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.gene25226.t1 | XP_024625148.1 | 98.7 | 159 | 2 | 0 | 1 | 159 | 271 | 429 | 6.10E-81 | 310.1 |
Swissprot:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene25226.t1 | Q8RWC5 | 82.4 | 159 | 23 | 1 | 1 | 159 | 273 | 426 | 4.3e-67 | 255.4 |
Trembl:
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene25226.t1 | A0A072U3I4 | 98.7 | 159 | 2 | 0 | 1 | 159 | 271 | 429 | 4.4e-81 | 310.1 |
TFs/TRs:
| Gene ID | Type | Classification |
|---|
Protein Kinases:
| Gene ID | Type | Classification |
|---|
Network:
Co-expression Network:
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|---|---|---|---|
| MS.gene049214 | MS.gene25226 | 0.814415 | 1.56E-51 | -1.69E-46 |
| MS.gene051768 | MS.gene25226 | 0.950243 | 2.46E-108 | -1.69E-46 |
| MS.gene052236 | MS.gene25226 | 0.820588 | 6.34E-53 | -1.69E-46 |
| MS.gene052427 | MS.gene25226 | 0.813007 | 3.18E-51 | -1.69E-46 |
| MS.gene05511 | MS.gene25226 | 0.833191 | 6.14E-56 | -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.gene25226.t1 | MTR_7g106760 | 98.742 | 159 | 2 | 0 | 1 | 159 | 271 | 429 | 2.84e-110 | 321 |
| MS.gene25226.t1 | MTR_4g050170 | 81.132 | 159 | 30 | 0 | 1 | 159 | 285 | 443 | 4.29e-88 | 265 |
| MS.gene25226.t1 | MTR_2g087810 | 76.101 | 159 | 33 | 2 | 1 | 159 | 262 | 415 | 6.66e-81 | 246 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| MS.gene25226.t1 | AT3G52370 | 81.875 | 160 | 21 | 2 | 1 | 159 | 265 | 417 | 7.82e-89 | 266 |
| MS.gene25226.t1 | AT3G52370 | 81.875 | 160 | 21 | 2 | 1 | 159 | 318 | 470 | 8.37e-89 | 267 |
| MS.gene25226.t1 | AT2G35860 | 82.390 | 159 | 23 | 1 | 1 | 159 | 273 | 426 | 1.71e-88 | 265 |
| MS.gene25226.t1 | AT5G06390 | 81.879 | 149 | 27 | 0 | 1 | 149 | 284 | 432 | 1.95e-85 | 258 |
| MS.gene25226.t1 | AT3G11700 | 90.000 | 130 | 13 | 0 | 1 | 130 | 287 | 416 | 3.33e-81 | 247 |
| MS.gene25226.t1 | AT5G05650 | 59.574 | 94 | 34 | 1 | 41 | 134 | 2 | 91 | 1.54e-34 | 117 |
Find 37 sgRNAs with CRISPR-Local
Find 39 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| CAATGAAATGGCGGATATTC+TGG | 0.243548 | 7.3:-7231187 | None:intergenic |
| TATAACGCCGTTAGAAGATT+TGG | 0.248988 | 7.3:-7230979 | MS.gene25226:CDS |
| TCTGACGGTTCTGTCAAATT+TGG | 0.285494 | 7.3:-7230904 | MS.gene25226:CDS |
| AGGATATGTTCTAACAGTTT+TGG | 0.293643 | 7.3:-7231118 | MS.gene25226:CDS |
| TTCGCCATTGCTTCATCATT+TGG | 0.302310 | 7.3:+7231093 | None:intergenic |
| CTACCGTCGGTGTAAATATC+AGG | 0.354622 | 7.3:+7230850 | None:intergenic |
| AACGTCGTTAGCAACGGAAA+TGG | 0.374579 | 7.3:-7231157 | MS.gene25226:CDS |
| GCCTCATAAAGTTGTTGCTC+AGG | 0.394027 | 7.3:-7230929 | MS.gene25226:CDS |
| ATAACGCCGTTAGAAGATTT+GGG | 0.405597 | 7.3:-7230978 | MS.gene25226:CDS |
| TGATAGTATATAATTTGTTC+CGG | 0.408846 | 7.3:+7231036 | None:intergenic |
| TTTCCGTTGCTAACGACGTT+AGG | 0.410525 | 7.3:+7231160 | None:intergenic |
