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.gene89978.t1 | XP_003606265.1 | 95.4 | 196 | 9 | 0 | 1 | 196 | 1 | 196 | 2.10E-99 | 371.7 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene89978.t1 | Q56XJ7 | 38.5 | 91 | 54 | 1 | 68 | 158 | 119 | 207 | 3.8e-09 | 63.2 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene89978.t1 | G7JL02 | 95.4 | 196 | 9 | 0 | 1 | 196 | 1 | 196 | 1.5e-99 | 371.7 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene050060 | MS.gene89978 | 0.803833 | 2.89E-49 | -1.69E-46 |
| MS.gene050404 | MS.gene89978 | 0.819988 | 8.69E-53 | -1.69E-46 |
| MS.gene050406 | MS.gene89978 | 0.836381 | 9.67E-57 | -1.69E-46 |
| MS.gene052134 | MS.gene89978 | 0.810183 | 1.31E-50 | -1.69E-46 |
| MS.gene052469 | MS.gene89978 | 0.805088 | 1.58E-49 | -1.69E-46 |
| MS.gene052589 | MS.gene89978 | 0.817394 | 3.37E-52 | -1.69E-46 |
| MS.gene053330 | MS.gene89978 | 0.859641 | 3.59E-63 | -1.69E-46 |
| MS.gene053971 | MS.gene89978 | 0.808354 | 3.23E-50 | -1.69E-46 |
| MS.gene054884 | MS.gene89978 | -0.805737 | 1.16E-49 | -1.69E-46 |
| MS.gene055370 | MS.gene89978 | 0.825782 | 3.88E-54 | -1.69E-46 |
| MS.gene056633 | MS.gene89978 | 0.902241 | 1.19E-78 | -1.69E-46 |
| MS.gene056664 | MS.gene89978 | 0.847657 | 1.01E-59 | -1.69E-46 |
| MS.gene057332 | MS.gene89978 | 0.815872 | 7.40E-52 | -1.69E-46 |
| MS.gene058233 | MS.gene89978 | 0.801558 | 8.51E-49 | -1.69E-46 |
| MS.gene058746 | MS.gene89978 | 0.88645 | 3.38E-72 | -1.69E-46 |
| MS.gene05914 | MS.gene89978 | 0.802198 | 6.28E-49 | -1.69E-46 |
| MS.gene059512 | MS.gene89978 | 0.839664 | 1.38E-57 | -1.69E-46 |
| MS.gene061231 | MS.gene89978 | 0.809439 | 1.89E-50 | -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.gene89978.t1 | MTR_4g055420 | 95.408 | 196 | 9 | 0 | 1 | 196 | 1 | 196 | 3.18e-140 | 389 |
| MS.gene89978.t1 | MTR_2g084805 | 54.857 | 175 | 67 | 5 | 15 | 182 | 8 | 177 | 2.57e-56 | 177 |
| MS.gene89978.t1 | MTR_4g102040 | 43.077 | 130 | 58 | 2 | 69 | 196 | 57 | 172 | 2.77e-28 | 104 |
| MS.gene89978.t1 | MTR_5g011750 | 51.724 | 87 | 42 | 0 | 69 | 155 | 26 | 112 | 7.20e-25 | 94.0 |
| MS.gene89978.t1 | MTR_5g011770 | 40.741 | 81 | 48 | 0 | 72 | 152 | 117 | 197 | 1.22e-14 | 70.5 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene89978.t1 | AT2G27830 | 47.959 | 196 | 94 | 4 | 1 | 194 | 1 | 190 | 5.58e-50 | 160 |
| MS.gene89978.t1 | AT4G22758 | 38.462 | 91 | 54 | 1 | 68 | 158 | 119 | 207 | 8.63e-13 | 65.5 |
| MS.gene89978.t1 | AT1G70780 | 30.328 | 122 | 79 | 3 | 71 | 188 | 16 | 135 | 7.84e-12 | 60.8 |
Find 51 sgRNAs with CRISPR-Local
Find 69 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TCACTTTCTTCAAGCTTCTT+TGG | 0.205520 | 4.2:+48009461 | None:intergenic |
