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.gene20230.t1 | XP_003625582.1 | 88.7 | 142 | 4 | 1 | 1 | 130 | 1 | 142 | 7.50E-61 | 243 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene20230.t1 | P49201 | 85.9 | 142 | 8 | 1 | 1 | 130 | 1 | 142 | 9.8e-62 | 237.3 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene20230.t1 | B7FHD2 | 88.7 | 142 | 4 | 1 | 1 | 130 | 1 | 142 | 5.4e-61 | 243.0 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049255 | MS.gene20230 | 0.84612 | 2.65E-59 | -1.69E-46 |
| MS.gene049341 | MS.gene20230 | 0.807786 | 4.26E-50 | -1.69E-46 |
| MS.gene049850 | MS.gene20230 | 0.801297 | 9.62E-49 | -1.69E-46 |
| MS.gene050020 | MS.gene20230 | 0.80069 | 1.28E-48 | -1.69E-46 |
| MS.gene050689 | MS.gene20230 | 0.808501 | 3.00E-50 | -1.69E-46 |
| MS.gene050901 | MS.gene20230 | 0.812637 | 3.84E-51 | -1.69E-46 |
| MS.gene051247 | MS.gene20230 | 0.801419 | 9.08E-49 | -1.69E-46 |
| MS.gene051328 | MS.gene20230 | 0.841451 | 4.72E-58 | -1.69E-46 |
| MS.gene05134 | MS.gene20230 | 0.829215 | 5.83E-55 | -1.69E-46 |
| MS.gene05157 | MS.gene20230 | 0.827992 | 1.15E-54 | -1.69E-46 |
| MS.gene051700 | MS.gene20230 | 0.801339 | 9.44E-49 | -1.69E-46 |
| MS.gene051720 | MS.gene20230 | 0.801556 | 8.52E-49 | -1.69E-46 |
| MS.gene051744 | MS.gene20230 | 0.800709 | 1.27E-48 | -1.69E-46 |
| MS.gene051791 | MS.gene20230 | 0.804147 | 2.48E-49 | -1.69E-46 |
| MS.gene05188 | MS.gene20230 | 0.820558 | 6.44E-53 | -1.69E-46 |
| MS.gene052133 | MS.gene20230 | 0.801041 | 1.09E-48 | -1.69E-46 |
| MS.gene052879 | MS.gene20230 | 0.817423 | 3.32E-52 | -1.69E-46 |
| MS.gene052880 | MS.gene20230 | 0.812493 | 4.12E-51 | -1.69E-46 |
| MS.gene052947 | MS.gene20230 | 0.825723 | 4.01E-54 | -1.69E-46 |
| MS.gene053122 | MS.gene20230 | 0.83689 | 7.18E-57 | -1.69E-46 |
| MS.gene053226 | MS.gene20230 | 0.833485 | 5.19E-56 | -1.69E-46 |
| MS.gene055466 | MS.gene20230 | 0.812128 | 4.96E-51 | -1.69E-46 |
| MS.gene055580 | MS.gene20230 | -0.827608 | 1.42E-54 | -1.69E-46 |
| MS.gene055808 | MS.gene20230 | 0.815539 | 8.78E-52 | -1.69E-46 |
| MS.gene056043 | MS.gene20230 | -0.803486 | 3.41E-49 | -1.69E-46 |
| MS.gene056215 | MS.gene20230 | 0.849152 | 3.88E-60 | -1.69E-46 |
| MS.gene057693 | MS.gene20230 | 0.801333 | 9.46E-49 | -1.69E-46 |
| MS.gene057705 | MS.gene20230 | 0.802853 | 4.61E-49 | -1.69E-46 |
| MS.gene05978 | MS.gene20230 | 0.8097 | 1.66E-50 | -1.69E-46 |
| MS.gene059842 | MS.gene20230 | 0.814805 | 1.28E-51 | -1.69E-46 |
| MS.gene06001 | MS.gene20230 | 0.824056 | 9.92E-54 | -1.69E-46 |
| MS.gene060429 | MS.gene20230 | 0.900273 | 8.64E-78 | -1.69E-46 |
| MS.gene060587 | MS.gene20230 | 0.806229 | 9.10E-50 | -1.69E-46 |
