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.gene073400.t1 | XP_013463310.1 | 98.7 | 157 | 2 | 0 | 1 | 157 | 1 | 157 | 1.30E-73 | 286.2 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene073400.t1 | Q96262 | 66.2 | 148 | 49 | 1 | 1 | 148 | 1 | 147 | 2.4e-44 | 180.3 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene073400.t1 | B7FH09 | 98.7 | 157 | 2 | 0 | 1 | 157 | 1 | 157 | 9.1e-74 | 286.2 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene04918 | MS.gene073400 | 0.811083 | 8.36E-51 | -1.69E-46 |
| MS.gene04920 | MS.gene073400 | 0.807936 | 3.96E-50 | -1.69E-46 |
| MS.gene049499 | MS.gene073400 | 0.802765 | 4.80E-49 | -1.69E-46 |
| MS.gene049983 | MS.gene073400 | 0.837481 | 5.07E-57 | -1.69E-46 |
| MS.gene050414 | MS.gene073400 | 0.8051 | 1.57E-49 | -1.69E-46 |
| MS.gene050646 | MS.gene073400 | 0.805862 | 1.09E-49 | -1.69E-46 |
| MS.gene050654 | MS.gene073400 | 0.828284 | 9.79E-55 | -1.69E-46 |
| MS.gene050737 | MS.gene073400 | 0.816923 | 4.31E-52 | -1.69E-46 |
| MS.gene050941 | MS.gene073400 | 0.832868 | 7.40E-56 | -1.69E-46 |
| MS.gene051541 | MS.gene073400 | 0.821872 | 3.20E-53 | -1.69E-46 |
| MS.gene052118 | MS.gene073400 | 0.815445 | 9.21E-52 | -1.69E-46 |
| MS.gene053726 | MS.gene073400 | 0.818088 | 2.35E-52 | -1.69E-46 |
| MS.gene054641 | MS.gene073400 | 0.800831 | 1.20E-48 | -1.69E-46 |
| MS.gene054892 | MS.gene073400 | 0.834122 | 3.60E-56 | -1.69E-46 |
| MS.gene054893 | MS.gene073400 | 0.836822 | 7.47E-57 | -1.69E-46 |
| MS.gene055327 | MS.gene073400 | 0.820769 | 5.76E-53 | -1.69E-46 |
| MS.gene055864 | MS.gene073400 | 0.818118 | 2.32E-52 | -1.69E-46 |
| MS.gene056699 | MS.gene073400 | 0.822718 | 2.04E-53 | -1.69E-46 |
| MS.gene057371 | MS.gene073400 | 0.801475 | 8.85E-49 | -1.69E-46 |
| MS.gene058095 | MS.gene073400 | 0.802763 | 4.81E-49 | -1.69E-46 |
| MS.gene058429 | MS.gene073400 | 0.850348 | 1.80E-60 | -1.69E-46 |
| MS.gene05952 | MS.gene073400 | 0.807134 | 5.86E-50 | -1.69E-46 |
| MS.gene059686 | MS.gene073400 | 0.808719 | 2.70E-50 | -1.69E-46 |
| MS.gene060259 | MS.gene073400 | 0.813644 | 2.31E-51 | -1.69E-46 |
| MS.gene06052 | MS.gene073400 | 0.816537 | 5.25E-52 | -1.69E-46 |
| MS.gene060850 | MS.gene073400 | 0.809398 | 1.93E-50 | -1.69E-46 |
| MS.gene060932 | MS.gene073400 | 0.85413 | 1.51E-61 | -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.gene073400.t1 | MTR_2g437530 | 97.664 | 214 | 5 | 0 | 1 | 214 | 1 | 214 | 1.05e-139 | 389 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene073400.t1 | AT4G20260 | 61.326 | 181 | 58 | 2 | 1 | 171 | 1 | 179 | 2.08e-55 | 176 |
