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.gene81793.t1 | XP_003630571.1 | 97.1 | 139 | 4 | 0 | 1 | 139 | 1 | 139 | 2.40E-57 | 231.5 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene81793.t1 | P52414 | 55.3 | 114 | 49 | 1 | 27 | 138 | 24 | 137 | 2.3e-24 | 113.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene81793.t1 | G7LIR8 | 97.1 | 139 | 4 | 0 | 1 | 139 | 1 | 139 | 1.7e-57 | 231.5 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049491 | MS.gene81793 | 0.829162 | 6.01E-55 | -1.69E-46 |
| MS.gene049614 | MS.gene81793 | 0.81204 | 5.18E-51 | -1.69E-46 |
| MS.gene050076 | MS.gene81793 | 0.830369 | 3.05E-55 | -1.69E-46 |
| MS.gene050301 | MS.gene81793 | 0.827823 | 1.26E-54 | -1.69E-46 |
| MS.gene050767 | MS.gene81793 | 0.862605 | 4.50E-64 | -1.69E-46 |
| MS.gene050770 | MS.gene81793 | 0.861927 | 7.27E-64 | -1.69E-46 |
| MS.gene05101 | MS.gene81793 | 0.854582 | 1.12E-61 | -1.69E-46 |
| MS.gene051471 | MS.gene81793 | 0.843032 | 1.80E-58 | -1.69E-46 |
| MS.gene052078 | MS.gene81793 | 0.836204 | 1.07E-56 | -1.69E-46 |
| MS.gene052290 | MS.gene81793 | 0.821993 | 3.00E-53 | -1.69E-46 |
| MS.gene052293 | MS.gene81793 | 0.800413 | 1.46E-48 | -1.69E-46 |
| MS.gene052326 | MS.gene81793 | 0.878861 | 1.99E-69 | -1.69E-46 |
| MS.gene053322 | MS.gene81793 | 0.814397 | 1.57E-51 | -1.69E-46 |
| MS.gene054376 | MS.gene81793 | 0.86553 | 5.52E-65 | -1.69E-46 |
| MS.gene05455 | MS.gene81793 | 0.809599 | 1.75E-50 | -1.69E-46 |
| MS.gene054802 | MS.gene81793 | 0.84134 | 5.04E-58 | -1.69E-46 |
| MS.gene054803 | MS.gene81793 | 0.844277 | 8.35E-59 | -1.69E-46 |
| MS.gene054804 | MS.gene81793 | 0.843584 | 1.28E-58 | -1.69E-46 |
| MS.gene055254 | MS.gene81793 | 0.847654 | 1.01E-59 | -1.69E-46 |
| MS.gene055277 | MS.gene81793 | 0.830543 | 2.77E-55 | -1.69E-46 |
| MS.gene055390 | MS.gene81793 | 0.839379 | 1.64E-57 | -1.69E-46 |
| MS.gene055397 | MS.gene81793 | 0.832651 | 8.37E-56 | -1.69E-46 |
| MS.gene055422 | MS.gene81793 | 0.846303 | 2.36E-59 | -1.69E-46 |
| MS.gene055428 | MS.gene81793 | 0.801408 | 9.13E-49 | -1.69E-46 |
| MS.gene055499 | MS.gene81793 | 0.846109 | 2.67E-59 | -1.69E-46 |
| MS.gene055896 | MS.gene81793 | 0.831125 | 1.99E-55 | -1.69E-46 |
| MS.gene057123 | MS.gene81793 | 0.812837 | 3.47E-51 | -1.69E-46 |
| MS.gene057129 | MS.gene81793 | 0.815758 | 7.85E-52 | -1.69E-46 |