| AATGAGAAGCTTAAGGAAAT+TGG | 0.265022 | 4.2:-48009506 | MS.gene89978:CDS |
| GCCGACGAAGTTACTCATTA+AGG | 0.295975 | 4.2:-48009971 | MS.gene89978:CDS |
| GAGTAACTTCGTCGGCTGTC+TGG | 0.327050 | 4.2:+48009978 | None:intergenic |
| CACACTTCTGCAACACTGTC+CGG | 0.327283 | 4.2:-48010090 | MS.gene89978:CDS |
| GCTTCCTTCGACGGCAAGAT+TGG | 0.327598 | 4.2:+48009838 | None:intergenic |
| TTGCCGCACGCTTCCTGTCC+TGG | 0.374159 | 4.2:+48010028 | None:intergenic |
| TAAACGACGCCGTTACGTTA+TGG | 0.389603 | 4.2:+48009426 | None:intergenic |
| AGATAGAAATGAGAAGCTTA+AGG | 0.392238 | 4.2:-48009513 | MS.gene89978:CDS |
| ACAAGGTCCGGCATAGTCTT+TGG | 0.414724 | 4.2:+48010051 | None:intergenic |
| ACACTTCTGCAACACTGTCC+GGG | 0.435674 | 4.2:-48010089 | MS.gene89978:CDS |
| GAGTTTCCACATGGCTGTTA+CGG | 0.438950 | 4.2:+48010157 | None:intergenic |
| ATTTGATAGCGGAGGCTGTA+AGG | 0.439277 | 4.2:-48009885 | MS.gene89978:CDS |
| ACTCATTAAGGTTACGATGA+TGG | 0.455220 | 4.2:-48009959 | MS.gene89978:CDS |
| CTCATTAAGGTTACGATGAT+GGG | 0.455912 | 4.2:-48009958 | MS.gene89978:CDS |
| AGTAACTTCGTCGGCTGTCT+GGG | 0.474432 | 4.2:+48009979 | None:intergenic |
| CACTGTCCGGGGCAAAACTC+CGG | 0.481170 | 4.2:-48010077 | MS.gene89978:CDS |
| CACGCTTCCTGTCCTGGACA+AGG | 0.482528 | 4.2:+48010034 | None:intergenic |
| TTCCTGTCCTGGACAAGGTC+CGG | 0.485224 | 4.2:+48010039 | None:intergenic |
| GGCAATGACTTCTTCGCCAC+CGG | 0.515088 | 4.2:-48010010 | MS.gene89978:CDS |
| GTTACGATGATGGGCAGCCT+TGG | 0.521614 | 4.2:-48009949 | MS.gene89978:CDS |
| TGCCGGACCTTGTCCAGGAC+AGG | 0.523940 | 4.2:-48010041 | MS.gene89978:CDS |
| GACTATGCCGGACCTTGTCC+AGG | 0.528186 | 4.2:-48010046 | MS.gene89978:CDS |
| CTCTCCGGTGAGTTTCCACA+TGG | 0.533759 | 4.2:+48010148 | None:intergenic |
| TCTCTGTTAATCTTCCTCTC+CGG | 0.534835 | 4.2:+48010133 | None:intergenic |
| ATGACGATGGAGTCGACGGT+TGG | 0.536486 | 4.2:-48009910 | MS.gene89978:CDS |
| CCGGCATAGTCTTTGGCCGC+CGG | 0.545096 | 4.2:+48010058 | None:intergenic |
| AAGCAAGAAGCTTCCTTCGA+CGG | 0.546345 | 4.2:+48009829 | None:intergenic |
| GTAAGGTTGTATGTTAAAGA+AGG | 0.550051 | 4.2:-48009868 | MS.gene89978:CDS |
| TTTCCACATGGCTGTTACGG+TGG | 0.552551 | 4.2:+48010160 | None:intergenic |
| CCGTCCAATCTTGCCGTCGA+AGG | 0.553306 | 4.2:-48009842 | MS.gene89978:CDS |
| CATCGTCATTAACACTTGCA+CGG | 0.554830 | 4.2:+48009924 | None:intergenic |
| ATCGTCATTAACACTTGCAC+GGG | 0.561873 | 4.2:+48009925 | None:intergenic |
| AGCTTAAGGAAATTGGATCA+AGG | 0.569028 | 4.2:-48009499 | MS.gene89978:CDS |
| CCTTCGACGGCAAGATTGGA+CGG | 0.570300 | 4.2:+48009842 | None:intergenic |
| CACTTCTGCAACACTGTCCG+GGG | 0.582028 | 4.2:-48010088 | MS.gene89978:CDS |