| MS.gene073400.t1 | AT4G20260 | 61.326 | 181 | 58 | 2 | 1 | 171 | 1 | 179 | 2.08e-55 | 176 |
| MS.gene073400.t1 | AT4G20260 | 61.326 | 181 | 58 | 2 | 1 | 171 | 1 | 179 | 2.08e-55 | 176 |
| MS.gene073400.t1 | AT4G20260 | 61.326 | 181 | 58 | 2 | 1 | 171 | 1 | 179 | 2.08e-55 | 176 |
| MS.gene073400.t1 | AT4G20260 | 61.326 | 181 | 58 | 2 | 1 | 171 | 1 | 179 | 2.08e-55 | 176 |
| MS.gene073400.t1 | AT4G20260 | 61.326 | 181 | 58 | 2 | 1 | 171 | 1 | 179 | 2.08e-55 | 176 |
| MS.gene073400.t1 | AT4G20260 | 61.326 | 181 | 58 | 2 | 1 | 171 | 1 | 179 | 2.08e-55 | 176 |
| MS.gene073400.t1 | AT4G20260 | 68.243 | 148 | 43 | 2 | 1 | 145 | 1 | 147 | 2.90e-54 | 171 |
| MS.gene073400.t1 | AT4G20260 | 60.989 | 182 | 58 | 3 | 1 | 171 | 1 | 180 | 1.08e-53 | 172 |
| MS.gene073400.t1 | AT4G20260 | 67.857 | 140 | 45 | 0 | 1 | 140 | 1 | 140 | 1.09e-53 | 170 |
Find 34 sgRNAs with CRISPR-Local
Find 60 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| ATAGAAGAACTTGTTAAAAT+TGG | 0.213794 | 2.4:-54272108 | MS.gene073400:intron |
| AGTTGTTGAAGAAGAGAAAA+AGG | 0.260064 | 2.4:-54271811 | MS.gene073400:CDS |
| TTTGGACCAGCCTTAGTTTC+AGG | 0.262260 | 2.4:-54271960 | MS.gene073400:CDS |
| TCCTCCTTCCGCGGAGAAAC+AGG | 0.321981 | 2.4:-54271721 | MS.gene073400:CDS |
| TCAACAAACTTTCAAGCCTT+TGG | 0.364448 | 2.4:+54271654 | None:intergenic |
| CTTTGACTCATCAAAGGTCT+TGG | 0.366152 | 2.4:+54272746 | None:intergenic |
| GGAAGCAAAAGATGGGTTAC+TGG | 0.373360 | 2.4:-54272845 | None:intergenic |
| TCAACTGCAGCCGGCTCAAC+CGG | 0.383238 | 2.4:+54271690 | None:intergenic |
| TCTGAAGCATCATCCAAGTT+TGG | 0.412649 | 2.4:-54271978 | MS.gene073400:CDS |
| TCCTCCTGTTTCTCCGCGGA+AGG | 0.422803 | 2.4:+54271717 | None:intergenic |
| AATTGAATCTTCTGCAGAAA+AGG | 0.424490 | 2.4:-54271772 | MS.gene073400:CDS |
| TGCAGAAAAGGTTGAAGAAA+AGG | 0.428765 | 2.4:-54271760 | MS.gene073400:CDS |
| GAAAACTGGACCTGAAACTA+AGG | 0.436909 | 2.4:+54271950 | None:intergenic |
| GGGAATCAATAAAGAGTTTG+AGG | 0.437077 | 2.4:-54272550 | MS.gene073400:CDS |
| AACTAAGGCTGGTCCAAACT+TGG | 0.441827 | 2.4:+54271965 | None:intergenic |
| CAAGACCTTTGATGAGTCAA+AGG | 0.477303 | 2.4:-54272745 | MS.gene073400:intron |
| AGCATCTTCAACTGAAATCA+AGG | 0.494963 | 2.4:-54272484 | MS.gene073400:intron |
| AGAAAAGGATGCAGCTGAGC+CGG | 0.507989 | 2.4:-54271745 | MS.gene073400:CDS |
| TCTACTTGTTCAACTGCAGC+CGG | 0.508607 | 2.4:+54271681 | None:intergenic |
| TCCTGTTTCTCCGCGGAAGG+AGG | 0.515010 | 2.4:+54271720 | None:intergenic |
| TTCTCCGCGGAAGGAGGAGC+CGG | 0.519506 | 2.4:+54271726 | None:intergenic |