| MS.gene057295 | MS.gene81793 | 0.802409 | 5.69E-49 | -1.69E-46 |
| MS.gene058293 | MS.gene81793 | 0.802158 | 6.41E-49 | -1.69E-46 |
| MS.gene058660 | MS.gene81793 | 0.87533 | 3.35E-68 | -1.69E-46 |
| MS.gene059228 | MS.gene81793 | 0.820679 | 6.04E-53 | -1.69E-46 |
| MS.gene059326 | MS.gene81793 | 0.813542 | 2.43E-51 | -1.69E-46 |
| MS.gene059597 | MS.gene81793 | 0.823355 | 1.45E-53 | -1.69E-46 |
| MS.gene059960 | MS.gene81793 | 0.826872 | 2.14E-54 | -1.69E-46 |
| MS.gene060005 | MS.gene81793 | 0.810678 | 1.02E-50 | -1.69E-46 |
| MS.gene06037 | MS.gene81793 | 0.811024 | 8.61E-51 | -1.69E-46 |
| MS.gene060559 | MS.gene81793 | 0.803208 | 3.89E-49 | -1.69E-46 |
| MS.gene061200 | MS.gene81793 | 0.826857 | 2.16E-54 | -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.gene81793.t1 | MTR_8g099920 | 97.122 | 139 | 4 | 0 | 1 | 139 | 1 | 139 | 2.61e-95 | 271 |
| MS.gene81793.t1 | MTR_8g099920 | 95.683 | 139 | 4 | 1 | 1 | 139 | 1 | 137 | 6.45e-92 | 262 |
| MS.gene81793.t1 | MTR_8g099920 | 95.000 | 100 | 5 | 0 | 1 | 100 | 1 | 100 | 6.72e-64 | 191 |
| MS.gene81793.t1 | MTR_2g020360 | 47.552 | 143 | 65 | 4 | 1 | 138 | 1 | 138 | 4.10e-38 | 126 |
| MS.gene81793.t1 | MTR_2g020360 | 46.853 | 143 | 66 | 4 | 1 | 138 | 1 | 138 | 3.05e-36 | 121 |
| MS.gene81793.t1 | MTR_2g020360 | 51.220 | 123 | 52 | 4 | 22 | 138 | 18 | 138 | 5.29e-34 | 115 |
| MS.gene81793.t1 | MTR_4g118750 | 46.535 | 101 | 35 | 3 | 42 | 138 | 37 | 122 | 3.45e-21 | 83.6 |
| MS.gene81793.t1 | MTR_1g081920 | 50.000 | 80 | 35 | 2 | 56 | 133 | 10 | 86 | 7.93e-18 | 73.6 |
| MS.gene81793.t1 | MTR_7g080760 | 45.833 | 72 | 37 | 2 | 61 | 131 | 42 | 112 | 1.73e-11 | 57.8 |
| MS.gene81793.t1 | MTR_7g080390 | 41.772 | 79 | 44 | 2 | 61 | 138 | 53 | 130 | 4.83e-11 | 57.0 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene81793.t1 | AT4G25050 | 56.115 | 139 | 52 | 4 | 1 | 138 | 1 | 131 | 5.38e-40 | 131 |
| MS.gene81793.t1 | AT4G25050 | 51.656 | 151 | 52 | 5 | 1 | 138 | 1 | 143 | 1.49e-36 | 122 |
| MS.gene81793.t1 | AT3G05020 | 50.000 | 136 | 52 | 4 | 4 | 138 | 16 | 136 | 2.84e-34 | 116 |
| MS.gene81793.t1 | AT5G27200 | 58.163 | 98 | 38 | 2 | 42 | 138 | 42 | 137 | 1.20e-31 | 110 |
| MS.gene81793.t1 | AT1G54630 | 43.137 | 153 | 53 | 7 | 1 | 138 | 1 | 134 | 2.51e-28 | 101 |
| MS.gene81793.t1 | AT1G54580 | 57.647 | 85 | 34 | 1 | 54 | 138 | 52 | 134 | 1.13e-26 | 97.4 |
