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.gene39844.t1 | XP_003617058.2 | 90.3 | 279 | 17 | 2 | 1 | 279 | 1 | 269 | 2.60E-111 | 411.8 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene39844.t1 | Q38806 | 33.0 | 91 | 50 | 2 | 21 | 100 | 74 | 164 | 7.9e-08 | 59.3 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene39844.t1 | G7KHG5 | 90.3 | 279 | 17 | 2 | 1 | 279 | 1 | 269 | 1.9e-111 | 411.8 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049698 | MS.gene39844 | 0.812464 | 4.18E-51 | -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.gene39844.t1 | MTR_5g087470 | 94.265 | 279 | 6 | 2 | 1 | 279 | 1 | 269 | 0.0 | 526 |
| MS.gene39844.t1 | MTR_5g087480 | 34.416 | 308 | 145 | 11 | 1 | 264 | 1 | 295 | 4.70e-36 | 131 |
| MS.gene39844.t1 | MTR_5g087450 | 45.029 | 171 | 83 | 4 | 1 | 164 | 3 | 169 | 1.40e-34 | 125 |
| MS.gene39844.t1 | MTR_5g087480 | 32.059 | 340 | 147 | 12 | 1 | 264 | 1 | 332 | 1.81e-32 | 122 |
| MS.gene39844.t1 | MTR_6g478190 | 43.158 | 95 | 54 | 0 | 5 | 99 | 6 | 100 | 5.95e-19 | 82.0 |
| MS.gene39844.t1 | MTR_7g086130 | 35.417 | 96 | 62 | 0 | 6 | 101 | 4 | 99 | 3.84e-17 | 78.2 |
| MS.gene39844.t1 | MTR_7g086130 | 33.663 | 101 | 62 | 1 | 6 | 101 | 4 | 104 | 8.42e-15 | 72.0 |
| MS.gene39844.t1 | MTR_3g007660 | 36.735 | 98 | 60 | 2 | 4 | 99 | 11 | 108 | 1.43e-13 | 70.5 |
| MS.gene39844.t1 | MTR_4g107860 | 37.234 | 94 | 59 | 0 | 12 | 105 | 21 | 114 | 1.48e-13 | 69.3 |
| MS.gene39844.t1 | MTR_8g046245 | 39.286 | 84 | 50 | 1 | 11 | 93 | 22 | 105 | 8.16e-12 | 65.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene39844.t1 | AT2G27140 | 30.493 | 223 | 143 | 4 | 10 | 232 | 11 | 221 | 2.10e-20 | 87.4 |
| MS.gene39844.t1 | AT5G20970 | 42.000 | 100 | 56 | 1 | 10 | 107 | 7 | 106 | 1.70e-16 | 77.4 |
Find 56 sgRNAs with CRISPR-Local
Find 81 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCTTCATTCCATTCATGATA+TGG | 0.231919 | 5.4:-68767663 | None:intergenic |
| CACCAAAACCAAAACCTAAT+TGG | 0.259644 | 5.4:-68768875 | None:intergenic |
| GATAAGGATGTTAACCAATT+AGG | 0.278710 | 5.4:+68768861 | MS.gene39844:CDS |
| TGTGGCATCCTTGTTGGTTT+TGG | 0.279792 | 5.4:+68768938 | MS.gene39844:CDS |
| ACCAATAACTTCCCCTTCTT+AGG | 0.291447 | 5.4:-68768906 | None:intergenic |
| TTTGTGGCATTGAAGATTCT+TGG | 0.306163 | 5.4:-68768557 | None:intergenic |
| GTCTCACAATATGGAGGAAT+TGG | 0.306295 | 5.4:-68768426 | None:intergenic |
| GACAAGGGATTGAGAATATA+TGG | 0.314294 | 5.4:+68768382 | MS.gene39844:CDS |
| ACGTCATTGGTCTCACAATA+TGG | 0.322478 | 5.4:-68768435 | None:intergenic |
| GCCTAAGAAGGGGAAGTTAT+TGG | 0.330941 | 5.4:+68768905 | MS.gene39844:CDS |
| TTGTGGCATTGAAGATTCTT+GGG | 0.338711 | 5.4:-68768556 | None:intergenic |
| TGTGCTTGTGTTGGTGCCTT+AGG | 0.347331 | 5.4:-68768594 | None:intergenic |
| GATGTTAACCAATTAGGTTT+TGG | 0.362529 | 5.4:+68768867 | MS.gene39844:CDS |
