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.gene013333.t1 | AES72826.1 | 94.9 | 117 | 6 | 0 | 1 | 117 | 1 | 117 | 2.20E-59 | 238 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene013333.t1 | B9RU15 | 65.3 | 72 | 25 | 0 | 39 | 110 | 38 | 109 | 1.3e-25 | 117.1 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene013333.t1 | G7JB04 | 94.9 | 117 | 6 | 0 | 1 | 117 | 1 | 117 | 1.6e-59 | 238.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|---|---|
| MS.gene013333.t1 | TR | PHD |
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
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.gene013333.t1 | MTR_3g095830 | 94.872 | 117 | 6 | 0 | 1 | 117 | 1 | 117 | 2.17e-79 | 229 |
| MS.gene013333.t1 | MTR_3g095840 | 59.292 | 113 | 38 | 2 | 3 | 107 | 8 | 120 | 3.86e-38 | 132 |
| MS.gene013333.t1 | MTR_1g007670 | 45.312 | 64 | 35 | 0 | 44 | 107 | 10 | 73 | 2.59e-15 | 70.5 |
| MS.gene013333.t1 | MTR_5g010300 | 36.842 | 95 | 57 | 1 | 18 | 109 | 197 | 291 | 4.92e-14 | 67.4 |
| MS.gene013333.t1 | MTR_5g010300 | 36.842 | 95 | 57 | 1 | 18 | 109 | 197 | 291 | 5.16e-14 | 67.4 |
| MS.gene013333.t1 | MTR_5g010300 | 36.842 | 95 | 57 | 1 | 18 | 109 | 197 | 291 | 5.35e-14 | 67.0 |
| MS.gene013333.t1 | MTR_5g010300 | 36.842 | 95 | 57 | 1 | 18 | 109 | 197 | 291 | 5.55e-14 | 67.0 |
| MS.gene013333.t1 | MTR_1g007700 | 50.000 | 48 | 20 | 1 | 60 | 107 | 258 | 301 | 2.57e-11 | 59.3 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene013333.t1 | AT5G09790 | 50.000 | 100 | 42 | 2 | 16 | 110 | 18 | 114 | 3.73e-25 | 97.8 |
| MS.gene013333.t1 | AT5G09790 | 50.000 | 100 | 42 | 2 | 16 | 110 | 18 | 114 | 4.01e-25 | 97.8 |
| MS.gene013333.t1 | AT5G24330 | 69.565 | 46 | 14 | 0 | 62 | 107 | 34 | 79 | 1.14e-18 | 79.7 |
| MS.gene013333.t1 | AT1G63490 | 41.772 | 79 | 43 | 1 | 31 | 109 | 213 | 288 | 6.60e-13 | 63.9 |
| MS.gene013333.t1 | AT1G63490 | 41.772 | 79 | 43 | 1 | 31 | 109 | 213 | 288 | 6.73e-13 | 63.9 |
Find 36 sgRNAs with CRISPR-Local
Find 39 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTAGAGTTCCTATTGGTTCA+TGG | 0.294500 | 3.4:+86919828 | MS.gene013333:CDS |
| AGTCTGTTGGCTTCTTCTTT+CGG | 0.305637 | 3.4:-86919613 | None:intergenic |
| GAAGTGTCTGAGACCGGTTC+TGG | 0.362102 | 3.4:+86919805 | MS.gene013333:CDS |
| CCCCAAGTGTTGTTCTGAGC+TGG | 0.393884 | 3.4:+86919856 | MS.gene013333:CDS |
| GGGCAAATCCATGAACCAAT+AGG | 0.417784 | 3.4:-86919836 | None:intergenic |
| GGCTTCTTCTTTCGGTGGCA+CGG | 0.431024 | 3.4:-86919605 | None:intergenic |
| CAGGACGATGACTAATATAA+TGG | 0.440054 | 3.4:+86919658 | MS.gene013333:CDS |
| ATGTGTGCGGCGGGTGAAGC+TGG | 0.451472 | 3.4:-86919579 | None:intergenic |
| CTCCAGCTCAGAACAACACT+TGG | 0.460665 | 3.4:-86919858 | None:intergenic |
| GCACGGTGCATGTGTGCGGC+GGG | 0.463261 | 3.4:-86919588 | None:intergenic |
| GTTCTGGCTAGAGTTCCTAT+TGG | 0.469825 | 3.4:+86919821 | MS.gene013333:CDS |
| GTGAAGCTGGTTAGCTTACG+AGG | 0.474210 | 3.4:-86919566 | None:intergenic |
