Advanced Strain Search

PK-Rt-Coco

RSP 13202

Grower: Zamir Punja

General Information

Sample Name
PK-Rt-Coco-20240801
Accession Date
August 7, 2024
Reported Plant Sex
Female
Microbiome
Krona Plot
Fungal Microbiome
Krona Plot
Bacterial Microbiome
Krona Plot
Viral Microbiome
Krona Plot

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: Common
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 I

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: 1.44%
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: 0.0185
male female RSP13202

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)

Gene HGVS.c HGVS.p Annotation Annotation Impact Contig Contig Pos Ref/Alt Var Freq
THCAS c.998C>G p.Pro333Arg missense variant moderate contig741 4416830

IGV: Start, Jump

G/C
NGS:
0.182
C90:
0.000

Variants (Select Genes of Interest)
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.352_355delACAG p.Thr118fs frameshift variant high contig700 2721317

IGV: Start, Jump

CCTGT/C
NGS:
0.529
C90:
0.000
PKSG-4b

UniProt

c.323A>G p.Glu108Gly missense variant moderate contig700 2721350

IGV: Start, Jump

T/C
NGS:
0.469
C90:
0.000
PKSG-4b

UniProt

c.229G>A p.Gly77Ser missense variant moderate contig700 2724206

IGV: Start, Jump

C/T
NGS:
0.042
C90:
0.000
PKSG-4b

UniProt

c.216G>C p.Leu72Phe missense variant moderate contig700 2724219

IGV: Start, Jump

C/G
NGS:
0.044
C90:
0.000
PKSG-4b

UniProt

c.206T>C p.Leu69Ser missense variant moderate contig700 2724229

IGV: Start, Jump

A/G
NGS:
0.044
C90:
0.000
ELF3

UniProt

c.772A>G p.Ser258Gly missense variant moderate contig97 242478

IGV: Start, Jump

A/G
NGS:
0.112
C90:
0.000
ELF3

UniProt

c.812G>C p.Gly271Ala missense variant moderate contig97 242518

IGV: Start, Jump

G/C
NGS:
0.114
C90:
0.938
ELF3

UniProt

c.1466G>A p.Ser489Asn missense variant moderate contig97 244297

IGV: Start, Jump

G/A
NGS:
0.123
C90:
0.000
ELF3

UniProt

c.2198G>T p.Arg733Leu missense variant moderate contig97 245029

IGV: Start, Jump

G/T
NGS:
0.125
C90:
0.531
aPT4

UniProt

c.97T>C p.Tyr33His missense variant moderate contig121 2828753

IGV: Start, Jump

T/C
NGS:
0.439
C90:
0.000
aPT4

UniProt

c.153A>C p.Lys51Asn missense variant moderate contig121 2828809

IGV: Start, Jump

A/C
NGS:
0.375
C90:
0.000
aPT4

UniProt

c.216A>T p.Lys72Asn missense variant moderate contig121 2828872

IGV: Start, Jump

A/T
NGS:
0.075
C90:
0.000
AAE1-2

UniProt

c.884C>T p.Thr295Ile missense variant moderate contig81 209846

IGV: Start, Jump

C/T
NGS:
0.042
C90:
0.000
AAE1-2

UniProt

c.947_948insTAGA p.Asp317fs frameshift variant high contig81 209908

IGV: Start, Jump

C/CATAG
NGS:
0.004
C90:
0.000
AAE1-2

UniProt

c.950_954delACCAA p.Asp317fs frameshift variant high contig81 209911

IGV: Start, Jump

GACCAA/G
NGS:
0.004
C90:
0.000
AAE1-2

UniProt

c.955_956insT p.Arg319fs frameshift variant high contig81 209917

IGV: Start, Jump

C/CT
NGS:
0.004
C90:
0.000
Edestin

UniProt

c.40G>A p.Ala14Thr missense variant moderate contig850 3065250

IGV: Start, Jump

C/T
NGS:
0.011
C90:
0.000
Edestin

UniProt

c.17C>T p.Ser6Leu missense variant moderate contig850 3065273

IGV: Start, Jump

G/A
NGS:
0.011
C90:
0.000
Edestin

UniProt

c.16T>C p.Ser6Pro missense variant moderate contig850 3065274

IGV: Start, Jump

A/G
NGS:
0.059
C90:
0.000
TFL1

UniProt

