PlantPathMarks Database

Statistics

Number of enzymes: 1

Total Number of designed primers: 15

Number of PGTM primers: 4

Number of PMTM primers: 11

Number of Failed designed PMTM primers: 1

Enzyme Id: K00511
	Gene Information
NCBI Gene Accession Number & Symbol	Accession Number: 103334961 NCBI Gene Symbol: LOC103334961
Gene Aliases
Gene description & Other designations	Description: squalene monooxygenase-like Other designations: squalene monooxygenase-like
Chromosome, Strand & Exon count	Chromosome: LG6 Strand: minus Exon count: 9
Gene Location within genomic sequence	Genomic accession No. NC_024131.1 Gene Start and end within genomic accession: 6142397 ...... 6145761
CDS Sequence	103334961
	Marker Information
Marker Type	PMTM
Repeat type & sequence	Repeat type: Hexa Repeat sequence: (AAGTAC)2
Repeat start & end within CDS	Repeat start: 183 Repeat end: 194
Forward primer	Primer sequence: CACTGCTGGGGTTTGCTTTC Tm(°C): 59.967 GC (%): 55 Size: 20
Reverse primer	Primer sequence: CAACCCCAGCACCAACAATG Tm(°C): 59.966 GC (%): 55 Size: 20
Primer start, end within sequence and product size	Start: 58 End: 222 Product size (bp): 165
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Enzyme Id: K00511
	Gene Information
NCBI Gene Accession Number & Symbol	Accession Number: 103334961 NCBI Gene Symbol: LOC103334961
Gene Aliases
Gene description & Other designations	Description: squalene monooxygenase-like Other designations: squalene monooxygenase-like
Chromosome, Strand & Exon count	Chromosome: LG6 Strand: minus Exon count: 9
Gene Location within genomic sequence	Genomic accession No. NC_024131.1 Gene Start and end within genomic accession: 6142397 ...... 6145761
CDS Sequence	103334961
	Marker Information
Marker Type	PMTM
Repeat type & sequence	Repeat type: Compound Repeat sequence: (CT)4gcgatcctaaggttgatattccttcatgttttg(TTGGT)2
Repeat start & end within CDS	Repeat start: 696 Repeat end: 746
Forward primer	Primer sequence: GATGTGGCTGGGAGAAGCTT Tm(°C): 60.035 GC (%): 55 Size: 20
Reverse primer	Primer sequence: ACATGCCCGTAGTTTGCGTA Tm(°C): 60.037 GC (%): 50 Size: 20
Primer start, end within sequence and product size	Start: 468 End: 787 Product size (bp): 320
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Enzyme Id: K00511
	Gene Information
NCBI Gene Accession Number & Symbol	Accession Number: 103334961 NCBI Gene Symbol: LOC103334961
Gene Aliases
Gene description & Other designations	Description: squalene monooxygenase-like Other designations: squalene monooxygenase-like
Chromosome, Strand & Exon count	Chromosome: LG6 Strand: minus Exon count: 9
Gene Location within genomic sequence	Genomic accession No. NC_024131.1 Gene Start and end within genomic accession: 6142397 ...... 6145761
CDS Sequence	103334961
	Marker Information
Marker Type	PGTM
Repeat type & sequence	Repeat type: Repeat sequence:
Repeat start & end within CDS	Repeat start: Repeat end:
Forward primer	Primer sequence: GGGGGATGCTGTCAACATGA Tm(°C): 60.034 GC (%): 55 Size: 20
Reverse primer	Primer sequence: TAGTCGAAGCATGCTAGGCG Tm(°C): 59.969 GC (%): 55 Size: 20
Primer start, end within sequence and product size	Start: 1049 End: 1312 Product size (bp): 264
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Enzyme Id: K00511
	Gene Information
NCBI Gene Accession Number & Symbol	Accession Number: 103334962 NCBI Gene Symbol: LOC103334962
Gene Aliases
Gene description & Other designations	Description: squalene monooxygenase-like Other designations: squalene monooxygenase-like
Chromosome, Strand & Exon count	Chromosome: LG6 Strand: minus Exon count: 8
Gene Location within genomic sequence	Genomic accession No. NC_024131.1 Gene Start and end within genomic accession: 6151517 ...... 6154874
CDS Sequence	103334962
	Marker Information
Marker Type	PMTM
Repeat type & sequence	Repeat type: Penta Repeat sequence: (GAGAT)2
Repeat start & end within CDS	Repeat start: 628 Repeat end: 637
Forward primer	Primer sequence: AGGGCATCATCAAGGGTGTG Tm(°C): 60.034 GC (%): 55 Size: 20
Reverse primer	Primer sequence: GTGCCAGGTACATCGACCAA Tm(°C): 60.037 GC (%): 55 Size: 20