| ACAAACTTTCAAGCCTTTGG+TGG | 0.520637 | 2.4:+54271657 | None:intergenic |
| GTCAAAGAACGTGATGTAGC+AGG | 0.529799 | 2.4:-54272165 | MS.gene073400:CDS |
| GGTTCTTCCCAAGATCAAGA+AGG | 0.544230 | 2.4:-54272814 | MS.gene073400:CDS |
| AAACAAGTGGTGTTAAAGAG+AGG | 0.557539 | 2.4:-54271839 | MS.gene073400:CDS |
| TAAGAAAACAGCTGCTGCTG+AGG | 0.571062 | 2.4:-54272772 | MS.gene073400:CDS |
| AACAAGTGGTGTTAAAGAGA+GGG | 0.574339 | 2.4:-54271838 | MS.gene073400:CDS |
| ACAAACCTTTGACTCATCAA+AGG | 0.584760 | 2.4:+54272740 | None:intergenic |
| ACTGGACCTGAAACTAAGGC+TGG | 0.610443 | 2.4:+54271954 | None:intergenic |
| TCCTTCCGCGGAGAAACAGG+AGG | 0.613705 | 2.4:-54271718 | MS.gene073400:CDS |
| AAAACAGAAGATGAAACAAG+TGG | 0.618986 | 2.4:-54271852 | MS.gene073400:CDS |
| TGAGCCGGCTCCTCCTTCCG+CGG | 0.652057 | 2.4:-54271730 | MS.gene073400:CDS |
| TGAACAAGTAGAACCACCAA+AGG | 0.665776 | 2.4:-54271670 | MS.gene073400:CDS |
| GATGGGTTACTGGACAACAA+AGG | 0.677203 | 2.4:-54272835 | MS.gene073400:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | AAGCAAAAAATATATGTATA+TGG | - | chr2.4:54272133-54272152 | MS.gene073400:CDS | 15.0% |
| !! | TCTTCAAAAATAAACAAATA+AGG | + | chr2.4:54272442-54272461 | None:intergenic | 15.0% |
| !!! | TTTGCTTTTATATTTTGTTA+CGG | + | chr2.4:54272120-54272139 | None:intergenic | 15.0% |
| !! | AAGTAAAAATATCATGTATG+TGG | + | chr2.4:54272216-54272235 | None:intergenic | 20.0% |
| !! | AATAGTTCATATATTTGATG+TGG | - | chr2.4:54271907-54271926 | MS.gene073400:CDS | 20.0% |
| !!! | ATAGAAGAACTTGTTAAAAT+TGG | - | chr2.4:54272391-54272410 | MS.gene073400:intron | 20.0% |
| !!! | ATATATATTTCAGATTTTCC+TGG | - | chr2.4:54272485-54272504 | MS.gene073400:CDS | 20.0% |
| !!! | GTAAAGTATTTATAGTTTTC+CGG | - | chr2.4:54272413-54272432 | MS.gene073400:intron | 20.0% |
| !!! | TGAAAATTTTCCATCAATAT+TGG | + | chr2.4:54272293-54272312 | None:intergenic | 20.0% |
| ! | AAATAAACAAATAAGGTTGC+CGG | + | chr2.4:54272435-54272454 | None:intergenic | 25.0% |
| ! | ACATGTATCTGGTTAAAATT+TGG | - | chr2.4:54272189-54272208 | MS.gene073400:intron | 25.0% |
| ! | CATGTATCTGGTTAAAATTT+GGG | - | chr2.4:54272190-54272209 | MS.gene073400:intron | 25.0% |
| ! | TTCATATATTTGATGTGGTT+CGG | - | chr2.4:54271912-54271931 | MS.gene073400:CDS | 25.0% |
| ! | TTCTCAAAAACAAAGAAAAC+TGG | + | chr2.4:54272566-54272585 | None:intergenic | 25.0% |
| !! | CTTTTATATTTTGTTACGGA+GGG | + | chr2.4:54272116-54272135 | None:intergenic | 25.0% |
| !!! | AGTTTTCTTTGTTTTTGAGA+AGG | - | chr2.4:54272565-54272584 | MS.gene073400:intron | 25.0% |