| MS.gene81793.t1 | AT1G65290 | 41.772 | 79 | 44 | 2 | 61 | 138 | 49 | 126 | 1.67e-11 | 58.2 |
| MS.gene81793.t1 | AT1G54630 | 53.448 | 58 | 25 | 1 | 54 | 111 | 52 | 107 | 3.12e-11 | 57.0 |
Find 24 sgRNAs with CRISPR-Local
Find 71 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| AGTTCTGAAAATTTAGTTTC+TGG | 0.232292 | 4.1:-6671842 | None:intergenic |
| TCTGGGGTAAGCTTGGTTTC+AGG | 0.264840 | 4.1:-6671824 | None:intergenic |
| CATTATCATCCTCAATATTA+AGG | 0.281641 | 4.1:-6672178 | None:intergenic |
| CTCACTTTCTCCACTGTCTC+AGG | 0.295443 | 4.1:-6671770 | None:intergenic |
| TCTTTCAGAACTTCAAGTTT+TGG | 0.316075 | 4.1:+6671581 | MS.gene81793:CDS |
| GTTCTGAAAATTTAGTTTCT+GGG | 0.362213 | 4.1:-6671841 | None:intergenic |
| GGAAATAGTGATGGGTTTAG+AGG | 0.377032 | 4.1:+6672145 | MS.gene81793:CDS |
| TTTAGTTTCTGGGGTAAGCT+TGG | 0.464049 | 4.1:-6671831 | None:intergenic |
| CAAATCAGCTGCTTGTTGAA+TGG | 0.477053 | 4.1:-6672216 | None:intergenic |
| CCTCTTTCAATTTCTCTACA+AGG | 0.482096 | 4.1:+6670844 | MS.gene81793:CDS |
| AGAGTTTAACCTTAATATTG+AGG | 0.511328 | 4.1:+6672169 | MS.gene81793:CDS |
| GAAATTGAAAGAGGGTTGAA+AGG | 0.517599 | 4.1:-6670835 | None:intergenic |
| TTCTGAAAATTTAGTTTCTG+GGG | 0.526211 | 4.1:-6671840 | None:intergenic |
| CCTTGTAGAGAAATTGAAAG+AGG | 0.526756 | 4.1:-6670844 | None:intergenic |
| AGAGGGTTGAAAGGTAAGAG+AGG | 0.538850 | 4.1:-6670826 | None:intergenic |
| AAGAGAGGTGGTTGAAAGAG+AGG | 0.539433 | 4.1:-6670811 | None:intergenic |
| AAACGAGAAGATCTCAAAGA+AGG | 0.566334 | 4.1:-6671638 | None:intergenic |
| GGGTTGAAAGGTAAGAGAGG+TGG | 0.569945 | 4.1:-6670823 | None:intergenic |
| GTGGCAGGTGGAAATAGTGA+TGG | 0.572304 | 4.1:+6672136 | MS.gene81793:intron |
| CTTGTAGAGAAATTGAAAGA+GGG | 0.583035 | 4.1:-6670843 | None:intergenic |
| TCAGGCACAACCTGAGACAG+TGG | 0.583358 | 4.1:+6671760 | MS.gene81793:CDS |
| TTTCTCTACAAGGACTAACC+AGG | 0.601936 | 4.1:+6670854 | MS.gene81793:CDS |
| TGGCAGGTGGAAATAGTGAT+GGG | 0.642802 | 4.1:+6672137 | MS.gene81793:intron |
| TCAAACTTACTGCACAAATG+CGG | 0.672194 | 4.1:-6671661 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | AATTTTTTTTTAAAAGATTC+AGG | + | chr4.1:6671742-6671761 | MS.gene81793:intron | 10.0% |
| !!! | GTTTTAATACTTTTTTTATG+AGG | + | chr4.1:6671506-6671525 | MS.gene81793:intron | 15.0% |
| !! | AAAGTCAAAATGAATTTCAA+AGG | - | chr4.1:6671690-6671709 | None:intergenic | 20.0% |
