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.gene29891.t1 | XP_003599789.2 | 93.6 | 125 | 8 | 0 | 1 | 125 | 31 | 155 | 7.90E-60 | 239.6 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene29891.t1 | O80854 | 53.8 | 106 | 48 | 1 | 21 | 125 | 44 | 149 | 4.0e-28 | 125.6 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene29891.t1 | G7IXF4 | 93.6 | 125 | 8 | 0 | 1 | 125 | 31 | 155 | 5.7e-60 | 239.6 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050838 | MS.gene29891 | 0.841578 | 4.37E-58 | -1.69E-46 |
| MS.gene051245 | MS.gene29891 | 0.800406 | 1.46E-48 | -1.69E-46 |
| MS.gene051903 | MS.gene29891 | 0.809953 | 1.47E-50 | -1.69E-46 |
| MS.gene052947 | MS.gene29891 | 0.800186 | 1.62E-48 | -1.69E-46 |
| MS.gene053590 | MS.gene29891 | 0.817294 | 3.55E-52 | -1.69E-46 |
| MS.gene056181 | MS.gene29891 | 0.806623 | 7.52E-50 | -1.69E-46 |
| MS.gene057057 | MS.gene29891 | 0.805835 | 1.10E-49 | -1.69E-46 |
| MS.gene057094 | MS.gene29891 | 0.815871 | 7.40E-52 | -1.69E-46 |
| MS.gene057234 | MS.gene29891 | 0.815248 | 1.02E-51 | -1.69E-46 |
| MS.gene05769 | MS.gene29891 | 0.822875 | 1.87E-53 | -1.69E-46 |
| MS.gene058055 | MS.gene29891 | 0.81184 | 5.73E-51 | -1.69E-46 |
| MS.gene058646 | MS.gene29891 | 0.808705 | 2.72E-50 | -1.69E-46 |
| MS.gene058654 | MS.gene29891 | 0.825928 | 3.59E-54 | -1.69E-46 |
| MS.gene058852 | MS.gene29891 | 0.803164 | 3.97E-49 | -1.69E-46 |
| MS.gene059171 | MS.gene29891 | 0.841992 | 3.39E-58 | -1.69E-46 |
| MS.gene060463 | MS.gene29891 | 0.801329 | 9.48E-49 | -1.69E-46 |
| MS.gene060465 | MS.gene29891 | 0.807027 | 6.18E-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 |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|
Find 26 sgRNAs with CRISPR-Local
Find 65 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGATTAGGGGTTGCACTTTA+TGG | 0.214906 | 3.3:+37804007 | MS.gene29891:CDS |
| CTTTCTCCTTTGGGCTTCAA+TGG | 0.240506 | 3.3:+37802810 | MS.gene29891:CDS |
| ACAATAATCATCAAAGATTA+GGG | 0.240819 | 3.3:+37803993 | MS.gene29891:CDS |
| CATTACATGGCTTTCTCCTT+TGG | 0.245393 | 3.3:+37802800 | MS.gene29891:CDS |
| TTGCACTTTATGGTGTTATC+TGG | 0.283526 | 3.3:+37804017 | MS.gene29891:CDS |
| ATTACATGGCTTTCTCCTTT+GGG | 0.302177 | 3.3:+37802801 | MS.gene29891:CDS |
| AACAATAATCATCAAAGATT+AGG | 0.323426 | 3.3:+37803992 | MS.gene29891:CDS |
| AAACAATGACAACCACATTA+AGG | 0.332306 | 3.3:+37802499 | MS.gene29891:CDS |
| ATGGGATTCTTGATGCCTAT+TGG | 0.346223 | 3.3:+37802829 | MS.gene29891:CDS |
| GTAATTTCAAATTGAAGTCT+TGG | 0.346934 | 3.3:-37802778 | None:intergenic |
| CAATTTGAAATTACATTACA+TGG | 0.377562 | 3.3:+37802787 | MS.gene29891:CDS |
