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.gene05460.t1 | XP_003620485.1 | 98.8 | 167 | 2 | 0 | 1 | 167 | 1 | 167 | 2.10E-92 | 348.2 |
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.gene05460.t1 | G7KN44 | 98.8 | 167 | 2 | 0 | 1 | 167 | 1 | 167 | 1.5e-92 | 348.2 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene05460 | MS.gene056059 | 0.823331 | 1.47E-53 | -1.69E-46 |
| MS.gene05460 | MS.gene067465 | 0.809136 | 2.20E-50 | -1.69E-46 |
| MS.gene05460 | MS.gene21887 | 0.814059 | 1.87E-51 | -1.69E-46 |
| MS.gene05460 | MS.gene44127 | 0.816869 | 4.43E-52 | -1.69E-46 |
| MS.gene05460 | MS.gene82566 | 0.844477 | 7.38E-59 | -1.69E-46 |
| MS.gene05460 | MS.gene98841 | 0.884209 | 2.33E-71 | -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.gene05460.t1 | MTR_6g084470 | 98.802 | 167 | 2 | 0 | 1 | 167 | 1 | 167 | 8.77e-122 | 340 |
| MS.gene05460.t1 | MTR_8g104210 | 64.368 | 174 | 48 | 7 | 3 | 167 | 4 | 172 | 8.26e-61 | 186 |
| MS.gene05460.t1 | MTR_8g104210 | 66.049 | 162 | 42 | 6 | 14 | 167 | 7 | 163 | 9.16e-59 | 181 |
| MS.gene05460.t1 | MTR_6g018430 | 42.857 | 175 | 85 | 6 | 1 | 167 | 1 | 168 | 7.64e-30 | 107 |
| MS.gene05460.t1 | MTR_1g110760 | 44.099 | 161 | 71 | 5 | 21 | 167 | 5 | 160 | 5.47e-22 | 87.0 |
| MS.gene05460.t1 | MTR_4g087400 | 37.888 | 161 | 66 | 7 | 1 | 153 | 1 | 135 | 9.23e-12 | 59.7 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene05460.t1 | AT3G02555 | 46.893 | 177 | 69 | 6 | 1 | 167 | 1 | 162 | 1.28e-32 | 114 |
| MS.gene05460.t1 | AT3G02555 | 46.893 | 177 | 69 | 6 | 1 | 167 | 1 | 162 | 1.28e-32 | 114 |
| MS.gene05460.t1 | AT5G16110 | 46.739 | 184 | 75 | 8 | 1 | 167 | 67 | 244 | 2.77e-32 | 115 |
| MS.gene05460.t1 | AT1G68490 | 40.341 | 176 | 86 | 5 | 5 | 167 | 14 | 183 | 7.77e-27 | 100 |
| MS.gene05460.t1 | AT1G13390 | 38.462 | 182 | 90 | 9 | 1 | 167 | 2 | 176 | 4.59e-20 | 82.4 |
| MS.gene05460.t1 | AT1G13390 | 38.462 | 182 | 90 | 9 | 1 | 167 | 2 | 176 | 4.59e-20 | 82.4 |
Find 46 sgRNAs with CRISPR-Local
Find 75 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CTCAAAATTTGTGGCCTAAA+AGG | 0.213971 | 6.4:-58319047 | None:intergenic |
| ATTGCTATAGTGAAAGATTT+GGG | 0.272791 | 6.4:+58319671 | MS.gene05460:CDS |
| AGACCAAATCGAATAGGTTT+AGG | 0.280991 | 6.4:-58319002 | None:intergenic |
| GTGGCCTAAAAGGTCTGATA+TGG | 0.310493 | 6.4:-58319037 | None:intergenic |
| GAAAGATTTGGGGAGCAATT+AGG | 0.318109 | 6.4:+58319682 | MS.gene05460:CDS |
| CAATCAGAGGTTGAAGATTC+AGG | 0.321864 | 6.4:+58319194 | MS.gene05460:CDS |
| AGGTTGAAGATTCAGGTGTT+AGG | 0.346664 | 6.4:+58319201 | MS.gene05460:CDS |
| GTGATCCAAGATGAGCAATT+TGG | 0.348409 | 6.4:+58319760 | MS.gene05460:CDS |