| MS.gene060917 | MS.gene20230 | 0.830775 | 2.43E-55 | -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.gene20230.t1 | MTR_7g100720 | 88.732 | 142 | 4 | 1 | 1 | 130 | 1 | 142 | 5.96e-85 | 244 |
| MS.gene20230.t1 | MTR_1g066860 | 83.099 | 142 | 12 | 1 | 1 | 130 | 1 | 142 | 3.96e-79 | 229 |
| MS.gene20230.t1 | MTR_1g066860 | 83.088 | 136 | 11 | 1 | 7 | 130 | 1 | 136 | 4.39e-75 | 219 |
| MS.gene20230.t1 | MTR_7g061155 | 85.593 | 118 | 5 | 1 | 25 | 130 | 138 | 255 | 2.63e-65 | 199 |
| MS.gene20230.t1 | MTR_7g063460 | 61.111 | 54 | 19 | 1 | 43 | 96 | 29 | 80 | 5.00e-15 | 65.9 |
| MS.gene20230.t1 | MTR_8g447270 | 65.385 | 52 | 16 | 1 | 43 | 94 | 18 | 67 | 3.66e-14 | 64.3 |
| MS.gene20230.t1 | MTR_4g038400 | 67.347 | 49 | 13 | 1 | 44 | 92 | 103 | 148 | 1.63e-12 | 60.8 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene20230.t1 | AT5G02960 | 85.915 | 142 | 8 | 1 | 1 | 130 | 1 | 142 | 1.15e-82 | 239 |
| MS.gene20230.t1 | AT3G09680 | 83.803 | 142 | 11 | 1 | 1 | 130 | 1 | 142 | 1.61e-80 | 233 |
Find 36 sgRNAs with CRISPR-Local
Find 67 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TTCAAGGTCGTGAAGGTTTC+TGG | 0.178129 | 7.1:+7803604 | MS.gene20230:CDS |
| GAAGTCTTGATCGCTGGATT+TGG | 0.312989 | 7.1:+7803541 | MS.gene20230:CDS |
| TAATTCAAGCAACCATCATT+TGG | 0.323107 | 7.1:-7803365 | None:intergenic |
| CATGCTGTTGGTGATATTCC+TGG | 0.406074 | 7.1:+7803574 | MS.gene20230:CDS |
| AATTCAAGCAACCATCATTT+GGG | 0.428558 | 7.1:-7803364 | None:intergenic |
| CACTTACGAATGGCAGAGTT+GGG | 0.434931 | 7.1:-7803293 | None:intergenic |
| CTGCCATTCGTAAGTGTGCT+AGG | 0.435504 | 7.1:+7803300 | MS.gene20230:CDS |
| TTGGTGATATTCCTGGAGTC+AGG | 0.441270 | 7.1:+7803581 | MS.gene20230:CDS |
| AGCATGGGATGAACCAGAAA+AGG | 0.446685 | 7.1:-7803122 | None:intergenic |
| AATTTAAGAAATCTCATCTT+GGG | 0.454713 | 7.1:+7803082 | MS.gene20230:CDS |
| AATCTCATCTTGGGAATGAA+TGG | 0.457554 | 7.1:+7803091 | MS.gene20230:CDS |
| CAATTTAAGAAATCTCATCT+TGG | 0.461581 | 7.1:+7803081 | MS.gene20230:CDS |
| CAGCCCACCTTTGCTTGATA+CGG | 0.462913 | 7.1:-7803053 | None:intergenic |
| TAGGATGAAGTCTTGATCGC+TGG | 0.469665 | 7.1:+7803535 | MS.gene20230:intron |
| GCTGCCTTTGTCCCAAATGA+TGG | 0.476668 | 7.1:+7803353 | MS.gene20230:CDS |
| TGCAGGAAGACAAGAGGAAT+GGG | 0.492442 | 7.1:+7803006 | MS.gene20230:intron |
| ACACTTACGAATGGCAGAGT+TGG | 0.515105 | 7.1:-7803294 | None:intergenic |
| ATCGCTGGATTTGGACGTAA+AGG | 0.518707 | 7.1:+7803550 | MS.gene20230:CDS |
| GCATGGGATGAACCAGAAAA+GGG | 0.518943 | 7.1:-7803121 | None:intergenic |
| AGGAGAAGAAGGAGAAGCCT+AGG | 0.519158 | 7.1:+7803650 | MS.gene20230:CDS |
| TATTCCTGGAGTCAGGTTCA+AGG | 0.524415 | 7.1:+7803588 | MS.gene20230:CDS |
| CTGCAGGAAGACAAGAGGAA+TGG | 0.532735 | 7.1:+7803005 | MS.gene20230:intron |