| !! | AACATTGCATATAATAAATG+TGG | - | chr4.1:6671027-6671046 | None:intergenic | 20.0% |
| !! | AAGTCAAAATGAATTTCAAA+GGG | - | chr4.1:6671689-6671708 | None:intergenic | 20.0% |
| !! | ACATACACATTAATATGTTA+AGG | + | chr4.1:6671288-6671307 | MS.gene81793:intron | 20.0% |
| !! | ATAAACAACAATTATCGTAT+AGG | + | chr4.1:6671369-6671388 | MS.gene81793:intron | 20.0% |
| !! | ATTTGTATTTACACTTCAAT+AGG | + | chr4.1:6670925-6670944 | MS.gene81793:intron | 20.0% |
| !! | TGAAAATAACTTATGAACAA+CGG | + | chr4.1:6671484-6671503 | MS.gene81793:intron | 20.0% |
| !!! | AAAAAATGTTACTATGCTTT+TGG | + | chr4.1:6671057-6671076 | MS.gene81793:intron | 20.0% |
| !!! | ACATTAATATGTTAAGGTTT+TGG | + | chr4.1:6671294-6671313 | MS.gene81793:intron | 20.0% |
| !!! | AGTGAAAATTTTAATTTGAG+TGG | + | chr4.1:6671538-6671557 | MS.gene81793:intron | 20.0% |
| !!! | ATTATTGGTTTTGATTTTGA+TGG | + | chr4.1:6672016-6672035 | MS.gene81793:intron | 20.0% |
| !!! | TGATTGATTCTTAATTAATG+TGG | + | chr4.1:6672117-6672136 | MS.gene81793:intron | 20.0% |
| ! | AAAAAAATATTGTACTCCGT+TGG | + | chr4.1:6671949-6671968 | MS.gene81793:intron | 25.0% |
| ! | AAAACCAATAATGTTCATTC+AGG | - | chr4.1:6672008-6672027 | None:intergenic | 25.0% |
| ! | AGAGTTTAACCTTAATATTG+AGG | + | chr4.1:6672169-6672188 | MS.gene81793:CDS | 25.0% |
| ! | AGTATATAGCATAGTTACAT+TGG | + | chr4.1:6671242-6671261 | MS.gene81793:intron | 25.0% |
| ! | ATTAAATGCATGAAATGACT+TGG | + | chr4.1:6671087-6671106 | MS.gene81793:intron | 25.0% |
| ! | CATTATCATCCTCAATATTA+AGG | - | chr4.1:6672181-6672200 | None:intergenic | 25.0% |
| ! | TATAGAGAAATTTCCAAAAG+TGG | - | chr4.1:6671137-6671156 | None:intergenic | 25.0% |
| !! | GAAACTAAATTTTCAGAACT+TGG | + | chr4.1:6671845-6671864 | MS.gene81793:CDS | 25.0% |
| !! | TTCTGAAAATTTAGTTTCTG+GGG | - | chr4.1:6671843-6671862 | None:intergenic | 25.0% |
| !!! | AATACTTTTTTTATGAGGTG+AGG | + | chr4.1:6671511-6671530 | MS.gene81793:intron | 25.0% |
| !!! | AGTTCTGAAAATTTAGTTTC+TGG | - | chr4.1:6671845-6671864 | None:intergenic | 25.0% |
| !!! | GTTCTGAAAATTTAGTTTCT+GGG | - | chr4.1:6671844-6671863 | None:intergenic | 25.0% |
| !!! | TCCAAAAGTGGTTTATTTTT+CGG | - | chr4.1:6671125-6671144 | None:intergenic | 25.0% |
| !!! | TGACTTTTAAAAAACTTGCA+AGG | + | chr4.1:6671703-6671722 | MS.gene81793:intron | 25.0% |
| !!! | TGCTTTGTTGTTTTTCTATT+TGG | + | chr4.1:6671346-6671365 | MS.gene81793:intron | 25.0% |
