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.gene83122.t1 | AFK38604.1 | 99.3 | 152 | 1 | 0 | 8 | 159 | 22 | 173 | 1.30E-83 | 318.9 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene83122.t1 | Q9C6Z2 | 76.5 | 153 | 34 | 1 | 9 | 159 | 23 | 175 | 1.5e-67 | 256.9 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene83122.t1 | G7I948 | 99.3 | 152 | 1 | 0 | 8 | 159 | 22 | 173 | 9.4e-84 | 318.9 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049350 | MS.gene83122 | 0.815826 | 7.58E-52 | -1.69E-46 |
| MS.gene049395 | MS.gene83122 | 0.809162 | 2.17E-50 | -1.69E-46 |
| MS.gene049807 | MS.gene83122 | 0.852084 | 5.82E-61 | -1.69E-46 |
| MS.gene049887 | MS.gene83122 | 0.828753 | 7.55E-55 | -1.69E-46 |
| MS.gene050838 | MS.gene83122 | 0.822827 | 1.92E-53 | -1.69E-46 |
| MS.gene051234 | MS.gene83122 | 0.837531 | 4.92E-57 | -1.69E-46 |
| MS.gene051642 | MS.gene83122 | 0.803188 | 3.93E-49 | -1.69E-46 |
| MS.gene051885 | MS.gene83122 | 0.822469 | 2.33E-53 | -1.69E-46 |
| MS.gene052072 | MS.gene83122 | 0.822622 | 2.15E-53 | -1.69E-46 |
| MS.gene052307 | MS.gene83122 | 0.813303 | 2.74E-51 | -1.69E-46 |
| MS.gene052609 | MS.gene83122 | 0.807774 | 4.29E-50 | -1.69E-46 |
| MS.gene053143 | MS.gene83122 | 0.836264 | 1.04E-56 | -1.69E-46 |
| MS.gene053144 | MS.gene83122 | 0.807814 | 4.20E-50 | -1.69E-46 |
| MS.gene053581 | MS.gene83122 | 0.802945 | 4.41E-49 | -1.69E-46 |
| MS.gene055469 | MS.gene83122 | 0.822489 | 2.31E-53 | -1.69E-46 |
| MS.gene055891 | MS.gene83122 | 0.817394 | 3.37E-52 | -1.69E-46 |
| MS.gene056043 | MS.gene83122 | -0.80702 | 6.20E-50 | -1.69E-46 |
| MS.gene056881 | MS.gene83122 | 0.814175 | 1.76E-51 | -1.69E-46 |
| MS.gene058149 | MS.gene83122 | 0.820564 | 6.42E-53 | -1.69E-46 |
| MS.gene058492 | MS.gene83122 | 0.805955 | 1.04E-49 | -1.69E-46 |
| MS.gene059171 | MS.gene83122 | 0.806962 | 6.38E-50 | -1.69E-46 |
| MS.gene059778 | MS.gene83122 | 0.820507 | 6.61E-53 | -1.69E-46 |
| MS.gene061100 | MS.gene83122 | 0.844706 | 6.40E-59 | -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.gene83122.t1 | MTR_1g031150 | 99.342 | 152 | 1 | 0 | 8 | 159 | 22 | 173 | 2.09e-109 | 308 |
| MS.gene83122.t1 | MTR_1g031150 | 93.130 | 131 | 8 | 1 | 8 | 138 | 22 | 151 | 1.30e-83 | 243 |
| MS.gene83122.t1 | MTR_1g090550 | 59.286 | 140 | 56 | 1 | 8 | 146 | 63 | 202 | 1.57e-59 | 183 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene83122.t1 | AT1G30110 | 76.471 | 153 | 34 | 1 | 9 | 159 | 23 | 175 | 1.94e-85 | 248 |
| MS.gene83122.t1 | AT1G30110 | 76.471 | 153 | 34 | 1 | 9 | 159 | 23 | 175 | 1.94e-85 | 248 |
| MS.gene83122.t1 | AT3G10620 | 56.429 | 140 | 60 | 1 | 8 | 146 | 77 | 216 | 1.60e-56 | 176 |
| MS.gene83122.t1 | AT5G06340 | 57.554 | 139 | 58 | 1 | 8 | 145 | 76 | 214 | 1.22e-53 | 169 |
Find 39 sgRNAs with CRISPR-Local