| TGCCATTCGTAAGTGTGCTA+GGG | 0.546102 | 7.1:+7803301 | MS.gene20230:CDS |
| GCAACCATCATTTGGGACAA+AGG | 0.566362 | 7.1:-7803357 | None:intergenic |
| TGGGAGCTGCTCGCAAGCTG+AGG | 0.577320 | 7.1:+7803025 | MS.gene20230:CDS |
| ACGACCTTGAACCTGACTCC+AGG | 0.578153 | 7.1:-7803592 | None:intergenic |
| GACTCCGTATCAAGCAAAGG+TGG | 0.586634 | 7.1:+7803049 | MS.gene20230:CDS |
| TCTTCTCCTTGAAAAGAGCA+AGG | 0.589001 | 7.1:-7803636 | None:intergenic |
| TTTGTCTGCAGGAAGACAAG+AGG | 0.606196 | 7.1:+7803000 | MS.gene20230:intron |
| GGACGTAAAGGTCATGCTGT+TGG | 0.616141 | 7.1:+7803562 | MS.gene20230:CDS |
| AACCCTAGCACACTTACGAA+TGG | 0.626506 | 7.1:-7803303 | None:intergenic |
| TGGTTGCTTGAATTACATTG+AGG | 0.642212 | 7.1:+7803373 | MS.gene20230:CDS |
| AGTCAGGTTCAAGGTCGTGA+AGG | 0.647492 | 7.1:+7803597 | MS.gene20230:CDS |
| ACTCCGTATCAAGCAAAGGT+GGG | 0.652737 | 7.1:+7803050 | MS.gene20230:CDS |
| GGAGACTCCGTATCAAGCAA+AGG | 0.654928 | 7.1:+7803046 | MS.gene20230:CDS |
| ATCCCACAACTTCAAGACCT+AGG | 0.665200 | 7.1:-7803667 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | GAAAAAATTTAGTTAATTTT+AGG | + | chr7.1:7802911-7802930 | MS.gene20230:intron | 10.0% |
| !!! | ATTTGTATATTTCTAGTATT+AGG | + | chr7.1:7802757-7802776 | MS.gene20230:intron | 15.0% |
| !! | AAGATATATTTAGTAGTAAG+AGG | - | chr7.1:7803186-7803205 | None:intergenic | 20.0% |
| !! | AATTTAAGAAATCTCATCTT+GGG | + | chr7.1:7803082-7803101 | MS.gene20230:CDS | 20.0% |
| !! | TGTAGTTTACATAGTATTAA+AGG | - | chr7.1:7803475-7803494 | None:intergenic | 20.0% |
| !!! | AATTTAGTTAATTTTAGGCA+TGG | + | chr7.1:7802916-7802935 | MS.gene20230:intron | 20.0% |
| ! | AATTAACATAACAGACTCAA+AGG | - | chr7.1:7803449-7803468 | None:intergenic | 25.0% |
| ! | AGGGTTCAATTAATCAAAAA+TGG | + | chr7.1:7803320-7803339 | MS.gene20230:CDS | 25.0% |
| ! | CAATTTAAGAAATCTCATCT+TGG | + | chr7.1:7803081-7803100 | MS.gene20230:CDS | 25.0% |
| ! | GGGTTCAATTAATCAAAAAT+GGG | + | chr7.1:7803321-7803340 | MS.gene20230:CDS | 25.0% |
| ! | TATGATGTTAAGGATTTGTA+TGG | + | chr7.1:7803237-7803256 | MS.gene20230:intron | 25.0% |
| ! | TTATTACGCATATGATGTTA+AGG | + | chr7.1:7803227-7803246 | MS.gene20230:intron | 25.0% |
| ! | TTCAAATACGACAATTAGAA+TGG | - | chr7.1:7802557-7802576 | None:intergenic | 25.0% |
| ! | TTTGAATTTGACTCTGAATT+TGG | + | chr7.1:7802571-7802590 | MS.gene20230:intron | 25.0% |
| !!! | GAATTTTTTGCTACTTAGTA+TGG | + | chr7.1:7802693-7802712 | MS.gene20230:intron | 25.0% |
| AATTCAAGCAACCATCATTT+GGG | - | chr7.1:7803367-7803386 | None:intergenic | 30.0% | |
| ATCATCAACAACCATATTAC+TGG | - | chr7.1:7803509-7803528 | None:intergenic | 30.0% | |
| ATGTATATCCTCCAGTAATA+TGG | + | chr7.1:7803495-7803514 | MS.gene20230:intron | 30.0% | |