| TGCCCTAAACCTATTCGATT+TGG | 0.350421 | 6.4:+58318999 | MS.gene05460:CDS |
| GAAGAGGGTGCCATGGAAAA+TGG | 0.350699 | 6.4:-58319811 | None:intergenic |
| AATTGCTATAGTGAAAGATT+TGG | 0.355756 | 6.4:+58319670 | MS.gene05460:CDS |
| AGGTGTTAGGGAAGATCTTC+TGG | 0.363892 | 6.4:+58319214 | MS.gene05460:CDS |
| CATTGCCAAATTGCTCATCT+TGG | 0.383707 | 6.4:-58319765 | None:intergenic |
| GACCAAATCGAATAGGTTTA+GGG | 0.384037 | 6.4:-58319001 | None:intergenic |
| TCAAAATACCTCAAAATTTG+TGG | 0.413455 | 6.4:-58319056 | None:intergenic |
| TTTGTGGATCTCCACCTAGC+AGG | 0.415060 | 6.4:+58319725 | MS.gene05460:CDS |
| TGTGCTCCAATGAAGAAGTT+TGG | 0.423704 | 6.4:+58319856 | MS.gene05460:CDS |
| GGTTGAAGATTCAGGTGTTA+GGG | 0.425014 | 6.4:+58319202 | MS.gene05460:CDS |
| AGAGATGAGGATGGAATCTC+TGG | 0.450122 | 6.4:+58318974 | MS.gene05460:CDS |
| CAAGCTGCAGTGAGGATTGA+AGG | 0.451676 | 6.4:+58319886 | MS.gene05460:CDS |
| GTGTGACCAAACTTCTTCAT+TGG | 0.453010 | 6.4:-58319862 | None:intergenic |
| TTTGGCAATGGCAATGGTCA+TGG | 0.463708 | 6.4:+58319778 | MS.gene05460:CDS |
| TTCATCAGACCAAATCGAAT+AGG | 0.466136 | 6.4:-58319008 | None:intergenic |
| AATTGCTCATCTTGGATCAC+AGG | 0.470456 | 6.4:-58319757 | None:intergenic |
| TTGTGGATCTCCACCTAGCA+GGG | 0.495640 | 6.4:+58319726 | MS.gene05460:CDS |
| TTGATTGTCTCAATAGGGAT+AGG | 0.498503 | 6.4:+58319911 | MS.gene05460:CDS |
| CATCTCTTCACAGCTTCTCA+TGG | 0.503294 | 6.4:-58318958 | None:intergenic |
| TCACCATCTTCCTCAGCTAG+AGG | 0.554835 | 6.4:+58319832 | MS.gene05460:CDS |
| TTGGCAATGGCAATGGTCAT+GGG | 0.558206 | 6.4:+58319779 | MS.gene05460:CDS |
| GAGCAATTTGGCAATGGCAA+TGG | 0.565272 | 6.4:+58319772 | MS.gene05460:CDS |
| CAACCTCTAGCTGAGGAAGA+TGG | 0.571591 | 6.4:-58319835 | None:intergenic |
| AAGCTGTGAAGAGATGAGGA+TGG | 0.577435 | 6.4:+58318965 | MS.gene05460:CDS |
| AGCTGAGGAAGATGGTGAAG+AGG | 0.581033 | 6.4:-58319827 | None:intergenic |
| AGATGGTGAAGAGGGTGCCA+TGG | 0.590017 | 6.4:-58319818 | None:intergenic |
| ACAGGGTTTGAAGCCCTGCT+AGG | 0.591659 | 6.4:-58319739 | None:intergenic |
| ATTGCTCATCTTGGATCACA+GGG | 0.597595 | 6.4:-58319756 | None:intergenic |
| CAAGATGAGCAATTTGGCAA+TGG | 0.600303 | 6.4:+58319766 | MS.gene05460:CDS |
| GGGTTTGAAGCCCTGCTAGG+TGG | 0.606726 | 6.4:-58319736 | None:intergenic |
| GCTGAGGAAGATGGTGAAGA+GGG | 0.607679 | 6.4:-58319826 | None:intergenic |
| TCTGGATATCATTCTCCCCA+AGG | 0.612920 | 6.4:+58319232 | MS.gene05460:CDS |
| TTGCTATAGTGAAAGATTTG+GGG | 0.631998 | 6.4:+58319672 | MS.gene05460:CDS |
| AATAATCAGCTATCAATCAG+AGG | 0.653539 | 6.4:+58319181 | MS.gene05460:intron |
| TGGAGCACAACCTCTAGCTG+AGG | 0.654183 | 6.4:-58319842 | None:intergenic |