Find 78 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CATTTCCACTCTGCAAATTC+TGG | 0.093641 | 1.2:+16346110 | None:intergenic |
| TTCTCTAATAGCAGCAGATT+TGG | 0.244965 | 1.2:+16346909 | None:intergenic |
| CAGAATTTGCAGAGTGGAAA+TGG | 0.298244 | 1.2:-16346109 | MS.gene83122:CDS |
| GGCTAAAGTCAATCGTCTTT+GGG | 0.307296 | 1.2:-16346537 | MS.gene83122:CDS |
| ACCTGCTCAATAACTTCTTC+AGG | 0.335949 | 1.2:+16346080 | None:intergenic |
| AGGCTAAAGTCAATCGTCTT+TGG | 0.336576 | 1.2:-16346538 | MS.gene83122:CDS |
| GTTGCATTTCCTTGAAAGTA+AGG | 0.354258 | 1.2:+16345924 | None:intergenic |
| ACCTTCAAGCCTTACTTTCA+AGG | 0.360232 | 1.2:-16345933 | MS.gene83122:CDS |
| GTGCATTACAGGTTGATAAA+TGG | 0.375642 | 1.2:-16346589 | MS.gene83122:intron |
| TCTCTAATAGCAGCAGATTT+GGG | 0.380677 | 1.2:+16346910 | None:intergenic |
| GCTTCCAGATTGAATGTTCC+AGG | 0.385919 | 1.2:-16347097 | MS.gene83122:CDS |
| ATTTCCACTCTGCAAATTCT+GGG | 0.388442 | 1.2:+16346111 | None:intergenic |
| GGTTGTTACAACTTCTTCAT+AGG | 0.389048 | 1.2:+16345953 | None:intergenic |
| AGAGAACTTCGAGAAGAAAC+TGG | 0.413791 | 1.2:-16346892 | MS.gene83122:CDS |
| TCCTTGAAAGTAAGGCTTGA+AGG | 0.425267 | 1.2:+16345932 | None:intergenic |
| TGAGGCATTTGCCATGCTCC+TGG | 0.426678 | 1.2:+16347079 | None:intergenic |
| AAATTCTGGGTCTGCTTCAC+CGG | 0.426680 | 1.2:+16346124 | None:intergenic |
| TGCTCCTGGAACATTCAATC+TGG | 0.446702 | 1.2:+16347093 | None:intergenic |
| AGGAGCATGGCAAATGCCTC+AGG | 0.465802 | 1.2:-16347077 | MS.gene83122:intron |
| CCTGCTCAATAACTTCTTCA+GGG | 0.490006 | 1.2:+16346081 | None:intergenic |
| CCCTGAAGAAGTTATTGAGC+AGG | 0.490394 | 1.2:-16346081 | MS.gene83122:intron |
| GGCATGGACAGGCACAGAAA+TGG | 0.494440 | 1.2:-16346505 | MS.gene83122:intron |
| AGAATTTGCAGAGTGGAAAT+GGG | 0.503598 | 1.2:-16346108 | MS.gene83122:CDS |
| GTTACAACTTCTTCATAGGT+AGG | 0.511880 | 1.2:+16345957 | None:intergenic |
| GGGAGGAGAATGGCATGGAC+AGG | 0.513397 | 1.2:-16346516 | MS.gene83122:CDS |
| ATCGTCTTTGGGGAGGAGAA+TGG | 0.528661 | 1.2:-16346526 | MS.gene83122:CDS |
| TTGACTTTAGCCTTCACAGC+AGG | 0.532701 | 1.2:+16346548 | None:intergenic |
| TGACTTCCCTCCTGCTGTGA+AGG | 0.542301 | 1.2:-16346558 | MS.gene83122:CDS |
| ACTTTAGCCTTCACAGCAGG+AGG | 0.558265 | 1.2:+16346551 | None:intergenic |
| GATTGAATGTTCCAGGAGCA+TGG | 0.573208 | 1.2:-16347090 | MS.gene83122:CDS |
| TTCTGGGTCTGCTTCACCGG+TGG | 0.576581 | 1.2:+16346127 | None:intergenic |
| GCTAAAGTCAATCGTCTTTG+GGG | 0.604526 | 1.2:-16346536 | MS.gene83122:CDS |
| CGAAATGTAAATCGACAAAG+TGG | 0.620980 | 1.2:-16345896 | MS.gene83122:CDS |
| CTTTGGGGAGGAGAATGGCA+TGG | 0.624852 | 1.2:-16346521 | MS.gene83122:CDS |
| GGTGAAATCAACTTAGCCAC+CGG | 0.634355 | 1.2:-16346143 | MS.gene83122:CDS |
| CTTTAGCCTTCACAGCAGGA+GGG | 0.649727 | 1.2:+16346552 | None:intergenic |
| AAAGTCAATCGTCTTTGGGG+AGG | 0.655166 | 1.2:-16346533 | MS.gene83122:CDS |
| GTCTGCTGAGATAATCGCTG+AGG | 0.670608 | 1.2:-16346863 | MS.gene83122:intron |
