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.gene54727.t1 | XP_003618369.1 | 96.8 | 95 | 3 | 0 | 1 | 95 | 1 | 95 | 4.50E-47 | 196.8 |
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.gene54727.t1 | G7KJF9 | 96.8 | 95 | 3 | 0 | 1 | 95 | 1 | 95 | 3.2e-47 | 196.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene052309 | MS.gene54727 | -0.82266 | 2.10E-53 | -1.69E-46 |
| MS.gene054537 | MS.gene54727 | 0.808132 | 3.60E-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.gene54727.t1 | MTR_6g008680 | 96.842 | 95 | 3 | 0 | 1 | 95 | 1 | 95 | 1.27e-65 | 192 |
| MS.gene54727.t1 | MTR_2g105430 | 43.103 | 58 | 31 | 1 | 10 | 65 | 68 | 125 | 5.99e-13 | 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.gene54727.t1 | AT5G43150 | 46.667 | 60 | 32 | 0 | 8 | 67 | 5 | 64 | 2.71e-14 | 62.8 |
Find 17 sgRNAs with CRISPR-Local
Find 59 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AAGACTTCACATCATTTCTT+AGG | 0.245992 | 6.1:-4175424 | None:intergenic |
| ATTTCCATTGCCACACGTTT+TGG | 0.291787 | 6.1:+4174313 | MS.gene54727:CDS |
| GAAATCCAAAACCTTCTAAA+AGG | 0.302858 | 6.1:-4174295 | None:intergenic |
| AATGAATCATTATCAGAGTT+TGG | 0.349611 | 6.1:+4175491 | MS.gene54727:CDS |
| AGTACTTGAAATTATTCAAA+TGG | 0.355186 | 6.1:+4175549 | MS.gene54727:CDS |
| GTACTTGAAATTATTCAAAT+GGG | 0.452163 | 6.1:+4175550 | MS.gene54727:CDS |
| GAAGATGAAATTCTCTCGGC+AGG | 0.497923 | 6.1:+4174246 | MS.gene54727:CDS |
| TGAAATTATTCAAATGGGCA+AGG | 0.527275 | 6.1:+4175555 | MS.gene54727:CDS |
| AATTCCAAAACGTGTGGCAA+TGG | 0.529168 | 6.1:-4174317 | None:intergenic |
| TCATTATCAGAGTTTGGTGG+TGG | 0.560367 | 6.1:+4175497 | MS.gene54727:CDS |
| ATGAAGATATTCGTGTGATG+TGG | 0.570449 | 6.1:+4175453 | MS.gene54727:CDS |
| TGGAGAAGATGAAATTCTCT+CGG | 0.589361 | 6.1:+4174242 | MS.gene54727:CDS |
| TCTCTCGGCAGGTGGAGTTG+TGG | 0.592580 | 6.1:+4174257 | MS.gene54727:CDS |
| TGAAGATATTCGTGTGATGT+GGG | 0.602380 | 6.1:+4175454 | MS.gene54727:CDS |
| GATGAAATTCTCTCGGCAGG+TGG | 0.607611 | 6.1:+4174249 | MS.gene54727:CDS |
| TTTACGAATTCCAAAACGTG+TGG | 0.611706 | 6.1:-4174323 | None:intergenic |
| GAATCATTATCAGAGTTTGG+TGG | 0.650506 | 6.1:+4175494 | MS.gene54727:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TAAAAAAGAAAAAGATTTTA+AGG | - | chr6.1:4174940-4174959 | None:intergenic | 10.0% |
| !! | AGTACTTGAAATTATTCAAA+TGG | + | chr6.1:4175549-4175568 | MS.gene54727:CDS | 20.0% |
| !! | ATCAAATCACTCAAAATATT+TGG | - | chr6.1:4174835-4174854 | None:intergenic | 20.0% |
| !! | GTAATAATTCAAAACATGTT+TGG | + | chr6.1:4174350-4174369 | MS.gene54727:intron | 20.0% |
| !! | GTACTTGAAATTATTCAAAT+GGG | + | chr6.1:4175550-4175569 | MS.gene54727:CDS | 20.0% |
| !! | GTGAATTATTGTAACATATT+TGG | + | chr6.1:4174518-4174537 | MS.gene54727:intron | 20.0% |
