Advanced Strain Search

RAPHAEL #4

RSP 11173

Grower: TIkun Olam

General Information

Sample Name
Raphael #4
Accession Date
June 24, 2019
Reported Plant Sex
Female
DNA Extracted From
Stem

The strain rarity visualization shows how distant the strain is from the other cultivars in the Kannapedia database. The y-axis represents genetic distance, getting farther as you go up. The width of the visualization at any position along the y-axis shows how many strains there are in the database at that genetic distance. So, a common strain will have a more bottom-heavy shape, while uncommon and rare cultivars will have a visualization that is generally shifted towards the top.

Rarity: Rare
Most Distant Most Similar

Chemical Information

Cannabinoid and terpenoid information provided by the grower.

Cannabinoids

No information provided.

Terpenoids

No information provided.

Genetic Information

Plant Type
Type III

File Downloads

The bell curve in the heterozygosity visualization shows the distribution of heterozygosity levels for cannabis cultivars in the Kannapedia database. The green line shows where this particular strain fits within the distribution. Heterozygosity is associated with heterosis (aka hybrid vigor) but also leads to the production of more variable offspring. When plants have two genetically different parents, heterozygosity levels will be higher than if it has been inbred or backcrossed repeatedly.

Heterozygosity: 1.62%
Least Heterozygous Most Heterozygous

The ratio of reads mapped to Y-contigs to reads mapped to the whole Cannabis genome (Y-ratios) has been demonstrated to be strongly correlated with plant sex typing. This plot shows the distribution of Y-ratios for all samples in our database which were sequenced with the same method (panel or WGS) as this sample and where this sample falls in the distribution.

Y-Ratio Distribution: 0.0484
male female RSP11173

This chart represents the Illumina sequence coverage over the Bt/Bd allele. These are the three regions in the cannabis genome that impact THCA, CBDA, CBGA production. Coverage over the Active CBDAS gene is highly correlated with Type II and Type III plants as described by Etienne de Meijer. Coverage over the THCA gene is highly correlated with Type I and Type II plants but is anti-correlated with Type III plants. Type I plants require coverage over the inactive CBDA loci and no coverage over the Active CBDA gene. Lack of coverage over the Active CBDA and Active THCA allele are presumed to be Type IV plants (CBGA dominant). While deletions of entire THCAS and CBDAS genes are the most common Bt:Bd alleles observed, it is possible to have plants with these genes where functional expression of the enzyme is disrupted by deactivating point mutations (Kojoma et al. 2006).

Bt/Bd Allele Coverage

This chart represents the Illumina sequence coverage over the CBCA synthase gene.

CBCAS Coverage

Variants (THCAS, CBDAS, and CBCAS)