| GAGAATATATGGCATCGTTT+TGG | 0.366522 | 5.4:+68768393 | MS.gene39844:CDS |
| TTAGCTGGAGTGATTAGCTT+TGG | 0.374539 | 5.4:-68768498 | None:intergenic |
| TCTTGGGGTGGATTTGTGAT+AGG | 0.374810 | 5.4:-68768540 | None:intergenic |
| TGTTCTTGAGGCTTATTAGC+TGG | 0.378209 | 5.4:-68768513 | None:intergenic |
| GTCTTTCACAATTGATCCTT+AGG | 0.382931 | 5.4:-68768362 | None:intergenic |
| TATTAAAACTGCTGAGGGTA+AGG | 0.412039 | 5.4:+68768761 | MS.gene39844:CDS |
| TTTGGCAAGTATGGATCAAA+AGG | 0.417877 | 5.4:+68767602 | None:intergenic |
| TATGATTGTGGCATCCTTGT+TGG | 0.435298 | 5.4:+68768932 | MS.gene39844:CDS |
| AAATCTTTGTAAACACGATC+AGG | 0.439333 | 5.4:-68767636 | None:intergenic |
| TTTGAGATCAAAGGATGATA+AGG | 0.439999 | 5.4:+68768845 | MS.gene39844:CDS |
| ATTTGCAACCATATCATGAA+TGG | 0.458815 | 5.4:+68767655 | MS.gene39844:CDS |
| TAGCACTCCACGCTCAAACT+TGG | 0.459332 | 5.4:-68768463 | None:intergenic |
| AAACTTGGCACTCACGTCAT+TGG | 0.464817 | 5.4:-68768448 | None:intergenic |
| TGGTGACATAAGGCCTAAGA+AGG | 0.480818 | 5.4:+68768893 | MS.gene39844:CDS |
| GTGATAGGTTCTTGTTCTTG+AGG | 0.481402 | 5.4:-68768525 | None:intergenic |
| TAATATAAGTTTGAGATCAA+AGG | 0.489862 | 5.4:+68768836 | MS.gene39844:CDS |
| AGAGTGCAAGTGACTTCAAA+AGG | 0.504816 | 5.4:+68768336 | MS.gene39844:CDS |
| TCAACCACTTGTGCTTGTGT+TGG | 0.527170 | 5.4:-68768603 | None:intergenic |
| GAGGACTAATGATGAGTTGT+TGG | 0.528622 | 5.4:+68768725 | MS.gene39844:CDS |
| GGCATTGAAGATTCTTGGGG+TGG | 0.533531 | 5.4:-68768552 | None:intergenic |
| AAAACTTAGTGATGAACCTA+AGG | 0.543043 | 5.4:+68768578 | MS.gene39844:CDS |
| ATCATCTCAAGGAGAATCAA+AGG | 0.545186 | 5.4:+68769016 | MS.gene39844:CDS |
| AGTTGAAAATGATCAAAAGA+AGG | 0.550917 | 5.4:+68768701 | MS.gene39844:CDS |
| ATTAAAACTGCTGAGGGTAA+GGG | 0.552764 | 5.4:+68768762 | MS.gene39844:CDS |
| TGACTTCAAAAGGTGTCCTA+AGG | 0.553657 | 5.4:+68768346 | MS.gene39844:CDS |
| GTTATTGGTGAATATGATTG+TGG | 0.556259 | 5.4:+68768920 | MS.gene39844:CDS |
| GAAGTTATTAAAACTGCTGA+GGG | 0.577721 | 5.4:+68768756 | MS.gene39844:CDS |
| AGAAGTTATTAAAACTGCTG+AGG | 0.579114 | 5.4:+68768755 | MS.gene39844:CDS |
| CCCAAGCACCAAAACCAACA+AGG | 0.596289 | 5.4:-68768946 | None:intergenic |
| GGCACCAACACAAGCACAAG+TGG | 0.599712 | 5.4:+68768599 | MS.gene39844:CDS |
| AAAATGATCAAAAGAAGGTG+AGG | 0.604262 | 5.4:+68768706 | MS.gene39844:CDS |
| TGACACAAAGATTGAAAACA+AGG | 0.614384 | 5.4:+68768802 | MS.gene39844:CDS |
| ACTCTTGTTCTAATGCTACC+AGG | 0.617254 | 5.4:+68767699 | MS.gene39844:CDS |
| TGTGGCATTGAAGATTCTTG+GGG | 0.617922 | 5.4:-68768555 | None:intergenic |
| AGGATCAATTGTGAAAGACA+AGG | 0.627967 | 5.4:+68768366 | MS.gene39844:CDS |
| GGATCAATTGTGAAAGACAA+GGG | 0.637612 | 5.4:+68768367 | MS.gene39844:CDS |
| GTGACATAAGGCCTAAGAAG+GGG | 0.654964 | 5.4:+68768895 | MS.gene39844:CDS |
