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.gene93955.t1 | XP_013455294.1 | 95.8 | 72 | 3 | 0 | 1 | 72 | 143 | 214 | 4.80E-33 | 149.8 |
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.gene93955.t1 | A0A072UTY2 | 95.8 | 72 | 3 | 0 | 1 | 72 | 143 | 214 | 3.4e-33 | 149.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene05553 | MS.gene93955 | 0.802037 | 6.78E-49 | -1.69E-46 |
| MS.gene056723 | MS.gene93955 | 0.806027 | 1.00E-49 | -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.gene93955.t1 | MTR_4g033475 | 95.833 | 72 | 3 | 0 | 1 | 72 | 143 | 214 | 6.18e-47 | 149 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene93955.t1 | AT2G44870 | 73.611 | 72 | 19 | 0 | 1 | 72 | 139 | 210 | 2.03e-35 | 120 |
Find 20 sgRNAs with CRISPR-Local
Find 48 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTTGCTGGACCTCTTCTAAT+TGG | 0.264317 | 4.3:-66205035 | MS.gene93955:CDS |
| TTCATCTGGTTTGCATTCTC+TGG | 0.294791 | 4.3:-66205101 | MS.gene93955:CDS |
| AGACGCAGTTTGCCGGTTAC+AGG | 0.311261 | 4.3:-66204323 | MS.gene93955:CDS |
| TCTGGTTTGCATTCTCTGGC+TGG | 0.360142 | 4.3:-66205097 | MS.gene93955:CDS |
| ACATGGGTACTTCCATTTGC+TGG | 0.366973 | 4.3:-66205050 | MS.gene93955:CDS |
| GTACCCATGTAGCGATTATC+AGG | 0.373220 | 4.3:+66205063 | None:intergenic |
| AATTGCAAGACGCAGTTTGC+CGG | 0.382295 | 4.3:-66204330 | MS.gene93955:CDS |
| TTGCTGGACCTCTTCTAATT+GGG | 0.399505 | 4.3:-66205034 | MS.gene93955:CDS |
| GGCCAACAGCTTAGTTATCA+AGG | 0.432409 | 4.3:-66205006 | MS.gene93955:intron |
| AACTACTTGATTCCTGTAAC+CGG | 0.441734 | 4.3:+66204311 | None:intergenic |
| GCAAACTGCGTCTTGCAATT+CGG | 0.456190 | 4.3:+66204333 | None:intergenic |
| ATTAGAAGAGGTCCAGCAAA+TGG | 0.472232 | 4.3:+66205038 | None:intergenic |
| GGTTCCTGATAATCGCTACA+TGG | 0.513233 | 4.3:-66205067 | MS.gene93955:CDS |
| ACCTCTTCTAATTGGGACAT+TGG | 0.542048 | 4.3:-66205027 | MS.gene93955:CDS |
| AACACTGTGTGGCAACCTAA+AGG | 0.542846 | 4.3:-66204270 | None:intergenic |
| TACCTTGATAACTAAGCTGT+TGG | 0.594517 | 4.3:+66205004 | None:intergenic |
| GCCAATGTCCCAATTAGAAG+AGG | 0.623244 | 4.3:+66205026 | None:intergenic |
| GTAGTTCGATGTACAAGATG+TGG | 0.632051 | 4.3:-66204294 | MS.gene93955:CDS |
| GTTCCTGATAATCGCTACAT+GGG | 0.649923 | 4.3:-66205066 | MS.gene93955:CDS |
| CAAGATGTGGCAACACTGTG+TGG | 0.713546 | 4.3:-66204281 | MS.gene93955:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | ATAAATTATTAAAATTTAAA+TGG | + | chr4.3:66204968-66204987 | None:intergenic | 0.0% |