| TGAGAAGCTGTGAAGAGATG+AGG | 0.665577 | 6.4:+58318961 | MS.gene05460:CDS |
| GTCACACACAAGCTGCAGTG+AGG | 0.704483 | 6.4:+58319878 | MS.gene05460:CDS |
| TGTGAAAAGATGAATCACTG+TGG | 0.842196 | 6.4:+58318918 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAATAATTAAATATAAAATT+AGG | - | chr6.4:58319086-58319105 | None:intergenic | 0.0% |
| !!! | CTTAATTTTTCATGAAAATA+AGG | + | chr6.4:58319273-58319292 | MS.gene05460:intron | 15.0% |
| !!! | AACAATGATTTGTTTTGATT+TGG | + | chr6.4:58319635-58319654 | MS.gene05460:intron | 20.0% |
| ! | AATTGCTATAGTGAAAGATT+TGG | + | chr6.4:58319670-58319689 | MS.gene05460:CDS | 25.0% |
| ! | ATGTTTAATGAACTTCGTTA+AGG | + | chr6.4:58319430-58319449 | MS.gene05460:intron | 25.0% |
| ! | ATTGCTATAGTGAAAGATTT+GGG | + | chr6.4:58319671-58319690 | MS.gene05460:CDS | 25.0% |
| ! | TCAAAATACCTCAAAATTTG+TGG | - | chr6.4:58319059-58319078 | None:intergenic | 25.0% |
| ! | TTGAGATAGAAATTTACCTT+GGG | - | chr6.4:58319251-58319270 | None:intergenic | 25.0% |
| !! | TCAATTCAATTACCATGTTT+TGG | + | chr6.4:58319310-58319329 | MS.gene05460:intron | 25.0% |
| !! | TTTGAGATAGAAATTTACCT+TGG | - | chr6.4:58319252-58319271 | None:intergenic | 25.0% |
| AATAATCAGCTATCAATCAG+AGG | + | chr6.4:58319181-58319200 | MS.gene05460:intron | 30.0% | |
| CATCAATCATAACCAAAACA+TGG | - | chr6.4:58319325-58319344 | None:intergenic | 30.0% | |
| TGAGATAGAAATTTACCTTG+GGG | - | chr6.4:58319250-58319269 | None:intergenic | 30.0% | |
| TTGCTATAGTGAAAGATTTG+GGG | + | chr6.4:58319672-58319691 | MS.gene05460:CDS | 30.0% | |
| !! | GAATTTTAGTCCATTTTCCA+TGG | + | chr6.4:58319801-58319820 | MS.gene05460:CDS | 30.0% |
| !!! | AAGGTTTTGATTGTCTCAAT+AGG | + | chr6.4:58319905-58319924 | MS.gene05460:CDS | 30.0% |
| !!! | AGGTTTTGATTGTCTCAATA+GGG | + | chr6.4:58319906-58319925 | MS.gene05460:CDS | 30.0% |
| !!! | GTTTTGATTTGGATTTTGCA+GGG | + | chr6.4:58319646-58319665 | MS.gene05460:intron | 30.0% |
| !!! | TGTTTTGATTTGGATTTTGC+AGG | + | chr6.4:58319645-58319664 | MS.gene05460:intron | 30.0% |
| AGACCAAATCGAATAGGTTT+AGG | - | chr6.4:58319005-58319024 | None:intergenic | 35.0% | |
| ATTCTCAAGGAAAATCGTCA+TGG | - | chr6.4:58319540-58319559 | None:intergenic | 35.0% | |
| CAGTCAGAAGGTAATAAAGT+CGG | - | chr6.4:58319478-58319497 | None:intergenic | 35.0% | |
| CCTTCTGACTGAAATAAAGT+CGG | + | chr6.4:58319487-58319506 | MS.gene05460:intron | 35.0% | |
| CTCAAAATTTGTGGCCTAAA+AGG | - | chr6.4:58319050-58319069 | None:intergenic | 35.0% | |
| GACCAAATCGAATAGGTTTA+GGG | - | chr6.4:58319004-58319023 | None:intergenic | 35.0% | |
| TTCATCAGACCAAATCGAAT+AGG | - | chr6.4:58319011-58319030 | None:intergenic | 35.0% | |