| GTTAATGACGATGGAGTCGA+CGG | 0.597176 | 4.2:-48009914 | MS.gene89978:CDS |
| CCGGCGGCCAAAGACTATGC+CGG | 0.600487 | 4.2:-48010058 | MS.gene89978:CDS |
| TTAACACTTGCACGGGACCA+AGG | 0.603739 | 4.2:+48009932 | None:intergenic |
| ACAGCCATGTGGAAACTCAC+CGG | 0.607844 | 4.2:-48010152 | MS.gene89978:CDS |
| CGTGCAAGTGTTAATGACGA+TGG | 0.614536 | 4.2:-48009923 | MS.gene89978:CDS |
| AAGCTTGAAGAAAGTGACAA+TGG | 0.627431 | 4.2:-48009455 | MS.gene89978:CDS |
| ACCTTAATGAGTAACTTCGT+CGG | 0.631958 | 4.2:+48009970 | None:intergenic |
| GGTTGGAGATTTGATAGCGG+AGG | 0.649039 | 4.2:-48009893 | MS.gene89978:CDS |
| TGTCCAGGACAGGAAGCGTG+CGG | 0.659036 | 4.2:-48010031 | MS.gene89978:CDS |
| CTTGAAGAAAGTGACAATGG+TGG | 0.660090 | 4.2:-48009452 | MS.gene89978:CDS |
| TGGTGGAGACCATAACGTAA+CGG | 0.684404 | 4.2:-48009435 | MS.gene89978:CDS |
| TGTCCGGGGCAAAACTCCGG+CGG | 0.695006 | 4.2:-48010074 | MS.gene89978:CDS |
| CATGTGGAAACTCACCGGAG+AGG | 0.696044 | 4.2:-48010147 | MS.gene89978:CDS |
| AAACCACCGTAACAGCCATG+TGG | 0.698169 | 4.2:-48010163 | MS.gene89978:CDS |
| GACGGTTGGAGATTTGATAG+CGG | 0.725699 | 4.2:-48009896 | MS.gene89978:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | ATGTAGTTATTATTTTTTGT+TGG | - | chr4.2:48009960-48009979 | MS.gene89978:CDS | 15.0% |
| !!! | TATTAGGTCTTTATTTTTTT+TGG | - | chr4.2:48009890-48009909 | MS.gene89978:CDS | 15.0% |
| !! | TGAACTATGAAAACTAAAAT+TGG | + | chr4.2:48009771-48009790 | None:intergenic | 20.0% |
| !!! | AGTTATTATTTTTTGTTGGA+GGG | - | chr4.2:48009964-48009983 | MS.gene89978:CDS | 20.0% |
| !!! | TAGTTATTATTTTTTGTTGG+AGG | - | chr4.2:48009963-48009982 | MS.gene89978:CDS | 20.0% |
| ! | ACTAGAACAACGTAAATATT+AGG | - | chr4.2:48009874-48009893 | MS.gene89978:CDS | 25.0% |
| AATGAGAAGCTTAAGGAAAT+TGG | - | chr4.2:48010023-48010042 | MS.gene89978:CDS | 30.0% | |
| AGATAGAAATGAGAAGCTTA+AGG | - | chr4.2:48010016-48010035 | MS.gene89978:CDS | 30.0% | |
| GTAAGGTTGTATGTTAAAGA+AGG | - | chr4.2:48009661-48009680 | MS.gene89978:intron | 30.0% | |
| TATGACGTATCTAATTTCTC+TGG | - | chr4.2:48009835-48009854 | MS.gene89978:CDS | 30.0% | |
| ! | GAGAAATCATCATCTTTTCA+TGG | - | chr4.2:48009415-48009434 | MS.gene89978:CDS | 30.0% |
| !!! | TTGATTTGTTTTATGAGTGC+AGG | - | chr4.2:48009990-48010009 | MS.gene89978:CDS | 30.0% |
| AAGCTTGAAGAAAGTGACAA+TGG | - | chr4.2:48010074-48010093 | MS.gene89978:CDS | 35.0% | |
| ACCTTAATGAGTAACTTCGT+CGG | + | chr4.2:48009562-48009581 | None:intergenic | 35.0% | |
| ACTCATTAAGGTTACGATGA+TGG | - | chr4.2:48009570-48009589 | MS.gene89978:intron | 35.0% | |
| AGCTTAAGGAAATTGGATCA+AGG | - | chr4.2:48010030-48010049 | MS.gene89978:CDS | 35.0% | |
| CTCATTAAGGTTACGATGAT+GGG | - | chr4.2:48009571-48009590 | MS.gene89978:intron | 35.0% | |