| !! | AATTATGATATTAACATGCA+AGG | + | chr4.3:66204652-66204671 | None:intergenic | 20.0% |
| ! | AAAAAGGGAAATAGTAAAGA+AGG | - | chr4.3:66204568-66204587 | MS.gene93955:intron | 25.0% |
| ! | AAATTCTCTTTACATAAGCA+TGG | - | chr4.3:66204596-66204615 | MS.gene93955:intron | 25.0% |
| ! | AACTTGGTATTATTGTTTCA+AGG | + | chr4.3:66204728-66204747 | None:intergenic | 25.0% |
| ! | AATACTGTGGAAGTTATTTA+TGG | - | chr4.3:66204904-66204923 | MS.gene93955:intron | 25.0% |
| ! | AATTCTCTTTACATAAGCAT+GGG | - | chr4.3:66204597-66204616 | MS.gene93955:intron | 25.0% |
| ! | AATTTATTAAAACCGTACAC+TGG | + | chr4.3:66204482-66204501 | None:intergenic | 25.0% |
| ! | GAATAAAGCTAATGAAAACT+TGG | + | chr4.3:66204744-66204763 | None:intergenic | 25.0% |
| ! | GATCAAAAAGCTTATAAACA+AGG | + | chr4.3:66204686-66204705 | None:intergenic | 25.0% |
| ! | TAACTCAAATTCATGCTAAT+TGG | - | chr4.3:66204856-66204875 | MS.gene93955:intron | 25.0% |
| ! | TTCAAGGAAAATGTTATTCT+TGG | + | chr4.3:66204712-66204731 | None:intergenic | 25.0% |
| !! | TCAATTAATTTTGTGATGCT+TGG | - | chr4.3:66204786-66204805 | MS.gene93955:intron | 25.0% |
| AATTATGCTTCTGCTGTAAT+TGG | - | chr4.3:66205014-66205033 | MS.gene93955:CDS | 30.0% | |
| AACTACTTGATTCCTGTAAC+CGG | + | chr4.3:66205075-66205094 | None:intergenic | 35.0% | |
| AAGCAAAAGTTCATGCACAT+TGG | + | chr4.3:66204505-66204524 | None:intergenic | 35.0% | |
| AGAAGAGAATTCACTGAAGA+AGG | - | chr4.3:66204543-66204562 | MS.gene93955:intron | 35.0% | |
| GAAGAGAATTCACTGAAGAA+GGG | - | chr4.3:66204544-66204563 | MS.gene93955:intron | 35.0% | |
| GTACATCAGCTTCACATAAT+TGG | + | chr4.3:66204817-66204836 | None:intergenic | 35.0% | |
| TATGTGAAGCTGATGTACAT+TGG | - | chr4.3:66204819-66204838 | MS.gene93955:intron | 35.0% | |
| TCACTGAAGAAGGGAAAAAA+GGG | - | chr4.3:66204553-66204572 | MS.gene93955:intron | 35.0% | |
| TGGCACATACTTAAGTACAT+CGG | - | chr4.3:66204876-66204895 | MS.gene93955:intron | 35.0% | |
| TTCACTGAAGAAGGGAAAAA+AGG | - | chr4.3:66204552-66204571 | MS.gene93955:intron | 35.0% | |
| TTCAGTGAATTCTCTTCTAG+AGG | + | chr4.3:66204541-66204560 | None:intergenic | 35.0% | |
| ! | TACATCGGATTAGAATACTG+TGG | - | chr4.3:66204891-66204910 | MS.gene93955:intron | 35.0% |
| ! | TACCTTGATAACTAAGCTGT+TGG | + | chr4.3:66204382-66204401 | None:intergenic | 35.0% |
| ! | TATCAAGGTATCATTGCTGT+TGG | - | chr4.3:66204392-66204411 | MS.gene93955:intron | 35.0% |
| ACCTCTTCTAATTGGGACAT+TGG | - | chr4.3:66204356-66204375 | MS.gene93955:intron | 40.0% | |