| ATGTGTGAGCGATGTGGATC+TGG | 0.479905 | 3.4:+86919728 | MS.gene013333:CDS |
| ATAGGAACTCTAGCCAGAAC+CGG | 0.497595 | 3.4:-86919818 | None:intergenic |
| TCACACAACAAAAGCTCCTC+AGG | 0.503103 | 3.4:-86919758 | None:intergenic |
| CGATGACTAATATAATGGCT+AGG | 0.512196 | 3.4:+86919663 | MS.gene013333:CDS |
| CTGTTGGCTTCTTCTTTCGG+TGG | 0.523013 | 3.4:-86919610 | None:intergenic |
| TCATATGAAGTGTCTGAGAC+CGG | 0.525057 | 3.4:+86919799 | MS.gene013333:CDS |
| GGCACGGTGCATGTGTGCGG+CGG | 0.525820 | 3.4:-86919589 | None:intergenic |
| GCCAACAGACTCGTCATCGC+GGG | 0.543998 | 3.4:+86919625 | MS.gene013333:CDS |
| TCCAGCTCAGAACAACACTT+GGG | 0.544872 | 3.4:-86919857 | None:intergenic |
| ATATGCAGTGGTTGAGAAGG+AGG | 0.563550 | 3.4:+86919691 | MS.gene013333:CDS |
| CATCGCGGGTGACGAAGTAC+AGG | 0.571128 | 3.4:+86919639 | MS.gene013333:CDS |
| TAAATATGCAGTGGTTGAGA+AGG | 0.574113 | 3.4:+86919688 | MS.gene013333:CDS |
| GATGACTAATATAATGGCTA+GGG | 0.574270 | 3.4:+86919664 | MS.gene013333:CDS |
| ACCCGCGATGACGAGTCTGT+TGG | 0.610544 | 3.4:-86919626 | None:intergenic |
| TTGTGTGACAAATGCGACAA+AGG | 0.628248 | 3.4:+86919773 | MS.gene013333:CDS |
| GGCTAGGGCTAAATATGCAG+TGG | 0.645491 | 3.4:+86919679 | MS.gene013333:CDS |
| GGTGGCACGGTGCATGTGTG+CGG | 0.648842 | 3.4:-86919592 | None:intergenic |
| AGCCAACAGACTCGTCATCG+CGG | 0.654231 | 3.4:+86919624 | MS.gene013333:CDS |
| TGAAGCTGGTTAGCTTACGA+GGG | 0.657884 | 3.4:-86919565 | None:intergenic |
| CCAGCTCAGAACAACACTTG+GGG | 0.668343 | 3.4:-86919856 | None:intergenic |
| GACTGCATGTGTGAGCGATG+TGG | 0.685024 | 3.4:+86919722 | MS.gene013333:CDS |
| GAAGCTGGTTAGCTTACGAG+GGG | 0.692874 | 3.4:-86919564 | None:intergenic |
| TGGATCTGGTGAACAACCTG+AGG | 0.697540 | 3.4:+86919742 | MS.gene013333:CDS |
| AAGCTGGTTAGCTTACGAGG+GGG | 0.759841 | 3.4:-86919563 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| GATGACTAATATAATGGCTA+GGG | + | chr3.4:86919664-86919683 | MS.gene013333:CDS | 30.0% | |
| CAGGACGATGACTAATATAA+TGG | + | chr3.4:86919658-86919677 | MS.gene013333:CDS | 35.0% | |
| CGATGACTAATATAATGGCT+AGG | + | chr3.4:86919663-86919682 | MS.gene013333:CDS | 35.0% | |
| TAAATATGCAGTGGTTGAGA+AGG | + | chr3.4:86919688-86919707 | MS.gene013333:CDS | 35.0% | |
| TTGTGTGACAAATGCGACAA+AGG | + | chr3.4:86919773-86919792 | MS.gene013333:CDS | 40.0% | |
| ! | TCATATGAAGTGTCTGAGAC+CGG | + | chr3.4:86919799-86919818 | MS.gene013333:CDS | 40.0% |
| !! | AGTCTGTTGGCTTCTTCTTT+CGG | - | chr3.4:86919616-86919635 | None:intergenic | 40.0% |
| !! | CTAGAGTTCCTATTGGTTCA+TGG | + | chr3.4:86919828-86919847 | MS.gene013333:CDS | 40.0% |
| ATAGGAACTCTAGCCAGAAC+CGG | - | chr3.4:86919821-86919840 | None:intergenic | 45.0% | |
| ATATGCAGTGGTTGAGAAGG+AGG | + | chr3.4:86919691-86919710 | MS.gene013333:CDS | 45.0% | |
| GGGCAAATCCATGAACCAAT+AGG | - | chr3.4:86919839-86919858 | None:intergenic | 45.0% | |