| GGTGACATAAGGCCTAAGAA+GGG | 0.663272 | 5.4:+68768894 | MS.gene39844:CDS |
| TGGTAGCATTAGAACAAGAG+TGG | 0.670251 | 5.4:-68767697 | None:intergenic |
| GAGGGTAAGGGAAAGAGACA+AGG | 0.675091 | 5.4:+68768774 | MS.gene39844:CDS |
| GTGAGTGCCAAGTTTGAGCG+TGG | 0.681150 | 5.4:+68768456 | MS.gene39844:CDS |
| AACAAGAACAGGATTCACAA+AGG | 0.687428 | 5.4:+68768305 | MS.gene39844:intron |
| TCATTGGTCTCACAATATGG+AGG | 0.693475 | 5.4:-68768432 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TTTTCTTTTTCATCAATAAT+TGG | - | chr5.4:68768663-68768682 | None:intergenic | 15.0% |
| !! | AAATATTTGACAACACATTT+CGG | - | chr5.4:68768215-68768234 | None:intergenic | 20.0% |
| !! | ATATAGAAGAAAATGAGAAA+TGG | - | chr5.4:68768263-68768282 | None:intergenic | 20.0% |
| !!! | ATAATTGGTTCTTTTTTCTT+TGG | - | chr5.4:68768648-68768667 | None:intergenic | 20.0% |
| !!! | TAATATAAGTTTGAGATCAA+AGG | + | chr5.4:68768836-68768855 | MS.gene39844:CDS | 20.0% |
| ! | AGAGATATTTCATATGTTGA+GGG | + | chr5.4:68767902-68767921 | MS.gene39844:intron | 25.0% |
| ! | AGTTGAAAATGATCAAAAGA+AGG | + | chr5.4:68768701-68768720 | MS.gene39844:CDS | 25.0% |
| ! | GTACATAATATTAGACATTC+AGG | + | chr5.4:68767846-68767865 | MS.gene39844:intron | 25.0% |
| AAAACTTAGTGATGAACCTA+AGG | + | chr5.4:68768578-68768597 | MS.gene39844:CDS | 30.0% | |
| AAAATGATCAAAAGAAGGTG+AGG | + | chr5.4:68768706-68768725 | MS.gene39844:CDS | 30.0% | |
| AAATCTTTGTAAACACGATC+AGG | - | chr5.4:68767639-68767658 | None:intergenic | 30.0% | |
| AGAAGTTATTAAAACTGCTG+AGG | + | chr5.4:68768755-68768774 | MS.gene39844:CDS | 30.0% | |
| ATAATATTAGACATTCAGGC+CGG | + | chr5.4:68767850-68767869 | MS.gene39844:intron | 30.0% | |
| ATTTGCAACCATATCATGAA+TGG | + | chr5.4:68767655-68767674 | MS.gene39844:CDS | 30.0% | |
| CAGAGATATTTCATATGTTG+AGG | + | chr5.4:68767901-68767920 | MS.gene39844:intron | 30.0% | |
| GAAGTTATTAAAACTGCTGA+GGG | + | chr5.4:68768756-68768775 | MS.gene39844:CDS | 30.0% | |
| GATAAGGATGTTAACCAATT+AGG | + | chr5.4:68768861-68768880 | MS.gene39844:CDS | 30.0% | |
| GGTTTAGTCATGTTTGATAT+CGG | + | chr5.4:68768075-68768094 | MS.gene39844:intron | 30.0% | |
| GTTATTGGTGAATATGATTG+TGG | + | chr5.4:68768920-68768939 | MS.gene39844:CDS | 30.0% | |
| TCTTCATTCCATTCATGATA+TGG | - | chr5.4:68767666-68767685 | None:intergenic | 30.0% | |
| TGACACAAAGATTGAAAACA+AGG | + | chr5.4:68768802-68768821 | MS.gene39844:CDS | 30.0% | |
| TGCAAAGTTAAACATATACC+TGG | - | chr5.4:68767720-68767739 | None:intergenic | 30.0% | |
| TGTATGTCAAAAATGCATTG+TGG | + | chr5.4:68768970-68768989 | MS.gene39844:CDS | 30.0% | |
| ! | GATGTTAACCAATTAGGTTT+TGG | + | chr5.4:68768867-68768886 | MS.gene39844:CDS | 30.0% |
| ! | TTTGAGATCAAAGGATGATA+AGG | + | chr5.4:68768845-68768864 | MS.gene39844:CDS | 30.0% |
| ! | TTTTTGTTCAAAGAGTGATG+CGG | - | chr5.4:68767950-68767969 | None:intergenic | 30.0% |