| TTTCTCCTTTGGGCTTCAAT+GGG | 0.382298 | 3.3:+37802811 | MS.gene29891:CDS |
| CTAATTGCAAGTATACCAAT+AGG | 0.464337 | 3.3:-37802844 | None:intergenic |
| TAGTTCATCACAAGAGCAAA+AGG | 0.487022 | 3.3:+37802454 | None:intergenic |
| GCTGTACTTCTTGCAACAGC+AGG | 0.522233 | 3.3:+37803932 | MS.gene29891:CDS |
| ATCTGGCTGCAAGTCCTAGT+TGG | 0.526574 | 3.3:+37804034 | MS.gene29891:CDS |
| AATAAAATTCTAAGCCACCT+TGG | 0.535910 | 3.3:-37802889 | None:intergenic |
| TTTGATGATTATTGTTGAAG+AGG | 0.545214 | 3.3:-37803985 | None:intergenic |
| TCAAATTTGATACCTTAATG+TGG | 0.572931 | 3.3:-37802511 | None:intergenic |
| CAAATAGAGAGGAGAATCCA+AGG | 0.604953 | 3.3:+37802872 | MS.gene29891:CDS |
| AATTAGATTATCAAATAGAG+AGG | 0.630071 | 3.3:+37802861 | MS.gene29891:CDS |
| AGAATCCCATTGAAGCCCAA+AGG | 0.642048 | 3.3:-37802816 | None:intergenic |
| GTGGTCGAATGATACCAACT+AGG | 0.678006 | 3.3:-37804048 | None:intergenic |
| TTGGTATCATTCGACCACGA+AGG | 0.697962 | 3.3:+37804053 | MS.gene29891:CDS |
| CAATAATCATCAAAGATTAG+GGG | 0.720596 | 3.3:+37803994 | MS.gene29891:CDS |
| ATAGAGAGGAGAATCCAAGG+TGG | 0.833273 | 3.3:+37802875 | MS.gene29891:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | TATAAATATTTAAATATAAT+TGG | - | chr3.3:37803040-37803059 | None:intergenic | 0.0% |
| !!! | TATTAATTTAACACTTATTT+TGG | - | chr3.3:37803072-37803091 | None:intergenic | 10.0% |
| !!! | TTAAATAATAATCTTTTTGA+TGG | + | chr3.3:37803637-37803656 | MS.gene29891:intron | 10.0% |
| !! | AATTATAATCTTTGTCAAAA+AGG | - | chr3.3:37803588-37803607 | None:intergenic | 15.0% |
| !! | GAATAAATTAACTAAAAATG+TGG | - | chr3.3:37803516-37803535 | None:intergenic | 15.0% |
| !! | TTCTTAATGAAAAAAAATTG+AGG | - | chr3.3:37802706-37802725 | None:intergenic | 15.0% |
| !! | AAAATATTGATAGATCCAAA+TGG | - | chr3.3:37803405-37803424 | None:intergenic | 20.0% |
| !! | AAATATTGATAGATCCAAAT+GGG | - | chr3.3:37803404-37803423 | None:intergenic | 20.0% |
| !! | AACAATAATCATCAAAGATT+AGG | + | chr3.3:37803992-37804011 | MS.gene29891:CDS | 20.0% |
| !! | AATTAGATTATCAAATAGAG+AGG | + | chr3.3:37802861-37802880 | MS.gene29891:CDS | 20.0% |
| !! | ACAATAATCATCAAAGATTA+GGG | + | chr3.3:37803993-37804012 | MS.gene29891:CDS | 20.0% |
| !! | AGATTATAATTGATACTTTG+AGG | + | chr3.3:37803597-37803616 | MS.gene29891:intron | 20.0% |
| !! | TAATGAAAAAAAATTGAGGA+AGG | - | chr3.3:37802702-37802721 | None:intergenic | 20.0% |
| !! | TACATAAATAGGTCAATTAA+AGG | - | chr3.3:37803340-37803359 | None:intergenic | 20.0% |
| !! | TTACTAATAAGATCATGTAA+TGG | + | chr3.3:37803553-37803572 | MS.gene29891:intron | 20.0% |
| !!! | AGTTTGTCTTTTTAATATCA+AGG | + | chr3.3:37802605-37802624 | MS.gene29891:intron | 20.0% |