| GGAACACAAAAACATGAAAT+AGG | + | chr7.1:7802637-7802656 | MS.gene20230:intron | 30.0% | |
| TAATTCAAGCAACCATCATT+TGG | - | chr7.1:7803368-7803387 | None:intergenic | 30.0% | |
| ! | AGTAATATGGTTGTTGATGA+TGG | + | chr7.1:7803508-7803527 | MS.gene20230:intron | 30.0% |
| ! | ATTCGCTTCATTTGAAATCA+TGG | + | chr7.1:7802793-7802812 | MS.gene20230:intron | 30.0% |
| ! | TTTGTTTATCTTTTGTCTGC+AGG | + | chr7.1:7802989-7803008 | MS.gene20230:intron | 30.0% |
| ! | TTTTATGTGTAGTGGTATTG+AGG | + | chr7.1:7803262-7803281 | MS.gene20230:intron | 30.0% |
| AAGAACAATTCCCTTAGCAT+GGG | - | chr7.1:7803140-7803159 | None:intergenic | 35.0% | |
| AATCTCATCTTGGGAATGAA+TGG | + | chr7.1:7803091-7803110 | MS.gene20230:CDS | 35.0% | |
| ATCAACAACCATATTACTGG+AGG | - | chr7.1:7803506-7803525 | None:intergenic | 35.0% | |
| TGGTTGCTTGAATTACATTG+AGG | + | chr7.1:7803373-7803392 | MS.gene20230:CDS | 35.0% | |
| ! | AATGGAAGAAAACCCTTTTC+TGG | + | chr7.1:7803109-7803128 | MS.gene20230:CDS | 35.0% |
| ! | CTGTTTGCTTTCTGAGAATT+GGG | + | chr7.1:7802616-7802635 | MS.gene20230:intron | 35.0% |
| ! | GTATGGTCTTTTATGTGTAG+TGG | + | chr7.1:7803254-7803273 | MS.gene20230:intron | 35.0% |
| ! | TCTGTTTGCTTTCTGAGAAT+TGG | + | chr7.1:7802615-7802634 | MS.gene20230:intron | 35.0% |
| CAAGAACAATTCCCTTAGCA+TGG | - | chr7.1:7803141-7803160 | None:intergenic | 40.0% | |
| TCTTCTCCTTGAAAAGAGCA+AGG | - | chr7.1:7803639-7803658 | None:intergenic | 40.0% | |
| !! | GGTTGTTGATGATGGTTTGT+AGG | + | chr7.1:7803516-7803535 | MS.gene20230:intron | 40.0% |
| !! | TGCTCTTTTCAAGGAGAAGA+AGG | + | chr7.1:7803639-7803658 | MS.gene20230:CDS | 40.0% |
| AACCCTAGCACACTTACGAA+TGG | - | chr7.1:7803306-7803325 | None:intergenic | 45.0% | |
| ACACTTACGAATGGCAGAGT+TGG | - | chr7.1:7803297-7803316 | None:intergenic | 45.0% | |
| ACTCCGTATCAAGCAAAGGT+GGG | + | chr7.1:7803050-7803069 | MS.gene20230:CDS | 45.0% | |
| AGCATGGGATGAACCAGAAA+AGG | - | chr7.1:7803125-7803144 | None:intergenic | 45.0% | |
| ATCGCTGGATTTGGACGTAA+AGG | + | chr7.1:7803550-7803569 | MS.gene20230:CDS | 45.0% | |
| CACTTACGAATGGCAGAGTT+GGG | - | chr7.1:7803296-7803315 | None:intergenic | 45.0% | |
| GAAGTCTTGATCGCTGGATT+TGG | + | chr7.1:7803541-7803560 | MS.gene20230:CDS | 45.0% | |
| GCATGGGATGAACCAGAAAA+GGG | - | chr7.1:7803124-7803143 | None:intergenic | 45.0% | |
| TAGGATGAAGTCTTGATCGC+TGG | + | chr7.1:7803535-7803554 | MS.gene20230:intron | 45.0% | |
| TATTCCTGGAGTCAGGTTCA+AGG | + | chr7.1:7803588-7803607 | MS.gene20230:CDS | 45.0% | |
| TGCAGGAAGACAAGAGGAAT+GGG | + | chr7.1:7803006-7803025 | MS.gene20230:intron | 45.0% | |
| TGCCATTCGTAAGTGTGCTA+GGG | + | chr7.1:7803301-7803320 | MS.gene20230:CDS | 45.0% | |