| CAGACCCAGAATTTGCAGAG+TGG | 0.693037 | 1.2:-16346115 | MS.gene83122:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATTATTTAAGTTATTTGAAT+TGG | + | chr1.2:16346010-16346029 | None:intergenic | 10.0% |
| !! | ATGAAATTAAAAAAAGATGA+CGG | - | chr1.2:16346859-16346878 | MS.gene83122:intron | 15.0% |
| !!! | ATATTTTTTCCAGTAAAATT+TGG | - | chr1.2:16346716-16346735 | MS.gene83122:intron | 15.0% |
| !!! | TTTGTTATTATTAATAAGCA+TGG | - | chr1.2:16346758-16346777 | MS.gene83122:intron | 15.0% |
| !! | ATCAATTACGAACATTTAAT+AGG | - | chr1.2:16346830-16346849 | MS.gene83122:intron | 20.0% |
| !!! | AATTTTTTGACTGTTCTTTT+GGG | - | chr1.2:16346058-16346077 | MS.gene83122:intron | 20.0% |
| !!! | ACAAAAGCATATATTAACAA+TGG | - | chr1.2:16346600-16346619 | MS.gene83122:intron | 20.0% |
| !!! | TTTGTTTTTTCAGATATTTG+TGG | - | chr1.2:16345904-16345923 | MS.gene83122:CDS | 20.0% |
| ! | AACTAAATGCAGAAAAGAAA+AGG | + | chr1.2:16346197-16346216 | None:intergenic | 25.0% |
| ! | AAGAGAAACATTTAAGAATG+TGG | + | chr1.2:16346578-16346597 | None:intergenic | 25.0% |
| ! | ACAAAGTCAGTATTTCTTAT+TGG | - | chr1.2:16346795-16346814 | MS.gene83122:intron | 25.0% |
| ! | GTTATTATTAATAAGCATGG+CGG | - | chr1.2:16346761-16346780 | MS.gene83122:intron | 25.0% |
| ! | TGTTTGAAAAACTAATCACT+GGG | - | chr1.2:16347008-16347027 | MS.gene83122:intron | 25.0% |
| !! | AAACACAAACCAAATTTTAC+TGG | + | chr1.2:16346728-16346747 | None:intergenic | 25.0% |
| !! | GAAAAATACATACTTGTTAC+AGG | + | chr1.2:16346986-16347005 | None:intergenic | 25.0% |
| !!! | ATTTTTTGACTGTTCTTTTG+GGG | - | chr1.2:16346059-16346078 | MS.gene83122:intron | 25.0% |
| !!! | CAATTTTTTGACTGTTCTTT+TGG | - | chr1.2:16346057-16346076 | MS.gene83122:intron | 25.0% |
| AGAACAGTCAAAAAATTGCT+CGG | + | chr1.2:16346055-16346074 | None:intergenic | 30.0% | |
| CTGTTTGAAAAACTAATCAC+TGG | - | chr1.2:16347007-16347026 | MS.gene83122:intron | 30.0% | |
| GGAAAAAATATCACAAGACA+AGG | + | chr1.2:16346707-16346726 | None:intergenic | 30.0% | |
| GTATACTAGTACATAATGTG+AGG | + | chr1.2:16345975-16345994 | None:intergenic | 30.0% | |
| !! | AGAAATACTGACTTTGTTAG+CGG | + | chr1.2:16346792-16346811 | None:intergenic | 30.0% |
| AGAATTTGCAGAGTGGAAAT+GGG | - | chr1.2:16346915-16346934 | MS.gene83122:CDS | 35.0% | |
| ATCAATACTCCATAGAGCAT+CGG | + | chr1.2:16346258-16346277 | None:intergenic | 35.0% | |
| ATTTCCACTCTGCAAATTCT+GGG | + | chr1.2:16346915-16346934 | None:intergenic | 35.0% | |
| CGAAATGTAAATCGACAAAG+TGG | - | chr1.2:16347127-16347146 | MS.gene83122:CDS | 35.0% | |
| GGTTGTTACAACTTCTTCAT+AGG | + | chr1.2:16347073-16347092 | None:intergenic | 35.0% | |
| GTTACAACTTCTTCATAGGT+AGG | + | chr1.2:16347069-16347088 | None:intergenic | 35.0% | |
| GTTGCATTTCCTTGAAAGTA+AGG | + | chr1.2:16347102-16347121 | None:intergenic | 35.0% | |