| ACGTCGTTAGCAACGGAAAT+GGG | 0.422550 | 7.3:-7231156 | MS.gene25226:CDS |
| TCCTGAGCAACAACTTTATG+AGG | 0.429700 | 7.3:+7230928 | None:intergenic |
| TCATCTTCATTCTCTTCCTC+CGG | 0.431860 | 7.3:+7230790 | None:intergenic |
| CTCTCCTCCGTTTGATACTC+GGG | 0.454279 | 7.3:+7231006 | None:intergenic |
| ATTAACGACTGATCAATTAT+CGG | 0.461860 | 7.3:-7231070 | MS.gene25226:CDS |
| GACGGTAGAATTTCCGTTCA+AGG | 0.464023 | 7.3:-7230835 | MS.gene25226:CDS |
| ACTCTCCTCCGTTTGATACT+CGG | 0.469204 | 7.3:+7231005 | None:intergenic |
| AAGAATTCAATACCTCTCCT+TGG | 0.486760 | 7.3:+7230712 | None:intergenic |
| ATTTCCGTTCAAGGTATTGA+CGG | 0.497370 | 7.3:-7230826 | MS.gene25226:CDS |
| ATAATTTGTTCCGGTGCACC+TGG | 0.520254 | 7.3:+7231045 | None:intergenic |
| ATGGGTCGTTTAGTTTCTGA+AGG | 0.541305 | 7.3:-7231138 | MS.gene25226:CDS |
| TTAGAAGCAACTTTAACAAG+TGG | 0.547256 | 7.3:+7230736 | None:intergenic |
| GGCTCCAAATGATGAAGCAA+TGG | 0.555279 | 7.3:-7231097 | MS.gene25226:CDS |
| TTAAAGTTGCTTCTAAACCA+AGG | 0.557248 | 7.3:-7230729 | MS.gene25226:CDS |
| TATAATTCCCGAGTATCAAA+CGG | 0.563846 | 7.3:-7231013 | MS.gene25226:CDS |
| TCTTCATTCTCTTCCTCCGG+TGG | 0.568260 | 7.3:+7230793 | None:intergenic |
| ATTATCGGAACCAGGTGCAC+CGG | 0.569501 | 7.3:-7231055 | MS.gene25226:CDS |
| TAACCTAACGTCGTTAGCAA+CGG | 0.578368 | 7.3:-7231163 | MS.gene25226:CDS |
| AACACCGTCAATACCTTGAA+CGG | 0.599863 | 7.3:+7230822 | None:intergenic |
| GTTGTTGCTCAGGAATCTGA+CGG | 0.606043 | 7.3:-7230919 | MS.gene25226:CDS |
| GGTTCTGTCAAATTTGGTCA+CGG | 0.607360 | 7.3:-7230898 | MS.gene25226:CDS |
| ACTGATCAATTATCGGAACC+AGG | 0.656433 | 7.3:-7231063 | MS.gene25226:CDS |
| GTTGCTTCTAAACCAAGGAG+AGG | 0.661362 | 7.3:-7230724 | None:intergenic |
| GATCCTGATATTTACACCGA+CGG | 0.666955 | 7.3:-7230853 | MS.gene25226:CDS |
| TTGAACGGAAATTCTACCGT+CGG | 0.682101 | 7.3:+7230837 | None:intergenic |
| AATTCCCGAGTATCAAACGG+AGG | 0.728958 | 7.3:-7231010 | MS.gene25226:CDS |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !!! | TGATAGTATATAATTTGTTC+CGG | + | chr7.3:7230872-7230891 | None:intergenic | 20.0% |
| ! | ATTAACGACTGATCAATTAT+CGG | - | chr7.3:7230835-7230854 | MS.gene25226:CDS | 25.0% |
| !! | AATTTTCCCAAATCTTCTAA+CGG | + | chr7.3:7230936-7230955 | None:intergenic | 25.0% |
| TATAATTCCCGAGTATCAAA+CGG | - | chr7.3:7230892-7230911 | MS.gene25226:CDS | 30.0% | |
| TTAAAGTTGCTTCTAAACCA+AGG | - | chr7.3:7231176-7231195 | MS.gene25226:CDS | 30.0% | |
| TTAGAAGCAACTTTAACAAG+TGG | + | chr7.3:7231172-7231191 | None:intergenic | 30.0% | |
| ! | AGGATATGTTCTAACAGTTT+TGG | - | chr7.3:7230787-7230806 | MS.gene25226:CDS | 30.0% |
| ATAACGCCGTTAGAAGATTT+GGG | - | chr7.3:7230927-7230946 | MS.gene25226:CDS | 35.0% | |
| TATAACGCCGTTAGAAGATT+TGG | - | chr7.3:7230926-7230945 | MS.gene25226:CDS | 35.0% | |
| ! | TAACAAGTGGAGTTTTTGCA+CGG | + | chr7.3:7231159-7231178 | None:intergenic | 35.0% |
| !! | ATTTCCGTTCAAGGTATTGA+CGG | - | chr7.3:7231079-7231098 | MS.gene25226:CDS | 35.0% |