| TCACACAACAAAAGCTCCTC+AGG | - | chr3.4:86919761-86919780 | None:intergenic | 45.0% | |
| TCCAGCTCAGAACAACACTT+GGG | - | chr3.4:86919860-86919879 | None:intergenic | 45.0% | |
| ! | GTTCTGGCTAGAGTTCCTAT+TGG | + | chr3.4:86919821-86919840 | MS.gene013333:CDS | 45.0% |
| !! | TGAAGCTGGTTAGCTTACGA+GGG | - | chr3.4:86919568-86919587 | None:intergenic | 45.0% |
| ATGTGTGAGCGATGTGGATC+TGG | + | chr3.4:86919728-86919747 | MS.gene013333:CDS | 50.0% | |
| CCAGCTCAGAACAACACTTG+GGG | - | chr3.4:86919859-86919878 | None:intergenic | 50.0% | |
| CTCCAGCTCAGAACAACACT+TGG | - | chr3.4:86919861-86919880 | None:intergenic | 50.0% | |
| GGCTAGGGCTAAATATGCAG+TGG | + | chr3.4:86919679-86919698 | MS.gene013333:CDS | 50.0% | |
| TGGATCTGGTGAACAACCTG+AGG | + | chr3.4:86919742-86919761 | MS.gene013333:CDS | 50.0% | |
| !! | AAGCTGGTTAGCTTACGAGG+GGG | - | chr3.4:86919566-86919585 | None:intergenic | 50.0% |
| !! | CTGTTGGCTTCTTCTTTCGG+TGG | - | chr3.4:86919613-86919632 | None:intergenic | 50.0% |
| !! | GAAGCTGGTTAGCTTACGAG+GGG | - | chr3.4:86919567-86919586 | None:intergenic | 50.0% |
| !! | GTGAAGCTGGTTAGCTTACG+AGG | - | chr3.4:86919569-86919588 | None:intergenic | 50.0% |
| AGCCAACAGACTCGTCATCG+CGG | + | chr3.4:86919624-86919643 | MS.gene013333:CDS | 55.0% | |
| GACTGCATGTGTGAGCGATG+TGG | + | chr3.4:86919722-86919741 | MS.gene013333:CDS | 55.0% | |
| GGCTTCTTCTTTCGGTGGCA+CGG | - | chr3.4:86919608-86919627 | None:intergenic | 55.0% | |
| ! | CCCCAAGTGTTGTTCTGAGC+TGG | + | chr3.4:86919856-86919875 | MS.gene013333:CDS | 55.0% |
| ! | GAAGTGTCTGAGACCGGTTC+TGG | + | chr3.4:86919805-86919824 | MS.gene013333:CDS | 55.0% |
| ACCCGCGATGACGAGTCTGT+TGG | - | chr3.4:86919629-86919648 | None:intergenic | 60.0% | |
| CATCGCGGGTGACGAAGTAC+AGG | + | chr3.4:86919639-86919658 | MS.gene013333:CDS | 60.0% | |
| GCCAACAGACTCGTCATCGC+GGG | + | chr3.4:86919625-86919644 | MS.gene013333:CDS | 60.0% | |
| ! | GTTAGCTTACGAGGGGGAGG+TGG | - | chr3.4:86919560-86919579 | None:intergenic | 60.0% |
| !! | CTGGTTAGCTTACGAGGGGG+AGG | - | chr3.4:86919563-86919582 | None:intergenic | 60.0% |
| ATGTGTGCGGCGGGTGAAGC+TGG | - | chr3.4:86919582-86919601 | None:intergenic | 65.0% | |
| GGTGGCACGGTGCATGTGTG+CGG | - | chr3.4:86919595-86919614 | None:intergenic | 65.0% | |
| CTTACGAGGGGGAGGTGGCG+AGG | - | chr3.4:86919555-86919574 | None:intergenic | 70.0% | |
| GCACGGTGCATGTGTGCGGC+GGG | - | chr3.4:86919591-86919610 | None:intergenic | 70.0% | |
| GGCACGGTGCATGTGTGCGG+CGG | - | chr3.4:86919592-86919611 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3.4 | gene | 86919545 | 86919898 | 86919545 | ID=MS.gene013333 |
| chr3.4 | mRNA | 86919545 | 86919898 | 86919545 | ID=MS.gene013333.t1;Parent=MS.gene013333 |
| chr3.4 | exon | 86919545 | 86919898 | 86919545 | ID=MS.gene013333.t1.exon1;Parent=MS.gene013333.t1 |
| chr3.4 | CDS | 86919545 | 86919898 | 86919545 | ID=cds.MS.gene013333.t1;Parent=MS.gene013333.t1 |
| Gene Sequence |
| Protein sequence |