| TCTCTAATAGCAGCAGATTT+GGG | + | chr1.2:16346116-16346135 | None:intergenic | 35.0% | |
| TGCATCAATGAAAGCGATAT+AGG | - | chr1.2:16346648-16346667 | MS.gene83122:intron | 35.0% | |
| TTCTCTAATAGCAGCAGATT+TGG | + | chr1.2:16346117-16346136 | None:intergenic | 35.0% | |
| TTGATTTCTCTGCGATAACT+CGG | - | chr1.2:16346376-16346395 | MS.gene83122:intron | 35.0% | |
| !! | GTGCATTACAGGTTGATAAA+TGG | - | chr1.2:16346434-16346453 | MS.gene83122:intron | 35.0% |
| !!! | ACTGTTCTTTTGGGGTTTTT+AGG | - | chr1.2:16346067-16346086 | MS.gene83122:intron | 35.0% |
| !!! | CTGTTCTTTTGGGGTTTTTA+GGG | - | chr1.2:16346068-16346087 | MS.gene83122:intron | 35.0% |
| !!! | TTTTAGGGAGGTATTGAAGA+TGG | - | chr1.2:16346083-16346102 | MS.gene83122:CDS | 35.0% |
| ACCTGCTCAATAACTTCTTC+AGG | + | chr1.2:16346946-16346965 | None:intergenic | 40.0% | |
| ACCTTCAAGCCTTACTTTCA+AGG | - | chr1.2:16347090-16347109 | MS.gene83122:CDS | 40.0% | |
| AGAGAACTTCGAGAAGAAAC+TGG | - | chr1.2:16346131-16346150 | MS.gene83122:CDS | 40.0% | |
| AGGCTAAAGTCAATCGTCTT+TGG | - | chr1.2:16346485-16346504 | MS.gene83122:intron | 40.0% | |
| CAGAATTTGCAGAGTGGAAA+TGG | - | chr1.2:16346914-16346933 | MS.gene83122:CDS | 40.0% | |
| CATTTCCACTCTGCAAATTC+TGG | + | chr1.2:16346916-16346935 | None:intergenic | 40.0% | |
| CCTGCTCAATAACTTCTTCA+GGG | + | chr1.2:16346945-16346964 | None:intergenic | 40.0% | |
| CTGGGCTAATAATCGATTAC+AGG | - | chr1.2:16347026-16347045 | MS.gene83122:intron | 40.0% | |
| GCTAAAGTCAATCGTCTTTG+GGG | - | chr1.2:16346487-16346506 | MS.gene83122:intron | 40.0% | |
| GGCTAAAGTCAATCGTCTTT+GGG | - | chr1.2:16346486-16346505 | MS.gene83122:intron | 40.0% | |
| GGCTAATAATCGATTACAGG+CGG | - | chr1.2:16347029-16347048 | MS.gene83122:intron | 40.0% | |
| TAATAATCGATTACAGGCGG+TGG | - | chr1.2:16347032-16347051 | MS.gene83122:intron | 40.0% | |
| TCCTTGAAAGTAAGGCTTGA+AGG | + | chr1.2:16347094-16347113 | None:intergenic | 40.0% | |
| TGACAGTGTTTGTGCATTAC+AGG | - | chr1.2:16346423-16346442 | MS.gene83122:intron | 40.0% | |
| !!! | TTCTTTTGGGGTTTTTAGGG+AGG | - | chr1.2:16346071-16346090 | MS.gene83122:intron | 40.0% |
| AAATTCTGGGTCTGCTTCAC+CGG | + | chr1.2:16346902-16346921 | None:intergenic | 45.0% | |
| ACATAATGTGAGGTCACCTG+AGG | + | chr1.2:16345965-16345984 | None:intergenic | 45.0% | |
| ATTTCTCTGCGATAACTCGG+TGG | - | chr1.2:16346379-16346398 | MS.gene83122:intron | 45.0% | |
| CATTTACTCCATGCACACTC+AGG | + | chr1.2:16346677-16346696 | None:intergenic | 45.0% | |
| CCCTGAAGAAGTTATTGAGC+AGG | - | chr1.2:16346942-16346961 | MS.gene83122:intron | 45.0% | |
| CTGAGTGTGCATGGAGTAAA+TGG | - | chr1.2:16346675-16346694 | MS.gene83122:intron | 45.0% | |
| GATTGAATGTTCCAGGAGCA+TGG | - | chr1.2:16345933-16345952 | MS.gene83122:CDS | 45.0% | |
| GCTTCCAGATTGAATGTTCC+AGG | - | chr1.2:16345926-16345945 | MS.gene83122:CDS | 45.0% | |