| TTGATTGTCTCAATAGGGAT+AGG | + | chr6.4:58319911-58319930 | MS.gene05460:CDS | 35.0% | |
| ! | CTTTTAGGCCACAAATTTTG+AGG | + | chr6.4:58319048-58319067 | MS.gene05460:CDS | 35.0% |
| ! | GAAACCATATCAGACCTTTT+AGG | + | chr6.4:58319033-58319052 | MS.gene05460:CDS | 35.0% |
| ! | GATTTTCCTTGAGAATCGAA+GGG | + | chr6.4:58319544-58319563 | MS.gene05460:intron | 35.0% |
| AATTGCTCATCTTGGATCAC+AGG | - | chr6.4:58319760-58319779 | None:intergenic | 40.0% | |
| AGGTTGAAGATTCAGGTGTT+AGG | + | chr6.4:58319201-58319220 | MS.gene05460:CDS | 40.0% | |
| ATTGCTCATCTTGGATCACA+GGG | - | chr6.4:58319759-58319778 | None:intergenic | 40.0% | |
| CAAGATGAGCAATTTGGCAA+TGG | + | chr6.4:58319766-58319785 | MS.gene05460:CDS | 40.0% | |
| CAATCAGAGGTTGAAGATTC+AGG | + | chr6.4:58319194-58319213 | MS.gene05460:CDS | 40.0% | |
| CATTGCCAAATTGCTCATCT+TGG | - | chr6.4:58319768-58319787 | None:intergenic | 40.0% | |
| GAAAGATTTGGGGAGCAATT+AGG | + | chr6.4:58319682-58319701 | MS.gene05460:CDS | 40.0% | |
| GATCCACAAAAAAATGGTGG+TGG | - | chr6.4:58319715-58319734 | None:intergenic | 40.0% | |
| GGAGATCCACAAAAAAATGG+TGG | - | chr6.4:58319718-58319737 | None:intergenic | 40.0% | |
| GGTGGAGATCCACAAAAAAA+TGG | - | chr6.4:58319721-58319740 | None:intergenic | 40.0% | |
| GGTTGAAGATTCAGGTGTTA+GGG | + | chr6.4:58319202-58319221 | MS.gene05460:CDS | 40.0% | |
| GTGATCCAAGATGAGCAATT+TGG | + | chr6.4:58319760-58319779 | MS.gene05460:CDS | 40.0% | |
| GTGTGACCAAACTTCTTCAT+TGG | - | chr6.4:58319865-58319884 | None:intergenic | 40.0% | |
| TAGGCTGGAAAAAAGAAGCT+TGG | + | chr6.4:58319569-58319588 | MS.gene05460:intron | 40.0% | |
| TGCCCTAAACCTATTCGATT+TGG | + | chr6.4:58318999-58319018 | MS.gene05460:CDS | 40.0% | |
| TGTGCTCCAATGAAGAAGTT+TGG | + | chr6.4:58319856-58319875 | MS.gene05460:CDS | 40.0% | |
| ! | CCGACTTTATTTCAGTCAGA+AGG | - | chr6.4:58319490-58319509 | None:intergenic | 40.0% |
| ! | CGATTTTCCTTGAGAATCGA+AGG | + | chr6.4:58319543-58319562 | MS.gene05460:intron | 40.0% |
| !!! | TCACCACCACCATTTTTTTG+TGG | + | chr6.4:58319709-58319728 | MS.gene05460:CDS | 40.0% |
| AAGCTGTGAAGAGATGAGGA+TGG | + | chr6.4:58318965-58318984 | MS.gene05460:CDS | 45.0% | |
| AGAGATGAGGATGGAATCTC+TGG | + | chr6.4:58318974-58318993 | MS.gene05460:CDS | 45.0% | |
| AGGTGTTAGGGAAGATCTTC+TGG | + | chr6.4:58319214-58319233 | MS.gene05460:CDS | 45.0% | |
| CATCTCTTCACAGCTTCTCA+TGG | - | chr6.4:58318961-58318980 | None:intergenic | 45.0% | |
| CCTAAACCCTTCGATTCTCA+AGG | - | chr6.4:58319553-58319572 | None:intergenic | 45.0% | |
| CCTTGAGAATCGAAGGGTTT+AGG | + | chr6.4:58319550-58319569 | MS.gene05460:intron | 45.0% | |