| AACACCGTCAATACCTTGAA+CGG | + | chr7.3:7231086-7231105 | None:intergenic | 40.0% | |
| ACTGATCAATTATCGGAACC+AGG | - | chr7.3:7230842-7230861 | MS.gene25226:CDS | 40.0% | |
| GATCCTGATATTTACACCGA+CGG | - | chr7.3:7231052-7231071 | MS.gene25226:CDS | 40.0% | |
| GGTTCTGTCAAATTTGGTCA+CGG | - | chr7.3:7231007-7231026 | MS.gene25226:CDS | 40.0% | |
| TAACCTAACGTCGTTAGCAA+CGG | - | chr7.3:7230742-7230761 | MS.gene25226:CDS | 40.0% | |
| TCATCTTCATTCTCTTCCTC+CGG | + | chr7.3:7231118-7231137 | None:intergenic | 40.0% | |
| TCCTGAGCAACAACTTTATG+AGG | + | chr7.3:7230980-7230999 | None:intergenic | 40.0% | |
| TCTGACGGTTCTGTCAAATT+TGG | - | chr7.3:7231001-7231020 | MS.gene25226:CDS | 40.0% | |
| TTCGCCATTGCTTCATCATT+TGG | + | chr7.3:7230815-7230834 | None:intergenic | 40.0% | |
| TTGAACGGAAATTCTACCGT+CGG | + | chr7.3:7231071-7231090 | None:intergenic | 40.0% | |
| ! | ATGGGTCGTTTAGTTTCTGA+AGG | - | chr7.3:7230767-7230786 | MS.gene25226:CDS | 40.0% |
| AACGTCGTTAGCAACGGAAA+TGG | - | chr7.3:7230748-7230767 | MS.gene25226:CDS | 45.0% | |
| AATTCCCGAGTATCAAACGG+AGG | - | chr7.3:7230895-7230914 | MS.gene25226:CDS | 45.0% | |
| ACGTCGTTAGCAACGGAAAT+GGG | - | chr7.3:7230749-7230768 | MS.gene25226:CDS | 45.0% | |
| ACTCTCCTCCGTTTGATACT+CGG | + | chr7.3:7230903-7230922 | None:intergenic | 45.0% | |
| CTACCGTCGGTGTAAATATC+AGG | + | chr7.3:7231058-7231077 | None:intergenic | 45.0% | |
| GACGGTAGAATTTCCGTTCA+AGG | - | chr7.3:7231070-7231089 | MS.gene25226:CDS | 45.0% | |
| GCCTCATAAAGTTGTTGCTC+AGG | - | chr7.3:7230976-7230995 | MS.gene25226:CDS | 45.0% | |
| GGCTCCAAATGATGAAGCAA+TGG | - | chr7.3:7230808-7230827 | MS.gene25226:CDS | 45.0% | |
| GTTGTTGCTCAGGAATCTGA+CGG | - | chr7.3:7230986-7231005 | MS.gene25226:CDS | 45.0% | |
| TTTCCGTTGCTAACGACGTT+AGG | + | chr7.3:7230748-7230767 | None:intergenic | 45.0% | |
| !! | ATAATTTGTTCCGGTGCACC+TGG | + | chr7.3:7230863-7230882 | None:intergenic | 45.0% |
| ATTATCGGAACCAGGTGCAC+CGG | - | chr7.3:7230850-7230869 | MS.gene25226:CDS | 50.0% | |
| CTCTCCTCCGTTTGATACTC+GGG | + | chr7.3:7230902-7230921 | None:intergenic | 50.0% | |
| TCTTCATTCTCTTCCTCCGG+TGG | + | chr7.3:7231115-7231134 | None:intergenic | 50.0% | |
| ! | GGAGTTTTTGCACGGCGAAT+AGG | + | chr7.3:7231151-7231170 | None:intergenic | 50.0% |
| ! | TGACGGTGTTCTTTTGCCAC+CGG | - | chr7.3:7231096-7231115 | MS.gene25226:CDS | 50.0% |
| ! | CGGTGTTCTTTTGCCACCGG+AGG | - | chr7.3:7231099-7231118 | MS.gene25226:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr7.3 | gene | 7230725 | 7231202 | 7230725 | ID=MS.gene25226 |
| chr7.3 | mRNA | 7230725 | 7231202 | 7230725 | ID=MS.gene25226.t1;Parent=MS.gene25226 |
| chr7.3 | exon | 7230725 | 7231202 | 7230725 | ID=MS.gene25226.t1.exon1;Parent=MS.gene25226.t1 |
| chr7.3 | CDS | 7230725 | 7231202 | 7230725 | ID=cds.MS.gene25226.t1;Parent=MS.gene25226.t1 |
| Gene Sequence |
| Protein sequence |