| TCACTTTCTTCAAGCTTCTT+TGG | + | chr4.2:48010071-48010090 | None:intergenic | 35.0% | |
| ! | CAAGTTGAAAAAGTGAGCAA+AGG | - | chr4.2:48010140-48010159 | MS.gene89978:CDS | 35.0% |
| ! | GAAAAAGTGAGCAAAGGTTT+TGG | - | chr4.2:48010146-48010165 | MS.gene89978:CDS | 35.0% |
| !! | GCAAAGGTTTTGGTCTTTTA+AGG | - | chr4.2:48010156-48010175 | MS.gene89978:CDS | 35.0% |
| ATCGTCATTAACACTTGCAC+GGG | + | chr4.2:48009607-48009626 | None:intergenic | 40.0% | |
| CATCGTCATTAACACTTGCA+CGG | + | chr4.2:48009608-48009627 | None:intergenic | 40.0% | |
| CTTGAAGAAAGTGACAATGG+TGG | - | chr4.2:48010077-48010096 | MS.gene89978:CDS | 40.0% | |
| GTACCATTGTAGATGCTCTT+AGG | - | chr4.2:48009915-48009934 | MS.gene89978:CDS | 40.0% | |
| TCTCTGTTAATCTTCCTCTC+CGG | + | chr4.2:48009399-48009418 | None:intergenic | 40.0% | |
| !! | AGACCTAAGAGCATCTACAA+TGG | + | chr4.2:48009921-48009940 | None:intergenic | 40.0% |
| !!! | GCTCACTTTTTCAACTTGTC+TGG | + | chr4.2:48010138-48010157 | None:intergenic | 40.0% |
| AAGCAAGAAGCTTCCTTCGA+CGG | + | chr4.2:48009703-48009722 | None:intergenic | 45.0% | |
| CGTGCAAGTGTTAATGACGA+TGG | - | chr4.2:48009606-48009625 | MS.gene89978:intron | 45.0% | |
| GACGGTTGGAGATTTGATAG+CGG | - | chr4.2:48009633-48009652 | MS.gene89978:intron | 45.0% | |
| GAGTTTCCACATGGCTGTTA+CGG | + | chr4.2:48009375-48009394 | None:intergenic | 45.0% | |
| GCCGACGAAGTTACTCATTA+AGG | - | chr4.2:48009558-48009577 | MS.gene89978:intron | 45.0% | |
| GTTAATGACGATGGAGTCGA+CGG | - | chr4.2:48009615-48009634 | MS.gene89978:intron | 45.0% | |
| TAAACGACGCCGTTACGTTA+TGG | + | chr4.2:48010106-48010125 | None:intergenic | 45.0% | |
| TGGTGGAGACCATAACGTAA+CGG | - | chr4.2:48010094-48010113 | MS.gene89978:CDS | 45.0% | |
| !! | ATTTGATAGCGGAGGCTGTA+AGG | - | chr4.2:48009644-48009663 | MS.gene89978:intron | 45.0% |
| AAACCACCGTAACAGCCATG+TGG | - | chr4.2:48009366-48009385 | MS.gene89978:CDS | 50.0% | |
| ACAAGGTCCGGCATAGTCTT+TGG | + | chr4.2:48009481-48009500 | None:intergenic | 50.0% | |
| ACACTTCTGCAACACTGTCC+GGG | - | chr4.2:48009440-48009459 | MS.gene89978:CDS | 50.0% | |
| ACAGCCATGTGGAAACTCAC+CGG | - | chr4.2:48009377-48009396 | MS.gene89978:CDS | 50.0% | |
| CACACTTCTGCAACACTGTC+CGG | - | chr4.2:48009439-48009458 | MS.gene89978:CDS | 50.0% | |
| GGCTGTCTGGGAAAAAACTC+CGG | + | chr4.2:48009541-48009560 | None:intergenic | 50.0% | |
| TGTCTGGGAAAAAACTCCGG+TGG | + | chr4.2:48009538-48009557 | None:intergenic | 50.0% | |
| TTAACACTTGCACGGGACCA+AGG | + | chr4.2:48009600-48009619 | None:intergenic | 50.0% | |
| TTTCCACATGGCTGTTACGG+TGG | + | chr4.2:48009372-48009391 | None:intergenic | 50.0% | |