| GAGCAATTTGGCAATGGCAA+TGG | + | chr6.4:58319772-58319791 | MS.gene05460:CDS | 45.0% | |
| GTGGCCTAAAAGGTCTGATA+TGG | - | chr6.4:58319040-58319059 | None:intergenic | 45.0% | |
| TCTGGATATCATTCTCCCCA+AGG | + | chr6.4:58319232-58319251 | MS.gene05460:CDS | 45.0% | |
| TGAGAAGCTGTGAAGAGATG+AGG | + | chr6.4:58318961-58318980 | MS.gene05460:CDS | 45.0% | |
| TTGGCAATGGCAATGGTCAT+GGG | + | chr6.4:58319779-58319798 | MS.gene05460:CDS | 45.0% | |
| TTTGGCAATGGCAATGGTCA+TGG | + | chr6.4:58319778-58319797 | MS.gene05460:CDS | 45.0% | |
| AGCTGAGGAAGATGGTGAAG+AGG | - | chr6.4:58319830-58319849 | None:intergenic | 50.0% | |
| CAACCTCTAGCTGAGGAAGA+TGG | - | chr6.4:58319838-58319857 | None:intergenic | 50.0% | |
| CAAGCTGCAGTGAGGATTGA+AGG | + | chr6.4:58319886-58319905 | MS.gene05460:CDS | 50.0% | |
| GAGAATCGAAGGGTTTAGGC+TGG | + | chr6.4:58319554-58319573 | MS.gene05460:intron | 50.0% | |
| GCTGAGGAAGATGGTGAAGA+GGG | - | chr6.4:58319829-58319848 | None:intergenic | 50.0% | |
| TCACCATCTTCCTCAGCTAG+AGG | + | chr6.4:58319832-58319851 | MS.gene05460:CDS | 50.0% | |
| TTGTGGATCTCCACCTAGCA+GGG | + | chr6.4:58319726-58319745 | MS.gene05460:CDS | 50.0% | |
| TTTGTGGATCTCCACCTAGC+AGG | + | chr6.4:58319725-58319744 | MS.gene05460:CDS | 50.0% | |
| !! | GAAGAGGGTGCCATGGAAAA+TGG | - | chr6.4:58319814-58319833 | None:intergenic | 50.0% |
| GTCACACACAAGCTGCAGTG+AGG | + | chr6.4:58319878-58319897 | MS.gene05460:CDS | 55.0% | |
| TGGAGCACAACCTCTAGCTG+AGG | - | chr6.4:58319845-58319864 | None:intergenic | 55.0% | |
| ! | ACAGGGTTTGAAGCCCTGCT+AGG | - | chr6.4:58319742-58319761 | None:intergenic | 55.0% |
| !! | AGATGGTGAAGAGGGTGCCA+TGG | - | chr6.4:58319821-58319840 | None:intergenic | 55.0% |
| ! | GGGTTTGAAGCCCTGCTAGG+TGG | - | chr6.4:58319739-58319758 | None:intergenic | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr6.4 | gene | 58318927 | 58319963 | 58318927 | ID=MS.gene05460 |
| chr6.4 | mRNA | 58318927 | 58319963 | 58318927 | ID=MS.gene05460.t1;Parent=MS.gene05460 |
| chr6.4 | exon | 58318927 | 58319069 | 58318927 | ID=MS.gene05460.t1.exon1;Parent=MS.gene05460.t1 |
| chr6.4 | CDS | 58318927 | 58319069 | 58318927 | ID=cds.MS.gene05460.t1;Parent=MS.gene05460.t1 |
| chr6.4 | exon | 58319190 | 58319253 | 58319190 | ID=MS.gene05460.t1.exon2;Parent=MS.gene05460.t1 |
| chr6.4 | CDS | 58319190 | 58319253 | 58319190 | ID=cds.MS.gene05460.t1;Parent=MS.gene05460.t1 |
| chr6.4 | exon | 58319667 | 58319963 | 58319667 | ID=MS.gene05460.t1.exon3;Parent=MS.gene05460.t1 |
| chr6.4 | CDS | 58319667 | 58319963 | 58319667 | ID=cds.MS.gene05460.t1;Parent=MS.gene05460.t1 |
| Gene Sequence |
| Protein sequence |