Primer start, end within sequence and product size	Start: 583 End: 862 Product size (bp): 280
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Enzyme Id: K00511
	Gene Information
NCBI Gene Accession Number & Symbol	Accession Number: 103334962 NCBI Gene Symbol: LOC103334962
Gene Aliases
Gene description & Other designations	Description: squalene monooxygenase-like Other designations: squalene monooxygenase-like
Chromosome, Strand & Exon count	Chromosome: LG6 Strand: minus Exon count: 8
Gene Location within genomic sequence	Genomic accession No. NC_024131.1 Gene Start and end within genomic accession: 6151517 ...... 6154874
CDS Sequence	103334962
	Marker Information
Marker Type	PMTM
Repeat type & sequence	Repeat type: Tri Repeat sequence: (GGA)3
Repeat start & end within CDS	Repeat start: 1078 Repeat end: 1086
Forward primer	Primer sequence: GGTCGATGTACCTGGCACAA Tm(°C): 60.037 GC (%): 55 Size: 20
Reverse primer	Primer sequence: GGTGCATCAGTGAGATCGGT Tm(°C): 59.823 GC (%): 55 Size: 20
Primer start, end within sequence and product size	Start: 845 End: 1159 Product size (bp): 315
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Enzyme Id: K00511
	Gene Information
NCBI Gene Accession Number & Symbol	Accession Number: 103334962 NCBI Gene Symbol: LOC103334962
Gene Aliases
Gene description & Other designations	Description: squalene monooxygenase-like Other designations: squalene monooxygenase-like
Chromosome, Strand & Exon count	Chromosome: LG6 Strand: minus Exon count: 8
Gene Location within genomic sequence	Genomic accession No. NC_024131.1 Gene Start and end within genomic accession: 6151517 ...... 6154874
CDS Sequence	103334962
	Marker Information
Marker Type	PMTM
Repeat type & sequence	Repeat type: Penta Repeat sequence: (CAAGA)2
Repeat start & end within CDS	Repeat start: 1274 Repeat end: 1283
Forward primer	Primer sequence: GGAGGAGGAATGACTGTGGC Tm(°C): 60.107 GC (%): 60 Size: 20
Reverse primer	Primer sequence: GTGCATCGGACGAGGGTTAA Tm(°C): 60.109 GC (%): 55 Size: 20
Primer start, end within sequence and product size	Start: 1077 End: 1379 Product size (bp): 303
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Enzyme Id: K00511
	Gene Information
NCBI Gene Accession Number & Symbol	Accession Number: 103334962 NCBI Gene Symbol: LOC103334962
Gene Aliases
Gene description & Other designations	Description: squalene monooxygenase-like Other designations: squalene monooxygenase-like
Chromosome, Strand & Exon count	Chromosome: LG6 Strand: minus Exon count: 8
Gene Location within genomic sequence	Genomic accession No. NC_024131.1 Gene Start and end within genomic accession: 6151517 ...... 6154874
CDS Sequence	103334962
	Marker Information
Marker Type	PMTM
Repeat type & sequence	Repeat type: Penta Repeat sequence: (ATTCC)2
Repeat start & end within CDS	Repeat start: 1432 Repeat end: 1441
Forward primer	Primer sequence: TCTCCGGTCTTAACCCTCGT Tm(°C): 59.961 GC (%): 55 Size: 20
Reverse primer	Primer sequence: TGGGATTGTTGCAGGGAAGA Tm(°C): 59.223 GC (%): 50 Size: 20
Primer start, end within sequence and product size	Start: 1351 End: 1556 Product size (bp): 206
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Enzyme Id: K00511
	Gene Information
NCBI Gene Accession Number & Symbol	Accession Number: 103334962 NCBI Gene Symbol: LOC103334962
Gene Aliases
Gene description & Other designations	Description: squalene monooxygenase-like Other designations: squalene monooxygenase-like
Chromosome, Strand & Exon count	Chromosome: LG6 Strand: minus Exon count: 8
Gene Location within genomic sequence	Genomic accession No. NC_024131.1 Gene Start and end within genomic accession: 6151517 ...... 6154874
CDS Sequence	103334962
	Marker Information
Marker Type	PMTM
Repeat type & sequence	Repeat type: Tri Repeat sequence: (CTC)4
Repeat start & end within CDS	Repeat start: 1571 Repeat end: 1582
Forward primer	Primer sequence: None Tm(°C): GC (%): Size:
Reverse primer	Primer sequence: None Tm(°C): GC (%): Size:
Primer start, end within sequence and product size	Start: End: Product size (bp):