| CTTGTAGAGAAATTGAAAGA+GGG | - | chr4.1:6670846-6670865 | None:intergenic | 30.0% | |
| GTAAGTATATGCATTAAGAG+TGG | - | chr4.1:6670896-6670915 | None:intergenic | 30.0% | |
| GTTTGACATTTGATATGTTG+TGG | + | chr4.1:6670970-6670989 | MS.gene81793:intron | 30.0% | |
| TATAGCATAGTTACATTGGT+AGG | + | chr4.1:6671246-6671265 | MS.gene81793:intron | 30.0% | |
| TGATTCTTAATTAATGTGGC+AGG | + | chr4.1:6672121-6672140 | MS.gene81793:intron | 30.0% | |
| ! | TCCGAAAAATAAACCACTTT+TGG | + | chr4.1:6671121-6671140 | MS.gene81793:intron | 30.0% |
| !! | TCTTTCAGAACTTCAAGTTT+TGG | + | chr4.1:6671581-6671600 | MS.gene81793:CDS | 30.0% |
| !!! | TTTGATTTTGATGGTGCATT+TGG | + | chr4.1:6672025-6672044 | MS.gene81793:intron | 30.0% |
| AAACGAGAAGATCTCAAAGA+AGG | - | chr4.1:6671641-6671660 | None:intergenic | 35.0% | |
| AGTGGTTAAAACATACATGC+AGG | + | chr4.1:6671556-6671575 | MS.gene81793:intron | 35.0% | |
| CCAATTGATACTTTAGGTGT+TGG | + | chr4.1:6671212-6671231 | MS.gene81793:intron | 35.0% | |
| CCTCTTTCAATTTCTCTACA+AGG | + | chr4.1:6670844-6670863 | MS.gene81793:CDS | 35.0% | |
| CCTTGTAGAGAAATTGAAAG+AGG | - | chr4.1:6670847-6670866 | None:intergenic | 35.0% | |
| GAAATTGAAAGAGGGTTGAA+AGG | - | chr4.1:6670838-6670857 | None:intergenic | 35.0% | |
| GAACTTGACCTTATAACCAA+CGG | - | chr4.1:6671968-6671987 | None:intergenic | 35.0% | |
| GACACCTGAATGAACATTAT+TGG | + | chr4.1:6672001-6672020 | MS.gene81793:intron | 35.0% | |
| GAGTGTCCAATTGATACTTT+AGG | + | chr4.1:6671206-6671225 | MS.gene81793:intron | 35.0% | |
| GTTGTTTATGCTAGAGCTAT+GGG | + | chr4.1:6672083-6672102 | MS.gene81793:intron | 35.0% | |
| TCAAACTTACTGCACAAATG+CGG | - | chr4.1:6671664-6671683 | None:intergenic | 35.0% | |
| TTCTTAATTAATGTGGCAGG+TGG | + | chr4.1:6672124-6672143 | MS.gene81793:intron | 35.0% | |
| ! | ATTGTACTCCGTTGGTTATA+AGG | + | chr4.1:6671957-6671976 | MS.gene81793:intron | 35.0% |
| ! | CCAACACCTAAAGTATCAAT+TGG | - | chr4.1:6671215-6671234 | None:intergenic | 35.0% |
| ! | TGTTGTTTATGCTAGAGCTA+TGG | + | chr4.1:6672082-6672101 | MS.gene81793:intron | 35.0% |
| !! | AAGTTTTGGTGCAATTTCTG+TGG | + | chr4.1:6671595-6671614 | MS.gene81793:CDS | 35.0% |
| !! | AGTTTTGGTGCAATTTCTGT+GGG | + | chr4.1:6671596-6671615 | MS.gene81793:CDS | 35.0% |
| ACACGTGCAAATTAAACGCA+CGG | + | chr4.1:6671175-6671194 | MS.gene81793:intron | 40.0% | |
| GGAAGATGAAAATCTGAACC+TGG | - | chr4.1:6670875-6670894 | None:intergenic | 40.0% | |