c.302-1G>A splice acceptor variant & intron variant high contig1636 520616

IGV: Start, Jump

C/T
NGS:
0.103
C90:
0.794
HDS-1

UniProt

c.1378G>A p.Val460Ile missense variant moderate contig1891 886370

IGV: Start, Jump

C/T
NGS:
0.167
C90:
0.000
PIE1-2

UniProt

c.5932A>G p.Ile1978Val missense variant moderate contig1460 1185552

IGV: Start, Jump

T/C
NGS:
0.061
C90:
0.268
PIE1-2

UniProt

c.637T>A p.Ser213Thr missense variant moderate contig1460 1194421

IGV: Start, Jump

A/T
NGS:
0.079
C90:
0.885
FLD

UniProt

c.2981T>C p.Met994Thr missense variant moderate contig1450 2044012

IGV: Start, Jump

A/G
NGS:
0.064
C90:
0.478
FLD

UniProt

c.2964C>A p.Asp988Glu missense variant moderate contig1450 2044029

IGV: Start, Jump

G/T
NGS:
0.057
C90:
0.464
AAE1-3

UniProt

c.722G>A p.Arg241Lys missense variant moderate contig976 1083132

IGV: Start, Jump

C/T
NGS:
0.070
C90:
0.000
AAE1-3

UniProt

c.659G>A p.Arg220Gln missense variant moderate contig976 1083195

IGV: Start, Jump

C/T
NGS:
0.077
C90:
0.000
AAE1-3

UniProt

c.501G>C p.Leu167Phe missense variant moderate contig976 1083524

IGV: Start, Jump

C/G
NGS:
0.004
C90:
0.000
PKSB-3

UniProt

c.1652A>G p.Glu551Gly missense variant moderate contig93 3339759

IGV: Start, Jump

A/G
NGS:
0.088
C90:
0.000

Nearest genetic relatives (All Samples)

0 0.042 0.083 0.125 0.167
closely related moderately related distantly related
  1. 0.036 PK Buds (RSP13153)
  2. 0.037 PK-Lf-M (RSP13201)
  3. 0.038 PK St-Fl (RSP13155)
  4. 0.038 PK-St-M (RSP13205)
  5. 0.039 PK (RSP13087)
  6. 0.045 PK-Rt-RW (RSP13204)
  7. 0.045 PK (RSP12932)
  8. 0.045 PK Rt-Fl (RSP13154)
  9. 0.050 PK-Rt-BioG- (RSP13200)
  10. 0.053 PK Drying (RSP13124)
  11. 0.058 PK-Rt-M (RSP13203)
  12. 0.061 PK (RSP12926)
  13. 0.087 PK Dried (RSP13123)
  14. 0.137 RKM-2018-008 (RSP11099)
  15. 0.140 The Gift (RSP10988)
  16. 0.146 RKM-2018-013 (RSP11104)
  17. 0.152 Rugburn OG (RSP11353)
  18. 0.157 RKM-2018-012 (RSP11103)
  19. 0.160 Noetic OG (RSP11455)
  20. 0.161 DP Dried (RSP13143)

Most genetically distant strains (All Samples)

0 0.125 0.250 0.375 0.500
closely related moderately related distantly related
  1. 0.484 Unknown- Cherry Wine - 001 (RSP11268)
  2. 0.479 Jamaican Lion (RSP12916)
  3. 0.474 Cherry Blossom (RSP11301)
  4. 0.471 Cherry Blossom (RSP11323)
  5. 0.471 Tanao Sri 46 (RSP11486)
  6. 0.470 Brunswick High (RSP11164)
  7. 0.470 Cherry Blossom (RSP11318)
  8. 0.464 Jamaican Lion (RSP12917)
  9. 0.459 Unknown- Cherry Wine - 002 (RSP11269)
  10. 0.455 Unknown- Cherry Wine - 003 (RSP11270)
  11. 0.449 Jamaican Lion (RSP12915)
  12. 0.448 Cherry Blossom (RSP11328)
  13. 0.448 Cherry Blossom (RSP11300)
  14. 0.448 JL yellow (RSP11075)
  15. 0.446 JL 3rd Gen Father (RSP11196)
  16. 0.444 Jamaican Lion (RSP12913)
  17. 0.443 Cherry Blossom (RSP11298)
  18. 0.442 Cherry Blossom (RSP11309)
  19. 0.441 JL Cross 25 (RSP11526)
  20. 0.441 Cherry Blossom (RSP11312)

Nearest genetic relative in Phylos dataset

Phylos Strain SRR4448505
Overlapping SNPs:
92
Concordance:
63

Nearest genetic relative in Lynch dataset

Lynch Strain SRR3495250
Overlapping SNPs:
3
Concordance:
3

Blockchain Registration Information

SHASUM Hash
0c38b2e57975f7cb1795c20357618725eff6c89b20300ef02fb1ef0d1f8137a3
QR code for RSP13202

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