| TTCAAGGTCGTGAAGGTTTC+TGG | + | chr7.1:7803604-7803623 | MS.gene20230:CDS | 45.0% | |
| TTTGTCTGCAGGAAGACAAG+AGG | + | chr7.1:7803000-7803019 | MS.gene20230:intron | 45.0% | |
| ! | CTCTCTCCTTGCTCTTTTCA+AGG | + | chr7.1:7803630-7803649 | MS.gene20230:CDS | 45.0% |
| ! | GCAACCATCATTTGGGACAA+AGG | - | chr7.1:7803360-7803379 | None:intergenic | 45.0% |
| ! | TCTGGTTCATCCCATGCTAA+GGG | + | chr7.1:7803127-7803146 | MS.gene20230:intron | 45.0% |
| ! | TTGGTGATATTCCTGGAGTC+AGG | + | chr7.1:7803581-7803600 | MS.gene20230:CDS | 45.0% |
| !! | CATGCTGTTGGTGATATTCC+TGG | + | chr7.1:7803574-7803593 | MS.gene20230:CDS | 45.0% |
| !! | TTCTGGTTCATCCCATGCTA+AGG | + | chr7.1:7803126-7803145 | MS.gene20230:intron | 45.0% |
| AGGAGAAGAAGGAGAAGCCT+AGG | + | chr7.1:7803650-7803669 | MS.gene20230:CDS | 50.0% | |
| AGTCAGGTTCAAGGTCGTGA+AGG | + | chr7.1:7803597-7803616 | MS.gene20230:CDS | 50.0% | |
| CAGCCCACCTTTGCTTGATA+CGG | - | chr7.1:7803056-7803075 | None:intergenic | 50.0% | |
| CTGCAGGAAGACAAGAGGAA+TGG | + | chr7.1:7803005-7803024 | MS.gene20230:intron | 50.0% | |
| CTGCCATTCGTAAGTGTGCT+AGG | + | chr7.1:7803300-7803319 | MS.gene20230:CDS | 50.0% | |
| GACTCCGTATCAAGCAAAGG+TGG | + | chr7.1:7803049-7803068 | MS.gene20230:CDS | 50.0% | |
| GCTGCCTTTGTCCCAAATGA+TGG | + | chr7.1:7803353-7803372 | MS.gene20230:CDS | 50.0% | |
| GGACGTAAAGGTCATGCTGT+TGG | + | chr7.1:7803562-7803581 | MS.gene20230:CDS | 50.0% | |
| GGAGACTCCGTATCAAGCAA+AGG | + | chr7.1:7803046-7803065 | MS.gene20230:CDS | 50.0% | |
| ACGACCTTGAACCTGACTCC+AGG | - | chr7.1:7803595-7803614 | None:intergenic | 55.0% | |
| TGGGAGCTGCTCGCAAGCTG+AGG | + | chr7.1:7803025-7803044 | MS.gene20230:CDS | 65.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7.1 | gene | 7802481 | 7803678 | 7802481 | ID=MS.gene20230 |
| chr7.1 | mRNA | 7802481 | 7803678 | 7802481 | ID=MS.gene20230.t1;Parent=MS.gene20230 |
| chr7.1 | exon | 7802481 | 7802485 | 7802481 | ID=MS.gene20230.t1.exon1;Parent=MS.gene20230.t1 |
| chr7.1 | CDS | 7802481 | 7802485 | 7802481 | ID=cds.MS.gene20230.t1;Parent=MS.gene20230.t1 |
| chr7.1 | exon | 7803011 | 7803130 | 7803011 | ID=MS.gene20230.t1.exon2;Parent=MS.gene20230.t1 |
| chr7.1 | CDS | 7803011 | 7803130 | 7803011 | ID=cds.MS.gene20230.t1;Parent=MS.gene20230.t1 |
| chr7.1 | exon | 7803274 | 7803400 | 7803274 | ID=MS.gene20230.t1.exon3;Parent=MS.gene20230.t1 |
| chr7.1 | CDS | 7803274 | 7803400 | 7803274 | ID=cds.MS.gene20230.t1;Parent=MS.gene20230.t1 |
| chr7.1 | exon | 7803538 | 7803678 | 7803538 | ID=MS.gene20230.t1.exon4;Parent=MS.gene20230.t1 |
| chr7.1 | CDS | 7803538 | 7803678 | 7803538 | ID=cds.MS.gene20230.t1;Parent=MS.gene20230.t1 |
| Gene Sequence |
| Protein sequence |
