+TGG | 0.528060 | 8.4:-19444783 | None:intergenic |
| CTCCCTCTACATGGATTCAA+AGG | 0.529912 | 8.4:+19445138 | MS.gene43212:CDS |
| ATCATACATTTATTCTAAGG+AGG | 0.554320 | 8.4:+19445348 | MS.gene43212:CDS |
| CTGATCAGTTGACACTGGTA+AGG | 0.557706 | 8.4:-19445684 | None:intergenic |
| TCCTCACAACATCCATGCAC+AGG | 0.573785 | 8.4:-19444827 | None:intergenic |
| CACACTATTGCTGTTGGAGT+AGG | 0.575688 | 8.4:-19445101 | None:intergenic |
| CCTTGTTGGACAGATGATAG+TGG | 0.578651 | 8.4:-19445265 | None:intergenic |
| AGGGATAAGTATCCTGTGCA+TGG | 0.583412 | 8.4:+19444815 | MS.gene43212:CDS |
| TTCACAGTTAGAATTAGGAA+TGG | 0.586596 | 8.4:+19444970 | MS.gene43212:CDS |
| ATCCTTTGAATCCATGTAGA+GGG | 0.590065 | 8.4:-19445140 | None:intergenic |
| TTATTGTTGTTGTAACTCTG+TGG | 0.607863 | 8.4:-19445040 | None:intergenic |
| CTACTCCAACAGCAATAGTG+TGG | 0.620940 | 8.4:+19445102 | MS.gene43212:CDS |
| CATCCTTTGAATCCATGTAG+AGG | 0.632560 | 8.4:-19445141 | None:intergenic |
| CCACTATCATCTGTCCAACA+AGG | 0.649871 | 8.4:+19445265 | MS.gene43212:CDS |
| TAGTACTGATCAGTTGACAC+TGG | 0.662425 | 8.4:-19445689 | None:intergenic |
| CTTTGAATCCATGTAGAGGG+AGG | 0.666923 | 8.4:-19445137 | None:intergenic |
| TGATAGTGGCTGTGACTCTG+AGG | 0.678405 | 8.4:-19445251 | None:intergenic |
| TGTGAAGTCACATCATCATG+AGG | 0.679884 | 8.4:-19444953 | None:intergenic |
| TCCTGTGCATGGATGTTGTG+AGG | 0.692042 | 8.4:+19444826 | MS.gene43212:CDS |
| TGTTGCTGAGATACAGACAA+AGG | 0.703585 | 8.4:-19445076 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AATGTTGAAATTAGATATAG+TGG | + | chr8.4:19445490-19445509 | MS.gene43212:intron | 20.0% |
| !! | ATGTTGAAATTAGATATAGT+GGG | + | chr8.4:19445491-19445510 | MS.gene43212:intron | 20.0% |
| !! | TATCATTCAAGCTAATTATA+GGG | + | chr8.4:19444796-19444815 | MS.gene43212:CDS | 20.0% |
| !! | TGCTATTATTATTTGTGTAA+GGG | - | chr8.4:19445198-19445217 | None:intergenic | 20.0% |
| !! | TTATCATTCAAGCTAATTAT+AGG | + | chr8.4:19444795-19444814 | MS.gene43212:CDS | 20.0% |
| ! | ACAATATCAAATATGGATGA+TGG | + | chr8.4:19444862-19444881 | MS.gene43212:CDS | 25.0% |
| ! | ATGCTACAAATCCTAATTTA+TGG | + | chr8.4:19445164-19445183 | MS.gene43212:CDS | 25.0% |
| ! | CTGCTATTATTATTTGTGTA+AGG | - | chr8.4:19445199-19445218 | None:intergenic | 25.0% |
| ! | GCAATCATACATTTATTCTA+AGG | + | chr8.4:19445345-19445364 | MS.gene43212:CDS | 25.0% |
| !! | ATCATACATTTATTCTAAGG+AGG | + | chr8.4:19445348-19445367 | MS.gene43212:CDS | 25.0% |
| !! | GTATTGTTTGATTTACTTGA+AGG | - | chr8.4:19445427-19445446 | None:intergenic | 25.0% |
| !!! | TTTTTGATACAGTTGATGAT+AGG | + | chr8.4:19445323-19445342 | MS.gene43212:CDS | 25.0% |
| ATCAACAACTTGAAATTTGC+AGG | + | chr8.4:19444906-19444925 | MS.gene43212:CDS | 30.0% | |
| TTCACAGTTAGAATTAGGAA+TGG | + | chr8.4:19444970-19444989 | MS.gene43212:CDS | 30.0% | |
| ! | TTATTGTTGTTGTAACTCTG+TGG | - | chr8.4:19445043-19445062 | None:intergenic | 30.0% |
| ATAATCCACACTATTGCTGT+TGG | - | chr8.4:19445110-19445129 | None:intergenic | 35.0% | |
| ATCCTTTGAATCCATGTAGA+GGG | - | chr8.4:19445143-19445162 | None:intergenic | 35.0% | |