| !!! | AACCAATTAGGTTTTGGTTT+TGG | + | chr5.4:68768873-68768892 | MS.gene39844:CDS | 30.0% |
| AACAAGAACAGGATTCACAA+AGG | + | chr5.4:68768305-68768324 | MS.gene39844:intron | 35.0% | |
| AGGATCAATTGTGAAAGACA+AGG | + | chr5.4:68768366-68768385 | MS.gene39844:CDS | 35.0% | |
| ATCATCTCAAGGAGAATCAA+AGG | + | chr5.4:68769016-68769035 | MS.gene39844:CDS | 35.0% | |
| ATTAAAACTGCTGAGGGTAA+GGG | + | chr5.4:68768762-68768781 | MS.gene39844:CDS | 35.0% | |
| CACCAAAACCAAAACCTAAT+TGG | - | chr5.4:68768878-68768897 | None:intergenic | 35.0% | |
| GACAAGGGATTGAGAATATA+TGG | + | chr5.4:68768382-68768401 | MS.gene39844:CDS | 35.0% | |
| GGATCAATTGTGAAAGACAA+GGG | + | chr5.4:68768367-68768386 | MS.gene39844:CDS | 35.0% | |
| GTCTTTCACAATTGATCCTT+AGG | - | chr5.4:68768365-68768384 | None:intergenic | 35.0% | |
| TATTAAAACTGCTGAGGGTA+AGG | + | chr5.4:68768761-68768780 | MS.gene39844:CDS | 35.0% | |
| TCATCATCATCATCATCTCA+AGG | + | chr5.4:68769005-68769024 | MS.gene39844:CDS | 35.0% | |
| TTTAACGCGATTCAAAATCG+TGG | + | chr5.4:68768054-68768073 | MS.gene39844:intron | 35.0% | |
| TTTGTGAATCCTGTTCTTGT+TGG | - | chr5.4:68768306-68768325 | None:intergenic | 35.0% | |
| ! | CTTTCTTTTCCAACAAGAAC+AGG | + | chr5.4:68768294-68768313 | MS.gene39844:intron | 35.0% |
| ! | GAGAATATATGGCATCGTTT+TGG | + | chr5.4:68768393-68768412 | MS.gene39844:CDS | 35.0% |
| ! | GGTTCATCACTAAGTTTTTG+TGG | - | chr5.4:68768576-68768595 | None:intergenic | 35.0% |
| ! | TTGTGGCATTGAAGATTCTT+GGG | - | chr5.4:68768559-68768578 | None:intergenic | 35.0% |
| ! | TTTGTGGCATTGAAGATTCT+TGG | - | chr5.4:68768560-68768579 | None:intergenic | 35.0% |
| !!! | GTTTTGGTTTTGGTGACATA+AGG | + | chr5.4:68768883-68768902 | MS.gene39844:CDS | 35.0% |
| ACCAATAACTTCCCCTTCTT+AGG | - | chr5.4:68768909-68768928 | None:intergenic | 40.0% | |
| ACCATGTGAGTTGTACTTAC+CGG | - | chr5.4:68767872-68767891 | None:intergenic | 40.0% | |
| ACTCTTGTTCTAATGCTACC+AGG | + | chr5.4:68767699-68767718 | MS.gene39844:CDS | 40.0% | |
| AGAGTGCAAGTGACTTCAAA+AGG | + | chr5.4:68768336-68768355 | MS.gene39844:CDS | 40.0% | |
| GAGGACTAATGATGAGTTGT+TGG | + | chr5.4:68768725-68768744 | MS.gene39844:CDS | 40.0% | |
| GTCTCACAATATGGAGGAAT+TGG | - | chr5.4:68768429-68768448 | None:intergenic | 40.0% | |
| GTGATAGGTTCTTGTTCTTG+AGG | - | chr5.4:68768528-68768547 | None:intergenic | 40.0% | |
| TATGATTGTGGCATCCTTGT+TGG | + | chr5.4:68768932-68768951 | MS.gene39844:CDS | 40.0% | |
| TGGTAGCATTAGAACAAGAG+TGG | - | chr5.4:68767700-68767719 | None:intergenic | 40.0% | |
| TGTTCTTGAGGCTTATTAGC+TGG | - | chr5.4:68768516-68768535 | None:intergenic | 40.0% | |
| TTTCATATGTTGAGGGCTTG+AGG | + | chr5.4:68767909-68767928 | MS.gene39844:intron | 40.0% | |
| ! | ACGTCATTGGTCTCACAATA+TGG | - | chr5.4:68768438-68768457 | None:intergenic | 40.0% |