| AAAACAGAAGATGAAACAAG+TGG | - | chr2.4:54272647-54272666 | MS.gene073400:intron | 30.0% | |
| AATATCACCTTTACAGAGTT+TGG | - | chr2.4:54272312-54272331 | MS.gene073400:intron | 30.0% | |
| AATTGAATCTTCTGCAGAAA+AGG | - | chr2.4:54272727-54272746 | MS.gene073400:intron | 30.0% | |
| AGTTGTTGAAGAAGAGAAAA+AGG | - | chr2.4:54272688-54272707 | MS.gene073400:intron | 30.0% | |
| GAAAAAGACACCAATATTGA+TGG | - | chr2.4:54272280-54272299 | MS.gene073400:intron | 30.0% | |
| TCAAAAACCTTCTTGATCTT+GGG | + | chr2.4:54271695-54271714 | None:intergenic | 30.0% | |
| TTAGACTAGATACATGTATC+TGG | - | chr2.4:54272178-54272197 | MS.gene073400:intron | 30.0% | |
| ! | GCTTTTATATTTTGTTACGG+AGG | + | chr2.4:54272117-54272136 | None:intergenic | 30.0% |
| ACAAACCTTTGACTCATCAA+AGG | + | chr2.4:54271762-54271781 | None:intergenic | 35.0% | |
| AGCATCTTCAACTGAAATCA+AGG | - | chr2.4:54272015-54272034 | MS.gene073400:intron | 35.0% | |
| CTCAAAAACCTTCTTGATCT+TGG | + | chr2.4:54271696-54271715 | None:intergenic | 35.0% | |
| GGGAATCAATAAAGAGTTTG+AGG | - | chr2.4:54271949-54271968 | MS.gene073400:CDS | 35.0% | |
| TCTTTGACCAAACTCTGTAA+AGG | + | chr2.4:54272322-54272341 | None:intergenic | 35.0% | |
| TGCAGAAAAGGTTGAAGAAA+AGG | - | chr2.4:54272739-54272758 | MS.gene073400:intron | 35.0% | |
| ! | AAACAAGTGGTGTTAAAGAG+AGG | - | chr2.4:54272660-54272679 | MS.gene073400:intron | 35.0% |
| ! | AACAAGTGGTGTTAAAGAGA+GGG | - | chr2.4:54272661-54272680 | MS.gene073400:intron | 35.0% |
| !! | GTTCGGTATTTTGTTTAGGA+GGG | - | chr2.4:54271929-54271948 | MS.gene073400:CDS | 35.0% |
| !!! | GTTTTTGTTTCTGTAGTAGC+AGG | + | chr2.4:54272632-54272651 | None:intergenic | 35.0% |
| !!! | TGTGGTTCGGTATTTTGTTT+AGG | - | chr2.4:54271925-54271944 | MS.gene073400:CDS | 35.0% |
| CAAGACCTTTGATGAGTCAA+AGG | - | chr2.4:54271754-54271773 | MS.gene073400:CDS | 40.0% | |
| CTTTGACTCATCAAAGGTCT+TGG | + | chr2.4:54271756-54271775 | None:intergenic | 40.0% | |
| GAAAACTGGACCTGAAACTA+AGG | + | chr2.4:54272552-54272571 | None:intergenic | 40.0% | |
| TGAACAAGTAGAACCACCAA+AGG | - | chr2.4:54272829-54272848 | MS.gene073400:CDS | 40.0% | |
| ! | TCTGAAGCATCATCCAAGTT+TGG | - | chr2.4:54272521-54272540 | MS.gene073400:CDS | 40.0% |
| !! | GGTTCGGTATTTTGTTTAGG+AGG | - | chr2.4:54271928-54271947 | MS.gene073400:CDS | 40.0% |
| !! | TCAGATACTGCTTTTGATCC+AGG | + | chr2.4:54272506-54272525 | None:intergenic | 40.0% |
| GGAGAAACAGGAGGAAAAAC+CGG | - | chr2.4:54272790-54272809 | MS.gene073400:CDS | 45.0% | |
| GGTTCTTCCCAAGATCAAGA+AGG | - | chr2.4:54271685-54271704 | MS.gene073400:CDS | 45.0% | |