| !!! | CAATTTGAAATTACATTACA+TGG | + | chr3.3:37802787-37802806 | MS.gene29891:CDS | 20.0% |
| !!! | GTTTGTCTTTTTAATATCAA+GGG | + | chr3.3:37802606-37802625 | MS.gene29891:intron | 20.0% |
| ! | AATATTGATAGATCCAAATG+GGG | - | chr3.3:37803403-37803422 | None:intergenic | 25.0% |
| ! | ATCTTCCATATTGAAGATTA+AGG | - | chr3.3:37802554-37802573 | None:intergenic | 25.0% |
| ! | CAATAATCATCAAAGATTAG+GGG | + | chr3.3:37803994-37804013 | MS.gene29891:CDS | 25.0% |
| ! | CTATTTATGTAATAAAGCAG+TGG | + | chr3.3:37803349-37803368 | MS.gene29891:intron | 25.0% |
| ! | GTAATTTCAAATTGAAGTCT+TGG | - | chr3.3:37802781-37802800 | None:intergenic | 25.0% |
| ! | TATCTTAGATAGATATTCTG+TGG | + | chr3.3:37803303-37803322 | MS.gene29891:intron | 25.0% |
| ! | TCAAATTTGATACCTTAATG+TGG | - | chr3.3:37802514-37802533 | None:intergenic | 25.0% |
| !! | CACTGCTTTATTACATAAAT+AGG | - | chr3.3:37803351-37803370 | None:intergenic | 25.0% |
| !! | CTATGTTCATACAATTTTTC+AGG | + | chr3.3:37802912-37802931 | MS.gene29891:CDS | 25.0% |
| !! | TTTGATGATTATTGTTGAAG+AGG | - | chr3.3:37803988-37804007 | None:intergenic | 25.0% |
| !!! | CATTGGTTAACTTTTAATGA+TGG | + | chr3.3:37803453-37803472 | MS.gene29891:intron | 25.0% |
| !!! | GAATTTATTTTGTATTCTGC+TGG | + | chr3.3:37802991-37803010 | MS.gene29891:intron | 25.0% |
| !!! | TCTTTTTGATGGTAATATGA+AGG | + | chr3.3:37803648-37803667 | MS.gene29891:intron | 25.0% |
| !!! | TTTTGAGTTTCTGTTAAAAC+AGG | + | chr3.3:37803904-37803923 | MS.gene29891:intron | 25.0% |
| AAACAATGACAACCACATTA+AGG | + | chr3.3:37802499-37802518 | MS.gene29891:CDS | 30.0% | |
| AAAGACAAACTCTTAGCTAT+AGG | - | chr3.3:37802596-37802615 | None:intergenic | 30.0% | |
| AATAAAATTCTAAGCCACCT+TGG | - | chr3.3:37802892-37802911 | None:intergenic | 30.0% | |
| AGTAAGTAACTAACAAGCTT+TGG | - | chr3.3:37803538-37803557 | None:intergenic | 30.0% | |
| ATTAAGATCAGTTGTCACAT+TGG | + | chr3.3:37803436-37803455 | MS.gene29891:intron | 30.0% | |
| ATTGTCTTGTCACATAGATT+AGG | - | chr3.3:37803137-37803156 | None:intergenic | 30.0% | |
| CTAAATGTAACCACATATGT+CGG | + | chr3.3:37803754-37803773 | MS.gene29891:intron | 30.0% | |
| CTAATTGCAAGTATACCAAT+AGG | - | chr3.3:37802847-37802866 | None:intergenic | 30.0% | |
| TCTTGCCTTAATCTTCAATA+TGG | + | chr3.3:37802546-37802565 | MS.gene29891:intron | 30.0% | |
| ! | AACTTTTAATGATGGCATGA+AGG | + | chr3.3:37803461-37803480 | MS.gene29891:intron | 30.0% |
| ! | ACTTTTAATGATGGCATGAA+GGG | + | chr3.3:37803462-37803481 | MS.gene29891:intron | 30.0% |
| ! | CAAGAGCAAAAGGAAATTTT+AGG | + | chr3.3:37802464-37802483 | MS.gene29891:CDS | 30.0% |
| ATTACATGGCTTTCTCCTTT+GGG | + | chr3.3:37802801-37802820 | MS.gene29891:CDS | 35.0% | |