| !! | TTGAAATAACCTTGTTAATT+TGG | + | chr6.1:4174672-4174691 | MS.gene54727:intron | 20.0% |
| !! | TTGGAATAAACATGTTAATT+TGG | + | chr6.1:4175317-4175336 | MS.gene54727:intron | 20.0% |
| !!! | AATCTTTTTCTTTTTTATGC+CGG | + | chr6.1:4174943-4174962 | MS.gene54727:intron | 20.0% |
| !!! | TCACATTGAATATTCTTTTT+AGG | + | chr6.1:4174868-4174887 | MS.gene54727:intron | 20.0% |
| !!! | TCATCAAAATCAAGATTTTA+AGG | - | chr6.1:4175063-4175082 | None:intergenic | 20.0% |
| !!! | TCTTCAAAATCAAGATTTTA+AGG | - | chr6.1:4175011-4175030 | None:intergenic | 20.0% |
| !!! | TGAATTTTCTTGATTTTGTT+TGG | - | chr6.1:4175530-4175549 | None:intergenic | 20.0% |
| !!! | TTGATTTTGATGATTATTTG+TGG | + | chr6.1:4175070-4175089 | MS.gene54727:intron | 20.0% |
| !!! | TTTTATCAAAATAGTGATTC+TGG | + | chr6.1:4174583-4174602 | MS.gene54727:intron | 20.0% |
| ! | AAACAATGAGTTACTGAAAT+TGG | + | chr6.1:4175379-4175398 | MS.gene54727:intron | 25.0% |
| ! | AAGGATTTGATTCTTATACA+CGG | - | chr6.1:4174969-4174988 | None:intergenic | 25.0% |
| ! | AATGAATCATTATCAGAGTT+TGG | + | chr6.1:4175491-4175510 | MS.gene54727:CDS | 25.0% |
| ! | ATTTCTTGTCCAAATTAACA+AGG | - | chr6.1:4174684-4174703 | None:intergenic | 25.0% |
| ! | CTGAATCAATAATCTTCTAA+AGG | - | chr6.1:4174988-4175007 | None:intergenic | 25.0% |
| ! | TCTTCAAAAATCAGATAGAA+CGG | - | chr6.1:4174711-4174730 | None:intergenic | 25.0% |
| ! | TGAATTGACAATGAATTTAG+CGG | - | chr6.1:4175250-4175269 | None:intergenic | 25.0% |
| ! | TTGGTTATAAAGTACATGTT+TGG | + | chr6.1:4174390-4174409 | MS.gene54727:intron | 25.0% |
| !!! | ATTGAATATTCTTTTTAGGC+CGG | + | chr6.1:4174872-4174891 | MS.gene54727:intron | 25.0% |
| !!! | GGTCTTTTTTCTGTATTTTT+TGG | + | chr6.1:4174371-4174390 | MS.gene54727:intron | 25.0% |
| !!! | TTCTATCTGATTTTTGAAGA+TGG | + | chr6.1:4174711-4174730 | MS.gene54727:intron | 25.0% |
| AAGACTTCACATCATTTCTT+AGG | - | chr6.1:4175427-4175446 | None:intergenic | 30.0% | |
| ACATAATCAGAGAGCTATAT+AGG | - | chr6.1:4175356-4175375 | None:intergenic | 30.0% | |
| ATTTGATACTTATACACTGC+CGG | - | chr6.1:4174894-4174913 | None:intergenic | 30.0% | |
| CACGTTAATTGTAACATGTT+TGG | + | chr6.1:4174460-4174479 | MS.gene54727:intron | 30.0% | |
| CTGAATCAATAATCTTCAAC+AGG | - | chr6.1:4174917-4174936 | None:intergenic | 30.0% | |
| GAAATCCAAAACCTTCTAAA+AGG | - | chr6.1:4174298-4174317 | None:intergenic | 30.0% | |
| TGAAATTATTCAAATGGGCA+AGG | + | chr6.1:4175555-4175574 | MS.gene54727:CDS | 30.0% | |
| TGAAATTGGAAAAATGTGCA+GGG | + | chr6.1:4175393-4175412 | MS.gene54727:intron | 30.0% | |
| TGGTGAGTTTGATGAAATTA+TGG | + | chr6.1:4175158-4175177 | MS.gene54727:intron | 30.0% | |