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Enzyme Id: K00511
	Gene Information
NCBI Gene Accession Number & Symbol	Accession Number: 103334962 NCBI Gene Symbol: LOC103334962
Gene Aliases
Gene description & Other designations	Description: squalene monooxygenase-like Other designations: squalene monooxygenase-like
Chromosome, Strand & Exon count	Chromosome: LG6 Strand: minus Exon count: 8
Gene Location within genomic sequence	Genomic accession No. NC_024131.1 Gene Start and end within genomic accession: 6151517 ...... 6154874
CDS Sequence	103334962
	Marker Information
Marker Type	PGTM
Repeat type & sequence	Repeat type: Repeat sequence:
Repeat start & end within CDS	Repeat start: Repeat end:
Forward primer	Primer sequence: AGGGCATCATCAAGGGTGTG Tm(°C): 60.034 GC (%): 55 Size: 20
Reverse primer	Primer sequence: GTGCCAGGTACATCGACCAA Tm(°C): 60.037 GC (%): 55 Size: 20
Primer start, end within sequence and product size	Start: 583 End: 862 Product size (bp): 280
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Enzyme Id: K00511
	Gene Information
NCBI Gene Accession Number & Symbol	Accession Number: 103336172 NCBI Gene Symbol: LOC103336172
Gene Aliases
Gene description & Other designations	Description: squalene epoxidase 3-like Other designations: squalene epoxidase 3-like
Chromosome, Strand & Exon count	Chromosome: LG1 Strand: minus Exon count: 8
Gene Location within genomic sequence	Genomic accession No. NC_024126.1 Gene Start and end within genomic accession: 18826026 ...... 18829830
CDS Sequence	103336172
	Marker Information
Marker Type	PMTM
Repeat type & sequence	Repeat type: Compound Repeat sequence: (CCATAA)2caataatcaacctcacctttctacaagcttccataatcacaaaccc act(ACA)3(CAACAG)2*aaaaattaagcaaaagctctagtaccagtaactcct gcat(TTC)3
Repeat start & end within CDS	Repeat start: 114 Repeat end: 239
Forward primer	Primer sequence: GCTCCTACAAAAGGCCCCAT Tm(°C): 60.033 GC (%): 55 Size: 20
Reverse primer	Primer sequence: GAGGGAGGCAAAGAAGGTCC Tm(°C): 60.035 GC (%): 60 Size: 20
Primer start, end within sequence and product size	Start: 24 End: 329 Product size (bp): 306
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Enzyme Id: K00511
	Gene Information
NCBI Gene Accession Number & Symbol	Accession Number: 103336172 NCBI Gene Symbol: LOC103336172
Gene Aliases
Gene description & Other designations	Description: squalene epoxidase 3-like Other designations: squalene epoxidase 3-like
Chromosome, Strand & Exon count	Chromosome: LG1 Strand: minus Exon count: 8
Gene Location within genomic sequence	Genomic accession No. NC_024126.1 Gene Start and end within genomic accession: 18826026 ...... 18829830
CDS Sequence	103336172
	Marker Information
Marker Type	PMTM
Repeat type & sequence	Repeat type: Compound Repeat sequence: (CT)4gttctccgtcgccgtaattacggta(ATGGC)2caaagacaggggcaagg tacag(AAGAAC)2
Repeat start & end within CDS	Repeat start: 344 Repeat end: 420
Forward primer	Primer sequence: GGACCTTCTTTGCCTCCCTC Tm(°C): 60.035 GC (%): 60 Size: 20
Reverse primer	Primer sequence: TTCGTCGGAGCTCTTGACAC Tm(°C): 60.039 GC (%): 55 Size: 20
Primer start, end within sequence and product size	Start: 310 End: 470 Product size (bp): 161
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Enzyme Id: K00511
	Gene Information
NCBI Gene Accession Number & Symbol	Accession Number: 103336172 NCBI Gene Symbol: LOC103336172
Gene Aliases
Gene description & Other designations	Description: squalene epoxidase 3-like Other designations: squalene epoxidase 3-like
Chromosome, Strand & Exon count	Chromosome: LG1 Strand: minus Exon count: 8
Gene Location within genomic sequence	Genomic accession No. NC_024126.1 Gene Start and end within genomic accession: 18826026 ...... 18829830
CDS Sequence	103336172
	Marker Information
Marker Type	PMTM
Repeat type & sequence	Repeat type: Penta Repeat sequence: (TTGGA)2
Repeat start & end within CDS	Repeat start: 1770 Repeat end: 1779
Forward primer	Primer sequence: GTGGCTTTGCTCTCTGGTCT Tm(°C): 59.964 GC (%): 55 Size: 20
Reverse primer	Primer sequence: TCTGTCTCACTCCTTCTGCCT Tm(°C): 60.203 GC (%): 52.381 Size: 21