| GCAGGCTACAATATCAAATA+TGG | + | chr8.4:19444855-19444874 | MS.gene43212:CDS | 35.0% | |
| GTGACTTCACAGTTAGAATT+AGG | + | chr8.4:19444965-19444984 | MS.gene43212:CDS | 35.0% | |
| TATCTTCAACAACTCCTTGT+TGG | - | chr8.4:19445282-19445301 | None:intergenic | 35.0% | |
| AGCAATGCAACCTCATAAGT+TGG | + | chr8.4:19445225-19445244 | MS.gene43212:CDS | 40.0% | |
| CATCATGAGGTAACTGTTGT+TGG | - | chr8.4:19444943-19444962 | None:intergenic | 40.0% | |
| CATCCTTTGAATCCATGTAG+AGG | - | chr8.4:19445144-19445163 | None:intergenic | 40.0% | |
| CTAAGGAGGCTTATGAATCA+AGG | + | chr8.4:19445362-19445381 | MS.gene43212:CDS | 40.0% | |
| GATGTTGTGAGGAAATTTGC+AGG | + | chr8.4:19444837-19444856 | MS.gene43212:CDS | 40.0% | |
| TAATAACTCCTCCCTCTACA+TGG | + | chr8.4:19445129-19445148 | MS.gene43212:CDS | 40.0% | |
| TGTGAAGTCACATCATCATG+AGG | - | chr8.4:19444956-19444975 | None:intergenic | 40.0% | |
| TGTTGCTGAGATACAGACAA+AGG | - | chr8.4:19445079-19445098 | None:intergenic | 40.0% | |
| TTGTTGTAACTCTGTGGTTG+TGG | - | chr8.4:19445037-19445056 | None:intergenic | 40.0% | |
| ! | TCTGAGGTAACCAACTTATG+AGG | - | chr8.4:19445238-19445257 | None:intergenic | 40.0% |
| AGGGATAAGTATCCTGTGCA+TGG | + | chr8.4:19444815-19444834 | MS.gene43212:CDS | 45.0% | |
| CCACTATCATCTGTCCAACA+AGG | + | chr8.4:19445265-19445284 | MS.gene43212:CDS | 45.0% | |
| CCTTGTTGGACAGATGATAG+TGG | - | chr8.4:19445268-19445287 | None:intergenic | 45.0% | |
| CTACTCCAACAGCAATAGTG+TGG | + | chr8.4:19445102-19445121 | MS.gene43212:CDS | 45.0% | |
| CTCCCTCTACATGGATTCAA+AGG | + | chr8.4:19445138-19445157 | MS.gene43212:CDS | 45.0% | |
| CTTTGAATCCATGTAGAGGG+AGG | - | chr8.4:19445140-19445159 | None:intergenic | 45.0% | |
| GAACTGCACGCAGAAATGTA+CGG | - | chr8.4:19445583-19445602 | None:intergenic | 45.0% | |
| GTACATTTCTGCGTGCAGTT+CGG | + | chr8.4:19445582-19445601 | MS.gene43212:intron | 45.0% | |
| ! | CACACTATTGCTGTTGGAGT+AGG | - | chr8.4:19445104-19445123 | None:intergenic | 45.0% |
| !! | GGGCACTGAAGCCATAAATT+AGG | - | chr8.4:19445178-19445197 | None:intergenic | 45.0% |
| TCCTCACAACATCCATGCAC+AGG | - | chr8.4:19444830-19444849 | None:intergenic | 50.0% | |
| TCCTGTGCATGGATGTTGTG+AGG | + | chr8.4:19444826-19444845 | MS.gene43212:CDS | 50.0% | |
| ! | AAAGAGTGCGAGCGCATTGA+AGG | - | chr8.4:19445005-19445024 | None:intergenic | 50.0% |
| !! | TGATAGTGGCTGTGACTCTG+AGG | - | chr8.4:19445254-19445273 | None:intergenic | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr8.4 | gene | 19444785 | 19445702 | 19444785 | ID=MS.gene43212 |
| chr8.4 | mRNA | 19444785 | 19445702 | 19444785 | ID=MS.gene43212.t1;Parent=MS.gene43212 |
| chr8.4 | exon | 19444785 | 19445383 | 19444785 | ID=MS.gene43212.t1.exon1;Parent=MS.gene43212.t1 |
| chr8.4 | CDS | 19444785 | 19445383 | 19444785 | ID=cds.MS.gene43212.t1;Parent=MS.gene43212.t1 |
| chr8.4 | exon | 19445600 | 19445702 | 19445600 | ID=MS.gene43212.t1.exon2;Parent=MS.gene43212.t1 |
| chr8.4 | CDS | 19445600 | 19445702 | 19445600 | ID=cds.MS.gene43212.t1;Parent=MS.gene43212.t1 |
| Gene Sequence |
| Protein sequence |