| ! | AGTAACTTCGTCGGCTGTCT+GGG | + | chr4.2:48009553-48009572 | None:intergenic | 50.0% |
| !! | GGTTGGAGATTTGATAGCGG+AGG | - | chr4.2:48009636-48009655 | MS.gene89978:intron | 50.0% |
| ATGACGATGGAGTCGACGGT+TGG | - | chr4.2:48009619-48009638 | MS.gene89978:intron | 55.0% | |
| CACTTCTGCAACACTGTCCG+GGG | - | chr4.2:48009441-48009460 | MS.gene89978:CDS | 55.0% | |
| CATGTGGAAACTCACCGGAG+AGG | - | chr4.2:48009382-48009401 | MS.gene89978:CDS | 55.0% | |
| CCTTCGACGGCAAGATTGGA+CGG | + | chr4.2:48009690-48009709 | None:intergenic | 55.0% | |
| CTCTCCGGTGAGTTTCCACA+TGG | + | chr4.2:48009384-48009403 | None:intergenic | 55.0% | |
| GCTTCCTTCGACGGCAAGAT+TGG | + | chr4.2:48009694-48009713 | None:intergenic | 55.0% | |
| GGCAATGACTTCTTCGCCAC+CGG | - | chr4.2:48009519-48009538 | MS.gene89978:CDS | 55.0% | |
| TTCCTGTCCTGGACAAGGTC+CGG | + | chr4.2:48009493-48009512 | None:intergenic | 55.0% | |
| ! | GAGTAACTTCGTCGGCTGTC+TGG | + | chr4.2:48009554-48009573 | None:intergenic | 55.0% |
| !! | GTTACGATGATGGGCAGCCT+TGG | - | chr4.2:48009580-48009599 | MS.gene89978:intron | 55.0% |
| CACGCTTCCTGTCCTGGACA+AGG | + | chr4.2:48009498-48009517 | None:intergenic | 60.0% | |
| CACTGTCCGGGGCAAAACTC+CGG | - | chr4.2:48009452-48009471 | MS.gene89978:CDS | 60.0% | |
| CCGTCCAATCTTGCCGTCGA+AGG | - | chr4.2:48009687-48009706 | MS.gene89978:intron | 60.0% | |
| GACTATGCCGGACCTTGTCC+AGG | - | chr4.2:48009483-48009502 | MS.gene89978:CDS | 60.0% | |
| ! | TGTCCAGGACAGGAAGCGTG+CGG | - | chr4.2:48009498-48009517 | MS.gene89978:CDS | 60.0% |
| CCGGCATAGTCTTTGGCCGC+CGG | + | chr4.2:48009474-48009493 | None:intergenic | 65.0% | |
| CCGGCGGCCAAAGACTATGC+CGG | - | chr4.2:48009471-48009490 | MS.gene89978:CDS | 65.0% | |
| TGCCGGACCTTGTCCAGGAC+AGG | - | chr4.2:48009488-48009507 | MS.gene89978:CDS | 65.0% | |
| TGTCCGGGGCAAAACTCCGG+CGG | - | chr4.2:48009455-48009474 | MS.gene89978:CDS | 65.0% | |
| TTGCCGCACGCTTCCTGTCC+TGG | + | chr4.2:48009504-48009523 | None:intergenic | 65.0% | |
| ! | TGGCCGCCGGAGTTTTGCCC+CGG | + | chr4.2:48009461-48009480 | None:intergenic | 70.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr4.2 | gene | 48009352 | 48010199 | 48009352 | ID=MS.gene89978 |
| chr4.2 | mRNA | 48009352 | 48010199 | 48009352 | ID=MS.gene89978.t1;Parent=MS.gene89978 |
| chr4.2 | exon | 48009797 | 48010199 | 48009797 | ID=MS.gene89978.t1.exon1;Parent=MS.gene89978.t1 |
| chr4.2 | CDS | 48009797 | 48010199 | 48009797 | ID=cds.MS.gene89978.t1;Parent=MS.gene89978.t1 |
| chr4.2 | exon | 48009352 | 48009539 | 48009352 | ID=MS.gene89978.t1.exon2;Parent=MS.gene89978.t1 |
| chr4.2 | CDS | 48009352 | 48009539 | 48009352 | ID=cds.MS.gene89978.t1;Parent=MS.gene89978.t1 |
| Gene Sequence |
| Protein sequence |