| TGAGTTTCTGTTAAAACAGG+CGG | + | chr3.3:37803907-37803926 | MS.gene29891:intron | 35.0% | |
| ! | TAAAGCAGTGGTGAAAGTTT+TGG | + | chr3.3:37803361-37803380 | MS.gene29891:intron | 35.0% |
| !! | AATTTTCTTGCTGTCTTCAC+AGG | - | chr3.3:37803702-37803721 | None:intergenic | 35.0% |
| !! | TTGCACTTTATGGTGTTATC+TGG | + | chr3.3:37804017-37804036 | MS.gene29891:CDS | 35.0% |
| AGATTAGGGGTTGCACTTTA+TGG | + | chr3.3:37804007-37804026 | MS.gene29891:CDS | 40.0% | |
| ATGGGATTCTTGATGCCTAT+TGG | + | chr3.3:37802829-37802848 | MS.gene29891:CDS | 40.0% | |
| CAAATAGAGAGGAGAATCCA+AGG | + | chr3.3:37802872-37802891 | MS.gene29891:CDS | 40.0% | |
| CATTACATGGCTTTCTCCTT+TGG | + | chr3.3:37802800-37802819 | MS.gene29891:CDS | 40.0% | |
| TTTCTCCTTTGGGCTTCAAT+GGG | + | chr3.3:37802811-37802830 | MS.gene29891:CDS | 40.0% | |
| !! | GTGGTGAAAGTTTTGGTAGA+TGG | + | chr3.3:37803368-37803387 | MS.gene29891:intron | 40.0% |
| !! | GTTTTGGTAGATGGTTACTC+TGG | + | chr3.3:37803377-37803396 | MS.gene29891:intron | 40.0% |
| AGAATCCCATTGAAGCCCAA+AGG | - | chr3.3:37802819-37802838 | None:intergenic | 45.0% | |
| ATAGAGAGGAGAATCCAAGG+TGG | + | chr3.3:37802875-37802894 | MS.gene29891:CDS | 45.0% | |
| ATGACACACACCGACATATG+TGG | - | chr3.3:37803767-37803786 | None:intergenic | 45.0% | |
| CTTTCTCCTTTGGGCTTCAA+TGG | + | chr3.3:37802810-37802829 | MS.gene29891:CDS | 45.0% | |
| GTGGTCGAATGATACCAACT+AGG | - | chr3.3:37804051-37804070 | None:intergenic | 45.0% | |
| TTGGTATCATTCGACCACGA+AGG | + | chr3.3:37804053-37804072 | MS.gene29891:CDS | 45.0% | |
| ATCTGGCTGCAAGTCCTAGT+TGG | + | chr3.3:37804034-37804053 | MS.gene29891:CDS | 50.0% | |
| ATGGTTACTCTGGCCCCATT+TGG | + | chr3.3:37803387-37803406 | MS.gene29891:intron | 50.0% | |
| GCTGTACTTCTTGCAACAGC+AGG | + | chr3.3:37803932-37803951 | MS.gene29891:CDS | 50.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.3 | gene | 37802457 | 37804078 | 37802457 | ID=MS.gene29891 |
| chr3.3 | mRNA | 37802457 | 37804078 | 37802457 | ID=MS.gene29891.t1;Parent=MS.gene29891 |
| chr3.3 | exon | 37802457 | 37802520 | 37802457 | ID=MS.gene29891.t1.exon1;Parent=MS.gene29891.t1 |
| chr3.3 | CDS | 37802457 | 37802520 | 37802457 | ID=cds.MS.gene29891.t1;Parent=MS.gene29891.t1 |
| chr3.3 | exon | 37802772 | 37802933 | 37802772 | ID=MS.gene29891.t1.exon2;Parent=MS.gene29891.t1 |
| chr3.3 | CDS | 37802772 | 37802933 | 37802772 | ID=cds.MS.gene29891.t1;Parent=MS.gene29891.t1 |
| chr3.3 | exon | 37803926 | 37804078 | 37803926 | ID=MS.gene29891.t1.exon3;Parent=MS.gene29891.t1 |
| chr3.3 | CDS | 37803926 | 37804078 | 37803926 | ID=cds.MS.gene29891.t1;Parent=MS.gene29891.t1 |
| Gene Sequence |
| Protein sequence |