| ATTAGAAGAGGTCCAGCAAA+TGG | + | chr4.3:66204348-66204367 | None:intergenic | 40.0% | |
| GTAGTTCGATGTACAAGATG+TGG | - | chr4.3:66205089-66205108 | MS.gene93955:CDS | 40.0% | |
| GTTCCTGATAATCGCTACAT+GGG | - | chr4.3:66204317-66204336 | MS.gene93955:CDS | 40.0% | |
| TTGCTGGACCTCTTCTAATT+GGG | - | chr4.3:66204349-66204368 | MS.gene93955:intron | 40.0% | |
| TTTGCTGGACCTCTTCTAAT+TGG | - | chr4.3:66204348-66204367 | MS.gene93955:intron | 40.0% | |
| ! | CAATTGTACTGACCAGTGTA+CGG | - | chr4.3:66204467-66204486 | MS.gene93955:intron | 40.0% |
| ! | TTCATCTGGTTTGCATTCTC+TGG | - | chr4.3:66204282-66204301 | MS.gene93955:CDS | 40.0% |
| AATTGCAAGACGCAGTTTGC+CGG | - | chr4.3:66205053-66205072 | MS.gene93955:CDS | 45.0% | |
| ACATGGGTACTTCCATTTGC+TGG | - | chr4.3:66204333-66204352 | MS.gene93955:CDS | 45.0% | |
| GCAAACTGCGTCTTGCAATT+CGG | + | chr4.3:66205053-66205072 | None:intergenic | 45.0% | |
| GCCAATGTCCCAATTAGAAG+AGG | + | chr4.3:66204360-66204379 | None:intergenic | 45.0% | |
| GCTTCTGCTGTAATTGGACA+GGG | - | chr4.3:66205020-66205039 | MS.gene93955:CDS | 45.0% | |
| GGCCAACAGCTTAGTTATCA+AGG | - | chr4.3:66204377-66204396 | MS.gene93955:intron | 45.0% | |
| GGTTCCTGATAATCGCTACA+TGG | - | chr4.3:66204316-66204335 | MS.gene93955:CDS | 45.0% | |
| GTACCCATGTAGCGATTATC+AGG | + | chr4.3:66204323-66204342 | None:intergenic | 45.0% | |
| TGCTTCTGCTGTAATTGGAC+AGG | - | chr4.3:66205019-66205038 | MS.gene93955:CDS | 45.0% | |
| !!! | CATTCTCTGGCTGGCTTTTT+CGG | - | chr4.3:66204295-66204314 | MS.gene93955:CDS | 45.0% |
| CAAGATGTGGCAACACTGTG+TGG | - | chr4.3:66205102-66205121 | MS.gene93955:CDS | 50.0% | |
| ! | TCTGGTTTGCATTCTCTGGC+TGG | - | chr4.3:66204286-66204305 | MS.gene93955:CDS | 50.0% |
| ! | AGACGCAGTTTGCCGGTTAC+AGG | - | chr4.3:66205060-66205079 | MS.gene93955:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.3 | gene | 66204273 | 66205132 | 66204273 | ID=MS.gene93955 |
| chr4.3 | mRNA | 66204273 | 66205132 | 66204273 | ID=MS.gene93955.t1;Parent=MS.gene93955 |
| chr4.3 | exon | 66205007 | 66205132 | 66205007 | ID=MS.gene93955.t1.exon1;Parent=MS.gene93955.t1 |
| chr4.3 | CDS | 66205007 | 66205132 | 66205007 | ID=cds.MS.gene93955.t1;Parent=MS.gene93955.t1 |
| chr4.3 | exon | 66204273 | 66204364 | 66204273 | ID=MS.gene93955.t1.exon2;Parent=MS.gene93955.t1 |
| chr4.3 | CDS | 66204273 | 66204364 | 66204273 | ID=cds.MS.gene93955.t1;Parent=MS.gene93955.t1 |
| Gene Sequence |
| Protein sequence |