| GGTGAAATCAACTTAGCCAC+CGG | - | chr1.2:16346880-16346899 | MS.gene83122:CDS | 45.0% | |
| TGCTCCTGGAACATTCAATC+TGG | + | chr1.2:16345933-16345952 | None:intergenic | 45.0% | |
| ! | AAAGTCAATCGTCTTTGGGG+AGG | - | chr1.2:16346490-16346509 | MS.gene83122:intron | 45.0% |
| ! | TTGACTTTAGCCTTCACAGC+AGG | + | chr1.2:16346478-16346497 | None:intergenic | 45.0% |
| ATAGGAAGCCTGAGTGTGCA+TGG | - | chr1.2:16346666-16346685 | MS.gene83122:intron | 50.0% | |
| CAGACCCAGAATTTGCAGAG+TGG | - | chr1.2:16346908-16346927 | MS.gene83122:CDS | 50.0% | |
| GTCTGCTGAGATAATCGCTG+AGG | - | chr1.2:16346160-16346179 | MS.gene83122:CDS | 50.0% | |
| TACGTCTAGCCGATGCTCTA+TGG | - | chr1.2:16346246-16346265 | MS.gene83122:intron | 50.0% | |
| ! | ACTTTAGCCTTCACAGCAGG+AGG | + | chr1.2:16346475-16346494 | None:intergenic | 50.0% |
| ! | ATCGTCTTTGGGGAGGAGAA+TGG | - | chr1.2:16346497-16346516 | MS.gene83122:intron | 50.0% |
| ! | CTTTAGCCTTCACAGCAGGA+GGG | + | chr1.2:16346474-16346493 | None:intergenic | 50.0% |
| GGCATGGACAGGCACAGAAA+TGG | - | chr1.2:16346518-16346537 | MS.gene83122:CDS | 55.0% | |
| TGACTTCCCTCCTGCTGTGA+AGG | - | chr1.2:16346465-16346484 | MS.gene83122:intron | 55.0% | |
| ! | AGGAGCATGGCAAATGCCTC+AGG | - | chr1.2:16345946-16345965 | MS.gene83122:CDS | 55.0% |
| ! | CTTTGGGGAGGAGAATGGCA+TGG | - | chr1.2:16346502-16346521 | MS.gene83122:intron | 55.0% |
| ! | TGAGGCATTTGCCATGCTCC+TGG | + | chr1.2:16345947-16345966 | None:intergenic | 55.0% |
| GGGAGGAGAATGGCATGGAC+AGG | - | chr1.2:16346507-16346526 | MS.gene83122:CDS | 60.0% | |
| TTCTGGGTCTGCTTCACCGG+TGG | + | chr1.2:16346899-16346918 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr1.2 | gene | 16345893 | 16347152 | 16345893 | ID=MS.gene83122 |
| chr1.2 | mRNA | 16345893 | 16347152 | 16345893 | ID=MS.gene83122.t1;Parent=MS.gene83122 |
| chr1.2 | exon | 16347078 | 16347152 | 16347078 | ID=MS.gene83122.t1.exon1;Parent=MS.gene83122.t1 |
| chr1.2 | CDS | 16347078 | 16347152 | 16347078 | ID=cds.MS.gene83122.t1;Parent=MS.gene83122.t1 |
| chr1.2 | exon | 16346864 | 16346956 | 16346864 | ID=MS.gene83122.t1.exon2;Parent=MS.gene83122.t1 |
| chr1.2 | CDS | 16346864 | 16346956 | 16346864 | ID=cds.MS.gene83122.t1;Parent=MS.gene83122.t1 |
| chr1.2 | exon | 16346506 | 16346600 | 16346506 | ID=MS.gene83122.t1.exon3;Parent=MS.gene83122.t1 |
| chr1.2 | CDS | 16346506 | 16346600 | 16346506 | ID=cds.MS.gene83122.t1;Parent=MS.gene83122.t1 |
| chr1.2 | exon | 16346082 | 16346193 | 16346082 | ID=MS.gene83122.t1.exon4;Parent=MS.gene83122.t1 |
| chr1.2 | CDS | 16346082 | 16346193 | 16346082 | ID=cds.MS.gene83122.t1;Parent=MS.gene83122.t1 |
| chr1.2 | exon | 16345893 | 16345997 | 16345893 | ID=MS.gene83122.t1.exon5;Parent=MS.gene83122.t1 |
| chr1.2 | CDS | 16345893 | 16345997 | 16345893 | ID=cds.MS.gene83122.t1;Parent=MS.gene83122.t1 |
| Gene Sequence |
| Protein sequence |