| ! | ATATCATGCATCCTTTTAGA+AGG | + | chr6.1:4174284-4174303 | MS.gene54727:CDS | 30.0% |
| ! | TTGTAACATGTTTGGAATCA+CGG | + | chr6.1:4174468-4174487 | MS.gene54727:intron | 30.0% |
| ACTTGAGTGAATGCAAAGTT+TGG | + | chr6.1:4175298-4175317 | MS.gene54727:intron | 35.0% | |
| ATGAAGATATTCGTGTGATG+TGG | + | chr6.1:4175453-4175472 | MS.gene54727:CDS | 35.0% | |
| ATTTGATTCTTATACACGGC+CGG | - | chr6.1:4174965-4174984 | None:intergenic | 35.0% | |
| CAATGAATTTAGCGGAATCA+CGG | - | chr6.1:4175242-4175261 | None:intergenic | 35.0% | |
| CTGAAATTGGAAAAATGTGC+AGG | + | chr6.1:4175392-4175411 | MS.gene54727:intron | 35.0% | |
| GAATCATTATCAGAGTTTGG+TGG | + | chr6.1:4175494-4175513 | MS.gene54727:CDS | 35.0% | |
| TATAGCTTCTGCTAAAATCG+TGG | + | chr6.1:4175210-4175229 | MS.gene54727:intron | 35.0% | |
| TGAAGATATTCGTGTGATGT+GGG | + | chr6.1:4175454-4175473 | MS.gene54727:CDS | 35.0% | |
| TGGAGAAGATGAAATTCTCT+CGG | + | chr6.1:4174242-4174261 | MS.gene54727:CDS | 35.0% | |
| TTTACGAATTCCAAAACGTG+TGG | - | chr6.1:4174326-4174345 | None:intergenic | 35.0% | |
| !! | TGCATCCTTTTAGAAGGTTT+TGG | + | chr6.1:4174290-4174309 | MS.gene54727:CDS | 35.0% |
| !!! | CGTTTTGGAATTCGTAAAAC+TGG | + | chr6.1:4174328-4174347 | MS.gene54727:CDS | 35.0% |
| AATTCCAAAACGTGTGGCAA+TGG | - | chr6.1:4174320-4174339 | None:intergenic | 40.0% | |
| TTGTAGCGTGTTTGAATTGC+TGG | + | chr6.1:4175138-4175157 | MS.gene54727:intron | 40.0% | |
| ! | ATTTCCATTGCCACACGTTT+TGG | + | chr6.1:4174313-4174332 | MS.gene54727:CDS | 40.0% |
| ! | TCATTATCAGAGTTTGGTGG+TGG | + | chr6.1:4175497-4175516 | MS.gene54727:CDS | 40.0% |
| ACCACGACTAATTACATGCG+TGG | + | chr6.1:4174785-4174804 | MS.gene54727:intron | 45.0% | |
| GAAGATGAAATTCTCTCGGC+AGG | + | chr6.1:4174246-4174265 | MS.gene54727:CDS | 45.0% | |
| !! | CGTGGCTTTAGAAGTAGTTG+TGG | + | chr6.1:4174803-4174822 | MS.gene54727:intron | 45.0% |
| GATGAAATTCTCTCGGCAGG+TGG | + | chr6.1:4174249-4174268 | MS.gene54727:CDS | 50.0% | |
| GCCACGCATGTAATTAGTCG+TGG | - | chr6.1:4174789-4174808 | None:intergenic | 50.0% | |
| TCTCTCGGCAGGTGGAGTTG+TGG | + | chr6.1:4174257-4174276 | MS.gene54727:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6.1 | gene | 4174241 | 4175592 | 4174241 | ID=MS.gene54727 |
| chr6.1 | mRNA | 4174241 | 4175592 | 4174241 | ID=MS.gene54727.t1;Parent=MS.gene54727 |
| chr6.1 | exon | 4174241 | 4174349 | 4174241 | ID=MS.gene54727.t1.exon1;Parent=MS.gene54727.t1 |
| chr6.1 | CDS | 4174241 | 4174349 | 4174241 | ID=cds.MS.gene54727.t1;Parent=MS.gene54727.t1 |
| chr6.1 | exon | 4175414 | 4175592 | 4175414 | ID=MS.gene54727.t1.exon2;Parent=MS.gene54727.t1 |
| chr6.1 | CDS | 4175414 | 4175592 | 4175414 | ID=cds.MS.gene54727.t1;Parent=MS.gene54727.t1 |
| Gene Sequence |
| Protein sequence |