No variants to report

Variants (Select Genes of Interest)
PKSG-2a

UniProt

c.67T>A p.Phe23Ile missense variant moderate contig700 1945567

IGV: Start, Jump

A/T
NGS:
0.825
C90:
0.904
PKSG-2a

UniProt

c.31A>T p.Thr11Ser missense variant moderate contig700 1945603

IGV: Start, Jump

T/A
NGS:
0.763
C90:
0.876
PKSG-2b

UniProt

c.1152T>A p.Asn384Lys missense variant moderate contig700 1950486

IGV: Start, Jump

A/T
NGS:
0.715
C90:
0.895
PKSG-2b

UniProt

c.1132C>G p.Leu378Val missense variant moderate contig700 1950506

IGV: Start, Jump

G/C
NGS:
0.717
C90:
0.000
PKSG-2b

UniProt

c.1117A>G p.Ile373Val missense variant moderate contig700 1950521

IGV: Start, Jump

T/C
NGS:
0.807
C90:
0.981
PKSG-2b

UniProt

c.948T>G p.Asp316Glu missense variant moderate contig700 1950690

IGV: Start, Jump

A/C
NGS:
0.456
C90:
0.000
PKSG-2b

UniProt

c.945T>G p.Ser315Arg missense variant moderate contig700 1950693

IGV: Start, Jump

A/C
NGS:
0.454
C90:
0.000
PKSG-2b

UniProt

c.944G>A p.Ser315Asn missense variant moderate contig700 1950694

IGV: Start, Jump

C/T
NGS:
0.445
C90:
0.000
PKSG-2b

UniProt

c.934C>G p.His312Asp missense variant moderate contig700 1950704

IGV: Start, Jump

G/C
NGS:
0.410
C90:
0.000
PKSG-2b

UniProt

c.31A>T p.Thr11Ser missense variant moderate contig700 1951851

IGV: Start, Jump

T/A
NGS:
0.844
C90:
0.880
PKSG-2b

UniProt

c.-2_1dupATA start lost & conservative inframe insertion high contig700 1951880

IGV: Start, Jump

A/ATAT
NGS:
0.410
C90:
0.000
PKSG-4b

UniProt

c.496A>G p.Lys166Glu missense variant moderate contig700 2721177

IGV: Start, Jump

T/C
NGS:
0.651
C90:
0.684
PKSG-4b

UniProt

c.489delT p.Phe163fs frameshift variant high contig700 2721183

IGV: Start, Jump

CA/C
NGS:
0.792
C90:
0.761
PKSG-4b

UniProt

c.485A>G p.Lys162Arg missense variant moderate contig700 2721188

IGV: Start, Jump

T/C
NGS:
0.643
C90:
0.301
PKSG-4b

UniProt

c.431T>G p.Val144Gly missense variant moderate contig700 2721242

IGV: Start, Jump

A/C
NGS:
0.575
C90:
0.679
PKSG-4b

UniProt

c.419A>G p.Asp140Gly missense variant moderate contig700 2721254

IGV: Start, Jump

T/C
NGS:
0.430
C90:
0.440
HDS-2

UniProt

c.82_93delGTAACCGGAACT p.Val28_Thr31del conservative inframe deletion moderate contig95 1989748

IGV: Start, Jump

CGTAACCGGAACT/C
NGS:
0.805
C90:
0.000
HDS-2

UniProt

c.127T>G p.Ser43Ala missense variant moderate contig95 1989794

IGV: Start, Jump

T/G
NGS:
0.721
C90:
0.000

Nearest genetic relatives (All Samples)

0 0.067 0.133 0.200 0.267
closely related moderately related distantly related
  1. 0.185 RAPHAEL #2 (RSP11172)
  2. 0.193 Electra (RSP11366)
  3. 0.195 Cherry Wine (RSP11307)
  4. 0.196 Lift (RSP11378)
  5. 0.196 Cherry Wine (RSP11305)
  6. 0.202 Midnight 05MAY2017 (RSP10941)
  7. 0.208 FL30 7 11 2019 (RSP11361)
  8. 0.210 Durban Poison #1 (RSP10996)
  9. 0.213 Suver Haze (RSP11364)
  10. 0.216 Doug s Varin (RSP11243)
  11. 0.218 Durban Poison #1 (RSP11013)
  12. 0.224 Domnesia (RSP11184)
  13. 0.224 Badger (RSP11614)
  14. 0.226 Unknown--Cherry Wine---005- (RSP11272)
  15. 0.229 Avidekel 05MAY2017 (RSP10938)
  16. 0.232 UnObtanium (RSP11611)
  17. 0.232 Liberty Haze (RSP11000)
  18. 0.232 Cherry Blossom (RSP11332)
  19. 0.234 Trump x Trump (RSP11466)
  20. 0.234 Cherry Wine (RSP11145)

Most genetically distant strains (All Samples)

0 0.117 0.233 0.350 0.467
closely related moderately related distantly related
  1. 0.457 Chem 91 (RSP11185)
  2. 0.438 Red Eye OG (RSP11190)
  3. 0.436 Fatso (RSP11741)
  4. 0.432 GMO x Garlic Breath (RSP12507)
  5. 0.428 RKM-2018-026 (RSP11118)
  6. 0.427 GG4 (RSP11978)
  7. 0.427 Skywalker OG (RSP10837)
  8. 0.423 Abacus (RSP11266)
  9. 0.420 RKM-2018-012 (RSP11103)
  10. 0.415 80E (RSP11213)
  11. 0.415 Kush Hemp E1 (RSP11128)
  12. 0.415 Right Mark (RSP11628)
  13. 0.414 GMO x [REDACTED] #43 (RSP11976)
  14. 0.413 SFVxTK (RSP11072)
  15. 0.413 CHEM4 (RSP12090)
  16. 0.411 Star Dawg (RSP11352)
  17. 0.409 Absolute OG (RSP11455)
  18. 0.405 East side OG (RSP12089)
  19. 0.404 80E (RSP11212)
  20. 0.403 Super Sour Diesel (RSP11191)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR8349397
Overlapping SNPs:
93
Concordance:
58

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495222
Overlapping SNPs:
13
Concordance:
10

Blockchain Registration Information

Transaction ID
08873f436b46426da9331f11e53b94d76f5f53af066d87347c13672c06eab78a
Stamping Certificate
Download PDF (858.6 KB)
SHASUM Hash
0cb84a5991c2aaee1328faec937bd52c91a99600a0cec9556e58f2c24a330985
QR code for RSP11173

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