| ! | TCATTGGTCTCACAATATGG+AGG | - | chr5.4:68768435-68768454 | None:intergenic | 40.0% |
| ! | TGTGGCATTGAAGATTCTTG+GGG | - | chr5.4:68768558-68768577 | None:intergenic | 40.0% |
| !! | TGACTTCAAAAGGTGTCCTA+AGG | + | chr5.4:68768346-68768365 | MS.gene39844:CDS | 40.0% |
| !! | TTAGCTGGAGTGATTAGCTT+TGG | - | chr5.4:68768501-68768520 | None:intergenic | 40.0% |
| AAACTTGGCACTCACGTCAT+TGG | - | chr5.4:68768451-68768470 | None:intergenic | 45.0% | |
| GCCTAAGAAGGGGAAGTTAT+TGG | + | chr5.4:68768905-68768924 | MS.gene39844:CDS | 45.0% | |
| GGTGACATAAGGCCTAAGAA+GGG | + | chr5.4:68768894-68768913 | MS.gene39844:CDS | 45.0% | |
| GTGACATAAGGCCTAAGAAG+GGG | + | chr5.4:68768895-68768914 | MS.gene39844:CDS | 45.0% | |
| TCAACCACTTGTGCTTGTGT+TGG | - | chr5.4:68768606-68768625 | None:intergenic | 45.0% | |
| TGGTGACATAAGGCCTAAGA+AGG | + | chr5.4:68768893-68768912 | MS.gene39844:CDS | 45.0% | |
| ! | TCTTGGGGTGGATTTGTGAT+AGG | - | chr5.4:68768543-68768562 | None:intergenic | 45.0% |
| !!! | CCTTGTTGGTTTTGGTGCTT+GGG | + | chr5.4:68768946-68768965 | MS.gene39844:CDS | 45.0% |
| !!! | CTTGTTGGTTTTGGTGCTTG+GGG | + | chr5.4:68768947-68768966 | MS.gene39844:CDS | 45.0% |
| !!! | TCCTTGTTGGTTTTGGTGCT+TGG | + | chr5.4:68768945-68768964 | MS.gene39844:CDS | 45.0% |
| !!! | TGTGGCATCCTTGTTGGTTT+TGG | + | chr5.4:68768938-68768957 | MS.gene39844:CDS | 45.0% |
| CCCAAGCACCAAAACCAACA+AGG | - | chr5.4:68768949-68768968 | None:intergenic | 50.0% | |
| GAGGGTAAGGGAAAGAGACA+AGG | + | chr5.4:68768774-68768793 | MS.gene39844:CDS | 50.0% | |
| GCCGGTAAGTACAACTCACA+TGG | + | chr5.4:68767868-68767887 | MS.gene39844:intron | 50.0% | |
| TAGCACTCCACGCTCAAACT+TGG | - | chr5.4:68768466-68768485 | None:intergenic | 50.0% | |
| ! | GGCATTGAAGATTCTTGGGG+TGG | - | chr5.4:68768555-68768574 | None:intergenic | 50.0% |
| ! | TGTGCTTGTGTTGGTGCCTT+AGG | - | chr5.4:68768597-68768616 | None:intergenic | 50.0% |
| GGCACCAACACAAGCACAAG+TGG | + | chr5.4:68768599-68768618 | MS.gene39844:CDS | 55.0% | |
| GTGAGTGCCAAGTTTGAGCG+TGG | + | chr5.4:68768456-68768475 | MS.gene39844:CDS | 55.0% | |
| TATGTTGAGGGCTTGAGGCG+CGG | + | chr5.4:68767914-68767933 | MS.gene39844:intron | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr5.4 | gene | 68767612 | 68769046 | 68767612 | ID=MS.gene39844 |
| chr5.4 | mRNA | 68767612 | 68769046 | 68767612 | ID=MS.gene39844.t1;Parent=MS.gene39844 |
| chr5.4 | exon | 68767612 | 68767720 | 68767612 | ID=MS.gene39844.t1.exon1;Parent=MS.gene39844.t1 |
| chr5.4 | CDS | 68767612 | 68767720 | 68767612 | ID=cds.MS.gene39844.t1;Parent=MS.gene39844.t1 |
| chr5.4 | exon | 68768316 | 68769046 | 68768316 | ID=MS.gene39844.t1.exon2;Parent=MS.gene39844.t1 |
| chr5.4 | CDS | 68768316 | 68769046 | 68768316 | ID=cds.MS.gene39844.t1;Parent=MS.gene39844.t1 |
| Gene Sequence |
| Protein sequence |