| GTCAAAGAACGTGATGTAGC+AGG | - | chr2.4:54272334-54272353 | MS.gene073400:intron | 45.0% | |
| TAAGAAAACAGCTGCTGCTG+AGG | - | chr2.4:54271727-54271746 | MS.gene073400:CDS | 45.0% | |
| TCTACTTGTTCAACTGCAGC+CGG | + | chr2.4:54272821-54272840 | None:intergenic | 45.0% | |
| TTTGGACCAGCCTTAGTTTC+AGG | - | chr2.4:54272539-54272558 | MS.gene073400:CDS | 45.0% | |
| ! | AACTAAGGCTGGTCCAAACT+TGG | + | chr2.4:54272537-54272556 | None:intergenic | 45.0% |
| !! | TTTTTCCTCCTGTTTCTCCG+CGG | + | chr2.4:54272789-54272808 | None:intergenic | 45.0% |
| ACTGGACCTGAAACTAAGGC+TGG | + | chr2.4:54272548-54272567 | None:intergenic | 50.0% | |
| AGAAAAGGATGCAGCTGAGC+CGG | - | chr2.4:54272754-54272773 | MS.gene073400:CDS | 50.0% | |
| GGAGGAAAAACCGGTTGAGC+CGG | - | chr2.4:54272799-54272818 | MS.gene073400:CDS | 55.0% | |
| TCCTCCTTCCGCGGAGAAAC+AGG | - | chr2.4:54272778-54272797 | MS.gene073400:CDS | 60.0% | |
| TCCTTCCGCGGAGAAACAGG+AGG | - | chr2.4:54272781-54272800 | MS.gene073400:CDS | 60.0% | |
| ! | TCAACTGCAGCCGGCTCAAC+CGG | + | chr2.4:54272812-54272831 | None:intergenic | 60.0% |
| ! | TCCTCCTGTTTCTCCGCGGA+AGG | + | chr2.4:54272785-54272804 | None:intergenic | 60.0% |
| ! | TCCTGTTTCTCCGCGGAAGG+AGG | + | chr2.4:54272782-54272801 | None:intergenic | 60.0% |
| TTCTCCGCGGAAGGAGGAGC+CGG | + | chr2.4:54272776-54272795 | None:intergenic | 65.0% | |
| ! | TGAGCCGGCTCCTCCTTCCG+CGG | - | chr2.4:54272769-54272788 | MS.gene073400:CDS | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr2.4 | gene | 54271665 | 54272856 | 54271665 | ID=MS.gene073400 |
| chr2.4 | mRNA | 54271665 | 54272856 | 54271665 | ID=MS.gene073400.t1;Parent=MS.gene073400 |
| chr2.4 | exon | 54272746 | 54272856 | 54272746 | ID=MS.gene073400.t1.exon1;Parent=MS.gene073400.t1 |
| chr2.4 | CDS | 54272746 | 54272856 | 54272746 | ID=cds.MS.gene073400.t1;Parent=MS.gene073400.t1 |
| chr2.4 | exon | 54272485 | 54272574 | 54272485 | ID=MS.gene073400.t1.exon2;Parent=MS.gene073400.t1 |
| chr2.4 | CDS | 54272485 | 54272574 | 54272485 | ID=cds.MS.gene073400.t1;Parent=MS.gene073400.t1 |
| chr2.4 | exon | 54272109 | 54272193 | 54272109 | ID=MS.gene073400.t1.exon3;Parent=MS.gene073400.t1 |
| chr2.4 | CDS | 54272109 | 54272193 | 54272109 | ID=cds.MS.gene073400.t1;Parent=MS.gene073400.t1 |
| chr2.4 | exon | 54271665 | 54272023 | 54271665 | ID=MS.gene073400.t1.exon4;Parent=MS.gene073400.t1 |
| chr2.4 | CDS | 54271665 | 54272023 | 54271665 | ID=cds.MS.gene073400.t1;Parent=MS.gene073400.t1 |
| Gene Sequence |
| Protein sequence |