Primer start, end within sequence and product size	Start: 1653 End: 1845 Product size (bp): 193
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Enzyme Id: K00511
	Gene Information
NCBI Gene Accession Number & Symbol	Accession Number: 103336172 NCBI Gene Symbol: LOC103336172
Gene Aliases
Gene description & Other designations	Description: squalene epoxidase 3-like Other designations: squalene epoxidase 3-like
Chromosome, Strand & Exon count	Chromosome: LG1 Strand: minus Exon count: 8
Gene Location within genomic sequence	Genomic accession No. NC_024126.1 Gene Start and end within genomic accession: 18826026 ...... 18829830
CDS Sequence	103336172
	Marker Information
Marker Type	PGTM
Repeat type & sequence	Repeat type: Repeat sequence:
Repeat start & end within CDS	Repeat start: Repeat end:
Forward primer	Primer sequence: GCTCCTACAAAAGGCCCCAT Tm(°C): 60.033 GC (%): 55 Size: 20
Reverse primer	Primer sequence: GAGGGAGGCAAAGAAGGTCC Tm(°C): 60.035 GC (%): 60 Size: 20
Primer start, end within sequence and product size	Start: 24 End: 329 Product size (bp): 306
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Enzyme Id: K00511
	Gene Information
NCBI Gene Accession Number & Symbol	Accession Number: 103320605 NCBI Gene Symbol: LOC103320605
Gene Aliases
Gene description & Other designations	Description: squalene monooxygenase-like Other designations: squalene monooxygenase-like
Chromosome, Strand & Exon count	Chromosome: LG2 Strand: plus Exon count: 8
Gene Location within genomic sequence	Genomic accession No. NC_024127.1 Gene Start and end within genomic accession: 11069363 ...... 11073250
CDS Sequence	103320605
	Marker Information
Marker Type	PMTM
Repeat type & sequence	Repeat type: Penta Repeat sequence: (TTGTT)2
Repeat start & end within CDS	Repeat start: 618 Repeat end: 627
Forward primer	Primer sequence: ACTGGCCAAGAGATGACAGC Tm(°C): 60.036 GC (%): 55 Size: 20
Reverse primer	Primer sequence: TCAACCAGACAGCGAACCTC Tm(°C): 59.966 GC (%): 55 Size: 20
Primer start, end within sequence and product size	Start: 513 End: 745 Product size (bp): 233
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Enzyme Id: K00511
	Gene Information
NCBI Gene Accession Number & Symbol	Accession Number: 103320605 NCBI Gene Symbol: LOC103320605
Gene Aliases
Gene description & Other designations	Description: squalene monooxygenase-like Other designations: squalene monooxygenase-like
Chromosome, Strand & Exon count	Chromosome: LG2 Strand: plus Exon count: 8
Gene Location within genomic sequence	Genomic accession No. NC_024127.1 Gene Start and end within genomic accession: 11069363 ...... 11073250
CDS Sequence	103320605
	Marker Information
Marker Type	PMTM
Repeat type & sequence	Repeat type: Tri Repeat sequence: (TTC)3
Repeat start & end within CDS	Repeat start: 1149 Repeat end: 1157
Forward primer	Primer sequence: AGGAATGACCGTGGCATTGT Tm(°C): 59.962 GC (%): 50 Size: 20
Reverse primer	Primer sequence: CGCATTTCCTTCCTCGCTTG Tm(°C): 59.902 GC (%): 55 Size: 20
Primer start, end within sequence and product size	Start: 977 End: 1183 Product size (bp): 207
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Enzyme Id: K00511
	Gene Information
NCBI Gene Accession Number & Symbol	Accession Number: 103320605 NCBI Gene Symbol: LOC103320605
Gene Aliases
Gene description & Other designations	Description: squalene monooxygenase-like Other designations: squalene monooxygenase-like
Chromosome, Strand & Exon count	Chromosome: LG2 Strand: plus Exon count: 8
Gene Location within genomic sequence	Genomic accession No. NC_024127.1 Gene Start and end within genomic accession: 11069363 ...... 11073250
CDS Sequence	103320605
	Marker Information
Marker Type	PGTM
Repeat type & sequence	Repeat type: Repeat sequence:
Repeat start & end within CDS	Repeat start: Repeat end:
Forward primer	Primer sequence: ACAGAACGCTGGTGAAGAGG Tm(°C): 59.966 GC (%): 55 Size: 20
Reverse primer	Primer sequence: TTGCTCCAATTGCACGTTGG Tm(°C): 59.968 GC (%): 50 Size: 20
Primer start, end within sequence and product size	Start: 61 End: 449 Product size (bp): 389
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