| TTTCTCTACAAGGACTAACC+AGG | + | chr4.1:6670854-6670873 | MS.gene81793:CDS | 40.0% | |
| ! | CAAATCAGCTGCTTGTTGAA+TGG | - | chr4.1:6672219-6672238 | None:intergenic | 40.0% |
| !! | GGAAATAGTGATGGGTTTAG+AGG | + | chr4.1:6672145-6672164 | MS.gene81793:CDS | 40.0% |
| !! | TTTAGTTTCTGGGGTAAGCT+TGG | - | chr4.1:6671834-6671853 | None:intergenic | 40.0% |
| AAGAGAGGTGGTTGAAAGAG+AGG | - | chr4.1:6670814-6670833 | None:intergenic | 45.0% | |
| AATTAAACGCACGGACGTGA+AGG | + | chr4.1:6671184-6671203 | MS.gene81793:intron | 45.0% | |
| AGAGGGTTGAAAGGTAAGAG+AGG | - | chr4.1:6670829-6670848 | None:intergenic | 45.0% | |
| CATTTGATATGTTGTGGCGC+AGG | + | chr4.1:6670976-6670995 | MS.gene81793:intron | 45.0% | |
| TGGCAGGTGGAAATAGTGAT+GGG | + | chr4.1:6672137-6672156 | MS.gene81793:intron | 45.0% | |
| CTCACTTTCTCCACTGTCTC+AGG | - | chr4.1:6671773-6671792 | None:intergenic | 50.0% | |
| GGGTTGAAAGGTAAGAGAGG+TGG | - | chr4.1:6670826-6670845 | None:intergenic | 50.0% | |
| GTGGCAGGTGGAAATAGTGA+TGG | + | chr4.1:6672136-6672155 | MS.gene81793:intron | 50.0% | |
| TCAGGTGTCAGCTCAGTGAT+AGG | - | chr4.1:6671990-6672009 | None:intergenic | 50.0% | |
| ! | TCTGGGGTAAGCTTGGTTTC+AGG | - | chr4.1:6671827-6671846 | None:intergenic | 50.0% |
| TCAGGCACAACCTGAGACAG+TGG | + | chr4.1:6671760-6671779 | MS.gene81793:CDS | 55.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.1 | gene | 6670807 | 6672268 | 6670807 | ID=MS.gene81793 |
| chr4.1 | mRNA | 6670807 | 6672268 | 6670807 | ID=MS.gene81793.t1;Parent=MS.gene81793 |
| chr4.1 | exon | 6670807 | 6670875 | 6670807 | ID=MS.gene81793.t1.exon1;Parent=MS.gene81793.t1 |
| chr4.1 | CDS | 6670807 | 6670875 | 6670807 | ID=cds.MS.gene81793.t1;Parent=MS.gene81793.t1 |
| chr4.1 | exon | 6671578 | 6671673 | 6671578 | ID=MS.gene81793.t1.exon2;Parent=MS.gene81793.t1 |
| chr4.1 | CDS | 6671578 | 6671673 | 6671578 | ID=cds.MS.gene81793.t1;Parent=MS.gene81793.t1 |
| chr4.1 | exon | 6671758 | 6671886 | 6671758 | ID=MS.gene81793.t1.exon3;Parent=MS.gene81793.t1 |
| chr4.1 | CDS | 6671758 | 6671886 | 6671758 | ID=cds.MS.gene81793.t1;Parent=MS.gene81793.t1 |
| chr4.1 | exon | 6672143 | 6672268 | 6672143 | ID=MS.gene81793.t1.exon4;Parent=MS.gene81793.t1 |
| chr4.1 | CDS | 6672143 | 6672268 | 6672143 | ID=cds.MS.gene81793.t1;Parent=MS.gene81793.t1 |
| Gene Sequence |
| Protein sequence |
